ERS14333927 SAMEA112223128 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759401 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223128 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759401_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 86.69 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213092 sample name SRR19759401_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333928 SAMEA112223129 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759401 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223129 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759401_bin.39_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.22 completeness software CheckM contamination score 0.94 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213092 sample name SRR19759401_bin.39_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333929 SAMEA112223130 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759401 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223130 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759401_bin.8_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 60.34 completeness software CheckM contamination score 1.72 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213092 sample name SRR19759401_bin.8_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333930 SAMEA112223131 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759401 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223131 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759401_bin.9_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.65 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213092 sample name SRR19759401_bin.9_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14333931 SAMEA112223132 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223132 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759402_bin.1_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 58.1 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.1_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333932 SAMEA112223133 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223133 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759402_bin.14_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.18 completeness software CheckM contamination score 1.89 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.14_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333934 SAMEA112223135 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223135 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759402_bin.32_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.9 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.32_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333935 SAMEA112223136 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223136 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759402_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.29 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333936 SAMEA112223137 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223137 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759402_bin.38_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 82.69 completeness software CheckM contamination score 4.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.38_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333937 SAMEA112223138 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223138 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759402_bin.40_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.23 completeness software CheckM contamination score 0.77 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.40_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333938 SAMEA112223139 876091 uncultured Oscillibacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223139 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759402_bin.45_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 80.54 completeness software CheckM contamination score 0.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.45_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Oscillospiraceae;g__Oscillibacter;s__ taxonomic identity marker multi-marker approach ERS14333939 SAMEA112223140 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223140 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759402_bin.48_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.88 completeness software CheckM contamination score 3.51 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.48_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333940 SAMEA112223141 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223141 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759402_bin.54_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.04 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.54_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333941 SAMEA112223142 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223142 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759402_bin.58_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.85 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.58_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14333942 SAMEA112223143 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223143 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759402_bin.59_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.28 completeness software CheckM contamination score 3.26 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.59_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333944 SAMEA112223145 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223145 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759402_bin.60_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.21 completeness software CheckM contamination score 0.68 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.60_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333945 SAMEA112223146 1935179 uncultured Angelakisella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223146 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759402_bin.62_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 79.83 completeness software CheckM contamination score 0.47 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.62_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Angelakisella;s__ taxonomic identity marker multi-marker approach ERS14333947 SAMEA112223148 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759403 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223148 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759403_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 79.65 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213171 sample name SRR19759403_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333948 SAMEA112223149 159272 uncultured Prevotella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759403 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223149 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759403_bin.43_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.39 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213171 sample name SRR19759403_bin.43_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Prevotellaceae;g__Prevotella;s__ taxonomic identity marker multi-marker approach ERS14333949 SAMEA112223150 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759403 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223150 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759403_bin.62_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.83 completeness software CheckM contamination score 0.19 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213171 sample name SRR19759403_bin.62_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333950 SAMEA112223151 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759404 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223151 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759404_bin.12_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.23 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213170 sample name SRR19759404_bin.12_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333951 SAMEA112223152 159272 uncultured Prevotella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759404 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223152 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759404_bin.53_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.63 completeness software CheckM contamination score 0.56 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213170 sample name SRR19759404_bin.53_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Prevotellaceae;g__Prevotella;s__ taxonomic identity marker multi-marker approach ERS14333952 SAMEA112223153 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759405 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223153 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759405_bin.1_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.98 completeness software CheckM contamination score 3.03 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213169 sample name SRR19759405_bin.1_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333953 SAMEA112223154 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223154 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759407_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.31 completeness software CheckM contamination score 1.14 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333955 SAMEA112223156 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223156 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759407_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.98 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333956 SAMEA112223157 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223157 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759407_bin.32_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 87.83 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.32_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333957 SAMEA112223158 562 Escherichia coli This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223158 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759407_bin.37_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 69.31 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.37_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;s__Escherichia coli taxonomic identity marker multi-marker approach ERS14333958 SAMEA112223159 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223159 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759407_bin.40_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.18 completeness software CheckM contamination score 1.23 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.40_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333959 SAMEA112223160 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223160 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759407_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.94 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333960 SAMEA112223161 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223161 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759407_bin.57_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 75.01 completeness software CheckM contamination score 1.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.57_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333962 SAMEA112223163 571 Klebsiella oxytoca This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223163 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759407_bin.61_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.54 completeness software CheckM contamination score 0.44 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.61_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella;s__Klebsiella oxytoca taxonomic identity marker multi-marker approach ERS14333963 SAMEA112223164 538949 uncultured Alistipes sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223164 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759407_bin.76_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.27 completeness software CheckM contamination score 0.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.76_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes;s__ taxonomic identity marker multi-marker approach ERS14333964 SAMEA112223165 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223165 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759408_bin.13_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.97 completeness software CheckM contamination score 4.66 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.13_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333965 SAMEA112223166 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223166 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759408_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 78.61 completeness software CheckM contamination score 0.89 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333966 SAMEA112223167 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223167 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759408_bin.49_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 72.12 completeness software CheckM contamination score 0.7 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.49_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333969 SAMEA112223170 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223170 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759408_bin.70_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 88.12 completeness software CheckM contamination score 1.61 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.70_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333970 SAMEA112223171 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223171 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759408_bin.73_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.43 completeness software CheckM contamination score 0.86 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.73_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333971 SAMEA112223172 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223172 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759408_bin.8_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.62 completeness software CheckM contamination score 1.27 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.8_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333973 SAMEA112223174 2321402 uncultured Eggerthellaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223174 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759409_bin.24_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.01 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.24_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Eggerthellales;f__Eggerthellaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333974 SAMEA112223175 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223175 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759409_bin.26_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 74.34 completeness software CheckM contamination score 2.69 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.26_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333975 SAMEA112223176 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223176 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759409_bin.39_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 65.52 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.39_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333976 SAMEA112223177 331630 uncultured Erysipelotrichaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223177 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759409_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.92 completeness software CheckM contamination score 1.26 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333977 SAMEA112223178 1729681 uncultured Faecalibaculum sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223178 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759409_bin.69_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.98 completeness software CheckM contamination score 0.94 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.69_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Faecalibaculum;s__ taxonomic identity marker multi-marker approach ERS14333978 SAMEA112223179 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223179 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759409_bin.70_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.34 completeness software CheckM contamination score 3.02 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.70_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333979 SAMEA112223180 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223180 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759409_bin.87_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 85.03 completeness software CheckM contamination score 0.27 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.87_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333980 SAMEA112223181 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223181 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759409_bin.9_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.57 completeness software CheckM contamination score 0.75 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.9_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333981 SAMEA112223182 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759410 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223182 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759410_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.56 completeness software CheckM contamination score 4.7 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213150 sample name SRR19759410_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333983 SAMEA112223184 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759411 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223184 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759411_bin.17_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.32 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213149 sample name SRR19759411_bin.17_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14333984 SAMEA112223185 286138 uncultured Dorea sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759411 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223185 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759411_bin.2_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.78 completeness software CheckM contamination score 1.27 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213149 sample name SRR19759411_bin.2_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Dorea;s__ taxonomic identity marker multi-marker approach ERS14333986 SAMEA112223187 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759411 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223187 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759411_bin.60_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.18 completeness software CheckM contamination score 2.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213149 sample name SRR19759411_bin.60_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333987 SAMEA112223188 239935 Akkermansia muciniphila This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759412 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223188 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759412_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.96 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213148 sample name SRR19759412_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Verrucomicrobia;c__Verrucomicrobiae;o__Verrucomicrobiales;f__Akkermansiaceae;g__Akkermansia;s__Akkermansia muciniphila taxonomic identity marker multi-marker approach ERS14333988 SAMEA112223189 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759412 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223189 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759412_bin.38_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 56.58 completeness software CheckM contamination score 4.47 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213148 sample name SRR19759412_bin.38_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333989 SAMEA112223190 153152 uncultured Lactobacillus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223190 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759413_bin.1_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 81.5 completeness software CheckM contamination score 1.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.1_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus reuteri taxonomic identity marker multi-marker approach ERS14333990 SAMEA112223191 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223191 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759413_bin.28_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.32 completeness software CheckM contamination score 0.88 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.28_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333992 SAMEA112223193 331632 uncultured Coriobacteriaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223193 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759413_bin.32_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.19 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.32_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333993 SAMEA112223194 1702221 Faecalibaculum rodentium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223194 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759413_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.28 completeness software CheckM contamination score 2.61 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Faecalibaculum;s__Faecalibaculum rodentium taxonomic identity marker multi-marker approach ERS14333994 SAMEA112223195 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223195 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759413_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.75 completeness software CheckM contamination score 2.03 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333996 SAMEA112223197 876091 uncultured Oscillibacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223197 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759413_bin.52_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 79.09 completeness software CheckM contamination score 1.68 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.52_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Oscillospiraceae;g__Oscillibacter;s__ taxonomic identity marker multi-marker approach ERS14333997 SAMEA112223198 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223198 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759413_bin.57_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.03 completeness software CheckM contamination score 0.6 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.57_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14333998 SAMEA112223199 2321402 uncultured Eggerthellaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223199 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759413_bin.70_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 72.19 completeness software CheckM contamination score 1.61 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.70_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Eggerthellales;f__Eggerthellaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333999 SAMEA112223200 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759414 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223200 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759414_bin.2_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 56.9 completeness software CheckM contamination score 0.86 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213146 sample name SRR19759414_bin.2_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334000 SAMEA112223201 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759414 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223201 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759414_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.13 completeness software CheckM contamination score 0.68 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213146 sample name SRR19759414_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334001 SAMEA112223202 904998 uncultured Enterorhabdus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759414 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223202 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759414_bin.26_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.79 completeness software CheckM contamination score 4.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213146 sample name SRR19759414_bin.26_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Eggerthellales;f__Eggerthellaceae;g__Enterorhabdus;s__Enterorhabdus mucosicola taxonomic identity marker multi-marker approach ERS14334002 SAMEA112223203 33959 Lactobacillus johnsonii This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759414 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223203 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759414_bin.45_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.48 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213146 sample name SRR19759414_bin.45_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus johnsonii taxonomic identity marker multi-marker approach ERS14334003 SAMEA112223204 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759414 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223204 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759414_bin.55_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.28 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213146 sample name SRR19759414_bin.55_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334004 SAMEA112223205 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759414 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223205 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759414_bin.9_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 85.58 completeness software CheckM contamination score 1.25 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213146 sample name SRR19759414_bin.9_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334005 SAMEA112223206 286138 uncultured Dorea sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759415 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223206 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759415_bin.18_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 82.81 completeness software CheckM contamination score 0.9 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213145 sample name SRR19759415_bin.18_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Dorea;s__ taxonomic identity marker multi-marker approach ERS14334006 SAMEA112223207 194843 uncultured Bacteroidales bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759415 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223207 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759415_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.42 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213145 sample name SRR19759415_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334007 SAMEA112223208 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759416 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223208 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759416_bin.10_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.19 completeness software CheckM contamination score 0.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213144 sample name SRR19759416_bin.10_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334008 SAMEA112223209 1280 Staphylococcus aureus This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759416 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223209 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759416_bin.51_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 59.82 completeness software CheckM contamination score 1.65 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213144 sample name SRR19759416_bin.51_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Staphylococcaceae;g__Staphylococcus;s__Staphylococcus aureus taxonomic identity marker multi-marker approach ERS14334009 SAMEA112223210 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223210 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759417_bin.2_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 73.49 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.2_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334010 SAMEA112223211 905011 uncultured Anaerotruncus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223211 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759417_bin.22_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.97 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.22_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Anaerotruncus;s__ taxonomic identity marker multi-marker approach ERS14334011 SAMEA112223212 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223212 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759417_bin.26_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.3 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.26_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334012 SAMEA112223213 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223213 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759417_bin.36_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 53.45 completeness software CheckM contamination score 3.45 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.36_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334014 SAMEA112223215 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223215 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759417_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.67 completeness software CheckM contamination score 1.8 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334015 SAMEA112223216 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223216 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759417_bin.55_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 59.03 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.55_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334017 SAMEA112223218 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223218 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759417_bin.64_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.48 completeness software CheckM contamination score 2.18 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.64_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334018 SAMEA112223219 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223219 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759417_bin.71_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.53 completeness software CheckM contamination score 0.74 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.71_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334019 SAMEA112223220 1193532 uncultured Butyricicoccus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223220 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759417_bin.75_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.27 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.75_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Butyricicoccus;s__ taxonomic identity marker multi-marker approach ERS14334020 SAMEA112223221 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223221 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759417_bin.81_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.83 completeness software CheckM contamination score 0.5 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.81_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334021 SAMEA112223222 179883 uncultured Candidatus Saccharibacteria bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223222 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759417_bin.86_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 61.6 completeness software CheckM contamination score 0.85 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.86_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Candidatus Saccharibacteria;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334022 SAMEA112223223 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223223 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759417_bin.9_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.64 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.9_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334024 SAMEA112223225 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223225 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759418_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.44 completeness software CheckM contamination score 1.72 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334025 SAMEA112223226 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223226 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759418_bin.30_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.95 completeness software CheckM contamination score 2.16 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.30_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334026 SAMEA112223227 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223227 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759418_bin.35_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 55.64 completeness software CheckM contamination score 2.42 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.35_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334027 SAMEA112223228 344338 uncultured Bacillota bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223228 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759418_bin.36_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 79.57 completeness software CheckM contamination score 3.69 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.36_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334028 SAMEA112223229 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223229 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759418_bin.37_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.73 completeness software CheckM contamination score 0.32 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.37_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334030 SAMEA112223231 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223231 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759418_bin.4_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 74.5 completeness software CheckM contamination score 2.31 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.4_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334031 SAMEA112223232 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223232 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759418_bin.40_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 54.91 completeness software CheckM contamination score 4.35 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.40_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334032 SAMEA112223233 167967 uncultured Mycoplasma sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223233 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759418_bin.41_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 74.24 completeness software CheckM contamination score 1.12 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.41_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Tenericutes;c__Mollicutes;o__Mycoplasmatales;f__Mycoplasmataceae;g__Mycoplasma;s__ taxonomic identity marker multi-marker approach ERS14334033 SAMEA112223234 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223234 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759418_bin.43_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 87.97 completeness software CheckM contamination score 1.27 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.43_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334034 SAMEA112223235 1796620 Acutalibacter muris This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223235 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759418_bin.46_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 86.93 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.46_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Acutalibacter;s__Acutalibacter muris taxonomic identity marker multi-marker approach ERS14334037 SAMEA112223238 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223238 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759418_bin.58_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.56 completeness software CheckM contamination score 2.07 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.58_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334038 SAMEA112223239 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223239 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759418_bin.60_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 57.81 completeness software CheckM contamination score 0.21 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.60_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334040 SAMEA112223241 1193532 uncultured Butyricicoccus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223241 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759418_bin.63_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.89 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.63_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Butyricicoccus;s__ taxonomic identity marker multi-marker approach ERS14334041 SAMEA112223242 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223242 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759418_bin.67_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 52.01 completeness software CheckM contamination score 3.45 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.67_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334043 SAMEA112223244 203524 uncultured Eubacteriaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223244 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759418_bin.75_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.06 completeness software CheckM contamination score 0.84 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.75_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334044 SAMEA112223245 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223245 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759418_bin.76_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.47 completeness software CheckM contamination score 1.27 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.76_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334045 SAMEA112223246 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223246 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759418_bin.79_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.06 completeness software CheckM contamination score 0.75 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.79_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334047 SAMEA112223248 1796646 Muribaculum intestinale This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759419 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223248 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759419_bin.49_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.3 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213142 sample name SRR19759419_bin.49_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Muribaculum;s__Muribaculum intestinale taxonomic identity marker multi-marker approach ERS14334049 SAMEA112223250 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759421 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223250 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759421_bin.17_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 56.51 completeness software CheckM contamination score 1.36 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213140 sample name SRR19759421_bin.17_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334050 SAMEA112223251 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759421 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223251 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759421_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.82 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213140 sample name SRR19759421_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334051 SAMEA112223252 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759421 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223252 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759421_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 56.64 completeness software CheckM contamination score 2.99 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213140 sample name SRR19759421_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334052 SAMEA112223253 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759422 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223253 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759422_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.24 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213139 sample name SRR19759422_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334053 SAMEA112223254 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759423 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223254 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759423_bin.22_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.31 completeness software CheckM contamination score 1.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213138 sample name SRR19759423_bin.22_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334054 SAMEA112223255 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759423 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223255 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759423_bin.29_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.56 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213138 sample name SRR19759423_bin.29_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334056 SAMEA112223257 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759423 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223257 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759423_bin.46_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.76 completeness software CheckM contamination score 3.19 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213138 sample name SRR19759423_bin.46_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334057 SAMEA112223258 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759423 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223258 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759423_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.1 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213138 sample name SRR19759423_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334058 SAMEA112223259 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759423 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223259 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759423_bin.70_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 80.48 completeness software CheckM contamination score 0.56 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213138 sample name SRR19759423_bin.70_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334060 SAMEA112223261 538949 uncultured Alistipes sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223261 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759425_bin.19_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.36 completeness software CheckM contamination score 1.12 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.19_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes;s__ taxonomic identity marker multi-marker approach ERS14334061 SAMEA112223262 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223262 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759425_bin.24_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.47 completeness software CheckM contamination score 1.82 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.24_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334062 SAMEA112223263 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223263 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759425_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 63.49 completeness software CheckM contamination score 4.2 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334063 SAMEA112223264 114712 uncultured Azospirillum sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223264 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759425_bin.4_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.7 completeness software CheckM contamination score 0.06 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.4_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Rhodospirillaceae;g__Azospirillum;s__ taxonomic identity marker multi-marker approach ERS14334064 SAMEA112223265 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223265 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759425_bin.44_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.17 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.44_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334065 SAMEA112223266 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223266 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759425_bin.48_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.28 completeness software CheckM contamination score 0.13 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.48_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334066 SAMEA112223267 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223267 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759425_bin.51_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.87 completeness software CheckM contamination score 2.78 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.51_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334069 SAMEA112223270 194843 uncultured Bacteroidales bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223270 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759425_bin.73_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.04 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.73_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334070 SAMEA112223271 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759426 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223271 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759426_bin.11_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 76.46 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213135 sample name SRR19759426_bin.11_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334072 SAMEA112223273 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759427 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223273 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759427_bin.26_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.64 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213134 sample name SRR19759427_bin.26_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334073 SAMEA112223274 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759427 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223274 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759427_bin.49_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.38 completeness software CheckM contamination score 0.7 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213134 sample name SRR19759427_bin.49_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334074 SAMEA112223275 153152 uncultured Lactobacillus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759428 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223275 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759428_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.95 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213133 sample name SRR19759428_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus murinus taxonomic identity marker multi-marker approach ERS14334075 SAMEA112223276 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759429 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223276 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759429_bin.18_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 67.35 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213088 sample name SRR19759429_bin.18_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334076 SAMEA112223277 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759429 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223277 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759429_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.29 completeness software CheckM contamination score 3.21 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213088 sample name SRR19759429_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334078 SAMEA112223279 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223279 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.10_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.85 completeness software CheckM contamination score 2.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.10_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334080 SAMEA112223281 114712 uncultured Azospirillum sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223281 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759434_bin.117_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.7 completeness software CheckM contamination score 0.06 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.117_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Rhodospirillaceae;g__Azospirillum;s__ taxonomic identity marker multi-marker approach ERS14334081 SAMEA112223282 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223282 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.13_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 87.34 completeness software CheckM contamination score 0.65 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.13_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334082 SAMEA112223283 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223283 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759434_bin.14_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.7 completeness software CheckM contamination score 0.57 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.14_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334084 SAMEA112223285 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223285 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.61 completeness software CheckM contamination score 0.16 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334085 SAMEA112223286 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223286 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759434_bin.37_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.51 completeness software CheckM contamination score 0.57 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.37_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334086 SAMEA112223287 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223287 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.40_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.3 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.40_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334087 SAMEA112223288 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223288 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759434_bin.41_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 66.89 completeness software CheckM contamination score 1.29 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.41_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334088 SAMEA112223289 904998 uncultured Enterorhabdus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223289 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.43_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 75.18 completeness software CheckM contamination score 0.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.43_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Eggerthellales;f__Eggerthellaceae;g__Enterorhabdus;s__Enterorhabdus mucosicola taxonomic identity marker multi-marker approach ERS14334089 SAMEA112223290 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223290 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 88.89 completeness software CheckM contamination score 0.85 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334090 SAMEA112223291 876091 uncultured Oscillibacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223291 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.77 completeness software CheckM contamination score 2.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Oscillospiraceae;g__Oscillibacter;s__ taxonomic identity marker multi-marker approach ERS14334091 SAMEA112223292 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223292 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759434_bin.56_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.13 completeness software CheckM contamination score 0.88 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.56_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334093 SAMEA112223294 165186 uncultured Ruminococcus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223294 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759434_bin.88_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.33 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.88_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Ruminococcus;s__ taxonomic identity marker multi-marker approach ERS14334094 SAMEA112223295 194843 uncultured Bacteroidales bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223295 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759434_bin.94_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.06 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.94_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334095 SAMEA112223296 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759435 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223296 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759435_bin.12_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.81 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213127 sample name SRR19759435_bin.12_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334096 SAMEA112223297 876091 uncultured Oscillibacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223297 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.16_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.08 completeness software CheckM contamination score 0.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.16_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Oscillospiraceae;g__Oscillibacter;s__ taxonomic identity marker multi-marker approach ERS14334097 SAMEA112223298 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223298 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759436_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.65 completeness software CheckM contamination score 0.57 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334098 SAMEA112223299 329911 uncultured Peptococcaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223299 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.35_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 53.19 completeness software CheckM contamination score 0.07 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.35_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Peptococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334099 SAMEA112223300 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223300 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759436_bin.43_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 81.2 completeness software CheckM contamination score 2.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.43_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334101 SAMEA112223302 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223302 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.51_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.48 completeness software CheckM contamination score 3.26 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.51_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334102 SAMEA112223303 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223303 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.6_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.16 completeness software CheckM contamination score 1.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.6_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334103 SAMEA112223304 248039 Mucispirillum schaedleri This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223304 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.69_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.29 completeness software CheckM contamination score 1.72 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.69_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Deferribacteres;c__Deferribacteres;o__Deferribacterales;f__Deferribacteraceae;g__Mucispirillum;s__Mucispirillum schaedleri taxonomic identity marker multi-marker approach ERS14334104 SAMEA112223305 344338 uncultured Bacillota bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223305 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.72_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 65.34 completeness software CheckM contamination score 3.36 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.72_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334105 SAMEA112223306 1586779 uncultured Lachnoclostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223306 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759436_bin.77_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.46 completeness software CheckM contamination score 1.35 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.77_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnoclostridium;s__ taxonomic identity marker multi-marker approach ERS14334106 SAMEA112223307 1751881 uncultured Hungatella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223307 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.82_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 82.63 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.82_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hungatella;s__ taxonomic identity marker multi-marker approach ERS14334109 SAMEA112223310 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223310 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759436_bin.91_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 89.22 completeness software CheckM contamination score 3.35 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.91_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334110 SAMEA112223311 162156 uncultured Bacteroides sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759437 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223311 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759437_bin.17_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.88 completeness software CheckM contamination score 0.19 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213125 sample name SRR19759437_bin.17_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides;s__ taxonomic identity marker multi-marker approach ERS14334111 SAMEA112223312 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759437 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223312 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759437_bin.19_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 88.14 completeness software CheckM contamination score 0.29 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213125 sample name SRR19759437_bin.19_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334113 SAMEA112223314 876091 uncultured Oscillibacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759437 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223314 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759437_bin.46_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 81.09 completeness software CheckM contamination score 0.89 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213125 sample name SRR19759437_bin.46_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Oscillospiraceae;g__Oscillibacter;s__ taxonomic identity marker multi-marker approach ERS14334115 SAMEA112223316 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759440 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223316 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759440_bin.15_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.06 completeness software CheckM contamination score 2.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213087 sample name SRR19759440_bin.15_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334117 SAMEA112223318 286138 uncultured Dorea sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759440 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223318 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759440_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.32 completeness software CheckM contamination score 2.1 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213087 sample name SRR19759440_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Dorea;s__ taxonomic identity marker multi-marker approach ERS14334119 SAMEA112223320 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759440 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223320 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759440_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 52.64 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213087 sample name SRR19759440_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334120 SAMEA112223321 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759440 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223321 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759440_bin.56_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 58.1 completeness software CheckM contamination score 3.74 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213087 sample name SRR19759440_bin.56_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334121 SAMEA112223322 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759440 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223322 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759440_bin.59_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 52.59 completeness software CheckM contamination score 3.45 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213087 sample name SRR19759440_bin.59_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334122 SAMEA112223323 1586779 uncultured Lachnoclostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223323 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759441_bin.101_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.78 completeness software CheckM contamination score 2.06 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.101_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnoclostridium;s__ taxonomic identity marker multi-marker approach ERS14334126 SAMEA112223327 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223327 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759441_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.18 completeness software CheckM contamination score 0.22 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Catabacteriaceae;g__Catabacter;s__ taxonomic identity marker multi-marker approach ERS14334127 SAMEA112223328 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223328 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759441_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.59 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334128 SAMEA112223329 167968 uncultured Desulfovibrio sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223329 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759441_bin.42_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.04 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.42_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Deltaproteobacteria;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Desulfovibrio;s__ taxonomic identity marker multi-marker approach ERS14334131 SAMEA112223332 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223332 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759441_bin.50_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.47 completeness software CheckM contamination score 1.9 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.50_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334133 SAMEA112223334 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223334 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759441_bin.62_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 53.09 completeness software CheckM contamination score 2.22 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.62_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334134 SAMEA112223335 538949 uncultured Alistipes sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223335 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759441_bin.79_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.02 completeness software CheckM contamination score 0.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.79_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes;s__ taxonomic identity marker multi-marker approach ERS14334138 SAMEA112223339 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223339 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759442_bin.46_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 71.04 completeness software CheckM contamination score 1.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.46_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334139 SAMEA112223340 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223340 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759442_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.72 completeness software CheckM contamination score 1.32 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334141 SAMEA112223342 331632 uncultured Coriobacteriaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223342 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759442_bin.61_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.19 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.61_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334142 SAMEA112223343 1796652 Turicimonas muris This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223343 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759442_bin.72_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.75 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.72_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Betaproteobacteria;o__Burkholderiales;f__Sutterellaceae;g__Turicimonas;s__Turicimonas muris taxonomic identity marker multi-marker approach ERS14334143 SAMEA112223344 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223344 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759442_bin.73_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.5 completeness software CheckM contamination score 1.33 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.73_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334144 SAMEA112223345 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223345 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759442_bin.75_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 86.27 completeness software CheckM contamination score 0.13 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.75_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334147 SAMEA112223348 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759444 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223348 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759444_bin.27_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.59 completeness software CheckM contamination score 2.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213119 sample name SRR19759444_bin.27_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334148 SAMEA112223349 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759444 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223349 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759444_bin.4_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 81.91 completeness software CheckM contamination score 1.98 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213119 sample name SRR19759444_bin.4_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334149 SAMEA112223350 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759444 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223350 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759444_bin.41_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 57.13 completeness software CheckM contamination score 3.22 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213119 sample name SRR19759444_bin.41_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334150 SAMEA112223351 91750 uncultured Alphaproteobacteria bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759444 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223351 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759444_bin.43_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 86.81 completeness software CheckM contamination score 1.1 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213119 sample name SRR19759444_bin.43_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334153 SAMEA112223354 508451 Lactobacillus taiwanensis This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759446 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223354 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759446_bin.15_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 62.07 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213117 sample name SRR19759446_bin.15_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus taiwanensis taxonomic identity marker multi-marker approach ERS14334154 SAMEA112223355 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759446 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223355 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759446_bin.20_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.59 completeness software CheckM contamination score 1.51 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213117 sample name SRR19759446_bin.20_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334157 SAMEA112223358 157472 uncultured Bacillales bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759446 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223358 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759446_bin.83_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.51 completeness software CheckM contamination score 2.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213117 sample name SRR19759446_bin.83_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334159 SAMEA112223360 658143 uncultured Tenericutes bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759447 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223360 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759447_bin.32_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.57 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213116 sample name SRR19759447_bin.32_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Tenericutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334160 SAMEA112223361 344338 uncultured Bacillota bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759447 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223361 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759447_bin.54_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 65.17 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213116 sample name SRR19759447_bin.54_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334161 SAMEA112223362 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759447 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223362 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759447_bin.8_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 67.19 completeness software CheckM contamination score 1.07 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213116 sample name SRR19759447_bin.8_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334162 SAMEA112223363 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759448 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223363 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759448_bin.13_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.06 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213115 sample name SRR19759448_bin.13_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334163 SAMEA112223364 876416 uncultured Odoribacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759448 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223364 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759448_bin.27_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.86 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213115 sample name SRR19759448_bin.27_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Odoribacteraceae;g__Odoribacter;s__ taxonomic identity marker multi-marker approach ERS14334165 SAMEA112223366 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223366 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759449_bin.17_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 64.82 completeness software CheckM contamination score 0.62 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.17_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334167 SAMEA112223368 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223368 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759449_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 52.13 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334169 SAMEA112223370 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223370 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759449_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.13 completeness software CheckM contamination score 0.53 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334170 SAMEA112223371 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223371 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759449_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.36 completeness software CheckM contamination score 1.29 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334171 SAMEA112223372 1751881 uncultured Hungatella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223372 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759449_bin.45_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.04 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.45_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hungatella;s__ taxonomic identity marker multi-marker approach ERS14334172 SAMEA112223373 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223373 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759449_bin.46_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 51.03 completeness software CheckM contamination score 1.92 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.46_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334173 SAMEA112223374 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223374 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759449_bin.48_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.47 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.48_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334174 SAMEA112223375 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759450 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223375 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759450_bin.12_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.04 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213113 sample name SRR19759450_bin.12_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334176 SAMEA112223377 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759450 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223377 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759450_bin.45_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.33 completeness software CheckM contamination score 1.72 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213113 sample name SRR19759450_bin.45_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334178 SAMEA112223379 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759453 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223379 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759453_bin.20_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.98 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213111 sample name SRR19759453_bin.20_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334179 SAMEA112223380 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759453 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223380 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759453_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.28 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213111 sample name SRR19759453_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334182 SAMEA112223383 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223383 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759454_bin.32_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 80.4 completeness software CheckM contamination score 3.58 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.32_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334184 SAMEA112223385 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223385 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759454_bin.44_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.58 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.44_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334185 SAMEA112223386 658143 uncultured Tenericutes bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223386 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759454_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 87.08 completeness software CheckM contamination score 1.12 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Tenericutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334186 SAMEA112223387 220137 uncultured Mollicutes bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223387 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759454_bin.56_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.21 completeness software CheckM contamination score 0.11 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.56_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Tenericutes;c__Mollicutes;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334188 SAMEA112223389 1193532 uncultured Butyricicoccus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223389 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759454_bin.6_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 83.21 completeness software CheckM contamination score 2.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.6_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Butyricicoccus;s__ taxonomic identity marker multi-marker approach ERS14334189 SAMEA112223390 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223390 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759454_bin.69_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.3 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.69_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334191 SAMEA112223392 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223392 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759454_bin.73_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.56 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.73_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334192 SAMEA112223393 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223393 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759454_bin.80_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.2 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.80_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334194 SAMEA112223395 157472 uncultured Bacillales bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223395 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759455_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.82 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334196 SAMEA112223397 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223397 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759455_bin.35_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 86.76 completeness software CheckM contamination score 2.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.35_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334197 SAMEA112223398 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223398 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759455_bin.36_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.85 completeness software CheckM contamination score 0.89 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.36_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Catabacteriaceae;g__Catabacter;s__ taxonomic identity marker multi-marker approach ERS14334198 SAMEA112223399 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223399 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759455_bin.4_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.29 completeness software CheckM contamination score 1.07 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.4_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334200 SAMEA112223401 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223401 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759455_bin.54_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.63 completeness software CheckM contamination score 0.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.54_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334201 SAMEA112223402 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223402 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759455_bin.59_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 72.64 completeness software CheckM contamination score 0.5 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.59_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334203 SAMEA112223404 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223404 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759455_bin.72_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.32 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.72_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334204 SAMEA112223405 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223405 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759455_bin.86_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.48 completeness software CheckM contamination score 0.74 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.86_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334206 SAMEA112223407 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223407 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759455_bin.92_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.31 completeness software CheckM contamination score 0.77 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.92_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334207 SAMEA112223408 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759457 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223408 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759457_bin.11_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 53.78 completeness software CheckM contamination score 2.85 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213166 sample name SRR19759457_bin.11_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334209 SAMEA112223410 1751881 uncultured Hungatella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759457 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223410 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759457_bin.2_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 66.04 completeness software CheckM contamination score 4.64 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213166 sample name SRR19759457_bin.2_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hungatella;s__ taxonomic identity marker multi-marker approach ERS14334211 SAMEA112223412 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759457 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223412 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759457_bin.76_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 54.32 completeness software CheckM contamination score 2.29 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213166 sample name SRR19759457_bin.76_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334212 SAMEA112223413 584861 uncultured Barnesiella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759459 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223413 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759459_bin.19_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.9 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213164 sample name SRR19759459_bin.19_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Barnesiellaceae;g__Barnesiella;s__ taxonomic identity marker multi-marker approach ERS14334214 SAMEA112223415 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759461 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223415 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759461_bin.58_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 77.42 completeness software CheckM contamination score 1.16 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213091 sample name SRR19759461_bin.58_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334217 SAMEA112223418 1586779 uncultured Lachnoclostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759462 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223418 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759462_bin.50_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.59 completeness software CheckM contamination score 0.68 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213162 sample name SRR19759462_bin.50_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnoclostridium;s__ taxonomic identity marker multi-marker approach ERS14334220 SAMEA112223421 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223421 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759464_bin.13_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.5 completeness software CheckM contamination score 1.52 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.13_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334222 SAMEA112223423 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223423 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759464_bin.24_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.21 completeness software CheckM contamination score 1.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.24_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334224 SAMEA112223425 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223425 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759464_bin.29_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.49 completeness software CheckM contamination score 1.46 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.29_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334225 SAMEA112223426 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223426 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759464_bin.36_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.78 completeness software CheckM contamination score 0.75 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.36_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334227 SAMEA112223428 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223428 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759464_bin.53_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.35 completeness software CheckM contamination score 1.53 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.53_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334228 SAMEA112223429 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759465 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223429 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759465_bin.13_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.42 completeness software CheckM contamination score 1.27 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213159 sample name SRR19759465_bin.13_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334229 SAMEA112223430 331630 uncultured Erysipelotrichaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759465 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223430 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759465_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.78 completeness software CheckM contamination score 2.02 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213159 sample name SRR19759465_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334230 SAMEA112223431 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759465 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223431 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759465_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.43 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213159 sample name SRR19759465_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334231 SAMEA112223432 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759466 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223432 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759466_bin.41_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.93 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213158 sample name SRR19759466_bin.41_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334233 SAMEA112223434 159272 uncultured Prevotella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759467 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223434 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759467_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.07 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213157 sample name SRR19759467_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Prevotellaceae;g__Prevotella;s__ taxonomic identity marker multi-marker approach ERS14334234 SAMEA112223435 286138 uncultured Dorea sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759467 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223435 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759467_bin.38_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.01 completeness software CheckM contamination score 0.19 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213157 sample name SRR19759467_bin.38_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Dorea;s__ taxonomic identity marker multi-marker approach ERS14334235 SAMEA112223436 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759467 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223436 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759467_bin.42_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.37 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213157 sample name SRR19759467_bin.42_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334239 SAMEA112223440 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759468 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223440 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759468_bin.8_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.58 completeness software CheckM contamination score 1.72 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213156 sample name SRR19759468_bin.8_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334240 SAMEA112223441 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759471 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223441 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759471_bin.1_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.81 completeness software CheckM contamination score 1.11 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213109 sample name SRR19759471_bin.1_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334241 SAMEA112223442 1751881 uncultured Hungatella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759471 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223442 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759471_bin.10_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 60.19 completeness software CheckM contamination score 1.87 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213109 sample name SRR19759471_bin.10_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hungatella;s__ taxonomic identity marker multi-marker approach ERS14334245 SAMEA112223446 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759471 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223446 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759471_bin.38_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.14 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213109 sample name SRR19759471_bin.38_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334248 SAMEA112223449 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759473 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223449 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759473_bin.6_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 55.09 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213107 sample name SRR19759473_bin.6_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334249 SAMEA112223450 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759473 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223450 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759473_bin.7_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 76.88 completeness software CheckM contamination score 2.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213107 sample name SRR19759473_bin.7_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334253 SAMEA112223454 153152 uncultured Lactobacillus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223454 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759475_bin.10_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 79.57 completeness software CheckM contamination score 1.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.10_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__ taxonomic identity marker multi-marker approach ERS14334254 SAMEA112223455 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223455 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759475_bin.15_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.4 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.15_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334255 SAMEA112223456 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223456 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759475_bin.16_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.53 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.16_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334256 SAMEA112223457 1796613 Bacteroides caecimuris This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223457 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759475_bin.19_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 79.31 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.19_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides;s__Bacteroides caecimuris taxonomic identity marker multi-marker approach ERS14334257 SAMEA112223458 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223458 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759475_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.42 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334259 SAMEA112223460 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223460 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759475_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.3 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334260 SAMEA112223461 153152 uncultured Lactobacillus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223461 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759475_bin.60_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 65.14 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.60_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__ taxonomic identity marker multi-marker approach ERS14334261 SAMEA112223462 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223462 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759475_bin.63_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.22 completeness software CheckM contamination score 0.75 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.63_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334262 SAMEA112223463 1008890 uncultured Candidatus Arthromitus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223463 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759475_bin.68_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 100 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.68_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Candidatus Arthromitus;s__ taxonomic identity marker multi-marker approach ERS14334265 SAMEA112223466 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759477 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223466 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759477_bin.14_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 54.19 completeness software CheckM contamination score 2.02 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213103 sample name SRR19759477_bin.14_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334267 SAMEA112223468 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759479 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223468 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759479_bin.24_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.85 completeness software CheckM contamination score 0.56 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213102 sample name SRR19759479_bin.24_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334269 SAMEA112223470 151781 Lactobacillus intestinalis This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759479 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223470 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759479_bin.9_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 63.83 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213102 sample name SRR19759479_bin.9_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus intestinalis taxonomic identity marker multi-marker approach ERS14334270 SAMEA112223471 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759480 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223471 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759480_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.55 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213101 sample name SRR19759480_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334271 SAMEA112223472 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759481 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223472 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759481_bin.28_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.4 completeness software CheckM contamination score 1.66 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213100 sample name SRR19759481_bin.28_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334275 SAMEA112223476 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759481 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223476 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759481_bin.46_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.97 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213100 sample name SRR19759481_bin.46_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334276 SAMEA112223477 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759482 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223477 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759482_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 78.69 completeness software CheckM contamination score 1.84 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213099 sample name SRR19759482_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334278 SAMEA112223479 1586779 uncultured Lachnoclostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759482 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223479 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759482_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.53 completeness software CheckM contamination score 0.95 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213099 sample name SRR19759482_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnoclostridium;s__ taxonomic identity marker multi-marker approach ERS14334280 SAMEA112223481 707003 uncultured Oscillospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759483 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223481 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759483_bin.30_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.99 completeness software CheckM contamination score 0.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213098 sample name SRR19759483_bin.30_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Oscillospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334281 SAMEA112223482 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759483 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223482 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759483_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.63 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213098 sample name SRR19759483_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334284 SAMEA112223485 658143 uncultured Tenericutes bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759483 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223485 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759483_bin.64_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 52.73 completeness software CheckM contamination score 1.24 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213098 sample name SRR19759483_bin.64_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Tenericutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334285 SAMEA112223486 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759483 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223486 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759483_bin.72_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 55.75 completeness software CheckM contamination score 0.6 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213098 sample name SRR19759483_bin.72_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334287 SAMEA112223488 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759484 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223488 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759484_bin.11_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.97 completeness software CheckM contamination score 1.13 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213097 sample name SRR19759484_bin.11_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334289 SAMEA112223490 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759484 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223490 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759484_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.65 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213097 sample name SRR19759484_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334292 SAMEA112223493 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759484 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223493 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759484_bin.56_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.25 completeness software CheckM contamination score 0.87 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213097 sample name SRR19759484_bin.56_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334293 SAMEA112223494 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759485 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223494 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759485_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.46 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213095 sample name SRR19759485_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334294 SAMEA112223495 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759485 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223495 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759485_bin.32_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.0 completeness software CheckM contamination score 0.57 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213095 sample name SRR19759485_bin.32_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334295 SAMEA112223496 153152 uncultured Lactobacillus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759486 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223496 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759486_bin.40_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.46 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213094 sample name SRR19759486_bin.40_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus reuteri taxonomic identity marker multi-marker approach ERS14334298 SAMEA112223499 538949 uncultured Alistipes sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759488 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223499 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759488_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 100 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213096 sample name SRR19759488_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes;s__ taxonomic identity marker multi-marker approach ERS14333967 SAMEA112223168 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223168 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:23Z INSDC last update 2022-12-15T16:21:23Z INSDC status public Submitter Id SRR19759408_bin.55_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 89.52 completeness software CheckM contamination score 1.36 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.55_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333968 SAMEA112223169 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759408 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223169 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:23Z INSDC last update 2022-12-15T16:21:23Z INSDC status public Submitter Id SRR19759408_bin.69_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 79.27 completeness software CheckM contamination score 1.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213152 sample name SRR19759408_bin.69_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333985 SAMEA112223186 1586779 uncultured Lachnoclostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759411 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223186 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759411_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.86 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213149 sample name SRR19759411_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnoclostridium;s__ taxonomic identity marker multi-marker approach ERS14333991 SAMEA112223192 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223192 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759413_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 81.55 completeness software CheckM contamination score 1.57 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334016 SAMEA112223217 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223217 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:23Z INSDC last update 2022-12-15T16:21:23Z INSDC status public Submitter Id SRR19759417_bin.60_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 64.07 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.60_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334035 SAMEA112223236 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223236 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759418_bin.49_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.41 completeness software CheckM contamination score 1.44 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.49_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334036 SAMEA112223237 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223237 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759418_bin.55_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.16 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.55_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334042 SAMEA112223243 329911 uncultured Peptococcaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223243 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759418_bin.73_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 88.73 completeness software CheckM contamination score 0.6 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.73_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Peptococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334048 SAMEA112223249 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759419 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223249 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759419_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.35 completeness software CheckM contamination score 0.03 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213142 sample name SRR19759419_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334079 SAMEA112223280 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223280 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759434_bin.107_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 88.08 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.107_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334092 SAMEA112223293 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223293 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759434_bin.64_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 86.83 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.64_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Catabacteriaceae;g__Catabacter;s__ taxonomic identity marker multi-marker approach ERS14334100 SAMEA112223301 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223301 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759436_bin.44_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.21 completeness software CheckM contamination score 3.83 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.44_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334108 SAMEA112223309 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223309 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759436_bin.88_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.76 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.88_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334116 SAMEA112223317 179883 uncultured Candidatus Saccharibacteria bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759440 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223317 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759440_bin.20_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 58.53 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213087 sample name SRR19759440_bin.20_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Candidatus Saccharibacteria;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334118 SAMEA112223319 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759440 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223319 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759440_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.82 completeness software CheckM contamination score 0.89 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213087 sample name SRR19759440_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334130 SAMEA112223331 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223331 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759441_bin.49_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.62 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.49_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334136 SAMEA112223337 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223337 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759442_bin.18_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.02 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.18_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334151 SAMEA112223352 195049 uncultured Clostridiaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759445 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223352 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759445_bin.56_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 78.18 completeness software CheckM contamination score 0.72 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213118 sample name SRR19759445_bin.56_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334175 SAMEA112223376 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759450 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223376 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759450_bin.18_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 51.43 completeness software CheckM contamination score 4.84 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213113 sample name SRR19759450_bin.18_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334193 SAMEA112223394 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223394 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759455_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.78 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334195 SAMEA112223396 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223396 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759455_bin.30_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.18 completeness software CheckM contamination score 2.65 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.30_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334199 SAMEA112223400 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223400 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759455_bin.44_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 55.69 completeness software CheckM contamination score 1.93 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.44_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334202 SAMEA112223403 297316 uncultured Turicibacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223403 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759455_bin.67_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 89.94 completeness software CheckM contamination score 2.32 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.67_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Turicibacter;s__ taxonomic identity marker multi-marker approach ERS14334210 SAMEA112223411 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759457 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223411 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:23Z INSDC last update 2022-12-15T16:21:23Z INSDC status public Submitter Id SRR19759457_bin.22_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.61 completeness software CheckM contamination score 0.57 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213166 sample name SRR19759457_bin.22_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334213 SAMEA112223414 1751881 uncultured Hungatella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759461 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223414 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759461_bin.49_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.4 completeness software CheckM contamination score 0.69 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213091 sample name SRR19759461_bin.49_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hungatella;s__ taxonomic identity marker multi-marker approach ERS14334219 SAMEA112223420 538949 uncultured Alistipes sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223420 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759464_bin.12_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.56 completeness software CheckM contamination score 0.16 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.12_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes;s__ taxonomic identity marker multi-marker approach ERS14334223 SAMEA112223424 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223424 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759464_bin.26_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 80.23 completeness software CheckM contamination score 1.14 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.26_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334232 SAMEA112223433 179883 uncultured Candidatus Saccharibacteria bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759467 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223433 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759467_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.21 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213157 sample name SRR19759467_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Candidatus Saccharibacteria;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334237 SAMEA112223438 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759467 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223438 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759467_bin.70_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.04 completeness software CheckM contamination score 1.44 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213157 sample name SRR19759467_bin.70_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334242 SAMEA112223443 1586779 uncultured Lachnoclostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759471 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223443 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759471_bin.15_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.97 completeness software CheckM contamination score 0.68 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213109 sample name SRR19759471_bin.15_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnoclostridium;s__ taxonomic identity marker multi-marker approach ERS14334243 SAMEA112223444 286138 uncultured Dorea sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759471 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223444 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759471_bin.2_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 85.01 completeness software CheckM contamination score 2.32 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213109 sample name SRR19759471_bin.2_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Dorea;s__ taxonomic identity marker multi-marker approach ERS14334244 SAMEA112223445 153152 uncultured Lactobacillus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759471 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223445 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759471_bin.27_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 53.45 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213109 sample name SRR19759471_bin.27_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__ taxonomic identity marker multi-marker approach ERS14334251 SAMEA112223452 151781 Lactobacillus intestinalis This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759474 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223452 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759474_bin.20_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.79 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213106 sample name SRR19759474_bin.20_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus;s__Lactobacillus intestinalis taxonomic identity marker multi-marker approach ERS14334258 SAMEA112223459 157472 uncultured Bacillales bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759475 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223459 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:23Z INSDC last update 2022-12-15T16:21:23Z INSDC status public Submitter Id SRR19759475_bin.31_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.98 completeness software CheckM contamination score 2.25 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213105 sample name SRR19759475_bin.31_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334263 SAMEA112223464 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759476 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223464 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759476_bin.22_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.67 completeness software CheckM contamination score 0.96 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213104 sample name SRR19759476_bin.22_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334268 SAMEA112223469 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759479 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223469 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759479_bin.60_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.68 completeness software CheckM contamination score 0.13 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213102 sample name SRR19759479_bin.60_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334273 SAMEA112223474 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759481 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223474 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759481_bin.30_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.02 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213100 sample name SRR19759481_bin.30_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334274 SAMEA112223475 2321402 uncultured Eggerthellaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759481 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223475 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759481_bin.4_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 93.41 completeness software CheckM contamination score 0.2 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213100 sample name SRR19759481_bin.4_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Eggerthellales;f__Eggerthellaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334279 SAMEA112223480 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759483 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223480 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759483_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.34 completeness software CheckM contamination score 0.65 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213098 sample name SRR19759483_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334283 SAMEA112223484 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759483 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223484 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759483_bin.42_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 100 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213098 sample name SRR19759483_bin.42_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334286 SAMEA112223487 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759484 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223487 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759484_bin.10_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.53 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213097 sample name SRR19759484_bin.10_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334288 SAMEA112223489 1751881 uncultured Hungatella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759484 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223489 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759484_bin.29_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.41 completeness software CheckM contamination score 3.99 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213097 sample name SRR19759484_bin.29_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hungatella;s__ taxonomic identity marker multi-marker approach ERS14334296 SAMEA112223497 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759487 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223497 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759487_bin.24_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 80.02 completeness software CheckM contamination score 0.13 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213093 sample name SRR19759487_bin.24_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333961 SAMEA112223162 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223162 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759407_bin.60_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 81.55 completeness software CheckM contamination score 2.19 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.60_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333972 SAMEA112223173 286138 uncultured Dorea sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759409 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223173 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759409_bin.19_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 82.02 completeness software CheckM contamination score 1.89 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213151 sample name SRR19759409_bin.19_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Dorea;s__ taxonomic identity marker multi-marker approach ERS14333982 SAMEA112223183 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759410 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223183 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759410_bin.35_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.7 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213150 sample name SRR19759410_bin.35_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334023 SAMEA112223224 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223224 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759417_bin.97_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.77 completeness software CheckM contamination score 2.9 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.97_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334029 SAMEA112223230 331630 uncultured Erysipelotrichaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223230 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759418_bin.38_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 100 completeness software CheckM contamination score 1.08 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.38_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334039 SAMEA112223240 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223240 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759418_bin.61_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.04 completeness software CheckM contamination score 3.5 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.61_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334067 SAMEA112223268 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223268 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759425_bin.54_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 52.01 completeness software CheckM contamination score 1.72 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.54_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334068 SAMEA112223269 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759425 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223269 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759425_bin.59_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.31 completeness software CheckM contamination score 0.18 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213136 sample name SRR19759425_bin.59_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334077 SAMEA112223278 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759431 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223278 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759431_bin.44_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.99 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213131 sample name SRR19759431_bin.44_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334083 SAMEA112223284 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759434 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223284 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759434_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 84.52 completeness software CheckM contamination score 0.78 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213128 sample name SRR19759434_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334112 SAMEA112223313 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759437 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223313 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759437_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.31 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213125 sample name SRR19759437_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334114 SAMEA112223315 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759439 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223315 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759439_bin.23_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.21 completeness software CheckM contamination score 0.32 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213123 sample name SRR19759439_bin.23_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334123 SAMEA112223324 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223324 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759441_bin.19_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.41 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.19_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334125 SAMEA112223326 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223326 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759441_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.3 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334140 SAMEA112223341 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223341 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759442_bin.50_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 89.21 completeness software CheckM contamination score 3.52 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.50_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334146 SAMEA112223347 876416 uncultured Odoribacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759444 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223347 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759444_bin.23_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 100 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213119 sample name SRR19759444_bin.23_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Odoribacteraceae;g__Odoribacter;s__ taxonomic identity marker multi-marker approach ERS14334152 SAMEA112223353 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759446 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223353 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759446_bin.13_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.99 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213117 sample name SRR19759446_bin.13_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334166 SAMEA112223367 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223367 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759449_bin.19_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 51.28 completeness software CheckM contamination score 1.27 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.19_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334168 SAMEA112223369 1751881 uncultured Hungatella sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223369 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759449_bin.26_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.19 completeness software CheckM contamination score 2.53 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.26_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hungatella;s__ taxonomic identity marker multi-marker approach ERS14334177 SAMEA112223378 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759452 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223378 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759452_bin.13_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 53.86 completeness software CheckM contamination score 0.57 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213112 sample name SRR19759452_bin.13_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334180 SAMEA112223381 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759453 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223381 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759453_bin.6_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.55 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213111 sample name SRR19759453_bin.6_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334205 SAMEA112223406 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759455 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223406 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759455_bin.89_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 83.66 completeness software CheckM contamination score 0.68 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213168 sample name SRR19759455_bin.89_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334216 SAMEA112223417 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759462 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223417 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759462_bin.30_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.35 completeness software CheckM contamination score 0.64 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213162 sample name SRR19759462_bin.30_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334218 SAMEA112223419 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223419 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759464_bin.11_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 64.03 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.11_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334236 SAMEA112223437 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759467 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223437 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759467_bin.66_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 83.47 completeness software CheckM contamination score 0.23 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213157 sample name SRR19759467_bin.66_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334246 SAMEA112223447 2301481 uncultured Muribaculaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759472 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223447 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759472_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 55.2 completeness software CheckM contamination score 1.04 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213108 sample name SRR19759472_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334282 SAMEA112223483 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759483 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223483 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759483_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.85 completeness software CheckM contamination score 1.15 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213098 sample name SRR19759483_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334124 SAMEA112223325 2321402 uncultured Eggerthellaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223325 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759441_bin.21_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.39 completeness software CheckM contamination score 0.07 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.21_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Actinobacteria;c__Coriobacteriia;o__Eggerthellales;f__Eggerthellaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334135 SAMEA112223336 1221379 uncultured Pseudoflavonifractor sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223336 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759442_bin.11_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 80.03 completeness software CheckM contamination score 3.36 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.11_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Pseudoflavonifractor;s__ taxonomic identity marker multi-marker approach ERS14334156 SAMEA112223357 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759446 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223357 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:08Z INSDC last update 2022-12-12T16:30:08Z INSDC status public Submitter Id SRR19759446_bin.70_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 77.39 completeness software CheckM contamination score 1.92 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213117 sample name SRR19759446_bin.70_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334164 SAMEA112223365 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759449 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223365 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759449_bin.15_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.46 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213114 sample name SRR19759449_bin.15_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334181 SAMEA112223382 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223382 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759454_bin.18_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.22 completeness software CheckM contamination score 1.25 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.18_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334190 SAMEA112223391 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223391 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:12Z INSDC last update 2022-12-13T16:27:12Z INSDC status public Submitter Id SRR19759454_bin.71_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.81 completeness software CheckM contamination score 3.51 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.71_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334208 SAMEA112223409 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759457 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-13 ENA-LAST-UPDATE 2022-12-13 External Id SAMEA112223409 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-13T16:27:11Z INSDC last update 2022-12-13T16:27:11Z INSDC status public Submitter Id SRR19759457_bin.18_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 88.6 completeness software CheckM contamination score 1.2 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213166 sample name SRR19759457_bin.18_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334221 SAMEA112223422 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223422 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759464_bin.18_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 88.12 completeness software CheckM contamination score 0.14 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.18_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334238 SAMEA112223439 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759468 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223439 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:07Z INSDC last update 2022-12-12T16:30:07Z INSDC status public Submitter Id SRR19759468_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 69.79 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213156 sample name SRR19759468_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334250 SAMEA112223451 179883 uncultured Candidatus Saccharibacteria bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759473 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223451 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:20Z INSDC last update 2022-12-12T12:28:20Z INSDC status public Submitter Id SRR19759473_bin.8_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 68.08 completeness software CheckM contamination score 0.99 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213107 sample name SRR19759473_bin.8_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Candidatus Saccharibacteria;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334266 SAMEA112223467 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759477 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223467 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T12:28:19Z INSDC last update 2022-12-12T12:28:19Z INSDC status public Submitter Id SRR19759477_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 71.99 completeness software CheckM contamination score 4.75 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213103 sample name SRR19759477_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334277 SAMEA112223478 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759482 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-12 ENA-LAST-UPDATE 2022-12-12 External Id SAMEA112223478 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-12T16:30:06Z INSDC last update 2022-12-12T16:30:06Z INSDC status public Submitter Id SRR19759482_bin.47_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 86.15 completeness software CheckM contamination score 1.44 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213099 sample name SRR19759482_bin.47_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14333933 SAMEA112223134 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223134 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759402_bin.3_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.26 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.3_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14333946 SAMEA112223147 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223147 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759402_bin.63_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 92.08 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.63_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334013 SAMEA112223214 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759417 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223214 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759417_bin.39_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.99 completeness software CheckM contamination score 0.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213143 sample name SRR19759417_bin.39_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Ruminococcaceae;g__Acutalibacter;s__ taxonomic identity marker multi-marker approach ERS14334129 SAMEA112223330 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223330 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759441_bin.45_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 77.64 completeness software CheckM contamination score 2.35 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.45_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334226 SAMEA112223427 823 Parabacteroides distasonis This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759464 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223427 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:24Z INSDC last update 2022-12-15T16:21:24Z INSDC status public Submitter Id SRR19759464_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.23 completeness software CheckM contamination score 0.09 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213160 sample name SRR19759464_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Tannerellaceae;g__Parabacteroides;s__Parabacteroides distasonis taxonomic identity marker multi-marker approach ERS14334252 SAMEA112223453 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759474 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-15 ENA-LAST-UPDATE 2022-12-15 External Id SAMEA112223453 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-15T16:21:25Z INSDC last update 2022-12-15T16:21:25Z INSDC status public Submitter Id SRR19759474_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 97.54 completeness software CheckM contamination score 2.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213106 sample name SRR19759474_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333943 SAMEA112223144 1193532 uncultured Butyricicoccus sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759402 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223144 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759402_bin.6_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.66 completeness software CheckM contamination score 0.67 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213172 sample name SRR19759402_bin.6_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Butyricicoccus;s__ taxonomic identity marker multi-marker approach ERS14334046 SAMEA112223247 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759418 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223247 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759418_bin.85_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 77.97 completeness software CheckM contamination score 0.19 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213089 sample name SRR19759418_bin.85_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334145 SAMEA112223346 331630 uncultured Erysipelotrichaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223346 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759442_bin.92_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.06 completeness software CheckM contamination score 0.94 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.92_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Erysipelotrichia;o__Erysipelotrichales;f__Erysipelotrichaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334183 SAMEA112223384 165185 uncultured Eubacterium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223384 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759454_bin.37_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.23 completeness software CheckM contamination score 2.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.37_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Eubacteriaceae;g__Eubacterium;s__ taxonomic identity marker multi-marker approach ERS14334272 SAMEA112223473 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759481 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223473 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759481_bin.29_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.16 completeness software CheckM contamination score 1.3 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213100 sample name SRR19759481_bin.29_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334290 SAMEA112223491 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759484 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-17 ENA-LAST-UPDATE 2022-12-17 External Id SAMEA112223491 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-17T00:47:17Z INSDC last update 2022-12-17T00:47:17Z INSDC status public Submitter Id SRR19759484_bin.34_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.3 completeness software CheckM contamination score 1.9 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213097 sample name SRR19759484_bin.34_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333954 SAMEA112223155 194843 uncultured Bacteroidales bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759407 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223155 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759407_bin.29_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 95.95 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213090 sample name SRR19759407_bin.29_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334071 SAMEA112223272 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759426 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223272 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759426_bin.49_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 89.77 completeness software CheckM contamination score 2.01 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213135 sample name SRR19759426_bin.49_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334132 SAMEA112223333 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759441 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223333 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759441_bin.58_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 91.98 completeness software CheckM contamination score 1.75 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213122 sample name SRR19759441_bin.58_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334137 SAMEA112223338 876416 uncultured Odoribacter sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759442 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223338 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759442_bin.25_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.19 completeness software CheckM contamination score 0.81 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213121 sample name SRR19759442_bin.25_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Odoribacteraceae;g__Odoribacter;s__ taxonomic identity marker multi-marker approach ERS14334158 SAMEA112223359 59620 uncultured Clostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759447 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223359 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759447_bin.28_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 68.11 completeness software CheckM contamination score 3.49 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213116 sample name SRR19759447_bin.28_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium;s__ taxonomic identity marker multi-marker approach ERS14334215 SAMEA112223416 512314 uncultured Roseburia sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759461 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223416 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759461_bin.63_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 69.0 completeness software CheckM contamination score 4.98 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213091 sample name SRR19759461_bin.63_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Roseburia;s__ taxonomic identity marker multi-marker approach ERS14334247 SAMEA112223448 538949 uncultured Alistipes sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759473 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223448 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759473_bin.48_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.52 completeness software CheckM contamination score 0.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213107 sample name SRR19759473_bin.48_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes;s__ taxonomic identity marker multi-marker approach ERS14334291 SAMEA112223492 244328 uncultured Clostridia bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759484 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223492 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759484_bin.38_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.32 completeness software CheckM contamination score 1.34 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213097 sample name SRR19759484_bin.38_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334297 SAMEA112223498 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759487 of study SRP382781. ENA-FIRST-PUBLIC 2022-12-19 ENA-LAST-UPDATE 2022-12-19 External Id SAMEA112223498 INSDC center alias EMG INSDC center name EMG INSDC first public 2022-12-19T12:21:48Z INSDC last update 2022-12-19T12:21:48Z INSDC status public Submitter Id SRR19759487_bin.33_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 50.74 completeness software CheckM contamination score 1.66 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213093 sample name SRR19759487_bin.33_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14333995 SAMEA112223196 1586779 uncultured Lachnoclostridium sp. This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759413 of study SRP382781. ENA-FIRST-PUBLIC 2023-01-17 ENA-LAST-UPDATE 2023-01-17 External Id SAMEA112223196 INSDC center alias EMG INSDC center name EMG INSDC first public 2023-01-17T12:18:54Z INSDC last update 2023-01-17T12:18:54Z INSDC status public Submitter Id SRR19759413_bin.50_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 99.37 completeness software CheckM contamination score 0.63 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213147 sample name SRR19759413_bin.50_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__Lachnoclostridium;s__ taxonomic identity marker multi-marker approach ERS14334055 SAMEA112223256 77133 uncultured bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759423 of study SRP382781. ENA-FIRST-PUBLIC 2023-01-18 ENA-LAST-UPDATE 2023-01-18 External Id SAMEA112223256 INSDC center alias EMG INSDC center name EMG INSDC first public 2023-01-18T16:18:32Z INSDC last update 2023-01-18T16:18:32Z INSDC status public Submitter Id SRR19759423_bin.40_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 74.91 completeness software CheckM contamination score 1.48 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213138 sample name SRR19759423_bin.40_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334059 SAMEA112223260 348578 uncultured Porphyromonadaceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759424 of study SRP382781. ENA-FIRST-PUBLIC 2023-01-17 ENA-LAST-UPDATE 2023-01-17 External Id SAMEA112223260 INSDC center alias EMG INSDC center name EMG INSDC first public 2023-01-17T12:18:54Z INSDC last update 2023-01-17T12:18:54Z INSDC status public Submitter Id SRR19759424_bin.5_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 98.36 completeness software CheckM contamination score 0.38 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213137 sample name SRR19759424_bin.5_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Bacteroidetes;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334107 SAMEA112223308 297314 uncultured Lachnospiraceae bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759436 of study SRP382781. ENA-FIRST-PUBLIC 2023-01-17 ENA-LAST-UPDATE 2023-01-17 External Id SAMEA112223308 INSDC center alias EMG INSDC center name EMG INSDC first public 2023-01-17T12:18:54Z INSDC last update 2023-01-17T12:18:54Z INSDC status public Submitter Id SRR19759436_bin.84_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 96.32 completeness software CheckM contamination score 2.39 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213126 sample name SRR19759436_bin.84_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__Clostridia;o__Clostridiales;f__Lachnospiraceae;g__;s__ taxonomic identity marker multi-marker approach ERS14334155 SAMEA112223356 658143 uncultured Tenericutes bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759446 of study SRP382781. ENA-FIRST-PUBLIC 2023-01-17 ENA-LAST-UPDATE 2023-01-17 External Id SAMEA112223356 INSDC center alias EMG INSDC center name EMG INSDC first public 2023-01-17T12:18:54Z INSDC last update 2023-01-17T12:18:54Z INSDC status public Submitter Id SRR19759446_bin.44_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 90.45 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213117 sample name SRR19759446_bin.44_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Tenericutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334187 SAMEA112223388 658143 uncultured Tenericutes bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759454 of study SRP382781. ENA-FIRST-PUBLIC 2023-01-18 ENA-LAST-UPDATE 2023-01-18 External Id SAMEA112223388 INSDC center alias EMG INSDC center name EMG INSDC first public 2023-01-18T20:18:42Z INSDC last update 2023-01-18T20:18:42Z INSDC status public Submitter Id SRR19759454_bin.59_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 87.64 completeness software CheckM contamination score 0.0 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213110 sample name SRR19759454_bin.59_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Tenericutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach ERS14334264 SAMEA112223465 344338 uncultured Bacillota bacterium This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR19759476 of study SRP382781. ENA-FIRST-PUBLIC 2023-01-19 ENA-LAST-UPDATE 2023-01-19 External Id SAMEA112223465 INSDC center alias EMG INSDC center name EMG INSDC first public 2023-01-19T12:17:25Z INSDC last update 2023-01-19T12:17:25Z INSDC status public Submitter Id SRR19759476_bin.24_metawrap_v1.3_MAG assembly quality Many fragments with little to no review of assembly other than reporting of standard assembly statistics assembly software metaSPAdes v3.15.3 binning parameters MaxBin2, MetaBat2, Concoct with default parameter of the metaWRAP pipeline. Bin refinement module used from metaWRAP with default parameters. binning software metawrap v1.3 broad-scale environmental context mouse digestive system broker name EMG broker account, EMBL-EBI collection date not provided completeness score 94.12 completeness software CheckM contamination score 2.18 environmental medium feces geographic location (country and/or sea) not provided geographic location (latitude) not provided geographic location (longitude) not provided investigation type metagenome-assembled genome isolation_source mouse gut metagenome local environmental context digestive tube metagenomic source mouse gut metagenome project name A growing body of evidence supports the notion that the gut microbiome plays an important role in cancer immunity. However, the underpinning mechanisms remain to be fully elucidated. One attractive hypothesis envisages that among the T cells elicited by the plethora of microbiome proteins a few exist that incidentally recognize neo-epitopes arising from cancer mutations (molecular mimicry (MM) hypothesis). To support MM, the human probiotic Escherichia coli Nissle was engineered with the SIINFEKL epitope (OVA-E.coli Nissle) and orally administered to C57BL6 mice. The treatment with OVA-E.coli Nissle, but not with wild type E. coli Nissle, induced OVA-specific CD8+ T cells and inhibited the growth of tumors in mice challenged with B16F10 melanoma cells expressing OVA. The microbiome shotgun sequencing and the sequencing of TCRs from T cells recovered from both lamina propria and tumors provide evidence that the main mechanism of tumor inhibition is mediated by the elicitation at the intestinal site of cross-reacting T cells, which subsequently reach the tumor environment. Importantly, the administration of Outer Membrane Vesicles (OMVs) from engineered E. coli Nissle, as well as from E. coli BL21(DE3)DompA, carrying cancer-specific T cell epitopes also elicited epitope-specific T cells in the intestine and inhibited tumor growth. Overall, our data strengthen the important role of MM in tumor immunity and assign a novel function of OMVs in host-pathogen interaction. Moreover, our results pave the way to the exploitation of probiotics and OMVs engineered with tumor specific-antigens as personalized mucosal cancer vaccines. sample derived from SAMN29213104 sample name SRR19759476_bin.24_metawrap_v1.3_MAG sequencing method Illumina NovaSeq 6000 taxonomic classification The taxonomy of this metagenome-assembled genome was originally computed with GTDBtk, which assigned the following taxonomic annotation: d__Bacteria;p__Firmicutes;c__;o__;f__;g__;s__ taxonomic identity marker multi-marker approach