{ "type": "genome", "identifier": "GCA_022781765.1", "organism": "bacterium", "title": "bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "AAFC", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022781765.1", "bioproject": "PRJNA629856", "biosample": "SAMN26525523", "wgs_master": "JALESQ000000000.1", "refseq_category": "na", "taxid": "1869227", "species_taxid": "1869227", "organism_name": "bacterium", "infraspecific_name": "", "isolate": "SUG299", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/01", "asm_name": "ASM2278176v1", "submitter": "AAFC", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/781/765/GCA_022781765.1_ASM2278176v1", "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": "2022-04-01", "dateModified": "2022-04-01", "datePublished": "2022-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "bacterium" ], "sample_taxid": [ "1869227" ], "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": "0.638 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 93.06, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2272492", "Number of Sequences": "88", "Longest Sequences (bp)": "139148", "N50 (bp)": "41985", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.6", "Number of CDSs": "2010", "Average Protein Length": "326.0", "Coding Ratio (%)": "86.5", "Number of rRNAs": "0", "Number of tRNAs": "42", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Subdoligranulum variabile", "strain": "strain=DSM 15176", "accession": "GCA_000157955.1", "taxid": 214851, "species_taxid": 214851, "relation_to_type": "type", "validated": true, "ani": 80.4584, "matched_fragments": 343, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Subdoligranulum variabile", "strain": "strain=DSM 15176", "accession": "GCA_025152575.1", "taxid": 214851, "species_taxid": 214851, "relation_to_type": "type", "validated": true, "ani": 80.4052, "matched_fragments": 349, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium gallinarum", "strain": "strain=JCM 17207", "accession": "GCA_022180365.1", "taxid": 2903556, "species_taxid": 2903556, "relation_to_type": "type", "validated": true, "ani": 78.8415, "matched_fragments": 191, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium prausnitzii", "strain": "strain=ATCC 27768", "accession": "GCA_003324185.1", "taxid": 853, "species_taxid": 853, "relation_to_type": "suspected-type", "validated": true, "ani": 78.6281, "matched_fragments": 206, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium duncaniae", "strain": "strain=JCM 31915", "accession": "GCA_010509575.1", "taxid": 411483, "species_taxid": 411483, "relation_to_type": "type", "validated": true, "ani": 78.6278, "matched_fragments": 206, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium duncaniae", "strain": "strain=A2-165", "accession": "GCA_000162015.1", "taxid": 411483, "species_taxid": 411483, "relation_to_type": "type", "validated": true, "ani": 78.5526, "matched_fragments": 208, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium hattorii", "strain": "strain=APC922/41-1", "accession": "GCA_003287455.1", "taxid": 2935520, "species_taxid": 2935520, "relation_to_type": "type", "validated": true, "ani": 78.4725, "matched_fragments": 209, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fournierella massiliensis", "strain": "strain=DSM 100451", "accession": "GCA_004345265.1", "taxid": 1650663, "species_taxid": 1650663, "relation_to_type": "type", "validated": true, "ani": 78.1684, "matched_fragments": 188, "total_fragments": 716, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 93.06, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_004561545.1", "gtdb_species": "s__Gemmiger sp004561545", "ani": 98.9046, "matched_fragments": 468, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "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": "conclusive" }, { "accession": "GCF_016900095.1", "gtdb_species": "s__Gemmiger formicilis_A", "ani": 80.8875, "matched_fragments": 412, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "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_905214345.1", "gtdb_species": "s__Gemmiger sp905214345", "ani": 80.5621, "matched_fragments": 372, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "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_019119495.1", "gtdb_species": "s__Gemmiger stercorigallinarum", "ani": 80.4509, "matched_fragments": 297, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "97.15", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.66", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000157955.1", "gtdb_species": "s__Gemmiger variabilis", "ani": 80.4473, "matched_fragments": 344, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_019119835.1", "gtdb_species": "s__Gemmiger stercoravium", "ani": 80.4262, "matched_fragments": 349, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "98.14", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003324125.1", "gtdb_species": "s__Gemmiger qucibialis", "ani": 80.092, "matched_fragments": 395, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "97.30", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.66", "num_clustered_genomes": 39, "status": "-" }, { "accession": "GCA_019120395.1", "gtdb_species": "s__Gemmiger faecigallinarum", "ani": 80.069, "matched_fragments": 320, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "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_900539695.1", "gtdb_species": "s__Gemmiger sp900539695", "ani": 79.9368, "matched_fragments": 312, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.79", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_019115045.1", "gtdb_species": "s__Gemmiger excrementipullorum", "ani": 79.8092, "matched_fragments": 300, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "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_004554775.1", "gtdb_species": "s__Gemmiger variabilis_B", "ani": 79.7457, "matched_fragments": 325, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.40", "min_intra_species_ani": "97.89", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_004552305.1", "gtdb_species": "s__Gemmiger variabilis_A", "ani": 79.5045, "matched_fragments": 271, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.82", "min_intra_species_ani": "96.59", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.70", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_019119365.1", "gtdb_species": "s__Gemmiger stercoripullorum", "ani": 79.2727, "matched_fragments": 299, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900548355.1", "gtdb_species": "s__Gemmiger avicola", "ani": 78.5385, "matched_fragments": 263, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Gemmiger", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.64", "min_intra_species_ani": "98.58", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002549775.1", "gtdb_species": "s__Faecalibacterium prausnitzii_F", "ani": 78.4847, "matched_fragments": 230, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Faecalibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", "min_intra_species_ani": "97.71", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019116345.1", "gtdb_species": "s__Fournierella merdipullorum", "ani": 78.2695, "matched_fragments": 175, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Fournierella", "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_004558805.1", "gtdb_species": "s__Faecalibacterium prausnitzii_M", "ani": 78.196, "matched_fragments": 177, "total_fragments": 716, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Faecalibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.98", "min_intra_species_ani": "97.83", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "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_A", "c__Clostridia", "o__Oscillospirales", "f__Ruminococcaceae", "g__Gemmiger", "s__Gemmiger sp004561545" ], "_genome_taxon": [ "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Oscillospirales", "f__Ruminococcaceae", "g__Gemmiger", "s__Gemmiger sp004561545", "Bacteria", "Bacillota", "A", "Clostridia", "Oscillospirales", "Ruminococcaceae", "Gemmiger", "Gemmiger", "sp004561545" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }