{ "type": "genome", "identifier": "GCA_902784675.1", "organism": "uncultured Bacteroidales bacterium", "title": "uncultured Bacteroidales bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902784675.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6151128", "wgs_master": "CACZVR000000000.1", "refseq_category": "na", "taxid": "194843", "species_taxid": "194843", "organism_name": "uncultured Bacteroidales bacterium", "infraspecific_name": "", "isolate": "RUG12992", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG12992", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/784/675/GCA_902784675.1_Rumen_uncultured_genome_RUG12992", "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 Bacteroidales bacterium" ], "sample_taxid": [ "194843" ], "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": "0.772 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 78.12, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2700935", "Number of Sequences": "131", "Longest Sequences (bp)": "217718", "N50 (bp)": "28735", "Gap Ratio (%)": "0.007442", "GCcontent (%)": "52.5", "Number of CDSs": "2108", "Average Protein Length": "356.3", "Coding Ratio (%)": "83.4", "Number of rRNAs": "1", "Number of tRNAs": "37", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sodaliphilus pleomorphus", "strain": "strain=Oil-RF-744-WCA-WT-10", "accession": "GCA_009676955.1", "taxid": 2606626, "species_taxid": 2606626, "relation_to_type": "type", "validated": true, "ani": 76.8631, "matched_fragments": 133, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sodaliphilus pleomorphus", "strain": "strain=Oil-RF-744-WCA-WT-10", "accession": "GCA_009696565.1", "taxid": 2606626, "species_taxid": 2606626, "relation_to_type": "type", "validated": true, "ani": 76.8243, "matched_fragments": 132, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 78.12, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_902784675.1", "gtdb_species": "s__Sodaliphilus sp902784675", "ani": 100.0, "matched_fragments": 831, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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": "GCA_900317325.1", "gtdb_species": "s__Sodaliphilus sp900317325", "ani": 82.9782, "matched_fragments": 546, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017405965.1", "gtdb_species": "s__Sodaliphilus sp017405965", "ani": 82.9107, "matched_fragments": 569, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_902792895.1", "gtdb_species": "s__Sodaliphilus sp902792895", "ani": 82.7922, "matched_fragments": 557, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_900318535.1", "gtdb_species": "s__Sodaliphilus sp900318535", "ani": 82.6756, "matched_fragments": 529, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.25", "min_intra_species_ani": "96.02", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 17, "status": "-" }, { "accession": "GCA_905233915.1", "gtdb_species": "s__Sodaliphilus sp905233915", "ani": 82.6621, "matched_fragments": 514, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_902760865.1", "gtdb_species": "s__Sodaliphilus sp902760865", "ani": 82.6351, "matched_fragments": 553, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_902793405.1", "gtdb_species": "s__Sodaliphilus sp902793405", "ani": 82.6021, "matched_fragments": 533, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.00", "min_intra_species_ani": "96.00", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902782465.1", "gtdb_species": "s__Sodaliphilus sp902782465", "ani": 82.3999, "matched_fragments": 516, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.05", "min_intra_species_ani": "98.05", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900318205.1", "gtdb_species": "s__Sodaliphilus sp900318205", "ani": 82.287, "matched_fragments": 551, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.32", "min_intra_species_ani": "95.50", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_902776955.1", "gtdb_species": "s__Sodaliphilus sp902776955", "ani": 82.276, "matched_fragments": 529, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_017557665.1", "gtdb_species": "s__Sodaliphilus sp017557665", "ani": 82.2317, "matched_fragments": 555, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_900318335.1", "gtdb_species": "s__Sodaliphilus sp900318335", "ani": 82.1314, "matched_fragments": 531, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.51", "min_intra_species_ani": "96.57", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCA_902800715.1", "gtdb_species": "s__Sodaliphilus sp902800715", "ani": 82.1047, "matched_fragments": 526, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.88", "min_intra_species_ani": "97.57", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_017449785.1", "gtdb_species": "s__Sodaliphilus sp017449785", "ani": 82.0907, "matched_fragments": 483, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_900318345.1", "gtdb_species": "s__Sodaliphilus sp900318345", "ani": 81.8994, "matched_fragments": 509, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017453505.1", "gtdb_species": "s__Sodaliphilus sp017453505", "ani": 81.8737, "matched_fragments": 473, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_900318645.1", "gtdb_species": "s__Sodaliphilus sp900318645", "ani": 81.8053, "matched_fragments": 521, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.10", "min_intra_species_ani": "97.12", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_017557425.1", "gtdb_species": "s__Sodaliphilus sp017557425", "ani": 81.7919, "matched_fragments": 442, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_016290325.1", "gtdb_species": "s__Sodaliphilus sp016290325", "ani": 81.6105, "matched_fragments": 495, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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_017427945.1", "gtdb_species": "s__Sodaliphilus sp017427945", "ani": 81.4732, "matched_fragments": 489, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "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": -0.217, "cell_length": 0.157, "doubling_h": 0.206, "growth_tmp": 36.585, "optimum_tmp": 36.041, "optimum_ph": 7.086, "genome_size": 3658719.825, "gc_content": 44.947, "coding_genes": 3043.648, "rRNA16S_genes": 4.032, "tRNA_genes": 57.661, "gram_stain": 0.014, "sporulation": 0.0, "motility": 0.04, "range_salinity": 0.0, "facultative_respiration": 0.006, "anaerobic_respiration": 0.958, "aerobic_respiration": 0.034, "mesophilic_range_tmp": 0.985, "thermophilic_range_tmp": 0.014, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.95, "coccus_cell_shape": 0.024, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.024, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Muribaculaceae", "g__Sodaliphilus", "s__Sodaliphilus sp902784675" ], "_genome_taxon": [ "uncultured", "Bacteroidales", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Muribaculaceae", "g__Sodaliphilus", "s__Sodaliphilus sp902784675", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Muribaculaceae", "Sodaliphilus", "Sodaliphilus", "sp902784675" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }