{ "type": "genome", "identifier": "GCA_938021975.1", "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_938021975.1", "bioproject": "PRJEB51075", "biosample": "SAMEA14085026", "wgs_master": "CALIFV000000000.1", "refseq_category": "na", "taxid": "165190", "species_taxid": "165190", "organism_name": "uncultured Collinsella sp.", "infraspecific_name": "", "isolate": "ERR688505_bin.74_CONCOCT_v1.1_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/10", "asm_name": "ERR688505_bin.74_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/938/021/975/GCA_938021975.1_ERR688505_bin.74_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": [ "Austria" ], "sample_host_location_id": [], "data_size": "0.646 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.45, "strain_heterogeneity": 16.67, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2267315", "Number of Sequences": "89", "Longest Sequences (bp)": "179201", "N50 (bp)": "61542", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.8", "Number of CDSs": "1936", "Average Protein Length": "336.2", "Coding Ratio (%)": "86.1", "Number of rRNAs": "5", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Collinsella aerofaciens", "strain": "strain=JCM 10188", "accession": "GCA_010509075.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 94.6248, "matched_fragments": 613, "total_fragments": 708, "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": 94.5057, "matched_fragments": 623, "total_fragments": 708, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella aerofaciens", "strain": "strain=ATCC 25986", "accession": "GCA_000169035.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 94.4928, "matched_fragments": 618, "total_fragments": 708, "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": 80.0522, "matched_fragments": 235, "total_fragments": 708, "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": 80.0513, "matched_fragments": 251, "total_fragments": 708, "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": 79.5801, "matched_fragments": 243, "total_fragments": 708, "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": 79.4568, "matched_fragments": 233, "total_fragments": 708, "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": 79.4078, "matched_fragments": 234, "total_fragments": 708, "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": 79.3483, "matched_fragments": 236, "total_fragments": 708, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella provencensis", "strain": "strain=Marseille-P3740", "accession": "GCA_900199705.1", "taxid": 1937461, "species_taxid": 1937461, "relation_to_type": "type", "validated": true, "ani": 79.2539, "matched_fragments": 170, "total_fragments": 708, "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": 78.7656, "matched_fragments": 218, "total_fragments": 708, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.45, "strain_heterogeneity": 16.67 }, "gtdb_result": [ { "accession": "GCA_900752015.1", "gtdb_species": "s__Collinsella sp900752015", "ani": 95.0243, "matched_fragments": 546, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1642, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001405375.1", "gtdb_species": "s__Collinsella aerofaciens_F", "ani": 94.9755, "matched_fragments": 611, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.2147, "mean_intra_species_ani": "95.33", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_900548495.1", "gtdb_species": "s__Collinsella sp900548495", "ani": 94.954, "matched_fragments": 525, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0367, "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_900541175.1", "gtdb_species": "s__Collinsella sp900541175", "ani": 94.7812, "matched_fragments": 581, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.2242, "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_008671135.1", "gtdb_species": "s__Collinsella aerofaciens_J", "ani": 94.7267, "matched_fragments": 595, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.2147, "mean_intra_species_ani": "97.21", "min_intra_species_ani": "95.28", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.82", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_905215765.1", "gtdb_species": "s__Collinsella sp905215765", "ani": 94.7096, "matched_fragments": 481, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0331, "mean_intra_species_ani": "95.09", "min_intra_species_ani": "95.09", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.79", 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"status": "-" }, { "accession": "GCA_900755685.1", "gtdb_species": "s__Collinsella sp900755685", "ani": 94.6453, "matched_fragments": 558, "total_fragments": 708, "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_900541245.1", "gtdb_species": "s__Collinsella sp900541245", "ani": 94.6309, "matched_fragments": 572, "total_fragments": 708, "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": "-" }, { 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"GCA_008671285.1", "gtdb_species": "s__Collinsella sp003487125", "ani": 94.5469, "matched_fragments": 411, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.69", "min_intra_species_ani": "95.69", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900541795.1", "gtdb_species": "s__Collinsella sp900541795", "ani": 94.5361, "matched_fragments": 591, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0323, "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_900542555.1", "gtdb_species": "s__Collinsella sp900542555", "ani": 94.5236, "matched_fragments": 547, "total_fragments": 708, "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_902363125.1", "gtdb_species": "s__Collinsella sp902363125", "ani": 94.5211, "matched_fragments": 598, "total_fragments": 708, "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_900545835.1", "gtdb_species": "s__Collinsella sp900545835", "ani": 94.5171, "matched_fragments": 505, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0748, "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_900549215.1", "gtdb_species": "s__Collinsella sp900549215", "ani": 94.5159, "matched_fragments": 427, "total_fragments": 708, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1434, "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_900548265.1", "gtdb_species": "s__Collinsella sp900548265", "ani": 94.4843, 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