{ "type": "genome", "identifier": "GCA_902778535.1", "organism": "uncultured Prevotellaceae bacterium", "title": "uncultured Prevotellaceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902778535.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6150522", "wgs_master": "CACYYG000000000.1", "refseq_category": "na", "taxid": "370804", "species_taxid": "370804", "organism_name": "uncultured Prevotellaceae bacterium", "infraspecific_name": "", "isolate": "RUG12386", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG12386", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/778/535/GCA_902778535.1_Rumen_uncultured_genome_RUG12386", "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 Prevotellaceae bacterium" ], "sample_taxid": [ "370804" ], "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": "1.114 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.62, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3904431", "Number of Sequences": "55", "Longest Sequences (bp)": "243503", "N50 (bp)": "118426", "Gap Ratio (%)": "0.001357", "GCcontent (%)": "52.7", "Number of CDSs": "2978", "Average Protein Length": "390.7", "Coding Ratio (%)": "89.4", "Number of rRNAs": "0", "Number of tRNAs": "45", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Prevotella brevis", "strain": "strain=ATCC 19188", "accession": "GCA_000621725.1", "taxid": 83231, "species_taxid": 83231, "relation_to_type": "type", "validated": true, "ani": 77.5871, "matched_fragments": 232, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella ruminicola", "strain": "strain=Bryant 23", "accession": "GCA_000025925.1", "taxid": 839, "species_taxid": 839, "relation_to_type": "type", "validated": true, "ani": 77.4404, "matched_fragments": 197, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella stercorea", "strain": "strain=DSM 18206", "accession": "GCA_000235885.1", "taxid": 363265, "species_taxid": 363265, "relation_to_type": "suspected-type", "validated": true, "ani": 77.1857, "matched_fragments": 107, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella dentalis", "strain": "strain=DSM 3688", "accession": "GCA_000242335.3", "taxid": 52227, "species_taxid": 52227, "relation_to_type": "type", "validated": true, "ani": 76.9467, "matched_fragments": 171, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella dentalis", "strain": "strain=DSM 3688", "accession": "GCA_000220215.1", "taxid": 52227, "species_taxid": 52227, "relation_to_type": "type", "validated": true, "ani": 76.9134, "matched_fragments": 168, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hallella seregens", "strain": "strain=ATCC 51272", "accession": "GCA_000518545.1", "taxid": 52229, "species_taxid": 52229, "relation_to_type": "type", "validated": true, "ani": 76.8547, "matched_fragments": 165, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hallella faecis", "strain": "strain=CLA-AA-H145", "accession": "GCA_018789675.1", "taxid": 2841596, "species_taxid": 2841596, "relation_to_type": "type", "validated": true, "ani": 76.6284, "matched_fragments": 137, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella multiformis", "strain": "strain=DSM 16608", "accession": "GCA_000191065.1", "taxid": 282402, "species_taxid": 282402, "relation_to_type": "type", "validated": true, "ani": 76.5692, "matched_fragments": 92, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella buccae", "strain": "strain=ATCC 33574", "accession": "GCA_000184945.1", "taxid": 28126, "species_taxid": 28126, "relation_to_type": "type", "validated": true, "ani": 76.5127, "matched_fragments": 123, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xylanibacter rodentium", "strain": "strain=PROD", "accession": "GCA_013166575.1", "taxid": 2736289, "species_taxid": 2736289, "relation_to_type": "type", "validated": true, "ani": 76.4257, "matched_fragments": 102, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella mizrahii", "strain": "strain=LKV-178-WT-2A", "accession": "GCA_009695775.1", "taxid": 2606637, "species_taxid": 2606637, "relation_to_type": "type", "validated": true, "ani": 76.1928, "matched_fragments": 109, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella lacticifex", "strain": "strain=R5019", "accession": "GCA_019973375.1", "taxid": 2854755, "species_taxid": 2854755, "relation_to_type": "type", "validated": true, "ani": 76.1698, "matched_fragments": 94, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella illustrans", "strain": "strain=A2931", "accession": "GCA_017426725.1", "taxid": 2800387, "species_taxid": 2800387, "relation_to_type": "type", "validated": true, "ani": 76.0519, "matched_fragments": 68, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella hominis", "strain": "strain=BCRC 81118", "accession": "GCA_004535825.1", "taxid": 2518605, "species_taxid": 2518605, "relation_to_type": "type", "validated": true, "ani": 75.9162, "matched_fragments": 52, "total_fragments": 1274, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.62, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_902778535.1", "gtdb_species": "s__Prevotella sp902778535", "ani": 100.0, "matched_fragments": 1274, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.92", "min_intra_species_ani": "97.92", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_016285055.1", "gtdb_species": "s__Prevotella sp016285055", "ani": 84.2607, "matched_fragments": 774, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_017615355.1", "gtdb_species": "s__Prevotella sp017615355", "ani": 83.9181, "matched_fragments": 680, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_902775475.1", "gtdb_species": "s__Prevotella sp902775475", "ani": 80.8146, "matched_fragments": 575, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "98.51", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_902790625.1", "gtdb_species": "s__Prevotella sp902790625", "ani": 80.3332, "matched_fragments": 615, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.16", "min_intra_species_ani": "96.49", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_017619275.1", "gtdb_species": "s__Prevotella sp017619275", "ani": 80.017, "matched_fragments": 509, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_002392835.1", "gtdb_species": "s__Prevotella sp002392835", "ani": 79.9488, "matched_fragments": 417, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.57", "min_intra_species_ani": "97.57", "mean_intra_species_af": "0.74", "min_intra_species_af": "0.74", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_905233825.1", "gtdb_species": "s__Prevotella sp905233825", "ani": 79.7209, "matched_fragments": 441, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_900318685.1", "gtdb_species": "s__Prevotella sp900318685", "ani": 79.4143, "matched_fragments": 495, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "97.52", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_017645905.1", "gtdb_species": "s__Prevotella sp017645905", "ani": 79.1063, "matched_fragments": 402, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_017478085.1", "gtdb_species": "s__Prevotella sp017478085", "ani": 78.7887, "matched_fragments": 355, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_017459445.1", "gtdb_species": "s__Prevotella sp017459445", "ani": 78.3031, "matched_fragments": 178, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_905235905.1", "gtdb_species": "s__Prevotella sp905235905", "ani": 78.2878, "matched_fragments": 315, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_017467565.1", "gtdb_species": "s__Prevotella sp017467565", "ani": 78.226, "matched_fragments": 280, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_902765585.1", "gtdb_species": "s__Prevotella sp902765585", "ani": 78.193, "matched_fragments": 312, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_002342415.1", "gtdb_species": "s__Prevotella sp002342415", "ani": 77.605, "matched_fragments": 249, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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_002354095.1", "gtdb_species": "s__Prevotella sp002354095", "ani": 77.4039, "matched_fragments": 146, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.88", "min_intra_species_ani": "96.42", "mean_intra_species_af": "0.77", "min_intra_species_af": "0.68", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_002353295.1", "gtdb_species": "s__Prevotella sp002353295", "ani": 77.0761, "matched_fragments": 125, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.89", "min_intra_species_ani": "97.89", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902773225.1", "gtdb_species": "s__RUG11857 sp902773225", "ani": 76.0178, "matched_fragments": 65, "total_fragments": 1274, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__RUG11857", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.71", "min_intra_species_ani": "97.71", "mean_intra_species_af": "0.70", "min_intra_species_af": "0.70", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.225, "cell_length": 0.118, "doubling_h": null, "growth_tmp": 36.775, "optimum_tmp": 35.358, "optimum_ph": 7.1, "genome_size": 3057162.545, "gc_content": 45.298, "coding_genes": 2508.172, "rRNA16S_genes": 4.0, "tRNA_genes": 50.875, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "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": 0.976, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.023, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Prevotella", "s__Prevotella sp902778535" ], "_genome_taxon": [ "uncultured", "Prevotellaceae", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Prevotella", "s__Prevotella sp902778535", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Bacteroidaceae", "Prevotella", "Prevotella", "sp902778535" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }