{ "type": "genome", "identifier": "GCA_902787335.1", "organism": "uncultured Coriobacteriaceae bacterium", "title": "uncultured Coriobacteriaceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902787335.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6151389", "wgs_master": "CADAFX000000000.1", "refseq_category": "na", "taxid": "331632", "species_taxid": "331632", "organism_name": "uncultured Coriobacteriaceae bacterium", "infraspecific_name": "", "isolate": "RUG13252", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/14", "asm_name": "Rumen uncultured genome RUG13252", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/787/335/GCA_902787335.1_Rumen_uncultured_genome_RUG13252", "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": "2020-02-14", "dateModified": "2020-02-14", "datePublished": "2020-02-14", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Coriobacteriaceae bacterium" ], "sample_taxid": [ "331632" ], "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": "0.389 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 82.49, "contamination": 1.89, "strain_heterogeneity": 20.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1426298", "Number of Sequences": "250", "Longest Sequences (bp)": "27079", "N50 (bp)": "7365", "Gap Ratio (%)": "0.037440", "GCcontent (%)": "67.8", "Number of CDSs": "993", "Average Protein Length": "323.8", "Coding Ratio (%)": "67.6", "Number of rRNAs": "0", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Olsenella intestinalis", "strain": "strain=KCTC 25379", "accession": "GCA_023276655.1", "taxid": 2930083, "species_taxid": 2930083, "relation_to_type": "type", "validated": true, "ani": 97.9843, "matched_fragments": 337, "total_fragments": 344, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Olsenella phocaeensis", "strain": "strain=Marseille-P2936", "accession": "GCA_900120385.1", "taxid": 1852385, "species_taxid": 1852385, "relation_to_type": "type", "validated": true, "ani": 81.2563, "matched_fragments": 194, "total_fragments": 344, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella uli", "strain": "strain=DSM 7084", "accession": "GCA_000143845.1", "taxid": 133926, "species_taxid": 133926, "relation_to_type": "suspected-type", "validated": true, "ani": 80.9449, "matched_fragments": 191, "total_fragments": 344, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella uli", "strain": "strain=DSM 7084", "accession": "GCA_001437585.1", "taxid": 133926, "species_taxid": 133926, "relation_to_type": "suspected-type", "validated": true, "ani": 80.8436, "matched_fragments": 193, "total_fragments": 344, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermophilibacter mediterraneus", "strain": "strain=Marseille-P3256", "accession": "GCA_900119385.1", "taxid": 1871031, "species_taxid": 1871031, "relation_to_type": "type", "validated": true, "ani": 80.7478, "matched_fragments": 194, "total_fragments": 344, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella urininfantis", "strain": "strain=Marseille-P3197", "accession": "GCA_900155635.1", "taxid": 1871033, "species_taxid": 1871033, "relation_to_type": "type", "validated": true, "ani": 80.4003, "matched_fragments": 161, "total_fragments": 344, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella massiliensis", "strain": "strain=SIT9", "accession": "GCA_001457795.1", "taxid": 1622075, "species_taxid": 1622075, "relation_to_type": "type", "validated": true, "ani": 79.8916, "matched_fragments": 175, "total_fragments": 344, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 82.49, "contamination": 1.89, "strain_heterogeneity": 20.0 }, "gtdb_result": [ { "accession": "GCA_902780325.1", "gtdb_species": "s__Parafannyhessea sp902787335", "ani": 98.0501, "matched_fragments": 283, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Parafannyhessea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.70", "min_intra_species_ani": "97.32", "mean_intra_species_af": "0.78", "min_intra_species_af": "0.75", "num_clustered_genomes": 9, "status": "conclusive" }, { "accession": "GCA_017941585.1", "gtdb_species": "s__Parafannyhessea sp017941585", "ani": 83.011, "matched_fragments": 224, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Parafannyhessea", "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": "GCF_900111255.1", "gtdb_species": "s__Parafannyhessea umbonata_A", "ani": 82.2639, "matched_fragments": 227, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Parafannyhessea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.32", "min_intra_species_ani": "99.30", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_003862195.1", "gtdb_species": "s__Parafannyhessea sp003862195", "ani": 82.1357, "matched_fragments": 210, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Parafannyhessea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.29", "min_intra_species_ani": "97.22", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_012844235.1", "gtdb_species": "s__Parafannyhessea sp900538935", "ani": 81.6792, "matched_fragments": 220, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Parafannyhessea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.97", "min_intra_species_ani": "96.59", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_900314575.1", "gtdb_species": "s__UBA7741 sp900314575", "ani": 81.2889, "matched_fragments": 192, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__UBA7741", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.08", "min_intra_species_ani": "98.17", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900120385.1", "gtdb_species": "s__Olsenella_I phocaeensis", "ani": 81.2662, "matched_fragments": 192, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Olsenella_I", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.88", "min_intra_species_ani": "97.64", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014982725.1", "gtdb_species": "s__Thermophilibacter sp014982725", "ani": 81.218, "matched_fragments": 187, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Thermophilibacter", "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_905214865.1", "gtdb_species": "s__Olsenella_H sp905214865", "ani": 80.9868, "matched_fragments": 199, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Olsenella_H", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000143845.1", "gtdb_species": "s__Olsenella uli", "ani": 80.9422, "matched_fragments": 192, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Olsenella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.32", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_900105025.1", "gtdb_species": "s__Parafannyhessea umbonata", "ani": 80.8806, "matched_fragments": 208, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Parafannyhessea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.62", "min_intra_species_ani": "95.16", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.79", "num_clustered_genomes": 34, "status": "-" }, { "accession": "GCF_900119385.1", "gtdb_species": "s__Thermophilibacter mediterraneus", "ani": 80.715, "matched_fragments": 195, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Thermophilibacter", "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_902777325.1", "gtdb_species": "s__UBA1367 sp902777325", "ani": 80.4278, "matched_fragments": 190, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__UBA1367", "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_019116265.1", "gtdb_species": "s__Thermophilibacter stercoravium", "ani": 80.3829, "matched_fragments": 166, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Thermophilibacter", "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": "GCF_001457795.1", "gtdb_species": "s__Olsenella_F massiliensis", "ani": 79.9098, "matched_fragments": 174, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Olsenella_F", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.66", "min_intra_species_ani": "97.33", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902779675.1", "gtdb_species": "s__UBA1367 sp902779675", "ani": 79.7935, "matched_fragments": 190, "total_fragments": 344, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__UBA1367", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.95", "min_intra_species_ani": "97.30", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.82", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.435, "cell_length": 0.089, "doubling_h": null, "growth_tmp": 36.125, "optimum_tmp": 36.142, "optimum_ph": 7.233, "genome_size": 2293139.966, "gc_content": 61.955, "coding_genes": 1736.778, "rRNA16S_genes": 2.0, "tRNA_genes": 50.333, "gram_stain": 1.0, "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": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Actinomycetota", "c__Coriobacteriia", "o__Coriobacteriales", "f__Atopobiaceae", "g__Parafannyhessea", "s__Parafannyhessea intestinalis" ], "_genome_taxon": [ "uncultured", "Coriobacteriaceae", "bacterium", "d__Bacteria", "p__Actinomycetota", "c__Coriobacteriia", "o__Coriobacteriales", "f__Atopobiaceae", "g__Parafannyhessea", "s__Parafannyhessea intestinalis", "Bacteria", "Actinomycetota", "Coriobacteriia", "Coriobacteriales", "Atopobiaceae", "Parafannyhessea", "Parafannyhessea", "intestinalis" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }