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{"accession":"GCA_002171705.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS+","name":"NCBI Prokaryotic Genome Annotation Pipeline","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline","provider":"NCBI","releaseDate":"2017-05-19","softwareVersion":"4.1","stats":{"geneCounts":{"nonCoding":34,"proteinCoding":1915,"pseudogene":25,"total":1974}}},"assemblyInfo":{"assemblyLevel":"Contig","assemblyMethod":"Megahit v. 1.0.3; Minimus2 v. 3.1.0","assemblyName":"ASM217170v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA385857","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA385857","title":"290 Metagenome-assembled Genomes from the Mediterranean Sea"}]}],"biosample":{"accession":"SAMN06971918","attributes":[{"name":"host","value":"not applicable"},{"name":"strain","value":"not applicable"},{"name":"metagenome-source","value":"marine metagenome"},{"name":"sample_type","value":"metagenomic assembly"},{"name":"metagenomic","value":"TRUE"},{"name":"collection_date","value":"2009"},{"name":"collected_by","value":"Tara Oceans Consortium"},{"name":"environmental-sample","value":"TRUE"},{"name":"note","value":"This BioSample is a metagenomic assembly obtained from the publically available reads for the TARA Oceans Project deposited in the Sequence Read Archive (SRA) database with accessions ERS488346, ERS488330, ERS477998, ERS477979, ERS488509, ERS488486, ERS478040, ERS477953, ERS477931, ERS488147, ERS488119, and ERS478017."},{"name":"depth","value":"5-72m"},{"name":"env_broad_scale","value":"marine photic zone"},{"name":"geo_loc_name","value":"Mediterranean Sea"},{"name":"isolate","value":"TMED64"},{"name":"isolation_source","value":"seawater"}],"bioprojects":[{"accession":"PRJNA385857"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter sp. TMED64","taxId":1986830},"title":"290 Metagenome-assembled Genomes from the Mediterranean Sea"},"lastUpdated":"2017-07-12T21:02:00.151","models":["Microbe, viral or environmental"],"owner":{"contacts":[{}],"name":"University of Southern California"},"package":"Microbe.1.0","publicationDate":"2017-05-12T00:00:00.000","sampleIds":[{"label":"Sample name","value":"Pelagibacteraceae bacterium TMED64"}],"status":{"status":"live","when":"2017-05-16T14:06:36"},"submissionDate":"2017-05-12T20:08:11.050"},"comments":"This genome was assembled from the publically available reads for the TARA Oceans Project deposited in the Sequence Read Archive (SRA) database with accessions ERS488346, ERS488330, ERS477998, ERS477979, ERS488509, ERS488486, ERS478040, ERS477953, ERS477931, ERS488147, ERS488119, and ERS478017.\nAnnotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/","genomeNotes":["derived from metagenome"],"sequencingTech":"Illumina HiSeq","submissionDate":"2017-06-05","submitter":"Tara Oceans Consortium"},"assemblyStats":{"contigL50":18,"contigN50":30910,"gcCount":"556433","gcPercent":31.0,"numberOfComponentSequences":86,"numberOfContigs":86,"totalSequenceLength":"1787588","totalUngappedLength":"1787588"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":81.29,"assembly":"GCA_000012345.1","assemblyCoverage":1.11,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":1.52},"category":"category_na","comment":"na","matchStatus":"low_coverage","submittedOrganism":"Candidatus Pelagibacter sp. TMED64","submittedSpecies":"Candidatus Pelagibacter sp. TMED64","taxonomyCheckStatus":"Inconclusive"},"currentAccession":"GCA_002171705.1","organism":{"infraspecificNames":{"isolate":"TMED64"},"organismName":"Candidatus Pelagibacter sp. TMED64","taxId":1986830},"sourceDatabase":"SOURCE_DATABASE_GENBANK","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/NHDR00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/NHDR01","wgsProjectAccession":"NHDR01"}}
{"accession":"GCA_002171845.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS+","name":"NCBI Prokaryotic Genome Annotation Pipeline","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline","provider":"NCBI","releaseDate":"2017-05-19","softwareVersion":"4.1","stats":{"geneCounts":{"nonCoding":17,"proteinCoding":898,"pseudogene":34,"total":949}}},"assemblyInfo":{"assemblyLevel":"Contig","assemblyMethod":"Megahit v. 1.0.3; Minimus2 v. 3.1.0","assemblyName":"ASM217184v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA385857","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA385857","title":"290 Metagenome-assembled Genomes from the Mediterranean Sea"}]}],"biosample":{"accession":"SAMN06972057","attributes":[{"name":"host","value":"not applicable"},{"name":"strain","value":"not applicable"},{"name":"metagenome-source","value":"marine metagenome"},{"name":"sample_type","value":"metagenomic assembly"},{"name":"metagenomic","value":"TRUE"},{"name":"collection_date","value":"2009"},{"name":"collected_by","value":"Tara Oceans Consortium"},{"name":"environmental-sample","value":"TRUE"},{"name":"note","value":"This BioSample is a metagenomic assembly obtained from the publically available reads for the TARA Oceans Project deposited in the Sequence Read Archive (SRA) database with accessions ERS488346, ERS488330, ERS477998, ERS477979, ERS488509, ERS488486, ERS478040, ERS477953, ERS477931, ERS488147, ERS488119, and ERS478017."},{"name":"depth","value":"5-72m"},{"name":"env_broad_scale","value":"marine photic zone"},{"name":"geo_loc_name","value":"Mediterranean Sea"},{"name":"isolate","value":"TMED203"},{"name":"isolation_source","value":"seawater"}],"bioprojects":[{"accession":"PRJNA385857"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter sp. TMED203","taxId":1986811},"title":"290 Metagenome-assembled Genomes from the Mediterranean Sea"},"lastUpdated":"2017-07-12T21:01:59.860","models":["Microbe, viral or environmental"],"owner":{"contacts":[{}],"name":"University of Southern California"},"package":"Microbe.1.0","publicationDate":"2017-05-12T00:00:00.000","sampleIds":[{"label":"Sample name","value":"Pelagibacteraceae bacterium TMED203"}],"status":{"status":"live","when":"2017-05-16T14:06:42"},"submissionDate":"2017-05-12T20:08:13.190"},"comments":"This genome was assembled from the publically available reads for the TARA Oceans Project deposited in the Sequence Read Archive (SRA) database with accessions ERS488346, ERS488330, ERS477998, ERS477979, ERS488509, ERS488486, ERS478040, ERS477953, ERS477931, ERS488147, ERS488119, and ERS478017.\nAnnotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/","genomeNotes":["derived from metagenome"],"sequencingTech":"Illumina HiSeq","submissionDate":"2017-06-05","submitter":"Tara Oceans Consortium"},"assemblyStats":{"contigL50":11,"contigN50":27640,"gcCount":"271612","gcPercent":31.0,"numberOfComponentSequences":46,"numberOfContigs":46,"totalSequenceLength":"869468","totalUngappedLength":"869468"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":76.94,"assembly":"GCA_000012345.1","assemblyCoverage":0.31,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":0.2},"category":"category_na","comment":"na","matchStatus":"low_coverage","submittedOrganism":"Candidatus Pelagibacter sp. TMED203","submittedSpecies":"Candidatus Pelagibacter sp. TMED203","taxonomyCheckStatus":"Inconclusive"},"currentAccession":"GCA_002171845.1","organism":{"infraspecificNames":{"isolate":"TMED203"},"organismName":"Candidatus Pelagibacter sp. TMED203","taxId":1986811},"sourceDatabase":"SOURCE_DATABASE_GENBANK","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/NHJA00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/NHJA01","wgsProjectAccession":"NHJA01"}}
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{"accession":"GCA_002171925.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS+","name":"NCBI Prokaryotic Genome Annotation Pipeline","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline","provider":"NCBI","releaseDate":"2017-05-19","softwareVersion":"4.1","stats":{"geneCounts":{"nonCoding":13,"proteinCoding":609,"pseudogene":17,"total":639}}},"assemblyInfo":{"assemblyLevel":"Contig","assemblyMethod":"Megahit v. 1.0.3; Minimus2 v. 3.1.0","assemblyName":"ASM217192v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA385857","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA385857","title":"290 Metagenome-assembled Genomes from the Mediterranean Sea"}]}],"biosample":{"accession":"SAMN06972050","attributes":[{"name":"host","value":"not applicable"},{"name":"strain","value":"not applicable"},{"name":"metagenome-source","value":"marine metagenome"},{"name":"sample_type","value":"metagenomic assembly"},{"name":"metagenomic","value":"TRUE"},{"name":"collection_date","value":"2009"},{"name":"collected_by","value":"Tara Oceans Consortium"},{"name":"environmental-sample","value":"TRUE"},{"name":"note","value":"This BioSample is a metagenomic assembly obtained from the publically available reads for the TARA Oceans Project deposited in the Sequence Read Archive (SRA) database with accessions ERS488346, ERS488330, ERS477998, ERS477979, ERS488509, ERS488486, ERS478040, ERS477953, ERS477931, ERS488147, ERS488119, and ERS478017."},{"name":"depth","value":"5-72m"},{"name":"env_broad_scale","value":"marine photic zone"},{"name":"geo_loc_name","value":"Mediterranean Sea"},{"name":"isolate","value":"TMED196"},{"name":"isolation_source","value":"seawater"}],"bioprojects":[{"accession":"PRJNA385857"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter sp. TMED196","taxId":1986807},"title":"290 Metagenome-assembled Genomes from the Mediterranean Sea"},"lastUpdated":"2017-07-12T21:01:59.760","models":["Microbe, viral or environmental"],"owner":{"contacts":[{}],"name":"University of Southern California"},"package":"Microbe.1.0","publicationDate":"2017-05-12T00:00:00.000","sampleIds":[{"label":"Sample name","value":"Pelagibacteraceae bacterium TMED196"}],"status":{"status":"live","when":"2017-05-16T14:06:41"},"submissionDate":"2017-05-12T20:08:13.083"},"comments":"This genome was assembled from the publically available reads for the TARA Oceans Project deposited in the Sequence Read Archive (SRA) database with accessions ERS488346, ERS488330, ERS477998, ERS477979, ERS488509, ERS488486, ERS478040, ERS477953, ERS477931, ERS488147, ERS488119, and ERS478017.\nAnnotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/","genomeNotes":["derived from metagenome"],"sequencingTech":"Illumina HiSeq","submissionDate":"2017-06-05","submitter":"Tara Oceans Consortium"},"assemblyStats":{"contigL50":9,"contigN50":21047,"gcCount":"161894","gcPercent":29.0,"numberOfComponentSequences":32,"numberOfContigs":32,"totalSequenceLength":"556608","totalUngappedLength":"556608"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":77.31,"assembly":"GCA_000012345.1","assemblyCoverage":4.21,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":1.79},"category":"category_na","comment":"na","matchStatus":"low_coverage","submittedOrganism":"Candidatus Pelagibacter sp. TMED196","submittedSpecies":"Candidatus Pelagibacter sp. TMED196","taxonomyCheckStatus":"Inconclusive"},"currentAccession":"GCA_002171925.1","organism":{"infraspecificNames":{"isolate":"TMED196"},"organismName":"Candidatus Pelagibacter sp. TMED196","taxId":1986807},"sourceDatabase":"SOURCE_DATABASE_GENBANK","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/NHIT00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/NHIT01","wgsProjectAccession":"NHIT01"}}
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{"accession":"GCF_000153525.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS-2+","name":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","provider":"NCBI RefSeq","releaseDate":"2022-12-16","softwareVersion":"6.3","stats":{"geneCounts":{"nonCoding":36,"proteinCoding":1365,"pseudogene":5,"total":1406}}},"assemblyInfo":{"assemblyLevel":"Scaffold","assemblyName":"ASM15352v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA13577","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA13577","title":"Marine bacterium dominant in ocean surface waters"}]}],"biosample":{"accession":"SAMN02436088","attributes":[{"name":"strain","value":"HTCC1002"}],"bioprojects":[{"accession":"PRJNA13577"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter ubique HTCC1002","taxId":314261},"title":"Generic sample from Candidatus Pelagibacter ubique HTCC1002"},"lastUpdated":"2015-05-18T12:16:08.960","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2013-12-04T14:26:22.960","sampleIds":[{"label":"Sample name","value":"AAPV"}],"status":{"status":"live","when":"2013-12-04T14:26:22.960"},"submissionDate":"2013-12-04T14:22:48.420"},"comments":"Annotation was added by the NCBI Prokaryotic Genomes Automatic Annotation Pipeline Group. Information about the Pipeline can be found here: http://www.ncbi.nlm.nih.gov/genomes/static/Pipeline.html. Please be aware that the annotation is done automatically with little or no manual curation.","pairedAssembly":{"accession":"GCA_000153525.1","annotationName":"Annotation submitted by The Gordon and Betty Moore Foundation Marine Microbiology Initiative","status":"current"},"submissionDate":"2006-05-02","submitter":"The Gordon and Betty Moore Foundation Marine Microbiology Initiative"},"assemblyStats":{"contigL50":1,"contigN50":1012886,"gcCount":"395091","gcPercent":29.5,"numberOfComponentSequences":5,"numberOfContigs":5,"numberOfScaffolds":4,"scaffoldL50":1,"scaffoldN50":1324008,"totalSequenceLength":"1328618","totalUngappedLength":"1327604"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":98.11,"assembly":"GCA_000012345.1","assemblyCoverage":93.28,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":94.62},"category":"category_na","comment":"na","matchStatus":"species_match","submittedAniMatch":{"ani":98.11,"assembly":"GCA_000012345.1","assemblyCoverage":93.28,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique HTCC1062","typeAssemblyCoverage":94.62},"submittedOrganism":"Candidatus Pelagibacter ubique HTCC1002","submittedSpecies":"Candidatus Pelagibacter ubique","taxonomyCheckStatus":"OK"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter ubique","checkmMarkerSetRank":"species","checkmSpeciesTaxId":198252,"checkmVersion":"v1.2.0","completeness":99.62,"completenessPercentile":85.0,"contamination":1.23},"currentAccession":"GCF_000153525.1","organism":{"infraspecificNames":{"strain":"HTCC1002"},"organismName":"Candidatus Pelagibacter ubique HTCC1002","taxId":314261},"pairedAccession":"GCA_000153525.1","sourceDatabase":"SOURCE_DATABASE_REFSEQ","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/AAPV00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/AAPV01","wgsProjectAccession":"AAPV01"}}
{"accession":"GCF_000155895.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS-2+","name":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","provider":"NCBI RefSeq","releaseDate":"2022-07-26","softwareVersion":"6.2","stats":{"geneCounts":{"nonCoding":36,"proteinCoding":1528,"pseudogene":10,"total":1574}}},"assemblyInfo":{"assemblyLevel":"Scaffold","assemblyName":"ASM15589v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA19339","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA19339","title":"Marine bacterium dominant in ocean surface waters"}]}],"biosample":{"accession":"SAMN02436224","attributes":[{"name":"strain","value":"HTCC7211"}],"bioprojects":[{"accession":"PRJNA19339"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter sp. HTCC7211","taxId":439493},"title":"Generic sample from Candidatus Pelagibacter sp. HTCC7211"},"lastUpdated":"2015-05-18T12:16:15.880","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2013-12-04T14:26:25.350","sampleIds":[{"label":"Sample name","value":"ABVS"}],"status":{"status":"live","when":"2013-12-04T14:26:25.350"},"submissionDate":"2013-12-04T14:22:56.450"},"comments":"With funding from the Gordon and Betty Moore Foundation (www.moore.org), the J. Craig Venter Institute (www.jcvi.org) is sequencing, assembling, and auto-annotating the genomes of approximately 165 marine microbes. These microbes were contributed by collaborators worldwide, and embody an array of physiological diversity, including carbon fixers, photoautotrophs, photoheterotrophs, nitrifiers, and methanotrophs. This work was designed to complement other ongoing research at JCVI and elsewhere to characterize the microbial biodiversity of marine and terrestrial environments through metagenomics profiling of environmental samples.\nPlease be aware that the annotation is done automatically with little or no manual curation.","pairedAssembly":{"accession":"GCA_000155895.1","annotationName":"Annotation submitted by The Gordon and Betty Moore Foundation Microbial Genome Sequencing Project","status":"current"},"submissionDate":"2008-09-29","submitter":"The Gordon and Betty Moore Foundation Microbial Genome Sequencing Project"},"assemblyStats":{"contigL50":1,"contigN50":1456888,"gcCount":"423005","gcPercent":29.0,"numberOfComponentSequences":1,"numberOfContigs":1,"numberOfScaffolds":1,"scaffoldL50":1,"scaffoldN50":1456888,"totalSequenceLength":"1456888","totalUngappedLength":"1456888"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":79.53,"assembly":"GCA_000012345.1","assemblyCoverage":32.85,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":36.57},"category":"category_na","comment":"na","matchStatus":"below_threshold_mismatch","submittedOrganism":"Candidatus Pelagibacter sp. HTCC7211","submittedSpecies":"Candidatus Pelagibacter sp. HTCC7211","taxonomyCheckStatus":"Inconclusive"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter","checkmMarkerSetRank":"genus","checkmSpeciesTaxId":439493,"checkmVersion":"v1.2.0","completeness":99.46,"completenessPercentile":100.0,"contamination":0.05},"currentAccession":"GCF_000155895.1","organism":{"infraspecificNames":{"strain":"HTCC7211"},"organismName":"Candidatus Pelagibacter sp. HTCC7211","taxId":439493},"pairedAccession":"GCA_000155895.1","sourceDatabase":"SOURCE_DATABASE_REFSEQ","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/ABVS00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/ABVS01","wgsProjectAccession":"ABVS01"}}
{"accession":"GCF_000195085.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS-2+","name":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","provider":"NCBI RefSeq","releaseDate":"2022-07-26","softwareVersion":"6.2","stats":{"geneCounts":{"nonCoding":38,"proteinCoding":1382,"pseudogene":14,"total":1434}}},"assemblyInfo":{"assemblyLevel":"Complete Genome","assemblyName":"ASM19508v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA62303","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA62303","title":"Candidatus Pelagibacter sp. IMCC9063 Genome sequencing project"}]}],"biosample":{"accession":"SAMN02603337","attributes":[{"name":"strain","value":"IMCC9063"}],"bioprojects":[{"accession":"PRJNA62303"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter sp. IMCC9063","taxId":1002672},"title":"Sample from Candidatus Pelagibacter sp. IMCC9063"},"lastUpdated":"2015-05-18T13:18:42.863","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2014-01-30T11:19:50.067","sampleIds":[{"label":"Sample name","value":"CP002511"}],"status":{"status":"live","when":"2014-01-30T11:19:50.067"},"submissionDate":"2014-01-30T11:19:50.067"},"comments":"Source DNA is available upon request; Please contact Professor Jang-Cheon Cho (chojc@inha.ac.kr) at Department of Biological Sciences of Inha University, Incheon, Korea.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/","pairedAssembly":{"accession":"GCA_000195085.1","annotationName":"Annotation submitted by Inha University","status":"current"},"submissionDate":"2011-04-05","submitter":"Inha University"},"assemblyStats":{"contigL50":1,"contigN50":1284727,"gcCount":"406882","gcPercent":31.5,"numberOfComponentSequences":1,"numberOfContigs":1,"numberOfScaffolds":1,"scaffoldL50":1,"scaffoldN50":1284727,"totalNumberOfChromosomes":1,"totalSequenceLength":"1284727","totalUngappedLength":"1284727"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":84.99,"assembly":"GCA_000012345.1","assemblyCoverage":1.09,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":1.07},"category":"category_na","comment":"na","matchStatus":"low_coverage","submittedOrganism":"Candidatus Pelagibacter sp. IMCC9063","submittedSpecies":"Candidatus Pelagibacter sp. IMCC9063","taxonomyCheckStatus":"Inconclusive"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter","checkmMarkerSetRank":"genus","checkmSpeciesTaxId":1002672,"checkmVersion":"v1.2.0","completeness":98.81,"completenessPercentile":100.0,"contamination":1.04},"currentAccession":"GCF_000195085.1","organism":{"infraspecificNames":{"strain":"IMCC9063"},"organismName":"Candidatus Pelagibacter sp. IMCC9063","taxId":1002672},"pairedAccession":"GCA_000195085.1","sourceDatabase":"SOURCE_DATABASE_REFSEQ"}
{"accession":"GCF_000384455.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS-2+","name":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","provider":"NCBI RefSeq","releaseDate":"2022-12-07","softwareVersion":"6.4","stats":{"geneCounts":{"nonCoding":36,"proteinCoding":1327,"pseudogene":5,"total":1368}}},"assemblyInfo":{"assemblyLevel":"Contig","assemblyMethod":"Velvet v. 1.1.04; ALLPATHS v. r40295","assemblyName":"ASM38445v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA163047","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA163047","title":"Candidatus Pelagibacter ubique HTCC1040 Genome sequencing and assembly"}]}],"biosample":{"accession":"SAMN02256395","attributes":[{"name":"env_package","value":"missing"},{"name":"biotic_relationship","value":"free living"},{"name":"env_local_scale","value":"not provided; submitted under MIGS 2.1"},{"name":"isol_growth_condt","value":"Missing"},{"name":"GOLD Stamp ID","value":"Gi13874"},{"name":"lat_lon","value":"Missing"},{"name":"collection_date","value":"Missing"},{"name":"investigation_type","value":"bacteria_archaea"},{"name":"environment","value":"Missing"},{"name":"Gram Staining","value":"Gram-"},{"name":"type_strain","value":"No"},{"name":"rel_to_oxygen","value":"Missing"},{"name":"project_name","value":"Candidatus Pelagibacter ubique HTCC1040"},{"name":"geo_loc_name","value":"Missing"},{"name":"env_broad_scale","value":"not provided; submitted under MIGS 2.1"},{"name":"env_medium","value":"not provided; submitted under MIGS 2.1"},{"name":"ref_biomaterial","value":"Missing"},{"name":"alt_elev","value":"Missing"},{"name":"num_replicons","value":"Missing"},{"name":"trophic_level","value":"Missing"},{"name":"strain","value":"HTCC1040"},{"name":"depth","value":"Missing"}],"bioprojects":[{"accession":"PRJNA163047"}],"description":{"comment":"Keywords: GSC:MIxS;MIGS:6.0","organism":{"organismName":"Candidatus Pelagibacter ubique HTCC1040","taxId":1118158},"title":"MIGS Cultured Bacterial/Archaeal sample from Candidatus Pelagibacter ubique HTCC1040"},"lastUpdated":"2016-07-15T19:12:16.060","models":["MIGS.ba"],"owner":{"contacts":[{}],"name":"Joint Genome Institute"},"package":"MIGS.ba.6.0","publicationDate":"2013-07-17T10:59:05.090","sampleIds":[{"label":"Sample name","value":"ARVY"},{"db":"SRA","value":"SRS1566411"}],"status":{"status":"live","when":"2013-09-19T09:22:24"},"submissionDate":"2013-07-17T10:56:09.847"},"comments":"URL -- http://www.jgi.doe.gov\nJGI Project ID: 400403\nSource DNA and Organism available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nSource DNA available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nOrganism available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nContacts: Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nTanja Woyke (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nAnnotation by JGI-ORNL\nThe JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376)\nFull annotations are available from IMG","pairedAssembly":{"accession":"GCA_000384455.1","status":"current"},"sequencingTech":"Unknown","submissionDate":"2013-04-26","submitter":"DOE Joint Genome Institute"},"assemblyStats":{"contigL50":1,"contigN50":1274624,"gcCount":"376604","gcPercent":29.5,"numberOfComponentSequences":1,"numberOfContigs":1,"totalSequenceLength":"1274624","totalUngappedLength":"1274624"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":97.22,"assembly":"GCA_000012345.1","assemblyCoverage":89.53,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":87.2},"category":"category_na","comment":"na","matchStatus":"species_match","submittedAniMatch":{"ani":97.22,"assembly":"GCA_000012345.1","assemblyCoverage":89.53,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique HTCC1062","typeAssemblyCoverage":87.2},"submittedOrganism":"Candidatus Pelagibacter ubique HTCC1040","submittedSpecies":"Candidatus Pelagibacter ubique","taxonomyCheckStatus":"OK"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter ubique","checkmMarkerSetRank":"species","checkmSpeciesTaxId":198252,"checkmVersion":"v1.2.2","completeness":99.77,"completenessPercentile":90.0,"contamination":0.84},"currentAccession":"GCF_000384455.1","organism":{"infraspecificNames":{"strain":"HTCC1040"},"organismName":"Candidatus Pelagibacter ubique HTCC1040","taxId":1118158},"pairedAccession":"GCA_000384455.1","sourceDatabase":"SOURCE_DATABASE_REFSEQ","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/ARVY00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/ARVY01","wgsProjectAccession":"ARVY01"}}
{"accession":"GCF_000472585.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS-2+","name":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","provider":"NCBI RefSeq","releaseDate":"2022-12-16","softwareVersion":"6.4","stats":{"geneCounts":{"nonCoding":36,"proteinCoding":1345,"pseudogene":9,"total":1390}}},"assemblyInfo":{"assemblyLevel":"Scaffold","assemblyMethod":"ALLPATHS v. R37654","assemblyName":"ASM47258v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA182739","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA182739","title":"Candidatus Pelagibacter ubique HTCC1013"}]}],"biosample":{"accession":"SAMN02441456","attributes":[{"name":"strain","value":"HTCC1013"},{"name":"GOLD Stamp ID","value":"Gi14781"},{"name":"Cell Shape","value":"Rod-shaped"},{"name":"Temperature Range","value":"Mesophile"},{"name":"Gram Staining","value":"Gram-"},{"name":"disease","value":"None"},{"name":"project_name","value":"Candidatus Pelagibacter ubique SAR11 HTCC1013"},{"name":"environment","value":"Marine"},{"name":"biotic_relationship","value":"free living"},{"name":"rel_to_oxygen","value":"aerobe"}],"bioprojects":[{"accession":"PRJNA182739"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter ubique HTCC1013","taxId":1265757},"title":"Generic sample from Candidatus Pelagibacter ubique HTCC1013"},"lastUpdated":"2016-07-15T19:12:15.780","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2013-12-11T13:22:58.987","sampleIds":[{"label":"Sample name","value":"AWZX"},{"db":"SRA","value":"SRS1566410"}],"status":{"status":"live","when":"2013-12-11T13:22:58.987"},"submissionDate":"2013-12-11T13:20:58.250"},"comments":"URL -- http://www.jgi.doe.gov\nJGI Project ID: 400410\nSource DNA and Organism available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nSource DNA available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nOrganism available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nContacts: Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nTanja Woyke (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nAnnotation by JGI-ORNL\nThe JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376)\nFull annotations are available from IMG","pairedAssembly":{"accession":"GCA_000472585.1","status":"current"},"sequencingTech":"Illumina","submissionDate":"2013-09-30","submitter":"DOE Joint Genome Institute"},"assemblyStats":{"contigL50":2,"contigN50":248608,"gcCount":"386099","gcPercent":29.5,"numberOfComponentSequences":16,"numberOfContigs":28,"numberOfScaffolds":5,"scaffoldL50":1,"scaffoldN50":741014,"totalSequenceLength":"1301122","totalUngappedLength":"1299976"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":98.49,"assembly":"GCA_000012345.1","assemblyCoverage":93.97,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":93.34},"category":"category_na","comment":"na","matchStatus":"species_match","submittedAniMatch":{"ani":98.49,"assembly":"GCA_000012345.1","assemblyCoverage":93.97,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique HTCC1062","typeAssemblyCoverage":93.34},"submittedOrganism":"Candidatus Pelagibacter ubique HTCC1013","submittedSpecies":"Candidatus Pelagibacter ubique","taxonomyCheckStatus":"OK"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter ubique","checkmMarkerSetRank":"species","checkmSpeciesTaxId":198252,"checkmVersion":"v1.2.2","completeness":99.84,"completenessPercentile":100.0,"contamination":1.23},"currentAccession":"GCF_000472585.1","organism":{"infraspecificNames":{"strain":"HTCC1013"},"organismName":"Candidatus Pelagibacter ubique HTCC1013","taxId":1265757},"pairedAccession":"GCA_000472585.1","sourceDatabase":"SOURCE_DATABASE_REFSEQ","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/AWZX00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/AWZX01","wgsProjectAccession":"AWZX01"}}
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{"accession":"GCF_025558165.1","annotationInfo":{"method":"Best-placed reference protein set; GeneMarkS-2+","name":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","pipeline":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","provider":"NCBI RefSeq","releaseDate":"2022-10-05","softwareVersion":"6.3","stats":{"geneCounts":{"nonCoding":35,"proteinCoding":1498,"pseudogene":2,"total":1535}}},"assemblyInfo":{"assemblyLevel":"Contig","assemblyMethod":"Unknown program v. before 2010-10-05","assemblyName":"ASM2555816v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA278081","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA278081","title":"Candidatus Pelagibacter ubique HIMB140 Genome sequencing and assembly"}]}],"biosample":{"accession":"SAMN03402370","attributes":[{"name":"strain","value":"HIMB140"},{"name":"collection_date","value":"Not collected"},{"name":"depth","value":"not collected"},{"name":"env_broad_scale","value":"Marine"},{"name":"env_local_scale","value":"Not collected"},{"name":"env_medium","value":"Not collected"},{"name":"geo_loc_name","value":"Not collected"},{"name":"isol_growth_condt","value":"Not collected"},{"name":"lat_lon","value":"Not collected"},{"name":"num_replicons","value":"Not collected"},{"name":"ref_biomaterial","value":"Not collected"}],"description":{"comment":"Keywords: GSC:MIxS;MIGS:6.0","organism":{"organismName":"Candidatus Pelagibacter ubique HIMB140","taxId":687406},"title":"MIGS Cultured Bacterial/Archaeal sample from Candidatus Pelagibacter ubique HIMB140"},"lastUpdated":"2015-08-15T05:10:14.920","models":["MIGS.ba","MIGS/MIMS/MIMARKS.water"],"owner":{"contacts":[{}],"name":"DOE Joint Genome Institute"},"package":"MIGS.ba.water.6.0","publicationDate":"2015-03-12T16:51:07.043","sampleIds":[{"label":"Sample name","value":"Candidatus Pelagibacter ubique HIMB140"},{"db":"SRA","value":"ERS787856"}],"status":{"status":"live","when":"2015-03-12T16:51:07.043"},"submissionDate":"2015-03-12T16:51:07.043"},"comments":"URL -- http://www.jgi.doe.gov\nJGI Project ID: 400407\nSource DNA and Organism available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nSource DNA available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nOrganism available from Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nContacts: Stephen J Giovannoni (Steve.giovannoni@oregonstate.edu)\nTanja Woyke (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nAnnotation by JGI-ORNL\nThe JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376)\nFull annotations are available from IMG","pairedAssembly":{"accession":"GCA_025558165.1","status":"current"},"sequencingTech":"Illumina","submissionDate":"2022-10-03","submitter":"DOE Joint Genome Institute"},"assemblyStats":{"contigL50":1,"contigN50":1437930,"gcCount":"422037","gcPercent":29.0,"numberOfComponentSequences":1,"numberOfContigs":1,"totalSequenceLength":"1437930","totalUngappedLength":"1437930"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":79.41,"assembly":"GCA_000012345.1","assemblyCoverage":26.22,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":28.8},"category":"category_na","comment":"na","matchStatus":"below_threshold_match","submittedAniMatch":{"ani":79.41,"assembly":"GCA_000012345.1","assemblyCoverage":26.22,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique HTCC1062","typeAssemblyCoverage":28.8},"submittedOrganism":"Candidatus Pelagibacter ubique HIMB140","submittedSpecies":"Candidatus Pelagibacter ubique","taxonomyCheckStatus":"Inconclusive"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter ubique","checkmMarkerSetRank":"species","checkmSpeciesTaxId":198252,"checkmVersion":"v1.2.0","completeness":99.57,"completenessPercentile":80.0,"contamination":1.69},"currentAccession":"GCF_025558165.1","organism":{"infraspecificNames":{"strain":"HIMB140"},"organismName":"Candidatus Pelagibacter ubique HIMB140","taxId":687406},"pairedAccession":"GCA_025558165.1","sourceDatabase":"SOURCE_DATABASE_REFSEQ","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/LAMZ00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/LAMZ01","wgsProjectAccession":"LAMZ01"}}
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{"accession":"GCA_000012345.1","annotationInfo":{"name":"Annotation submitted by Oregon State University","provider":"Oregon State University","releaseDate":"2014-01-31","stats":{"geneCounts":{"nonCoding":35,"proteinCoding":1354,"total":1389}}},"assemblyInfo":{"assemblyLevel":"Complete Genome","assemblyName":"ASM1234v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA13989","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA13989","title":"Marine bacterium dominant in ocean surface waters"}]}],"biosample":{"accession":"SAMN02603690","attributes":[{"name":"strain","value":"HTCC1062"},{"name":"type-material","value":"reference material of Candidatus Pelagibacter ubique"}],"bioprojects":[{"accession":"PRJNA13989"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter ubique HTCC1062","taxId":335992},"title":"Sample from Candidatus Pelagibacter ubique HTCC1062"},"lastUpdated":"2023-02-12T02:06:50.661","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2014-01-30T00:00:00.000","sampleIds":[{"label":"Sample name","value":"CP000084"}],"status":{"status":"live","when":"2014-01-30T14:21:47.037"},"submissionDate":"2014-01-30T14:21:47.036"},"blastUrl":"https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastSearch&PROG_DEF=blastn&BLAST_SPEC=GDH_GCA_000012345.1","pairedAssembly":{"accession":"GCF_000012345.1","annotationName":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","status":"current"},"submissionDate":"2005-07-22","submitter":"Oregon State University"},"assemblyStats":{"contigL50":1,"contigN50":1308759,"gcCount":"388480","gcPercent":29.5,"numberOfComponentSequences":1,"numberOfContigs":1,"numberOfScaffolds":1,"scaffoldL50":1,"scaffoldN50":1308759,"totalNumberOfChromosomes":1,"totalSequenceLength":"1308759","totalUngappedLength":"1308759"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":81.31,"assembly":"GCA_014701195.1","assemblyCoverage":0.02,"category":"type","organismName":"Tepiditoga spiralis","typeAssemblyCoverage":0.01},"category":"suspected_type","comment":"Assembly is the type_strain, no match is expected","matchStatus":"low_coverage","submittedOrganism":"Candidatus Pelagibacter ubique HTCC1062","submittedSpecies":"Candidatus Pelagibacter ubique","taxonomyCheckStatus":"OK"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter ubique","checkmMarkerSetRank":"species","checkmSpeciesTaxId":198252,"checkmVersion":"v1.2.2","completeness":99.81,"completenessPercentile":95.0,"contamination":1.17},"currentAccession":"GCA_000012345.1","organism":{"infraspecificNames":{"strain":"HTCC1062"},"organismName":"Candidatus Pelagibacter ubique HTCC1062","taxId":335992},"pairedAccession":"GCF_000012345.1","sourceDatabase":"SOURCE_DATABASE_GENBANK","typeMaterial":{"typeDisplayText":"assembly from type material","typeLabel":"TYPE_MATERIAL"}}
{"accession":"GCA_000153525.1","annotationInfo":{"name":"Annotation submitted by The Gordon and Betty Moore Foundation Marine Microbiology Initiative","provider":"The Gordon and Betty Moore Foundation Marine Microbiology Initiative","releaseDate":"2006-05-02","stats":{"geneCounts":{"nonCoding":30,"proteinCoding":1393,"total":1423}}},"assemblyInfo":{"assemblyLevel":"Scaffold","assemblyName":"ASM15352v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA13577","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA13577","title":"Marine bacterium dominant in ocean surface waters"}]}],"biosample":{"accession":"SAMN02436088","attributes":[{"name":"strain","value":"HTCC1002"}],"bioprojects":[{"accession":"PRJNA13577"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter ubique HTCC1002","taxId":314261},"title":"Generic sample from Candidatus Pelagibacter ubique HTCC1002"},"lastUpdated":"2015-05-18T12:16:08.960","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2013-12-04T14:26:22.960","sampleIds":[{"label":"Sample name","value":"AAPV"}],"status":{"status":"live","when":"2013-12-04T14:26:22.960"},"submissionDate":"2013-12-04T14:22:48.420"},"comments":"Annotation was added by the NCBI Prokaryotic Genomes Automatic Annotation Pipeline Group. Information about the Pipeline can be found here: http://www.ncbi.nlm.nih.gov/genomes/static/Pipeline.html. Please be aware that the annotation is done automatically with little or no manual curation.","pairedAssembly":{"accession":"GCF_000153525.1","annotationName":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","status":"current"},"submissionDate":"2006-05-02","submitter":"The Gordon and Betty Moore Foundation Marine Microbiology Initiative"},"assemblyStats":{"contigL50":1,"contigN50":1012886,"gcCount":"395091","gcPercent":29.5,"numberOfComponentSequences":5,"numberOfContigs":5,"numberOfScaffolds":4,"scaffoldL50":1,"scaffoldN50":1324008,"totalSequenceLength":"1328618","totalUngappedLength":"1327604"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":98.11,"assembly":"GCA_000012345.1","assemblyCoverage":93.28,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":94.62},"category":"category_na","comment":"na","matchStatus":"species_match","submittedAniMatch":{"ani":98.11,"assembly":"GCA_000012345.1","assemblyCoverage":93.28,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique HTCC1062","typeAssemblyCoverage":94.62},"submittedOrganism":"Candidatus Pelagibacter ubique HTCC1002","submittedSpecies":"Candidatus Pelagibacter ubique","taxonomyCheckStatus":"OK"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter ubique","checkmMarkerSetRank":"species","checkmSpeciesTaxId":198252,"checkmVersion":"v1.2.0","completeness":99.62,"completenessPercentile":85.0,"contamination":1.23},"currentAccession":"GCA_000153525.1","organism":{"infraspecificNames":{"strain":"HTCC1002"},"organismName":"Candidatus Pelagibacter ubique HTCC1002","taxId":314261},"pairedAccession":"GCF_000153525.1","sourceDatabase":"SOURCE_DATABASE_GENBANK","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/AAPV00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/AAPV01","wgsProjectAccession":"AAPV01"}}
{"accession":"GCA_000155895.1","annotationInfo":{"name":"Annotation submitted by The Gordon and Betty Moore Foundation Microbial Genome Sequencing Project","provider":"The Gordon and Betty Moore Foundation Microbial Genome Sequencing Project","releaseDate":"2015-03-11","stats":{"geneCounts":{"nonCoding":31,"proteinCoding":1447,"total":1478}}},"assemblyInfo":{"assemblyLevel":"Scaffold","assemblyName":"ASM15589v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA19339","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA19339","title":"Marine bacterium dominant in ocean surface waters"}]}],"biosample":{"accession":"SAMN02436224","attributes":[{"name":"strain","value":"HTCC7211"}],"bioprojects":[{"accession":"PRJNA19339"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter sp. HTCC7211","taxId":439493},"title":"Generic sample from Candidatus Pelagibacter sp. HTCC7211"},"lastUpdated":"2015-05-18T12:16:15.880","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2013-12-04T14:26:25.350","sampleIds":[{"label":"Sample name","value":"ABVS"}],"status":{"status":"live","when":"2013-12-04T14:26:25.350"},"submissionDate":"2013-12-04T14:22:56.450"},"comments":"With funding from the Gordon and Betty Moore Foundation (www.moore.org), the J. Craig Venter Institute (www.jcvi.org) is sequencing, assembling, and auto-annotating the genomes of approximately 165 marine microbes. These microbes were contributed by collaborators worldwide, and embody an array of physiological diversity, including carbon fixers, photoautotrophs, photoheterotrophs, nitrifiers, and methanotrophs. This work was designed to complement other ongoing research at JCVI and elsewhere to characterize the microbial biodiversity of marine and terrestrial environments through metagenomics profiling of environmental samples.\nPlease be aware that the annotation is done automatically with little or no manual curation.","pairedAssembly":{"accession":"GCF_000155895.1","annotationName":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","status":"current"},"submissionDate":"2008-09-29","submitter":"The Gordon and Betty Moore Foundation Microbial Genome Sequencing Project"},"assemblyStats":{"contigL50":1,"contigN50":1456888,"gcCount":"423005","gcPercent":29.0,"numberOfComponentSequences":1,"numberOfContigs":1,"numberOfScaffolds":1,"scaffoldL50":1,"scaffoldN50":1456888,"totalSequenceLength":"1456888","totalUngappedLength":"1456888"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":79.53,"assembly":"GCA_000012345.1","assemblyCoverage":32.85,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":36.57},"category":"category_na","comment":"na","matchStatus":"below_threshold_mismatch","submittedOrganism":"Candidatus Pelagibacter sp. HTCC7211","submittedSpecies":"Candidatus Pelagibacter sp. HTCC7211","taxonomyCheckStatus":"Inconclusive"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter","checkmMarkerSetRank":"genus","checkmSpeciesTaxId":439493,"checkmVersion":"v1.2.0","completeness":99.46,"completenessPercentile":100.0,"contamination":0.05},"currentAccession":"GCA_000155895.1","organism":{"infraspecificNames":{"strain":"HTCC7211"},"organismName":"Candidatus Pelagibacter sp. HTCC7211","taxId":439493},"pairedAccession":"GCF_000155895.1","sourceDatabase":"SOURCE_DATABASE_GENBANK","wgsInfo":{"masterWgsUrl":"https://www.ncbi.nlm.nih.gov/nuccore/ABVS00000000.1","wgsContigsUrl":"https://www.ncbi.nlm.nih.gov/Traces/wgs/ABVS01","wgsProjectAccession":"ABVS01"}}
{"accession":"GCA_000195085.1","annotationInfo":{"name":"Annotation submitted by Inha University","provider":"Inha University","releaseDate":"2014-01-30","stats":{"geneCounts":{"nonCoding":35,"proteinCoding":1447,"total":1482}}},"assemblyInfo":{"assemblyLevel":"Complete Genome","assemblyName":"ASM19508v1","assemblyStatus":"current","assemblyType":"haploid","bioprojectAccession":"PRJNA62303","bioprojectLineage":[{"bioprojects":[{"accession":"PRJNA62303","title":"Candidatus Pelagibacter sp. IMCC9063 Genome sequencing project"}]}],"biosample":{"accession":"SAMN02603337","attributes":[{"name":"strain","value":"IMCC9063"}],"bioprojects":[{"accession":"PRJNA62303"}],"description":{"organism":{"organismName":"Candidatus Pelagibacter sp. IMCC9063","taxId":1002672},"title":"Sample from Candidatus Pelagibacter sp. IMCC9063"},"lastUpdated":"2015-05-18T13:18:42.863","models":["Generic"],"owner":{"name":"NCBI"},"package":"Generic.1.0","publicationDate":"2014-01-30T11:19:50.067","sampleIds":[{"label":"Sample name","value":"CP002511"}],"status":{"status":"live","when":"2014-01-30T11:19:50.067"},"submissionDate":"2014-01-30T11:19:50.067"},"comments":"Source DNA is available upon request; Please contact Professor Jang-Cheon Cho (chojc@inha.ac.kr) at Department of Biological Sciences of Inha University, Incheon, Korea.","pairedAssembly":{"accession":"GCF_000195085.1","annotationName":"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)","status":"current"},"submissionDate":"2011-04-05","submitter":"Inha University"},"assemblyStats":{"contigL50":1,"contigN50":1284727,"gcCount":"406882","gcPercent":31.5,"numberOfComponentSequences":1,"numberOfContigs":1,"numberOfScaffolds":1,"scaffoldL50":1,"scaffoldN50":1284727,"totalNumberOfChromosomes":1,"totalSequenceLength":"1284727","totalUngappedLength":"1284727"},"averageNucleotideIdentity":{"bestAniMatch":{"ani":84.99,"assembly":"GCA_000012345.1","assemblyCoverage":1.09,"category":"suspected_type","organismName":"Candidatus Pelagibacter ubique","typeAssemblyCoverage":1.07},"category":"category_na","comment":"na","matchStatus":"low_coverage","submittedOrganism":"Candidatus Pelagibacter sp. IMCC9063","submittedSpecies":"Candidatus Pelagibacter sp. IMCC9063","taxonomyCheckStatus":"Inconclusive"},"checkmInfo":{"checkmMarkerSet":"Candidatus Pelagibacter","checkmMarkerSetRank":"genus","checkmSpeciesTaxId":1002672,"checkmVersion":"v1.2.0","completeness":98.81,"completenessPercentile":100.0,"contamination":1.04},"currentAccession":"GCA_000195085.1","organism":{"infraspecificNames":{"strain":"IMCC9063"},"organismName":"Candidatus Pelagibacter sp. IMCC9063","taxId":1002672},"pairedAccession":"GCF_000195085.1","sourceDatabase":"SOURCE_DATABASE_GENBANK"}
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