{ "type": "genome", "identifier": "GCA_905200665.1", "organism": "uncultured Collinsella sp.", "title": "uncultured Collinsella sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_905200665.1", "bioproject": "PRJEB37358", "biosample": "SAMEA7847140", "wgs_master": "CAJKLH000000000.1", "refseq_category": "na", "taxid": "165190", "species_taxid": "165190", "organism_name": "uncultured Collinsella sp.", "infraspecific_name": "", "isolate": "ERR260155-bin.11", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/03", "asm_name": "ERR260155-mag-bin.11", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/905/200/665/GCA_905200665.1_ERR260155-mag-bin.11", "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": "2021-02-03", "dateModified": "2021-02-03", "datePublished": "2021-02-03", "_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": [ "Sweden" ], "sample_host_location_id": [], "data_size": "0.475 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 87.5, "contamination": 2.08, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1618627", "Number of Sequences": "596", "Longest Sequences (bp)": "23558", "N50 (bp)": "3143", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.9", "Number of CDSs": "982", "Average Protein Length": "281.7", "Coding Ratio (%)": "51.3", "Number of rRNAs": "0", "Number of tRNAs": "37", "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": 93.8473, "matched_fragments": 197, "total_fragments": 220, "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": 93.7841, "matched_fragments": 201, "total_fragments": 220, "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": 93.781, "matched_fragments": 201, "total_fragments": 220, "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": 81.1964, "matched_fragments": 90, "total_fragments": 220, "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": 80.4063, "matched_fragments": 77, "total_fragments": 220, "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": 80.0289, "matched_fragments": 84, "total_fragments": 220, "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": 79.9677, "matched_fragments": 86, "total_fragments": 220, "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": 79.4704, "matched_fragments": 83, "total_fragments": 220, "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": 79.0513, "matched_fragments": 71, "total_fragments": 220, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 87.5, "contamination": 2.08, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900752545.1", "gtdb_species": "s__Collinsella sp900752545", "ani": 94.6566, "matched_fragments": 193, "total_fragments": 220, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018380015.1", "gtdb_species": "s__Collinsella sp018380015", "ani": 93.9351, "matched_fragments": 203, "total_fragments": 220, "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_905215765.1", "gtdb_species": "s__Collinsella sp905215765", "ani": 93.8901, "matched_fragments": 180, "total_fragments": 220, "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", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900542165.1", "gtdb_species": "s__Collinsella sp900542165", "ani": 93.8053, "matched_fragments": 197, "total_fragments": 220, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0912, "mean_intra_species_ani": "95.41", "min_intra_species_ani": "95.20", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900758375.1", "gtdb_species": "s__Collinsella sp900758375", "ani": 93.7442, "matched_fragments": 185, "total_fragments": 220, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.25", "min_intra_species_ani": "95.06", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.78", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_902363125.1", "gtdb_species": "s__Collinsella sp902363125", "ani": 93.7411, "matched_fragments": 188, "total_fragments": 220, "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": "GCF_015670795.1", "gtdb_species": "s__Collinsella aerofaciens_Q", "ani": 93.732, "matched_fragments": 197, "total_fragments": 220, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.1438, "mean_intra_species_ani": "95.30", "min_intra_species_ani": "95.30", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900551635.1", "gtdb_species": "s__Collinsella sp900551635", "ani": 93.7016, "matched_fragments": 162, "total_fragments": 220, "gtdb_taxonomy": 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