{ "type": "genome", "identifier": "GCA_902758895.1", "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_902758895.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6148540", "wgs_master": "CACWAL000000000.1", "refseq_category": "na", "taxid": "370804", "species_taxid": "370804", "organism_name": "uncultured Prevotellaceae bacterium", "infraspecific_name": "", "isolate": "RUG10407", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG10407", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/758/895/GCA_902758895.1_Rumen_uncultured_genome_RUG10407", "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": "0.930 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 87.5, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3266496", "Number of Sequences": "46", "Longest Sequences (bp)": "318500", "N50 (bp)": "131309", "Gap Ratio (%)": "0.001776", "GCcontent (%)": "51.9", "Number of CDSs": "2620", "Average Protein Length": "362.0", "Coding Ratio (%)": "87.1", "Number of rRNAs": "0", "Number of tRNAs": "43", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Prevotella dentalis", "strain": "strain=DSM 3688", "accession": "GCA_000242335.3", "taxid": 52227, "species_taxid": 52227, "relation_to_type": "type", "validated": true, "ani": 76.8953, "matched_fragments": 135, "total_fragments": 1070, "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": 76.7462, "matched_fragments": 129, "total_fragments": 1070, "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": 76.6653, "matched_fragments": 99, "total_fragments": 1070, "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": 76.6164, "matched_fragments": 131, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella lascolaii", "strain": "strain=khD1", "accession": "GCA_900079775.1", "taxid": 1776379, "species_taxid": 1776379, "relation_to_type": "type", "validated": true, "ani": 76.581, "matched_fragments": 83, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella pectinovora", "strain": "strain=P4-76", "accession": "GCA_000834015.1", "taxid": 1602169, "species_taxid": 1602169, "relation_to_type": "type", "validated": true, "ani": 76.5256, "matched_fragments": 113, "total_fragments": 1070, "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": 76.4294, "matched_fragments": 71, "total_fragments": 1070, "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": 76.4028, "matched_fragments": 85, "total_fragments": 1070, "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": 76.3648, "matched_fragments": 107, "total_fragments": 1070, "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": 76.1705, "matched_fragments": 93, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella marshii", "strain": "strain=JCM 13450", "accession": "GCA_000613625.1", "taxid": 189722, "species_taxid": 189722, "relation_to_type": "type", "validated": true, "ani": 75.9525, "matched_fragments": 57, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella marshii", "strain": "strain=DSM 16973", "accession": "GCA_000146675.1", "taxid": 189722, "species_taxid": 189722, "relation_to_type": "type", "validated": true, "ani": 75.9449, "matched_fragments": 59, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 87.5, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900316685.1", "gtdb_species": "s__Prevotella sp900316685", "ani": 98.234, "matched_fragments": 866, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.22", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCA_900313615.1", "gtdb_species": "s__Prevotella sp900313615", "ani": 81.4247, "matched_fragments": 489, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.60", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.73", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_017538105.1", "gtdb_species": "s__Prevotella sp017538105", "ani": 80.3253, "matched_fragments": 533, "total_fragments": 1070, "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_017548605.1", "gtdb_species": "s__Prevotella sp017548605", "ani": 79.9516, "matched_fragments": 537, "total_fragments": 1070, "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_900318915.1", "gtdb_species": "s__Prevotella sp900318915", "ani": 78.5073, "matched_fragments": 297, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.05", "min_intra_species_ani": "95.26", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.81", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCA_017548275.1", "gtdb_species": "s__Prevotella sp017548275", "ani": 78.2243, "matched_fragments": 305, "total_fragments": 1070, "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_002350805.1", "gtdb_species": "s__Prevotella sp002350805", "ani": 78.1702, "matched_fragments": 178, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "97.51", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.79", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_900317305.1", "gtdb_species": "s__Prevotella sp900317305", "ani": 78.1275, "matched_fragments": 312, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.38", "min_intra_species_ani": "97.82", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.83", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCA_902776475.1", "gtdb_species": "s__Prevotella sp902776475", "ani": 77.7876, "matched_fragments": 278, "total_fragments": 1070, "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": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016281815.1", "gtdb_species": "s__Prevotella sp016281815", "ani": 77.778, "matched_fragments": 235, "total_fragments": 1070, "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_902780635.1", "gtdb_species": "s__Prevotella sp902780635", "ani": 77.5303, "matched_fragments": 217, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.41", "min_intra_species_ani": "97.41", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_905235975.1", "gtdb_species": "s__Prevotella sp905235975", "ani": 77.5128, "matched_fragments": 171, "total_fragments": 1070, "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_900314655.1", "gtdb_species": "s__Prevotella sp900314655", "ani": 77.4514, "matched_fragments": 185, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.22", "min_intra_species_ani": "95.82", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.71", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCA_002353525.1", "gtdb_species": "s__Prevotella sp002353525", "ani": 77.1552, "matched_fragments": 161, "total_fragments": 1070, "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_905202125.1", "gtdb_species": "s__Prevotella sp900556275", "ani": 77.1228, "matched_fragments": 88, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900315075.1", "gtdb_species": "s__Prevotella sp900315075", "ani": 77.1176, "matched_fragments": 163, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.96", "min_intra_species_ani": "98.41", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_017965475.1", "gtdb_species": "s__Prevotella sp017965475", "ani": 76.8034, "matched_fragments": 133, "total_fragments": 1070, "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_902767045.1", "gtdb_species": "s__Prevotella sp902767045", "ani": 76.7785, "matched_fragments": 128, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.95", "min_intra_species_ani": "96.95", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900317685.1", "gtdb_species": "s__Prevotella sp900317685", "ani": 76.3812, "matched_fragments": 90, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.13", "min_intra_species_ani": "96.10", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.76", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCA_900548745.1", "gtdb_species": "s__Prevotella sp900548745", "ani": 76.0307, "matched_fragments": 54, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.94", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.71", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900772835.1", "gtdb_species": "s__Prevotella sp900772835", "ani": 76.0196, "matched_fragments": 91, "total_fragments": 1070, "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": "-" } ] }, "_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 sp900316685" ], "_genome_taxon": [ "uncultured", "Prevotellaceae", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Prevotella", "s__Prevotella sp900316685", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Bacteroidaceae", "Prevotella", "Prevotella", "sp900316685" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }