{ "type": "genome", "identifier": "GCA_022787765.1", "organism": "[Ruminococcus] torques", "title": "[Ruminococcus] torques", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "AAFC", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022787765.1", "bioproject": "PRJNA629856", "biosample": "SAMN26927401", "wgs_master": "JALFWM000000000.1", "refseq_category": "na", "taxid": "33039", "species_taxid": "33039", "organism_name": "[Ruminococcus] torques", "infraspecific_name": "", "isolate": "SUG1075", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/01", "asm_name": "ASM2278776v1", "submitter": "AAFC", "gbrs_paired_asm": "GCF_022787765.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/787/765/GCA_022787765.1_ASM2278776v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-01", "dateModified": "2022-04-01", "datePublished": "2022-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "[Ruminococcus] torques" ], "sample_taxid": [ "33039" ], "sample_host_organism": [ "Sus scrofa domesticus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada:Lacombe" ], "sample_host_location_id": [], "data_size": "0.685 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2427147", "Number of Sequences": "51", "Longest Sequences (bp)": "208414", "N50 (bp)": "83631", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "41.9", "Number of CDSs": "2132", "Average Protein Length": "335.2", "Coding Ratio (%)": "88.3", "Number of rRNAs": "0", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "[Ruminococcus] torques", "strain": "strain=ATCC 27756", "accession": "GCA_000153925.1", "taxid": 33039, "species_taxid": 33039, "relation_to_type": "type", "validated": true, "ani": 99.5839, "matched_fragments": 735, "total_fragments": 785, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "[Ruminococcus] gnavus", "strain": "strain=ATCC 29149", "accession": "GCA_025152275.1", "taxid": 33038, "species_taxid": 33038, "relation_to_type": "type", "validated": true, "ani": 78.8665, "matched_fragments": 174, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mediterraneibacter catenae", "strain": "strain=SW178", "accession": "GCA_008691045.1", "taxid": 2594882, "species_taxid": 2594882, "relation_to_type": "type", "validated": true, "ani": 78.4601, "matched_fragments": 196, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] gnavus", "strain": "strain=JCM6515", "accession": "GCA_008121495.1", "taxid": 33038, "species_taxid": 33038, "relation_to_type": "suspected-type", "validated": true, "ani": 78.444, "matched_fragments": 171, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] gnavus", "strain": "strain=ATCC 29149", "accession": "GCA_002959615.1", "taxid": 33038, "species_taxid": 33038, "relation_to_type": "suspected-type", "validated": true, "ani": 78.4253, "matched_fragments": 170, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] gnavus", "strain": "strain=ATCC 29149", "accession": "GCA_000169475.1", "taxid": 33038, "species_taxid": 33038, "relation_to_type": "suspected-type", "validated": true, "ani": 78.4136, "matched_fragments": 174, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] lactaris", "strain": "strain=ATCC 29176", "accession": "GCA_025152405.1", "taxid": 46228, "species_taxid": 46228, "relation_to_type": "type", "validated": true, "ani": 78.1615, "matched_fragments": 167, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] lactaris", "strain": "strain=ATCC 29176", "accession": "GCA_000155205.1", "taxid": 46228, "species_taxid": 46228, "relation_to_type": "type", "validated": true, "ani": 78.0985, "matched_fragments": 165, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dorea formicigenerans", "strain": "strain=ATCC 27755", "accession": "GCA_025150245.1", "taxid": 39486, "species_taxid": 39486, "relation_to_type": "suspected-type", "validated": true, "ani": 77.4422, "matched_fragments": 89, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Muricomes intestini", "strain": "strain=DSM 29489", "accession": "GCA_004346165.1", "taxid": 1796634, "species_taxid": 1796634, "relation_to_type": "type", "validated": true, "ani": 77.4394, "matched_fragments": 87, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dorea formicigenerans", "strain": "strain=ATCC 27755", "accession": "GCA_000169235.1", "taxid": 39486, "species_taxid": 39486, "relation_to_type": "suspected-type", "validated": true, "ani": 77.4175, "matched_fragments": 87, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hominisplanchenecus faecis", "strain": "strain=CLA-AA-H246", "accession": "GCA_020687205.1", "taxid": 2885351, "species_taxid": 2885351, "relation_to_type": "type", "validated": true, "ani": 77.0233, "matched_fragments": 57, "total_fragments": 785, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000153925.1", "gtdb_species": "s__Mediterraneibacter torques", "ani": 99.5839, "matched_fragments": 735, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "99.19", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.82", "num_clustered_genomes": 25, "status": "conclusive" }, { "accession": "GCA_900556835.1", "gtdb_species": "s__Faecalimonas sp900556835", "ani": 87.7457, "matched_fragments": 117, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas", "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_905209865.1", "gtdb_species": "s__Mediterraneibacter sp900752395", "ani": 84.4725, "matched_fragments": 453, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.94", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018228665.1", "gtdb_species": "s__UBA9414 sp003458885", "ani": 79.2125, "matched_fragments": 110, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UBA9414", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.84", "min_intra_species_ani": "97.84", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002159505.1", "gtdb_species": "s__Mediterraneibacter ornithocaccae", "ani": 78.5046, "matched_fragments": 201, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.93", "min_intra_species_ani": "97.52", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_008121495.1", "gtdb_species": "s__Ruminococcus_B gnavus", "ani": 78.4209, "matched_fragments": 172, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ruminococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.58", "min_intra_species_ani": "96.13", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.66", "num_clustered_genomes": 102, "status": "-" }, { "accession": "GCA_019113645.1", "gtdb_species": "s__Mediterraneibacter vanvlietii", "ani": 78.3443, "matched_fragments": 176, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.04", "min_intra_species_ani": "97.81", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_016902345.1", "gtdb_species": "s__Mediterraneibacter glycyrrhizinilyticus_A", "ani": 78.2087, "matched_fragments": 137, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "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_000155205.1", "gtdb_species": "s__Mediterraneibacter lactaris", "ani": 78.0985, "matched_fragments": 165, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.88", "min_intra_species_ani": "98.36", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.80", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCA_001312505.1", "gtdb_species": "s__Mediterraneibacter faecis", "ani": 78.0087, "matched_fragments": 155, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.72", "min_intra_species_ani": "95.03", "mean_intra_species_af": "0.76", "min_intra_species_af": "0.67", "num_clustered_genomes": 61, "status": "-" }, { "accession": "GCA_019120075.1", "gtdb_species": "s__Mediterraneibacter excrementigallinarum_A", "ani": 77.8769, "matched_fragments": 130, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.40", "min_intra_species_ani": "96.45", "mean_intra_species_af": "0.78", "min_intra_species_af": "0.77", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019116885.1", "gtdb_species": "s__Mediterraneibacter pullistercoris", "ani": 77.7033, "matched_fragments": 166, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "99.20", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_019120575.1", "gtdb_species": "s__Mediterraneibacter quadrami", "ani": 77.6864, "matched_fragments": 145, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "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_019119745.1", "gtdb_species": "s__Mediterraneibacter gallistercoris", "ani": 77.4954, "matched_fragments": 165, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "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_019118885.1", "gtdb_species": "s__Mediterraneibacter surreyensis", "ani": 77.3867, "matched_fragments": 179, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.76", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019119675.1", "gtdb_species": "s__Mediterraneibacter faecipullorum", "ani": 77.3569, "matched_fragments": 168, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "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_019116845.1", "gtdb_species": "s__Mediterraneibacter stercoravium", "ani": 76.9122, "matched_fragments": 107, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.54", "min_intra_species_ani": "97.95", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019117305.1", "gtdb_species": "s__Mediterraneibacter merdigallinarum", "ani": 76.598, "matched_fragments": 115, "total_fragments": 785, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 38.2, "optimum_ph": null, "genome_size": 3191112.25, "gc_content": 41.07, "coding_genes": 2798.0, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "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": 0.0, "coccus_cell_shape": 1.0, "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__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Mediterraneibacter", "s__Mediterraneibacter torques" ], "_genome_taxon": [ "[Ruminococcus]", "torques", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Mediterraneibacter", "s__Mediterraneibacter torques", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "Mediterraneibacter", "Mediterraneibacter", "torques" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }