{ "type": "genome", "identifier": "GCA_004559565.1", "organism": "bacterium", "title": "bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of Alberta", "publication": [ {} ], "properties": { "assembly_accession": "GCA_004559565.1", "bioproject": "PRJNA494875", "biosample": "SAMN10183529", "wgs_master": "SFXW00000000.1", "refseq_category": "na", "taxid": "1869227", "species_taxid": "1869227", "organism_name": "bacterium", "infraspecific_name": "", "isolate": "W3P12.076", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/04/01", "asm_name": "ASM455956v1", "submitter": "University of Alberta", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/559/565/GCA_004559565.1_ASM455956v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-04-01", "dateModified": "2019-04-01", "datePublished": "2019-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "bacterium" ], "sample_taxid": [ "1869227" ], "sample_host_organism": [ "Sus scrofa" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada: Edmonton" ], "sample_host_location_id": [], "data_size": "0.396 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 43.98, "contamination": 12.5, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1408638", "Number of Sequences": "296", "Longest Sequences (bp)": "32819", "N50 (bp)": "5317", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.7", "Number of CDSs": "1048", "Average Protein Length": "325.3", "Coding Ratio (%)": "72.6", "Number of rRNAs": "0", "Number of tRNAs": "18", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mitsuokella jalaludinii", "strain": "strain=DSM 13811", "accession": "GCA_000702905.1", "taxid": 187979, "species_taxid": 187979, "relation_to_type": "type", "validated": true, "ani": 97.5779, "matched_fragments": 295, "total_fragments": 302, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mitsuokella multacida", "strain": "strain=DSM 20544", "accession": "GCA_000155955.1", "taxid": 52226, "species_taxid": 52226, "relation_to_type": "type", "validated": true, "ani": 90.487, "matched_fragments": 289, "total_fragments": 302, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Selenomonas montiformis", "strain": "strain=WCA-380-WT-3B3", "accession": "GCA_009697385.1", "taxid": 2652285, "species_taxid": 2652285, "relation_to_type": "type", "validated": true, "ani": 78.8228, "matched_fragments": 82, "total_fragments": 302, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Selenomonas sputigena", "strain": "strain=ATCC 35185", "accession": "GCA_000208405.1", "taxid": 69823, "species_taxid": 69823, "relation_to_type": "neotype", "validated": true, "ani": 77.6923, "matched_fragments": 102, "total_fragments": 302, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Selenomonas sputigena", "strain": "strain=ATCC 35185", "accession": "GCA_000160495.1", "taxid": 69823, "species_taxid": 69823, "relation_to_type": "neotype", "validated": true, "ani": 77.6658, "matched_fragments": 103, "total_fragments": 302, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Selenomonas felix", "strain": "strain=Marseille-P3560", "accession": "GCA_900186465.1", "taxid": 1944634, "species_taxid": 1944634, "relation_to_type": "type", "validated": true, "ani": 77.3173, "matched_fragments": 75, "total_fragments": 302, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Selenomonas infelix", "strain": "strain=ATCC 43532", "accession": "GCA_000234095.1", "taxid": 135082, "species_taxid": 135082, "relation_to_type": "type", "validated": true, "ani": 76.9197, "matched_fragments": 61, "total_fragments": 302, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 43.98, "contamination": 12.5, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000702905.1", "gtdb_species": "s__Mitsuokella jalaludinii", "ani": 97.5779, "matched_fragments": 295, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Mitsuokella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 11, "status": "conclusive" }, { "accession": "GCF_000155955.1", "gtdb_species": "s__Mitsuokella multacida", "ani": 90.487, "matched_fragments": 289, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Mitsuokella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "96.22", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900552565.1", "gtdb_species": "s__Mitsuokella sp900552565", "ani": 82.9035, "matched_fragments": 235, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Mitsuokella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "98.08", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902364065.1", "gtdb_species": "s__Mitsuokella sp003458855", "ani": 82.7478, "matched_fragments": 239, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Mitsuokella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.62", "min_intra_species_ani": "95.79", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.62", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_900315575.1", "gtdb_species": "s__Selenomonas_C sp900315575", "ani": 80.1848, "matched_fragments": 177, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Selenomonas_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "97.63", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.78", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_900318215.1", "gtdb_species": "s__Selenomonas_C sp900318215", "ani": 80.0004, "matched_fragments": 165, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Selenomonas_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "97.85", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.79", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_902780535.1", "gtdb_species": "s__Selenomonas_C sp902780535", "ani": 79.8536, "matched_fragments": 181, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Selenomonas_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.25", "min_intra_species_ani": "96.14", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.79", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000469545.1", "gtdb_species": "s__Mitsuokella sp000469545", "ani": 78.577, "matched_fragments": 140, "total_fragments": 302, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Selenomonadales;f__Selenomonadaceae;g__Mitsuokella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.87", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "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__Bacillota_C", "c__Negativicutes", "o__Selenomonadales", "f__Selenomonadaceae", "g__Mitsuokella", "s__Mitsuokella jalaludinii" ], "_genome_taxon": [ "bacterium", "d__Bacteria", "p__Bacillota_C", "c__Negativicutes", "o__Selenomonadales", "f__Selenomonadaceae", "g__Mitsuokella", "s__Mitsuokella jalaludinii", "Bacteria", "Bacillota", "C", "Negativicutes", "Selenomonadales", "Selenomonadaceae", "Mitsuokella", "Mitsuokella", "jalaludinii" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 1, "quality_label": "\u2b50\ufe0f" }