SRX335028 GSM1208312 GSM1208312: small RNA (~15-19nt and ~45nt) associated with RsAgo expressed in strain 25; Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469923 GSM1208312 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Protein was isolated from cells induced for ~10 hours with 1mM IPTG. Talon beads (Clontech) were used for affinity purification. Illumina Genome Analyzer IIx http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208312 gds 301208312 GEO Accession GSM1208312 SRX335029 GSM1208313 GSM1208313: small DNA (~20-25nt) associated with RsAgo expressed in strain 25; Rhodobacter sphaeroides ATCC 17025; ChIP-Seq SRP028776 GSE49865 SRS469924 GSM1208313 ChIP-Seq GENOMIC ChIP small DNA libraries were prepared according to Olovnikov et al., 2013 using adapters and primers compatible with Illumina TruSeq Small RNA Sample Preparation Kit. Protein was isolated from cells induced for ~10 hours with 1mM IPTG. Talon beads (Clontech) were used for affinity purification. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208313 gds 301208313 GEO Accession GSM1208313 SRX335030 GSM1208314 GSM1208314: small RNA associated with RsAgo expressed in E. coli BL21(DE3); Escherichia coli BL21(DE3); RNA-Seq SRP028776 GSE49865 SRS469926 GSM1208314 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Protein was isolated from cells induced for ~5 hours with 1mM IPTG. Talon beads (Clontech) were used for affinity purification. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208314 gds 301208314 GEO Accession GSM1208314 SRX335031 GSM1208315 GSM1208315: small DNA associated with RsAgo expressed in E. coli BL21(DE3); Escherichia coli BL21(DE3); ChIP-Seq SRP028776 GSE49865 SRS469925 GSM1208315 ChIP-Seq GENOMIC ChIP small DNA libraries were prepared according to Olovnikov et al., 2013 using adapters and primers compatible with Illumina TruSeq Small RNA Sample Preparation Kit. Protein was isolated from cells induced for ~5 hours with 1mM IPTG. Talon beads (Clontech) were used for affinity purification. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208315 gds 301208315 GEO Accession GSM1208315 SRX335032 GSM1208316 GSM1208316: total small RNA (13-30nt) from wild type strain 25; Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469927 GSM1208316 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Small RNA from cells induced for 8 hours with 1mM IPTG was isolated using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208316 gds 301208316 GEO Accession GSM1208316 SRX335033 GSM1208317 GSM1208317: total small RNA (13-30nt) from strain 25 with empty pSRKKm plasmid; Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469928 GSM1208317 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Small RNA from cells induced for 8 hours with 1mM IPTG was isolated using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208317 gds 301208317 GEO Accession GSM1208317 SRX335034 GSM1208318 GSM1208318: total small RNA (13-30nt) from strain 25 with pSRKKm-RsAgo plasmid; Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469930 GSM1208318 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Small RNA from cells induced for 8 hours with 1mM IPTG was isolated using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208318 gds 301208318 GEO Accession GSM1208318 SRX335035 GSM1208319 GSM1208319: total small RNA (13-30nt) from strain 29 with empty pSRKKm plasmid; Rhodobacter sphaeroides ATCC 17029; RNA-Seq SRP028776 GSE49865 SRS469929 GSM1208319 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Small RNA from cells induced for 8 hours with 1mM IPTG was isolated using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208319 gds 301208319 GEO Accession GSM1208319 SRX335036 GSM1208320 GSM1208320: total small RNA (13-30nt) from strain 29 with pSRKKm-RsAgo plasmid; Rhodobacter sphaeroides ATCC 17029; RNA-Seq SRP028776 GSE49865 SRS469931 GSM1208320 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Small RNA from cells induced for 8 hours with 1mM IPTG was isolated using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208320 gds 301208320 GEO Accession GSM1208320 SRX335037 GSM1208321 GSM1208321: total small RNA (13-30nt) from wild type strain 25 (replica 2); Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469932 GSM1208321 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Small RNA from cells induced for 8 hours with 1mM IPTG was isolated using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208321 gds 301208321 GEO Accession GSM1208321 SRX335038 GSM1208322 GSM1208322: total small RNA (13-30nt) from strain 25 RsAgo mutant; Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469933 GSM1208322 RNA-Seq TRANSCRIPTOMIC size fractionation small RNA libraries were prepared according to Brennecke et al., 2007 using adapters and primers from Illumina TruSeq Small RNA Sample Preparation Kit. Small RNA from cells induced for 8 hours with 1mM IPTG was isolated using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208322 gds 301208322 GEO Accession GSM1208322 SRX335039 GSM1208323 GSM1208323: total RNA from wild type strain 25; Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469934 GSM1208323 RNA-Seq TRANSCRIPTOMIC cDNA library built from total RNA using Illumina TrueSeq RNA Sample Preparation Kit v2. RNA was extracted from cells at early stationary phase using Amresco Phenol-Free Total RNA Purification Kit. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208323 gds 301208323 GEO Accession GSM1208323 SRX335040 GSM1208324 GSM1208324: ribosomal RNA-depleted total RNA from strain 25 wt (replica 1); Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469935 GSM1208324 RNA-Seq TRANSCRIPTOMIC cDNA library built from rRNA-depleted total RNA. RNA was extracted from cells at early stationary phase using Amresco Phenol-Free Total RNA Purification Kit. For rRNA depletion EpiBio Ribo-Zero rRNA Removal Kit for Gram-Negative Bacteria was used. Illumina TrueSeq RNA Sample Preparation Kit v2 was used for library preparation. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208324 gds 301208324 GEO Accession GSM1208324 SRX335041 GSM1208325 GSM1208325: ribosomal RNA-depleted total RNA from strain 25 wt (replica 2); Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469936 GSM1208325 RNA-Seq TRANSCRIPTOMIC cDNA library built from rRNA-depleted total RNA. RNA was extracted from cells at early stationary phase using Amresco Phenol-Free Total RNA Purification Kit. For rRNA depletion EpiBio Ribo-Zero rRNA Removal Kit for Gram-Negative Bacteria was used. Illumina TrueSeq RNA Sample Preparation Kit v2 was used for library preparation. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208325 gds 301208325 GEO Accession GSM1208325 SRX335042 GSM1208326 GSM1208326: ribosomal RNA-depleted total RNA from strain 25 RsAgo mutant (replica 1); Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469937 GSM1208326 RNA-Seq TRANSCRIPTOMIC cDNA library built from rRNA-depleted total RNA. RNA was extracted from cells at early stationary phase using Amresco Phenol-Free Total RNA Purification Kit. For rRNA depletion EpiBio Ribo-Zero rRNA Removal Kit for Gram-Negative Bacteria was used. Illumina TrueSeq RNA Sample Preparation Kit v2 was used for library preparation. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208326 gds 301208326 GEO Accession GSM1208326 SRX335043 GSM1208327 GSM1208327: ribosomal RNA-depleted total RNA from strain 25 RsAgo mutant (replica 2); Rhodobacter sphaeroides ATCC 17025; RNA-Seq SRP028776 GSE49865 SRS469938 GSM1208327 RNA-Seq TRANSCRIPTOMIC cDNA library built from rRNA-depleted total RNA. RNA was extracted from cells at early stationary phase using Amresco Phenol-Free Total RNA Purification Kit. For rRNA depletion EpiBio Ribo-Zero rRNA Removal Kit for Gram-Negative Bacteria was used. Illumina TrueSeq RNA Sample Preparation Kit v2 was used for library preparation. Illumina HiSeq 2000 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1208327 gds 301208327 GEO Accession GSM1208327