{ "type": "genome", "identifier": "GCA_905197475.1", "organism": "uncultured Bacteroides sp.", "title": "uncultured Bacteroides sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_905197475.1", "bioproject": "PRJEB37358", "biosample": "SAMEA7848044", "wgs_master": "CAJJYT000000000.1", "refseq_category": "na", "taxid": "162156", "species_taxid": "162156", "organism_name": "uncultured Bacteroides sp.", "infraspecific_name": "", "isolate": "SRR413685-bin.9", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/04", "asm_name": "SRR413685-mag-bin.9", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/905/197/475/GCA_905197475.1_SRR413685-mag-bin.9", "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": "2021-02-04", "dateModified": "2021-02-04", "datePublished": "2021-02-04", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Bacteroides sp." ], "sample_taxid": [ "162156" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.535 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)": "5372455", "Number of Sequences": "61", "Longest Sequences (bp)": "335419", "N50 (bp)": "139939", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.7", "Number of CDSs": "4132", "Average Protein Length": "381.4", "Coding Ratio (%)": "88.0", "Number of rRNAs": "3", "Number of tRNAs": "64", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Phocaeicola dorei", "strain": "strain=DSM 17855", "accession": "GCA_000156075.1", "taxid": 357276, "species_taxid": 357276, "relation_to_type": "type", "validated": true, "ani": 81.5204, "matched_fragments": 842, "total_fragments": 1758, "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": 81.5185, "matched_fragments": 845, "total_fragments": 1758, "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": 81.4912, "matched_fragments": 839, "total_fragments": 1758, "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": 81.3839, "matched_fragments": 837, "total_fragments": 1758, "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": 81.3308, "matched_fragments": 844, "total_fragments": 1758, "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": 81.3024, "matched_fragments": 799, "total_fragments": 1758, "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": 81.1723, "matched_fragments": 813, "total_fragments": 1758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola faecalis", "strain": "strain=FXJYN30E22", "accession": "GCA_021730445.1", "taxid": 2786956, "species_taxid": 2786956, "relation_to_type": "type", "validated": true, "ani": 80.3404, "matched_fragments": 602, "total_fragments": 1758, "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": 80.18, "matched_fragments": 585, "total_fragments": 1758, "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": 80.1112, "matched_fragments": 591, "total_fragments": 1758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola coprophilus", "strain": "strain=DSM 18228", "accession": "GCA_000157915.1", "taxid": 387090, "species_taxid": 387090, "relation_to_type": "type", "validated": true, "ani": 78.1938, "matched_fragments": 202, "total_fragments": 1758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides propionicigenes", "strain": "strain=NSJ-90", "accession": "GCA_018390535.1", "taxid": 2834112, "species_taxid": 2834112, "relation_to_type": "type", "validated": true, "ani": 77.9711, "matched_fragments": 207, "total_fragments": 1758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides caccae", "strain": "strain=ATCC 43185", "accession": "GCA_025146315.1", "taxid": 47678, "species_taxid": 47678, "relation_to_type": "suspected-type", "validated": true, "ani": 77.6635, "matched_fragments": 214, "total_fragments": 1758, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_902388365.1", "gtdb_species": "s__Phocaeicola sp902388365", "ani": 97.4857, "matched_fragments": 1467, "total_fragments": 1758, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "97.52", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_013009555.1", "gtdb_species": "s__Phocaeicola dorei", "ani": 81.4904, "matched_fragments": 850, "total_fragments": 1758, "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_000012825.1", "gtdb_species": "s__Phocaeicola vulgatus", "ani": 81.3384, "matched_fragments": 844, "total_fragments": 1758, "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_000614185.1", "gtdb_species": "s__Phocaeicola sartorii", "ani": 81.1932, "matched_fragments": 810, "total_fragments": 1758, "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": "GCA_011959205.1", "gtdb_species": "s__Phocaeicola sp011959205", "ani": 81.1178, "matched_fragments": 641, "total_fragments": 1758, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.87", "min_intra_species_ani": "99.87", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900760795.1", "gtdb_species": "s__Phocaeicola sp900760795", "ani": 80.6891, "matched_fragments": 617, "total_fragments": 1758, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "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_000382445.1", "gtdb_species": "s__Phocaeicola massiliensis", "ani": 80.0759, "matched_fragments": 594, "total_fragments": 1758, "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", "min_intra_species_af": "0.62", "num_clustered_genomes": 25, "status": "-" }, { "accession": "GCA_002493165.1", "gtdb_species": "s__Phocaeicola sp002493165", "ani": 79.7512, "matched_fragments": 541, "total_fragments": 1758, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "98.75", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.83", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.136, "cell_length": 0.217, "doubling_h": -0.095, "growth_tmp": 36.666, "optimum_tmp": 36.026, "optimum_ph": 6.997, "genome_size": 4818468.536, "gc_content": 43.414, "coding_genes": 3969.717, "rRNA16S_genes": 5.5, "tRNA_genes": 71.066, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "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__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Phocaeicola", "s__Phocaeicola sp902388365" ], "_genome_taxon": [ "uncultured", "Bacteroides", "sp.", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Phocaeicola", "s__Phocaeicola sp902388365", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Bacteroidaceae", "Phocaeicola", "Phocaeicola", "sp902388365" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }