{ "type": "genome", "identifier": "GCA_934359255.1", "organism": "uncultured Ruminococcus sp.", "title": "uncultured Ruminococcus sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "stanford university school of medicine", "publication": [ {} ], "properties": { "assembly_accession": "GCA_934359255.1", "bioproject": "PRJEB49206", "biosample": "SAMEA13512607", "wgs_master": "CAKRLG000000000.1", "refseq_category": "na", "taxid": "165186", "species_taxid": "165186", "organism_name": "uncultured Ruminococcus sp.", "infraspecific_name": "", "isolate": "REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-E-H_G_7_1734.107", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/16", "asm_name": "ERR7746048_bin.107", "submitter": "stanford university school of medicine", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/934/359/255/GCA_934359255.1_ERR7746048_bin.107", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-16", "dateModified": "2022-04-16", "datePublished": "2022-04-16", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Ruminococcus sp." ], "sample_taxid": [ "165186" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Tanzania" ], "sample_host_location_id": [], "data_size": "0.744 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 81.02, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2616320", "Number of Sequences": "47", "Longest Sequences (bp)": "234030", "N50 (bp)": "99043", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "44.8", "Number of CDSs": "2273", "Average Protein Length": "336.2", "Coding Ratio (%)": "87.6", "Number of rRNAs": "0", "Number of tRNAs": "30", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Hominisplanchenecus faecis", "strain": "strain=CLA-AA-H246", "accession": "GCA_020687205.1", "taxid": 2885351, "species_taxid": 2885351, "relation_to_type": "type", "validated": true, "ani": 78.3167, "matched_fragments": 131, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jingyaoa shaoxingensis", "strain": "strain=NSJ-46", "accession": "GCA_014385005.1", "taxid": 2763671, "species_taxid": 2763671, "relation_to_type": "type", "validated": true, "ani": 78.0641, "matched_fragments": 120, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia producta", "strain": "strain=DSM 2950", "accession": "GCA_000439125.1", "taxid": 33035, "species_taxid": 33035, "relation_to_type": "suspected-type", "validated": true, "ani": 77.9676, "matched_fragments": 92, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia producta", "strain": "strain=ATCC 27340", "accession": "GCA_000373885.1", "taxid": 33035, "species_taxid": 33035, "relation_to_type": "suspected-type", "validated": true, "ani": 77.9577, "matched_fragments": 90, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia wexlerae", "strain": "strain=DSM 19850", "accession": "GCA_025148125.1", "taxid": 418240, "species_taxid": 418240, "relation_to_type": "suspected-type", "validated": true, "ani": 77.9139, "matched_fragments": 146, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia obeum", "strain": "strain=ATCC 29174", "accession": "GCA_000153905.1", "taxid": 40520, "species_taxid": 40520, "relation_to_type": "type", "validated": true, "ani": 77.8159, "matched_fragments": 137, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia obeum", "strain": "strain=ATCC 29174", "accession": "GCA_025147765.1", "taxid": 40520, "species_taxid": 40520, "relation_to_type": "type", "validated": true, "ani": 77.6668, "matched_fragments": 141, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia marasmi", "strain": "strain=Marseille-P2377", "accession": "GCA_900258535.1", "taxid": 1917868, "species_taxid": 1917868, "relation_to_type": "suspected-type", "validated": true, "ani": 77.5791, "matched_fragments": 99, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia coccoides", "strain": "strain=DSM 935", "accession": "GCA_004340925.1", "taxid": 1532, "species_taxid": 1532, "relation_to_type": "type", "validated": true, "ani": 77.4536, "matched_fragments": 98, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia coccoides", "strain": "strain=NCTC11035", "accession": "GCA_900461125.1", "taxid": 1532, "species_taxid": 1532, "relation_to_type": "type", "validated": true, "ani": 77.4336, "matched_fragments": 98, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprococcus comes", "strain": "strain=ATCC 27758", "accession": "GCA_025149785.1", "taxid": 410072, "species_taxid": 410072, "relation_to_type": "type", "validated": true, "ani": 77.3585, "matched_fragments": 117, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia pseudococcoides", "strain": "strain=YL58", "accession": "GCA_002221555.2", "taxid": 1796616, "species_taxid": 1796616, "relation_to_type": "type", "validated": true, "ani": 77.2245, "matched_fragments": 105, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia pseudococcoides", "strain": "strain=YL58", "accession": "GCA_016696745.1", "taxid": 1796616, "species_taxid": 1796616, "relation_to_type": "type", "validated": true, "ani": 77.1458, "matched_fragments": 103, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia pseudococcoides", "strain": "strain=YL58", "accession": "GCA_001689125.2", "taxid": 1796616, "species_taxid": 1796616, "relation_to_type": "type", "validated": true, "ani": 77.1426, "matched_fragments": 104, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia caecimuris", "strain": "strain=DSM 29492", "accession": "GCA_024622975.1", "taxid": 1796615, "species_taxid": 1796615, "relation_to_type": "type", "validated": true, "ani": 76.8995, "matched_fragments": 93, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marvinbryantia formatexigens", "strain": "strain=DSM 14469", "accession": "GCA_025148285.1", "taxid": 168384, "species_taxid": 168384, "relation_to_type": "type", "validated": true, "ani": 76.8308, "matched_fragments": 55, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marvinbryantia formatexigens", "strain": "strain=I-52", "accession": "GCA_900102475.1", "taxid": 168384, "species_taxid": 168384, "relation_to_type": "type", "validated": true, "ani": 76.8226, "matched_fragments": 53, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia faecis", "strain": "strain=M72", "accession": "GCA_001406815.1", "taxid": 301302, "species_taxid": 301302, "relation_to_type": "type", "validated": true, "ani": 76.5783, "matched_fragments": 77, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia inulinivorans", "strain": "strain=DSM 16841", "accession": "GCA_000174195.1", "taxid": 360807, "species_taxid": 360807, "relation_to_type": "suspected-type", "validated": true, "ani": 76.4036, "matched_fragments": 69, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 81.02, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009696065.1", "gtdb_species": "s__Oliverpabstia intestinalis", "ani": 94.5694, "matched_fragments": 721, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.25", "min_intra_species_ani": "96.88", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.78", "num_clustered_genomes": 19, "status": "-" }, { "accession": "GCF_004123145.1", "gtdb_species": "s__Oliverpabstia faecicola", "ani": 90.5018, "matched_fragments": 733, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.72", "min_intra_species_ani": "97.58", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_000432335.1", "gtdb_species": "s__Oliverpabstia sp000432335", "ani": 78.9361, "matched_fragments": 202, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "99.14", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.81", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_004562915.1", "gtdb_species": "s__Oliverpabstia sp004562915", "ani": 78.8719, "matched_fragments": 212, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_018374355.1", "gtdb_species": "s__Oliverpabstia sp018374355", "ani": 78.8534, "matched_fragments": 222, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_002361775.1", "gtdb_species": "s__Oliverpabstia sp002361775", "ani": 78.827, "matched_fragments": 211, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.87", "min_intra_species_ani": "99.86", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000153905.1", "gtdb_species": "s__Blautia_A obeum", "ani": 77.8218, "matched_fragments": 136, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Blautia_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "97.20", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.75", "num_clustered_genomes": 45, "status": "-" }, { "accession": "GCF_003478505.1", "gtdb_species": "s__Ventrimonas sp003478505", "ani": 77.6968, "matched_fragments": 72, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.78", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_018919065.1", "gtdb_species": "s__Blautia_A sp018919065", "ani": 77.6668, "matched_fragments": 132, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Blautia_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_018711275.1", "gtdb_species": "s__Pullilachnospira intestinigallinarum", "ani": 77.4716, "matched_fragments": 138, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pullilachnospira", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.92", "min_intra_species_ani": "99.92", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_000155875.1", "gtdb_species": "s__Bariatricus comes", "ani": 77.4645, "matched_fragments": 113, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Bariatricus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.22", "min_intra_species_ani": "97.07", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.76", "num_clustered_genomes": 58, "status": "-" }, { "accession": "GCA_018223365.1", "gtdb_species": "s__Choladocola sp018223365", "ani": 77.1744, "matched_fragments": 104, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Choladocola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_003479605.1", "gtdb_species": "s__RUG115 sp900066395", "ani": 76.9686, "matched_fragments": 71, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__RUG115", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "97.78", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.83", "num_clustered_genomes": 29, "status": "-" }, { "accession": "GCA_019120075.1", "gtdb_species": "s__Mediterraneibacter excrementigallinarum_A", "ani": 76.1952, "matched_fragments": 58, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.40", "min_intra_species_ani": "96.45", "mean_intra_species_af": "0.78", "min_intra_species_af": "0.77", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.18, "cell_length": -0.18, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.7, "optimum_ph": 7.0, "genome_size": 3334855.36, "gc_content": 43.875, "coding_genes": 2772.666, "rRNA16S_genes": 4.0, "tRNA_genes": 64.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Oliverpabstia", "s__Oliverpabstia sp934359255" ], "_genome_taxon": [ "uncultured", "Ruminococcus", "sp.", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Oliverpabstia", "s__Oliverpabstia sp934359255", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "Oliverpabstia", "Oliverpabstia", "sp934359255" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }