{ "type": "genome", "identifier": "GCA_902758675.1", "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_902758675.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6148522", "wgs_master": "CACVZY000000000.1", "refseq_category": "na", "taxid": "1129257", "species_taxid": "1129257", "organism_name": "uncultured Bacteroidia bacterium", "infraspecific_name": "", "isolate": "RUG10389", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG10389", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/758/675/GCA_902758675.1_Rumen_uncultured_genome_RUG10389", "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": "0.804 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 56.36, "contamination": 4.55, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2867120", "Number of Sequences": "344", "Longest Sequences (bp)": "52635", "N50 (bp)": "11321", "Gap Ratio (%)": "0.003627", "GCcontent (%)": "61.3", "Number of CDSs": "2124", "Average Protein Length": "354.7", "Coding Ratio (%)": "78.8", "Number of rRNAs": "0", "Number of tRNAs": "36", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Alistipes senegalensis", "strain": "strain=JC50", "accession": "GCA_025145645.1", "taxid": 1288121, "species_taxid": 1288121, "relation_to_type": "type", "validated": true, "ani": 76.6002, "matched_fragments": 51, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes senegalensis", "strain": "strain=JC50", "accession": "GCA_000312145.1", "taxid": 1288121, "species_taxid": 1288121, "relation_to_type": "type", "validated": true, "ani": 76.6002, "matched_fragments": 51, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes senegalensis", "strain": "strain=FDAARGOS_1578", "accession": "GCA_020735725.1", "taxid": 1288121, "species_taxid": 1288121, "relation_to_type": "type", "validated": true, "ani": 76.5078, "matched_fragments": 52, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes shahii", "strain": "strain=WAL 8301", "accession": "GCA_025145845.1", "taxid": 328814, "species_taxid": 328814, "relation_to_type": "suspected-type", "validated": true, "ani": 76.1404, "matched_fragments": 50, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes dispar", "strain": "strain=5CPEGH6", "accession": "GCA_006542685.1", "taxid": 2585119, "species_taxid": 2585119, "relation_to_type": "type", "validated": true, "ani": 75.9397, "matched_fragments": 54, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 56.36, "contamination": 4.55, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_900316525.1", "gtdb_species": "s__Cryptobacteroides sp900316525", "ani": 96.7062, "matched_fragments": 657, "total_fragments": 781, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.78", "min_intra_species_ani": "96.71", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.84", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCA_017429205.1", "gtdb_species": "s__Cryptobacteroides sp017429205", "ani": 94.0662, "matched_fragments": 524, "total_fragments": 781, "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_900316955.1", "gtdb_species": "s__Cryptobacteroides sp900316955", "ani": 92.9601, "matched_fragments": 605, "total_fragments": 781, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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_902785065.1", "gtdb_species": "s__Cryptobacteroides sp902785065", "ani": 92.5413, "matched_fragments": 584, "total_fragments": 781, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.77", "min_intra_species_ani": "97.77", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900318015.1", "gtdb_species": "s__Cryptobacteroides sp900318015", "ani": 91.2195, "matched_fragments": 582, "total_fragments": 781, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "97.03", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.81", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_017558775.1", "gtdb_species": "s__Cryptobacteroides sp017558775", "ani": 84.9654, "matched_fragments": 483, "total_fragments": 781, "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_017395045.1", "gtdb_species": "s__Cryptobacteroides sp017395045", "ani": 84.6504, "matched_fragments": 440, "total_fragments": 781, "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_902781705.1", "gtdb_species": "s__Cryptobacteroides sp902781705", "ani": 84.5861, "matched_fragments": 509, "total_fragments": 781, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.56", "min_intra_species_ani": "96.56", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "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 sp900316525" ], "_genome_taxon": [ "uncultured", "Bacteroidia", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__UBA932", "g__Cryptobacteroides", "s__Cryptobacteroides sp900316525", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "UBA932", "Cryptobacteroides", "Cryptobacteroides", "sp900316525" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }