{ "type": "genome", "identifier": "GCA_947581855.1", "organism": "uncultured Phocaeicola sp.", "title": "uncultured Phocaeicola sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Institut National pour la Recherche Agronomique (FRANCE)", "publication": [ {} ], "properties": { "assembly_accession": "GCA_947581855.1", "bioproject": "PRJEB50625", "biosample": "SAMEA112229992", "wgs_master": "CANPVZ000000000.1", "refseq_category": "na", "taxid": "990718", "species_taxid": "990718", "organism_name": "uncultured Phocaeicola sp.", "infraspecific_name": "", "isolate": "Lapin-001__bin39", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/12/17", "asm_name": "Lapin-001__bin39", "submitter": "Institut National pour la Recherche Agronomique (FRANCE)", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/947/581/855/GCA_947581855.1_Lapin-001_bin39", "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": "2022-12-17", "dateModified": "2022-12-17", "datePublished": "2022-12-17", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Phocaeicola sp." ], "sample_taxid": [ "990718" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France" ], "sample_host_location_id": [], "data_size": "1.033 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3621106", "Number of Sequences": "39", "Longest Sequences (bp)": "426376", "N50 (bp)": "158465", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.3", "Number of CDSs": "2840", "Average Protein Length": "351.9", "Coding Ratio (%)": "82.8", "Number of rRNAs": "0", "Number of tRNAs": "48", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bacteroides humanifaecis", "strain": "strain=KGMB07931", "accession": "GCA_017309675.2", "taxid": 2792859, "species_taxid": 2792859, "relation_to_type": "type", "validated": true, "ani": 78.4145, "matched_fragments": 98, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides muris", "strain": "strain=KH365_2", "accession": "GCA_024704915.1", "taxid": 2937417, "species_taxid": 2937417, "relation_to_type": "type", "validated": true, "ani": 78.224, "matched_fragments": 90, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola sartorii", "strain": "strain=JCM 17136", "accession": "GCA_000614185.1", "taxid": 671267, "species_taxid": 671267, "relation_to_type": "type", "validated": true, "ani": 78.2046, "matched_fragments": 153, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola sartorii", "strain": "strain=DSM 21941", "accession": "GCA_024622025.1", "taxid": 671267, "species_taxid": 671267, "relation_to_type": "type", "validated": true, "ani": 78.1587, "matched_fragments": 152, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola dorei", "strain": "strain=DSM 17855", "accession": "GCA_000156075.1", "taxid": 357276, "species_taxid": 357276, "relation_to_type": "type", "validated": true, "ani": 77.9933, "matched_fragments": 159, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola dorei", "strain": "strain=DSM 17855", "accession": "GCA_013009555.1", "taxid": 357276, "species_taxid": 357276, "relation_to_type": "type", "validated": true, "ani": 77.993, "matched_fragments": 157, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola dorei", "strain": "strain=DSM 17855", "accession": "GCA_025146415.1", "taxid": 357276, "species_taxid": 357276, "relation_to_type": "type", "validated": true, "ani": 77.9497, "matched_fragments": 156, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola massiliensis", "strain": "strain=DSM 17679", "accession": "GCA_000382445.1", "taxid": 204516, "species_taxid": 204516, "relation_to_type": "suspected-type", "validated": true, "ani": 77.7182, "matched_fragments": 152, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola massiliensis", "strain": "strain=DSM 17679", "accession": "GCA_000373085.1", "taxid": 204516, "species_taxid": 204516, "relation_to_type": "type", "validated": true, "ani": 77.7079, "matched_fragments": 152, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides thetaiotaomicron", "strain": "strain=VPI 5482", "accession": "GCA_022453665.1", "taxid": 818, "species_taxid": 818, "relation_to_type": "type", "validated": true, "ani": 77.6375, "matched_fragments": 121, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides salyersiae", "strain": "strain=DSM 18765", "accession": "GCA_000381365.1", "taxid": 291644, "species_taxid": 291644, "relation_to_type": "type", "validated": true, "ani": 77.6288, "matched_fragments": 116, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola vulgatus", "strain": "strain=FDAARGOS_1098", "accession": "GCA_016766915.1", "taxid": 821, "species_taxid": 821, "relation_to_type": "type", "validated": true, "ani": 77.5765, "matched_fragments": 155, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola vulgatus", "strain": "strain=ATCC 8482", "accession": "GCA_000012825.1", "taxid": 821, "species_taxid": 821, "relation_to_type": "type", "validated": true, "ani": 77.5592, "matched_fragments": 155, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides uniformis", "strain": "strain=ATCC 8492", "accession": "GCA_025147485.1", "taxid": 820, "species_taxid": 820, "relation_to_type": "type", "validated": true, "ani": 77.5147, "matched_fragments": 102, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides oleiciplenus", "strain": "strain=YIT 12058", "accession": "GCA_000315485.1", "taxid": 626931, "species_taxid": 626931, "relation_to_type": "type", "validated": true, "ani": 77.5014, "matched_fragments": 116, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides stercoris", "strain": "strain=ATCC 43183", "accession": "GCA_025147325.1", "taxid": 46506, "species_taxid": 46506, "relation_to_type": "suspected-type", "validated": true, "ani": 77.455, "matched_fragments": 101, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides timonensis", "strain": "", "accession": "GCA_000513195.1", "taxid": 1470345, "species_taxid": 1470345, "relation_to_type": "type", "validated": true, "ani": 77.3379, "matched_fragments": 109, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides helcogenes", "strain": "strain=P 36-108", "accession": "GCA_000186225.1", "taxid": 290053, "species_taxid": 290053, "relation_to_type": "type", "validated": true, "ani": 77.3263, "matched_fragments": 89, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides reticulotermitis", "strain": "strain=DSM 105720", "accession": "GCA_014196955.1", "taxid": 1133319, "species_taxid": 1133319, "relation_to_type": "type", "validated": true, "ani": 77.3003, "matched_fragments": 81, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides reticulotermitis", "strain": "strain=JCM 10512", "accession": "GCA_000517545.1", "taxid": 1133319, "species_taxid": 1133319, "relation_to_type": "type", "validated": true, "ani": 77.2827, "matched_fragments": 81, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides luhongzhouii", "strain": "strain=HF-5141", "accession": "GCA_009193295.2", "taxid": 2650158, "species_taxid": 2650158, "relation_to_type": "type", "validated": true, "ani": 77.1936, "matched_fragments": 130, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides cellulosilyticus", "strain": "strain=DSM 14838", "accession": "GCA_000158035.1", "taxid": 246787, "species_taxid": 246787, "relation_to_type": "type", "validated": true, "ani": 77.0828, "matched_fragments": 106, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parabacteroides bouchesdurhonensis", "strain": "strain=Marseille-P3763", "accession": "GCA_900186615.1", "taxid": 1936995, "species_taxid": 1936995, "relation_to_type": "type", "validated": true, "ani": 77.0246, "matched_fragments": 51, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola intestinalis", "strain": "strain=Sa1CVN1", "accession": "GCA_014837065.1", "taxid": 2762212, "species_taxid": 2762212, "relation_to_type": "type", "validated": true, "ani": 76.8592, "matched_fragments": 89, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900765575.1", "gtdb_species": "s__Phocaeicola_A sp900765575", "ani": 79.6161, "matched_fragments": 505, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.84", "min_intra_species_ani": "99.84", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000614185.1", "gtdb_species": "s__Phocaeicola sartorii", "ani": 78.1993, "matched_fragments": 153, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "98.44", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.76", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_013009555.1", "gtdb_species": "s__Phocaeicola dorei", "ani": 77.9774, "matched_fragments": 159, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.359, "mean_intra_species_ani": "99.04", "min_intra_species_ani": "97.27", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.54", "num_clustered_genomes": 104, "status": "-" }, { "accession": "GCF_000382445.1", "gtdb_species": "s__Phocaeicola massiliensis", "ani": 77.7182, "matched_fragments": 152, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "98.03", "mean_intra_species_af": "0.86", 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4, "status": "-" }, { "accession": "GCF_000012825.1", "gtdb_species": "s__Phocaeicola vulgatus", "ani": 77.5592, "matched_fragments": 155, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.359, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "95.43", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.61", "num_clustered_genomes": 263, "status": "-" }, { "accession": "GCF_000011065.1", "gtdb_species": "s__Bacteroides thetaiotaomicron", "ani": 77.5334, "matched_fragments": 120, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.45", "min_intra_species_ani": "97.24", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.75", "num_clustered_genomes": 121, "status": "-" }, { "accession": "GCF_000315485.1", "gtdb_species": "s__Bacteroides oleiciplenus", "ani": 77.5014, "matched_fragments": 116, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.39", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000186225.1", "gtdb_species": "s__Bacteroides helcogenes", "ani": 77.366, "matched_fragments": 87, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Bacteroides", "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_014334015.1", "gtdb_species": "s__Bacteroides 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