{ "type": "genome", "identifier": "GCA_004554965.1", "organism": "Collinsella aerofaciens", "title": "Collinsella aerofaciens", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of Alberta", "publication": [ {} ], "properties": { "assembly_accession": "GCA_004554965.1", "bioproject": "PRJNA494875", "biosample": "SAMN10183263", "wgs_master": "SFJT00000000.1", "refseq_category": "na", "taxid": "74426", "species_taxid": "74426", "organism_name": "Collinsella aerofaciens", "infraspecific_name": "", "isolate": "W1P37.015", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/04/01", "asm_name": "ASM455496v1", "submitter": "University of Alberta", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/554/965/GCA_004554965.1_ASM455496v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-04-01", "dateModified": "2019-04-01", "datePublished": "2019-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Collinsella aerofaciens" ], "sample_taxid": [ "74426" ], "sample_host_organism": [ "Sus scrofa" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada: Edmonton" ], "sample_host_location_id": [], "data_size": "0.576 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 12.59, "strain_heterogeneity": 12.5, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2029779", "Number of Sequences": "61", "Longest Sequences (bp)": "183118", "N50 (bp)": "77820", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.0", "Number of CDSs": "1748", "Average Protein Length": "325.3", "Coding Ratio (%)": "84.0", "Number of rRNAs": "1", "Number of tRNAs": "57", "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": 91.2777, "matched_fragments": 537, "total_fragments": 645, "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": 91.2011, "matched_fragments": 545, "total_fragments": 645, "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": 91.183, "matched_fragments": 535, "total_fragments": 645, "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": 80.3851, "matched_fragments": 226, "total_fragments": 645, "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": 80.092, "matched_fragments": 248, "total_fragments": 645, "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": 79.9827, "matched_fragments": 253, "total_fragments": 645, "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": 79.7809, "matched_fragments": 237, "total_fragments": 645, "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": 79.7662, "matched_fragments": 225, "total_fragments": 645, "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": 79.6318, "matched_fragments": 225, "total_fragments": 645, "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": 79.4691, "matched_fragments": 222, "total_fragments": 645, "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": 78.9664, "matched_fragments": 216, "total_fragments": 645, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 12.59, "strain_heterogeneity": 12.5 }, "gtdb_result": [ { "accession": "GCF_009696325.1", "gtdb_species": "s__Collinsella sp002391315", "ani": 97.6306, "matched_fragments": 549, "total_fragments": 645, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.76", "min_intra_species_ani": "96.47", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.80", "num_clustered_genomes": 15, "status": "conclusive" }, { "accession": "GCA_900545075.1", "gtdb_species": "s__Collinsella sp900545075", "ani": 91.9207, "matched_fragments": 461, "total_fragments": 645, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.97", "min_intra_species_ani": "98.97", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900541195.1", "gtdb_species": "s__Collinsella sp900541195", "ani": 91.8712, "matched_fragments": 500, "total_fragments": 645, "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_008680965.1", "gtdb_species": "s__Collinsella aerofaciens_L", "ani": 91.6481, "matched_fragments": 527, "total_fragments": 645, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.14", "min_intra_species_ani": "95.14", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900541135.1", "gtdb_species": "s__Collinsella sp900541135", "ani": 91.5784, "matched_fragments": 507, "total_fragments": 645, "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_900541245.1", "gtdb_species": "s__Collinsella sp900541245", "ani": 91.5211, "matched_fragments": 493, "total_fragments": 645, "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_900756725.1", "gtdb_species": "s__Collinsella sp900756725", "ani": 91.4687, "matched_fragments": 426, "total_fragments": 645, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.39", "min_intra_species_ani": "95.39", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_019041915.1", "gtdb_species": "s__Collinsella sp019041915", "ani": 91.4667, "matched_fragments": 525, "total_fragments": 645, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.145, "mean_intra_species_ani": "96.63", "min_intra_species_ani": "95.48", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_015558785.1", "gtdb_species": "s__Collinsella aerofaciens_P", "ani": 91.4068, "matched_fragments": 518, "total_fragments": 645, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1792, "mean_intra_species_ani": "95.28", "min_intra_species_ani": "95.25", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900542305.1", "gtdb_species": "s__Collinsella sp900542305", "ani": 91.3721, "matched_fragments": 496, "total_fragments": 645, "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_905216145.1", "gtdb_species": "s__Collinsella sp905216145", "ani": 91.349, "matched_fragments": 511, "total_fragments": 645, "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_900752015.1", "gtdb_species": "s__Collinsella sp900752015", "ani": 91.3099, "matched_fragments": 482, "total_fragments": 645, "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": "GCA_900545165.1", "gtdb_species": "s__Collinsella sp900545165", "ani": 91.2935, "matched_fragments": 453, "total_fragments": 645, "gtdb_taxonomy": 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