{ "type": "genome", "identifier": "GCA_015062655.1", "organism": "Coriobacteriaceae bacterium", "title": "Coriobacteriaceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of California, Santa Barbara", "publication": [ {} ], "properties": { "assembly_accession": "GCA_015062655.1", "bioproject": "PRJNA530070", "biosample": "SAMN11294325", "wgs_master": "SUUG00000000.1", "refseq_category": "na", "taxid": "2011094", "species_taxid": "2011094", "organism_name": "Coriobacteriaceae bacterium", "infraspecific_name": "", "isolate": "SIG40", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/28", "asm_name": "ASM1506265v1", "submitter": "University of California, Santa Barbara", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/015/062/655/GCA_015062655.1_ASM1506265v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-28", "dateModified": "2020-10-28", "datePublished": "2020-10-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Coriobacteriaceae bacterium" ], "sample_taxid": [ "2011094" ], "sample_host_organism": [ "San Clemente Island Goat" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Santa Barbara Zoo" ], "sample_host_location_id": [], "data_size": "0.572 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2074821", "Number of Sequences": "26", "Longest Sequences (bp)": "292267", "N50 (bp)": "138038", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.8", "Number of CDSs": "1799", "Average Protein Length": "324.0", "Coding Ratio (%)": "84.3", "Number of rRNAs": "1", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Collinsella vaginalis", "strain": "strain=Marseille-P2666", "accession": "GCA_900176655.1", "taxid": 1870987, "species_taxid": 1870987, "relation_to_type": "type", "validated": true, "ani": 83.6419, "matched_fragments": 425, "total_fragments": 677, "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": 80.8018, "matched_fragments": 322, "total_fragments": 677, "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": 80.7615, "matched_fragments": 278, "total_fragments": 677, "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": 80.4112, "matched_fragments": 283, "total_fragments": 677, "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": 80.1511, "matched_fragments": 249, "total_fragments": 677, "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": 80.0979, "matched_fragments": 309, "total_fragments": 677, "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": 80.0079, "matched_fragments": 314, "total_fragments": 677, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enorma shizhengliae", "strain": "strain=HF-1365", "accession": "GCA_009676995.1", "taxid": 2606615, "species_taxid": 2606615, "relation_to_type": "type", "validated": true, "ani": 79.2282, "matched_fragments": 227, "total_fragments": 677, "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": 79.2189, "matched_fragments": 246, "total_fragments": 677, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermophilibacter mediterraneus", "strain": "strain=Marseille-P3256", "accession": "GCA_900119385.1", "taxid": 1871031, "species_taxid": 1871031, "relation_to_type": "type", "validated": true, "ani": 79.0596, "matched_fragments": 214, "total_fragments": 677, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella intestinalis", "strain": "strain=KCTC 25379", "accession": "GCA_023276655.1", "taxid": 2930083, "species_taxid": 2930083, "relation_to_type": "type", "validated": true, "ani": 78.7101, "matched_fragments": 186, "total_fragments": 677, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parolsenella massiliensis", "strain": "strain=Marseille-P3237", "accession": "GCA_900143685.1", "taxid": 1871022, "species_taxid": 1871022, "relation_to_type": "type", "validated": true, "ani": 78.5749, "matched_fragments": 208, "total_fragments": 677, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora citrea", "strain": "strain=DSM 43903", "accession": "GCA_900090315.1", "taxid": 47855, "species_taxid": 47855, "relation_to_type": "type", "validated": true, "ani": 75.0558, "matched_fragments": 95, "total_fragments": 677, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_015062655.1", "gtdb_species": "s__Collinsella sp015062655", "ani": 100.0, "matched_fragments": 674, "total_fragments": 677, "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": "conclusive" }, { "accession": "GCF_900176655.1", "gtdb_species": "s__Collinsella vaginalis", "ani": 83.6202, "matched_fragments": 426, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "99.31", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_902501965.1", "gtdb_species": "s__Collinsella sp900556495", "ani": 81.1576, "matched_fragments": 321, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.47", "min_intra_species_ani": "98.05", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019117005.1", "gtdb_species": "s__Collinsella stercoripullorum", "ani": 80.9847, "matched_fragments": 306, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.76", "min_intra_species_ani": "98.76", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_902150035.1", "gtdb_species": "s__Enorma burkinafasonensis", "ani": 80.8614, "matched_fragments": 319, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Enorma", "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_000333815.1", "gtdb_species": "s__Enorma sp000333815", "ani": 80.682, "matched_fragments": 275, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Enorma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.98", "min_intra_species_ani": "97.01", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_016902615.1", "gtdb_species": "s__Collinsella tanakaei_A", "ani": 80.4651, "matched_fragments": 299, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "98.95", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900119895.1", "gtdb_species": "s__Collinsella phocaeensis", "ani": 80.4113, "matched_fragments": 283, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.56", "min_intra_species_ani": "95.56", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016900375.1", "gtdb_species": "s__Collinsella sp002305035", "ani": 80.386, "matched_fragments": 303, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.55", "min_intra_species_ani": "95.55", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900551665.1", "gtdb_species": "s__Collinsella sp900551665", "ani": 80.0412, "matched_fragments": 200, "total_fragments": 677, "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_000156215.1", "gtdb_species": "s__Collinsella stercoris", "ani": 79.9973, "matched_fragments": 315, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.61", "min_intra_species_ani": "95.23", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.81", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_014982725.1", "gtdb_species": "s__Thermophilibacter sp014982725", "ani": 79.3792, "matched_fragments": 208, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Thermophilibacter", "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_002159625.1", "gtdb_species": "s__Thermophilibacter avicola", "ani": 79.2697, "matched_fragments": 194, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Thermophilibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.98", "min_intra_species_ani": "97.98", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900555585.1", "gtdb_species": "s__Collinsella sp900555585", "ani": 79.1991, "matched_fragments": 123, "total_fragments": 677, "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": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900543875.1", "gtdb_species": "s__Parolsenella sp900543875", "ani": 78.5065, "matched_fragments": 191, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Parolsenella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.15", "min_intra_species_ani": "98.15", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_015062635.1", "gtdb_species": "s__UMGS1519 sp015062635", "ani": 76.7455, "matched_fragments": 78, "total_fragments": 677, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__UMGS1519", "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": "-" } ] }, "_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 sp015062655" ], "_genome_taxon": [ "Coriobacteriaceae", "bacterium", "d__Bacteria", "p__Actinomycetota", "c__Coriobacteriia", "o__Coriobacteriales", "f__Coriobacteriaceae", "g__Collinsella", "s__Collinsella sp015062655", "Bacteria", "Actinomycetota", "Coriobacteriia", "Coriobacteriales", "Coriobacteriaceae", "Collinsella", "Collinsella", "sp015062655" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }