ERS14397179 SAMEA112286337 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286337 GISAID Accession ID EPI_ISL_16251184 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC39 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Noord-Brabant host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/NB-EMC-5308/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC39 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397180 SAMEA112286338 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286338 GISAID Accession ID EPI_ISL_16251185 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC40 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Noord-Brabant host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/NB-EMC-5309/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC40 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397181 SAMEA112286339 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286339 GISAID Accession ID EPI_ISL_16251186 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC50 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Noord-Brabant host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/NB-EMC-5310/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC50 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397182 SAMEA112286340 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286340 GISAID Accession ID EPI_ISL_16251187 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC52 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Noord-Brabant host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/NB-EMC-5311/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC52 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397183 SAMEA112286341 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286341 GISAID Accession ID EPI_ISL_16251188 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC58 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Noord-Brabant host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/NB-EMC-5312/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC58 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397184 SAMEA112286342 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286342 GISAID Accession ID EPI_ISL_16251189 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC58 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Noord-Brabant host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/NB-EMC-5313/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC58 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397185 SAMEA112286343 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286343 GISAID Accession ID EPI_ISL_16251190 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC42 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zeeland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZE-EMC-4466/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC42 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397186 SAMEA112286344 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286344 GISAID Accession ID EPI_ISL_16251191 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC41 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-19 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zeeland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZE-EMC-4467/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC41 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397187 SAMEA112286345 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286345 GISAID Accession ID EPI_ISL_16251192 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC42 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-24 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zeeland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZE-EMC-4468/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC42 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397188 SAMEA112286346 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286346 GISAID Accession ID EPI_ISL_16251193 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC55 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zeeland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZE-EMC-4469/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC55 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397189 SAMEA112286347 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286347 GISAID Accession ID EPI_ISL_16251194 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC85 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-09 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zeeland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZE-EMC-4470/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC85 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397190 SAMEA112286348 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286348 GISAID Accession ID EPI_ISL_16251195 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC03 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7387/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC03 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397191 SAMEA112286349 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286349 GISAID Accession ID EPI_ISL_16251196 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC05 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7388/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC05 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397192 SAMEA112286350 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286350 GISAID Accession ID EPI_ISL_16251197 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC07 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7389/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC07 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397193 SAMEA112286351 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286351 GISAID Accession ID EPI_ISL_16251198 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC08 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7390/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC08 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397194 SAMEA112286352 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286352 GISAID Accession ID EPI_ISL_16251199 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC12 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-25 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7391/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC12 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397195 SAMEA112286353 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286353 GISAID Accession ID EPI_ISL_16251200 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC14 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-23 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7392/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC14 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397196 SAMEA112286354 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286354 GISAID Accession ID EPI_ISL_16251201 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC15 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-23 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7393/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC15 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397197 SAMEA112286355 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286355 GISAID Accession ID EPI_ISL_16251202 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC16 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-23 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7394/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC16 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397198 SAMEA112286356 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286356 GISAID Accession ID EPI_ISL_16251203 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC17 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-23 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7395/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC17 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397199 SAMEA112286357 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286357 GISAID Accession ID EPI_ISL_16251204 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC18 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-23 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7396/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC18 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397200 SAMEA112286358 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286358 GISAID Accession ID EPI_ISL_16251205 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC19 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-23 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7397/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC19 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397201 SAMEA112286359 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286359 GISAID Accession ID EPI_ISL_16251206 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC20 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-22 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7398/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC20 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397202 SAMEA112286360 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286360 GISAID Accession ID EPI_ISL_16251207 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC21 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7399/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC21 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397203 SAMEA112286361 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286361 GISAID Accession ID EPI_ISL_16251208 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC22 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-27 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7400/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC22 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397204 SAMEA112286362 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286362 GISAID Accession ID EPI_ISL_16251209 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC23 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7401/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC23 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397205 SAMEA112286363 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286363 GISAID Accession ID EPI_ISL_16251210 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC25 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7402/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC25 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397206 SAMEA112286364 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286364 GISAID Accession ID EPI_ISL_16251211 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC26 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7403/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC26 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397207 SAMEA112286365 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286365 GISAID Accession ID EPI_ISL_16251212 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC27 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7404/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC27 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397208 SAMEA112286366 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286366 GISAID Accession ID EPI_ISL_16251213 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC28 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7405/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC28 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397209 SAMEA112286367 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286367 GISAID Accession ID EPI_ISL_16251214 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC29 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7406/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC29 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397210 SAMEA112286368 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286368 GISAID Accession ID EPI_ISL_16251215 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC30 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7407/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC30 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397211 SAMEA112286369 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286369 GISAID Accession ID EPI_ISL_16251216 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC33 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-09 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7408/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC33 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397212 SAMEA112286370 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286370 GISAID Accession ID EPI_ISL_16251217 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC35 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7409/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC35 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397213 SAMEA112286371 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286371 GISAID Accession ID EPI_ISL_16251218 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC36 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7410/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC36 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397214 SAMEA112286372 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286372 GISAID Accession ID EPI_ISL_16251219 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC37 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7411/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC37 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397215 SAMEA112286373 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286373 GISAID Accession ID EPI_ISL_16251220 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC38 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-28 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7412/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC38 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397216 SAMEA112286374 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286374 GISAID Accession ID EPI_ISL_16251221 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC41 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7413/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC41 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397217 SAMEA112286375 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286375 GISAID Accession ID EPI_ISL_16251222 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC43 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7414/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC43 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397218 SAMEA112286376 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286376 GISAID Accession ID EPI_ISL_16251223 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC44 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-29 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7415/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC44 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397219 SAMEA112286377 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286377 GISAID Accession ID EPI_ISL_16251224 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC47 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7416/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC47 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397220 SAMEA112286378 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286378 GISAID Accession ID EPI_ISL_16251225 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC49 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7417/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run788_BC49 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397221 SAMEA112286379 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286379 GISAID Accession ID EPI_ISL_16251226 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC55 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-11-30 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7418/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC55 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397222 SAMEA112286380 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286380 GISAID Accession ID EPI_ISL_16251227 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC56 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7419/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC56 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397223 SAMEA112286381 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286381 GISAID Accession ID EPI_ISL_16251228 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC57 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7420/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC57 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397224 SAMEA112286382 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286382 GISAID Accession ID EPI_ISL_16251229 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC59 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7421/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC59 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397225 SAMEA112286383 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286383 GISAID Accession ID EPI_ISL_16251230 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC62 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-02 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7422/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC62 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397226 SAMEA112286384 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286384 GISAID Accession ID EPI_ISL_16251231 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC63 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7423/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC63 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397227 SAMEA112286385 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286385 GISAID Accession ID EPI_ISL_16251232 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC65 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-02 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7424/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC65 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397228 SAMEA112286386 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286386 GISAID Accession ID EPI_ISL_16251233 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC66 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-02 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7425/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC66 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397229 SAMEA112286387 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286387 GISAID Accession ID EPI_ISL_16251234 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC67 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-03 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7426/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC67 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397230 SAMEA112286388 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286388 GISAID Accession ID EPI_ISL_16251235 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC68 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-03 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7427/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC68 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397231 SAMEA112286389 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286389 GISAID Accession ID EPI_ISL_16251236 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run788_BC69 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-03 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7428/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC69 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397232 SAMEA112286390 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-03-15 External Id SAMEA112286390 GISAID Accession ID EPI_ISL_16251237 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-03-15T13:25:01Z INSDC status public Submitter Id Run788_BC70 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7429/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC70 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397233 SAMEA112286391 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-03-15 External Id SAMEA112286391 GISAID Accession ID EPI_ISL_16251238 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-03-15T13:24:47Z INSDC status public Submitter Id Run788_BC71 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7430/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC71 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397234 SAMEA112286392 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-03-15 External Id SAMEA112286392 GISAID Accession ID EPI_ISL_16251239 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-03-15T13:24:33Z INSDC status public Submitter Id Run788_BC72 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7431/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run788_BC72 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397235 SAMEA112286393 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286393 GISAID Accession ID EPI_ISL_16251240 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC01 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7432/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC01 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397236 SAMEA112286394 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286394 GISAID Accession ID EPI_ISL_16251241 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC02 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7433/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC02 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397237 SAMEA112286395 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286395 GISAID Accession ID EPI_ISL_16251242 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC08 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7434/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC08 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397238 SAMEA112286396 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286396 GISAID Accession ID EPI_ISL_16251243 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC09 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7435/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC09 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397239 SAMEA112286397 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286397 GISAID Accession ID EPI_ISL_16251244 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC10 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7436/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC10 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397240 SAMEA112286398 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286398 GISAID Accession ID EPI_ISL_16251245 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC12 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7437/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC12 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397241 SAMEA112286399 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286399 GISAID Accession ID EPI_ISL_16251246 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC18 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7438/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC18 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397242 SAMEA112286400 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286400 GISAID Accession ID EPI_ISL_16251247 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC20 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7439/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC20 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397243 SAMEA112286401 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286401 GISAID Accession ID EPI_ISL_16251248 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC21 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7440/2022 isolation source host-associated Lysis sample capture status active surveillance in response to outbreak sample name Run793_BC21 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397244 SAMEA112286402 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286402 GISAID Accession ID EPI_ISL_16251249 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC22 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7441/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC22 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397245 SAMEA112286403 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286403 GISAID Accession ID EPI_ISL_16251250 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC25 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7442/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC25 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397246 SAMEA112286404 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286404 GISAID Accession ID EPI_ISL_16251251 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC26 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-01 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7443/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC26 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397247 SAMEA112286405 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286405 GISAID Accession ID EPI_ISL_16251252 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC29 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7444/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC29 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397248 SAMEA112286406 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286406 GISAID Accession ID EPI_ISL_16251253 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC31 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7445/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC31 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397249 SAMEA112286407 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286407 GISAID Accession ID EPI_ISL_16251254 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC33 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7446/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC33 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397250 SAMEA112286408 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286408 GISAID Accession ID EPI_ISL_16251255 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC35 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7447/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC35 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397251 SAMEA112286409 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286409 GISAID Accession ID EPI_ISL_16251256 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC37 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7448/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC37 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397252 SAMEA112286410 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286410 GISAID Accession ID EPI_ISL_16251257 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC38 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7449/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC38 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397253 SAMEA112286411 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286411 GISAID Accession ID EPI_ISL_16251258 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC39 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7450/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC39 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397254 SAMEA112286412 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286412 GISAID Accession ID EPI_ISL_16251259 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC40 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7451/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC40 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397255 SAMEA112286413 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286413 GISAID Accession ID EPI_ISL_16251260 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC45 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7452/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC45 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397256 SAMEA112286414 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286414 GISAID Accession ID EPI_ISL_16251261 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC47 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7453/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC47 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397257 SAMEA112286415 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286415 GISAID Accession ID EPI_ISL_16251262 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC51 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7454/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC51 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397258 SAMEA112286416 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286416 GISAID Accession ID EPI_ISL_16251263 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC53 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7455/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC53 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397259 SAMEA112286417 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286417 GISAID Accession ID EPI_ISL_16251264 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC54 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-05 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7456/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC54 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397260 SAMEA112286418 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286418 GISAID Accession ID EPI_ISL_16251265 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC56 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7457/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC56 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397261 SAMEA112286419 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286419 GISAID Accession ID EPI_ISL_16251266 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC57 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7458/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC57 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397262 SAMEA112286420 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286420 GISAID Accession ID EPI_ISL_16251267 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC60 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7459/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC60 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397263 SAMEA112286421 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286421 GISAID Accession ID EPI_ISL_16251268 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC61 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7460/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC61 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397264 SAMEA112286422 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286422 GISAID Accession ID EPI_ISL_16251269 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC62 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7461/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC62 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397265 SAMEA112286423 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286423 GISAID Accession ID EPI_ISL_16251270 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC63 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7462/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC63 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397266 SAMEA112286424 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286424 GISAID Accession ID EPI_ISL_16251271 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC64 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7463/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC64 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397267 SAMEA112286425 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286425 GISAID Accession ID EPI_ISL_16251272 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC65 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7464/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC65 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397268 SAMEA112286426 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286426 GISAID Accession ID EPI_ISL_16251273 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC66 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7465/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC66 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397269 SAMEA112286427 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286427 GISAID Accession ID EPI_ISL_16251274 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC71 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-07 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7466/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC71 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397270 SAMEA112286428 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286428 GISAID Accession ID EPI_ISL_16251275 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC72 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-07 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7467/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC72 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397271 SAMEA112286429 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286429 GISAID Accession ID EPI_ISL_16251276 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC73 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-07 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7468/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC73 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397272 SAMEA112286430 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286430 GISAID Accession ID EPI_ISL_16251277 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC74 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-07 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7469/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC74 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397273 SAMEA112286431 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286431 GISAID Accession ID EPI_ISL_16251278 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC75 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-07 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7470/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC75 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397274 SAMEA112286432 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286432 GISAID Accession ID EPI_ISL_16251279 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC76 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-07 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7471/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC76 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397275 SAMEA112286433 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286433 GISAID Accession ID EPI_ISL_16251280 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC77 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7472/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC77 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397276 SAMEA112286434 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286434 GISAID Accession ID EPI_ISL_16251281 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC79 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-08 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7473/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC79 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397277 SAMEA112286435 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286435 GISAID Accession ID EPI_ISL_16251282 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC80 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-08 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7474/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC80 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397278 SAMEA112286436 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286436 GISAID Accession ID EPI_ISL_16251283 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:12Z INSDC last update 2023-01-04T16:25:12Z INSDC status public Submitter Id Run793_BC81 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-08 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7475/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC81 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397279 SAMEA112286437 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286437 GISAID Accession ID EPI_ISL_16251284 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC83 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-08 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7476/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC83 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397280 SAMEA112286438 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286438 GISAID Accession ID EPI_ISL_16251285 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC84 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-09 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7477/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC84 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397281 SAMEA112286439 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286439 GISAID Accession ID EPI_ISL_16251286 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC87 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-09 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7478/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC87 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397282 SAMEA112286440 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286440 GISAID Accession ID EPI_ISL_16251287 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC88 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-09 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7479/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC88 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397283 SAMEA112286441 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286441 GISAID Accession ID EPI_ISL_16251288 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC89 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-09 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7480/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC89 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397284 SAMEA112286442 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286442 GISAID Accession ID EPI_ISL_16251289 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC91 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-10 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7481/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC91 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397285 SAMEA112286443 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286443 GISAID Accession ID EPI_ISL_16251290 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC92 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-10 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7482/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC92 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397286 SAMEA112286444 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286444 GISAID Accession ID EPI_ISL_16251291 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC93 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-11 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7483/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC93 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397287 SAMEA112286445 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286445 GISAID Accession ID EPI_ISL_16251292 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC94 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-11 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands geographic location (region and locality) Zuid-Holland host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/ZH-EMC-7484/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC94 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397288 SAMEA112286446 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286446 GISAID Accession ID EPI_ISL_16260184 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC59 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-06 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/un-EMC-908/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC59 scientific_name Severe acute respiratory syndrome coronavirus 2 ERS14397289 SAMEA112286447 2697049 Severe acute respiratory syndrome coronavirus 2 A SARS-CoV-2 specfic multiplex PCR for Nanopore sequencing was performed, similar to amplicon-based approaches as previously described. In short, primers for 86 overlapping amplicons spanning the entire genome were designed using primal. The amplicon length was set to 500bp with 75bp overlap between the different amplicons. The libraries were generated using the native barcode kits from Nanopore (EXP-NBD104 and EXP-NBD114 and SQK-LSK109) and sequenced on a R9.4 flow cell multiplexing up to 24 samples per sequence run. Raw data was demultiplexed, amplicon primers were trimmed and human data was removed by mapping against the human reference genome. ENA-FIRST-PUBLIC 2023-01-04 ENA-LAST-UPDATE 2023-01-04 External Id SAMEA112286447 GISAID Accession ID EPI_ISL_16260185 INSDC center alias Dutch COVID-19 response team INSDC center name Dutch COVID-19 response team INSDC first public 2023-01-04T16:25:13Z INSDC last update 2023-01-04T16:25:13Z INSDC status public Submitter Id Run793_BC69 broker name Submission account for department of Viroscience's Research Teams, ErasmusMC collecting institution not provided collection date 2022-12-07 collector name Dutch COVID-19 response team common name Human coronavirus 2019 geographic location (country and/or sea) Netherlands host common name Human host health state not collected host scientific name Homo sapiens host sex not provided host subject id restricted access isolate hCoV-19/Netherlands/un-EMC-909/2022 isolation source host-associated Throat/Nasal sample capture status active surveillance in response to outbreak sample name Run793_BC69 scientific_name Severe acute respiratory syndrome coronavirus 2