{ "type": "genome", "identifier": "GCA_937984005.1", "organism": "uncultured Collinsella sp.", "title": "uncultured Collinsella sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "European Bioinformatics Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_937984005.1", "bioproject": "PRJEB51075", "biosample": "SAMEA14083449", "wgs_master": "CALJYM000000000.1", "refseq_category": "na", "taxid": "165190", "species_taxid": "165190", "organism_name": "uncultured Collinsella sp.", "infraspecific_name": "", "isolate": "ERR1305905_bin.123_CONCOCT_v1.1_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/10", "asm_name": "ERR1305905_bin.123_CONCOCT_v1.1_MAG", "submitter": "European Bioinformatics Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/937/984/005/GCA_937984005.1_ERR1305905_bin.123_CONCOCT_v1.1_MAG", "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": "2023-01-10", "dateModified": "2023-01-10", "datePublished": "2023-01-10", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Collinsella sp." ], "sample_taxid": [ "165190" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Denmark" ], "sample_host_location_id": [], "data_size": "0.644 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 5.09, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2253498", "Number of Sequences": "159", "Longest Sequences (bp)": "68310", "N50 (bp)": "26205", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.7", "Number of CDSs": "1891", "Average Protein Length": "326.3", "Coding Ratio (%)": "82.2", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "1" }, "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": 92.791, "matched_fragments": 553, "total_fragments": 669, "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": 92.7507, "matched_fragments": 547, "total_fragments": 669, "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": 92.6192, "matched_fragments": 558, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella stercoris", "strain": "strain=DSM 13279", "accession": "GCA_025149625.1", "taxid": 147206, "species_taxid": 147206, "relation_to_type": "type", "validated": true, "ani": 80.1187, "matched_fragments": 244, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella bouchesdurhonensis", "strain": "strain=Marseille-P3296", "accession": "GCA_900155365.1", "taxid": 1907654, "species_taxid": 1907654, "relation_to_type": "type", "validated": true, "ani": 80.0685, "matched_fragments": 217, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella stercoris", "strain": "strain=DSM 13279", "accession": "GCA_000156215.1", "taxid": 147206, "species_taxid": 147206, "relation_to_type": "type", "validated": true, "ani": 79.9851, "matched_fragments": 250, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella phocaeensis", "strain": "strain=Marseille-P3245", "accession": "GCA_900119895.1", "taxid": 1871016, "species_taxid": 1871016, "relation_to_type": "type", "validated": true, "ani": 79.7589, "matched_fragments": 227, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enorma burkinafasonensis", "strain": "strain=Marseille-P9525", "accession": "GCA_902150035.1", "taxid": 2590867, "species_taxid": 2590867, "relation_to_type": "type", "validated": true, "ani": 79.6929, "matched_fragments": 201, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella intestinalis", "strain": "strain=DSM 13280", "accession": "GCA_000156175.1", "taxid": 147207, "species_taxid": 147207, "relation_to_type": "suspected-type", "validated": true, "ani": 79.4663, "matched_fragments": 218, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella tanakaei", "strain": "strain=YIT 12063", "accession": "GCA_000225705.1", "taxid": 626935, "species_taxid": 626935, "relation_to_type": "suspected-type", "validated": true, "ani": 79.2805, "matched_fragments": 216, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enorma timonensis", "strain": "strain=GD5", "accession": "GCA_000321165.1", "taxid": 1232436, "species_taxid": 1232436, "relation_to_type": "type", "validated": true, "ani": 78.7815, "matched_fragments": 189, "total_fragments": 669, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 5.09, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900556675.1", "gtdb_species": "s__Collinsella sp900556675", "ani": 99.2228, "matched_fragments": 339, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.17", "min_intra_species_ani": "95.17", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "inconclusive" }, { "accession": "GCA_900540945.1", "gtdb_species": "s__Collinsella sp900540945", "ani": 95.0834, "matched_fragments": 546, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.51", "min_intra_species_ani": "95.33", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "inconclusive" }, { "accession": "GCA_900759045.1", "gtdb_species": "s__Collinsella sp900759045", "ani": 94.9462, "matched_fragments": 527, "total_fragments": 669, "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_900541695.1", "gtdb_species": "s__Collinsella sp900541695", "ani": 94.9411, "matched_fragments": 529, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.64", "min_intra_species_ani": "95.64", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900541195.1", "gtdb_species": "s__Collinsella sp900541195", "ani": 94.7074, "matched_fragments": 546, "total_fragments": 669, "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_900549085.1", "gtdb_species": "s__Collinsella sp900549085", "ani": 94.6486, "matched_fragments": 533, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900551625.1", "gtdb_species": "s__Collinsella sp900551625", "ani": 94.587, "matched_fragments": 367, "total_fragments": 669, "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_900541675.1", "gtdb_species": "s__Collinsella sp900541675", "ani": 94.5121, "matched_fragments": 547, "total_fragments": 669, "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_003469185.1", "gtdb_species": "s__Collinsella sp003469185", "ani": 94.4548, "matched_fragments": 555, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.87", "min_intra_species_ani": "95.38", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900752345.1", "gtdb_species": "s__Collinsella sp900752345", "ani": 94.1484, "matched_fragments": 390, "total_fragments": 669, "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_900555955.1", "gtdb_species": "s__Collinsella sp900555955", "ani": 93.9574, "matched_fragments": 286, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.54", "min_intra_species_ani": "99.54", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.80", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900549275.1", "gtdb_species": "s__Collinsella sp900549275", "ani": 93.3228, "matched_fragments": 325, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.23", "min_intra_species_ani": "96.21", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900540985.1", "gtdb_species": "s__Collinsella sp900540985", "ani": 93.2919, "matched_fragments": 523, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0011, "mean_intra_species_ani": "97.54", "min_intra_species_ani": "95.11", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.81", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_019131995.1", "gtdb_species": "s__Collinsella aerofaciens_S", "ani": 93.0395, "matched_fragments": 553, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900751695.1", "gtdb_species": "s__Collinsella sp900751695", "ani": 92.9973, "matched_fragments": 463, "total_fragments": 669, "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_018380015.1", "gtdb_species": "s__Collinsella sp018380015", "ani": 92.884, "matched_fragments": 534, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1883, "mean_intra_species_ani": "96.09", "min_intra_species_ani": "95.27", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_900550785.1", "gtdb_species": "s__Collinsella sp900550785", "ani": 92.8778, "matched_fragments": 444, "total_fragments": 669, "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_900551815.1", "gtdb_species": "s__Collinsella sp900551815", "ani": 92.8573, "matched_fragments": 496, "total_fragments": 669, "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_018382125.1", "gtdb_species": "s__Collinsella sp018382125", "ani": 92.8499, 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464, "total_fragments": 669, "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_900758885.1", "gtdb_species": "s__Collinsella sp900758885", "ani": 92.6155, "matched_fragments": 469, "total_fragments": 669, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0066, "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_900541125.1", "gtdb_species": "s__Collinsella sp900541125", "ani": 92.5988, "matched_fragments": 537, "total_fragments": 669, 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