{ "type": "genome", "identifier": "GCA_902837165.1", "organism": "Coriobacteriaceae bacterium", "title": "Coriobacteriaceae bacterium", "description": "derived from metagenome; fragmented assembly; genus undefined", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902837165.1", "bioproject": "PRJEB37358", "biosample": "SAMEA6784338", "wgs_master": "CADFTL000000000.1", "refseq_category": "na", "taxid": "2011094", "species_taxid": "2011094", "organism_name": "Coriobacteriaceae bacterium", "infraspecific_name": "", "isolate": "MGYG-HGUT-04940", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/03", "asm_name": "MGYG-HGUT-04940", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/837/165/GCA_902837165.1_MGYG-HGUT-04940", "excluded_from_refseq": "derived from metagenome; fragmented assembly; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-02-03", "dateModified": "2021-02-03", "datePublished": "2021-02-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Coriobacteriaceae bacterium" ], "sample_taxid": [ "2011094" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Sweden" ], "sample_host_location_id": [], "data_size": "0.404 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 65.68, "contamination": 2.36, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1366432", "Number of Sequences": "607", "Longest Sequences (bp)": "9379", "N50 (bp)": "2438", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.6", "Number of CDSs": "760", "Average Protein Length": "250.8", "Coding Ratio (%)": "41.9", "Number of rRNAs": "0", "Number of tRNAs": "25", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Collinsella aerofaciens", "strain": "strain=ATCC 25986", "accession": "GCA_000169035.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 94.1239, "matched_fragments": 126, "total_fragments": 138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella aerofaciens", "strain": "strain=NCTC11838", "accession": "GCA_900461335.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 94.0497, "matched_fragments": 128, "total_fragments": 138, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella aerofaciens", "strain": "strain=JCM 10188", "accession": "GCA_010509075.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 93.8969, "matched_fragments": 129, "total_fragments": 138, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 65.68, "contamination": 2.36, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015560765.1", "gtdb_species": "s__Collinsella aerofaciens_M", "ani": 94.5189, "matched_fragments": 123, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1158, "mean_intra_species_ani": "96.04", "min_intra_species_ani": "95.15", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.78", "num_clustered_genomes": 15, "status": "-" }, { "accession": "GCA_900541245.1", "gtdb_species": "s__Collinsella sp900541245", "ani": 94.2924, "matched_fragments": 121, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.072, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900755685.1", "gtdb_species": "s__Collinsella sp900755685", "ani": 94.2254, "matched_fragments": 120, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1616, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "95.18", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900544385.1", "gtdb_species": "s__Collinsella sp900544385", "ani": 94.1347, "matched_fragments": 114, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1115, "mean_intra_species_ani": "95.39", "min_intra_species_ani": "95.39", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900543615.1", "gtdb_species": "s__Collinsella sp900543615", "ani": 94.1318, "matched_fragments": 120, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_015555045.1", "gtdb_species": "s__Collinsella aerofaciens_W", "ani": 94.1186, "matched_fragments": 117, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_900544425.1", "gtdb_species": "s__Collinsella sp900544425", "ani": 94.0843, "matched_fragments": 112, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_900544865.1", "gtdb_species": "s__Collinsella sp900544865", "ani": 94.0009, "matched_fragments": 123, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_015553355.1", "gtdb_species": "s__Collinsella aerofaciens_V", "ani": 93.9739, "matched_fragments": 120, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.92", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900541125.1", "gtdb_species": "s__Collinsella sp900541125", "ani": 93.9453, "matched_fragments": 122, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.2242, "mean_intra_species_ani": "95.44", "min_intra_species_ani": "95.26", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.84", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCA_900544845.1", "gtdb_species": "s__Collinsella sp900544845", "ani": 93.5396, "matched_fragments": 118, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.87", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900545505.1", "gtdb_species": "s__Collinsella sp900545505", "ani": 93.5339, "matched_fragments": 99, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0349, "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_900751695.1", "gtdb_species": "s__Collinsella sp900751695", "ani": 93.4274, "matched_fragments": 111, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.89", "min_intra_species_ani": "99.89", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902363125.1", "gtdb_species": "s__Collinsella sp902363125", "ani": 93.341, "matched_fragments": 119, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.02", "min_intra_species_ani": "96.02", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900762325.1", "gtdb_species": "s__Collinsella sp900762325", "ani": 93.0747, "matched_fragments": 115, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_900762015.1", "gtdb_species": "s__Collinsella sp900762015", "ani": 93.0684, "matched_fragments": 116, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1172, "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_003470665.1", "gtdb_species": "s__Collinsella sp003470665", "ani": 92.9941, "matched_fragments": 122, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900760245.1", "gtdb_species": "s__Collinsella sp900760245", "ani": 92.9554, "matched_fragments": 111, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_900544465.1", "gtdb_species": "s__Collinsella sp900544465", "ani": 92.8797, "matched_fragments": 98, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0579, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900762355.1", "gtdb_species": "s__Collinsella sp900762355", "ani": 92.6714, "matched_fragments": 121, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_900548075.1", "gtdb_species": "s__Collinsella sp900548075", "ani": 92.5329, "matched_fragments": 96, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_900554655.1", "gtdb_species": "s__Collinsella sp900554655", "ani": 92.1578, "matched_fragments": 95, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900551205.1", "gtdb_species": "s__Collinsella sp900551205", "ani": 91.3889, "matched_fragments": 106, "total_fragments": 138, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.45", "min_intra_species_ani": "95.34", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.435, "cell_length": 0.089, "doubling_h": null, "growth_tmp": 36.125, "optimum_tmp": 36.142, "optimum_ph": 7.233, "genome_size": 2293139.966, "gc_content": 61.955, "coding_genes": 1736.778, "rRNA16S_genes": 2.0, "tRNA_genes": 50.333, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "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": 1.0, "coccus_cell_shape": 0.0, "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__Actinomycetota", "c__Coriobacteriia", "o__Coriobacteriales", "f__Coriobacteriaceae", "g__Collinsella", "s__Collinsella sp000763055" ], "_genome_taxon": [ "Coriobacteriaceae", "bacterium", "d__Bacteria", "p__Actinomycetota", "c__Coriobacteriia", "o__Coriobacteriales", "f__Coriobacteriaceae", "g__Collinsella", "s__Collinsella sp000763055", "Bacteria", "Actinomycetota", "Coriobacteriia", "Coriobacteriales", "Coriobacteriaceae", "Collinsella", "Collinsella", "sp000763055" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }