{ "type": "genome", "identifier": "GCA_902755165.1", "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_902755165.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6148167", "wgs_master": "CACVLZ000000000.1", "refseq_category": "na", "taxid": "194843", "species_taxid": "194843", "organism_name": "uncultured Bacteroidales bacterium", "infraspecific_name": "", "isolate": "RUG10035", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG10035", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/755/165/GCA_902755165.1_Rumen_uncultured_genome_RUG10035", "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": "0.730 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 90.53, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2565855", "Number of Sequences": "189", "Longest Sequences (bp)": "69352", "N50 (bp)": "18314", "Gap Ratio (%)": "0.017733", "GCcontent (%)": "51.2", "Number of CDSs": "1978", "Average Protein Length": "343.1", "Coding Ratio (%)": "79.3", "Number of rRNAs": "0", "Number of tRNAs": "34", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 77.8827, "matched_fragments": 168, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" }, { "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": 77.8056, "matched_fragments": 173, "total_fragments": 759, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 90.53, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900318065.1", "gtdb_species": "s__Sodaliphilus sp900318065", "ani": 98.1489, "matched_fragments": 692, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.54", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 24, "status": "conclusive" }, { "accession": "GCA_002353285.1", "gtdb_species": "s__Sodaliphilus sp002353285", "ani": 81.7362, "matched_fragments": 402, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.36", "min_intra_species_ani": "97.36", "mean_intra_species_af": "0.78", "min_intra_species_af": "0.78", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900318255.1", "gtdb_species": "s__Sodaliphilus sp900318255", "ani": 81.5021, "matched_fragments": 479, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.43", "min_intra_species_ani": "97.80", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_902762385.1", "gtdb_species": "s__Sodaliphilus sp902762385", "ani": 81.0539, "matched_fragments": 448, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.01", "min_intra_species_ani": "95.72", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.77", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_902792435.1", "gtdb_species": "s__Sodaliphilus sp902792435", "ani": 80.7889, "matched_fragments": 454, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.75", "min_intra_species_ani": "96.43", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_902785925.1", "gtdb_species": "s__Sodaliphilus sp902785925", "ani": 80.5379, "matched_fragments": 457, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.61", "min_intra_species_ani": "97.00", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_017451225.1", "gtdb_species": "s__Sodaliphilus sp017451225", "ani": 80.289, "matched_fragments": 328, "total_fragments": 759, "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_017618355.1", "gtdb_species": "s__Sodaliphilus sp017618355", "ani": 80.2033, "matched_fragments": 406, "total_fragments": 759, "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_905233845.1", "gtdb_species": "s__Sodaliphilus sp905233845", "ani": 80.1726, "matched_fragments": 431, "total_fragments": 759, "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_902777835.1", "gtdb_species": "s__Sodaliphilus sp902777835", "ani": 80.1481, "matched_fragments": 411, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.18", "min_intra_species_ani": "97.18", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017964485.1", "gtdb_species": "s__Sodaliphilus sp017964485", "ani": 79.9595, "matched_fragments": 400, "total_fragments": 759, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Muribaculaceae;g__Sodaliphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.79", "min_intra_species_ani": "96.79", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017557625.1", "gtdb_species": "s__Sodaliphilus sp017557625", "ani": 79.9577, "matched_fragments": 403, "total_fragments": 759, "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_017548365.1", "gtdb_species": "s__Sodaliphilus sp017548365", "ani": 79.5751, "matched_fragments": 395, "total_fragments": 759, "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": 78.1189, "matched_fragments": 186, "total_fragments": 759, "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 sp900318065" ], "_genome_taxon": [ "uncultured", "Bacteroidales", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Muribaculaceae", "g__Sodaliphilus", "s__Sodaliphilus sp900318065", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Muribaculaceae", "Sodaliphilus", "Sodaliphilus", "sp900318065" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }