{ "type": "genome", "identifier": "GCA_902767805.1", "organism": "uncultured Bacteroidia bacterium", "title": "uncultured Bacteroidia bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902767805.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6149439", "wgs_master": "CACXIZ000000000.1", "refseq_category": "na", "taxid": "1129257", "species_taxid": "1129257", "organism_name": "uncultured Bacteroidia bacterium", "infraspecific_name": "", "isolate": "RUG11305", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG11305", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/767/805/GCA_902767805.1_Rumen_uncultured_genome_RUG11305", "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": "2020-02-17", "dateModified": "2020-02-17", "datePublished": "2020-02-17", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Bacteroidia bacterium" ], "sample_taxid": [ "1129257" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.709 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 2.08, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2483982", "Number of Sequences": "336", "Longest Sequences (bp)": "66486", "N50 (bp)": "10491", "Gap Ratio (%)": "0.027375", "GCcontent (%)": "56.7", "Number of CDSs": "1868", "Average Protein Length": "346.0", "Coding Ratio (%)": "78.0", "Number of rRNAs": "1", "Number of tRNAs": "50", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [], "cc_result": { "completeness": 95.83, "contamination": 2.08, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900317925.1", "gtdb_species": "s__Cryptobacteroides sp900317925", "ani": 97.6581, "matched_fragments": 509, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.64", "min_intra_species_ani": "96.11", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.74", "num_clustered_genomes": 52, "status": "conclusive" }, { "accession": "GCA_902799895.1", "gtdb_species": "s__Cryptobacteroides sp902799895", "ani": 91.6555, "matched_fragments": 421, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "98.23", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.80", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016287075.1", "gtdb_species": "s__Cryptobacteroides sp016287075", "ani": 78.5872, "matched_fragments": 156, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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_017483985.1", "gtdb_species": "s__Cryptobacteroides sp017483985", "ani": 77.8041, "matched_fragments": 145, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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_900167895.1", "gtdb_species": "s__Cryptobacteroides sp900167895", "ani": 77.6032, "matched_fragments": 136, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.18", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900319975.1", "gtdb_species": "s__Cryptobacteroides sp900319975", "ani": 77.568, "matched_fragments": 118, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.34", "min_intra_species_ani": "97.18", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900319185.1", "gtdb_species": "s__Cryptobacteroides sp900319185", "ani": 77.5615, "matched_fragments": 85, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "98.63", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_902780935.1", "gtdb_species": "s__Cryptobacteroides sp902780935", "ani": 77.5244, "matched_fragments": 72, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "97.52", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902762435.1", "gtdb_species": "s__Cryptobacteroides sp902762435", "ani": 77.4115, "matched_fragments": 135, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.59", "min_intra_species_ani": "98.59", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017471025.1", "gtdb_species": "s__Cryptobacteroides sp017471025", "ani": 77.3658, "matched_fragments": 117, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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_017471045.1", "gtdb_species": "s__Cryptobacteroides sp017471045", "ani": 77.3468, "matched_fragments": 121, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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_017428725.1", "gtdb_species": "s__Cryptobacteroides sp017428725", "ani": 77.3294, "matched_fragments": 124, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.64", "min_intra_species_ani": "97.64", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902779765.1", "gtdb_species": "s__Cryptobacteroides sp902779765", "ani": 77.3034, "matched_fragments": 87, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.01", "min_intra_species_ani": "96.70", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_016283985.1", "gtdb_species": "s__Cryptobacteroides sp016283985", "ani": 77.0498, "matched_fragments": 79, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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_900320185.1", "gtdb_species": "s__Cryptobacteroides sp900320185", "ani": 76.7805, "matched_fragments": 89, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.66", "min_intra_species_ani": "98.37", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.82", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCA_902803715.1", "gtdb_species": "s__Cryptobacteroides sp902803715", "ani": 76.7504, "matched_fragments": 133, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902766985.1", "gtdb_species": "s__Cryptobacteroides sp902766985", "ani": 76.7461, "matched_fragments": 56, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.09", "min_intra_species_ani": "97.97", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.68", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_017453565.1", "gtdb_species": "s__Cryptobacteroides sp017453565", "ani": 76.6452, "matched_fragments": 101, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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_001602885.1", "gtdb_species": "s__Cryptobacteroides sp001602885", "ani": 76.6221, "matched_fragments": 58, "total_fragments": 651, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__UBA932", "g__Cryptobacteroides", "s__Cryptobacteroides sp900317925" ], "_genome_taxon": [ "uncultured", "Bacteroidia", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__UBA932", "g__Cryptobacteroides", "s__Cryptobacteroides sp900317925", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "UBA932", "Cryptobacteroides", "Cryptobacteroides", "sp900317925" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }