{ "type": "genome", "identifier": "GCF_021568315.1", "organism": "Corynebacterium uropygiale", "title": "Corynebacterium uropygiale", "description": "na", "data type": "Genome sequencing and assembly", "organization": "China CDC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_021568315.1", "bioproject": "PRJNA224116", "biosample": "SAMN24908402", "wgs_master": "JAKGSI000000000.1", "refseq_category": "reference genome", "taxid": "1775911", "species_taxid": "1775911", "organism_name": "Corynebacterium uropygiale", "infraspecific_name": "strain=JCM 32435", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/01/24", "asm_name": "ASM2156831v1", "asm_submitter": "China CDC", "gbrs_paired_asm": "GCA_021568315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/021/568/315/GCF_021568315.1_ASM2156831v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2460278", "genome_size_ungapped": "2460278", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "10", "contig_count": "10", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_021568315.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2292", "protein_coding_gene_count": "2221", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-01-24", "dateModified": "2022-01-24", "datePublished": "2022-01-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium uropygiale" ], "sample_taxid": [ "1775911" ], "sample_host_organism": [ "Anser albifrons" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany: Annerose Ziegler GbR, Bammental" ], "sample_host_location_id": [], "data_size": "0.680 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2460278", "Number of Sequences": "10", "Longest Sequences (bp)": "737286", "N50 (bp)": "515070", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.2", "Number of CDSs": "2267", "Average Protein Length": "330.4", "Coding Ratio (%)": "91.3", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium pollutisoli", "strain": "strain=VDS11", "accession": "GCA_900177745.1", "taxid": 1610489, "species_taxid": 1610489, "relation_to_type": "type", "validated": true, "ani": 78.9309, "matched_fragments": 307, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium halotolerans", "strain": "strain=DSM 44683", "accession": "GCA_000688435.1", "taxid": 225326, "species_taxid": 225326, "relation_to_type": "type", "validated": true, "ani": 78.7247, "matched_fragments": 308, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium halotolerans", "strain": "strain=YIM 70093 = DSM 44683", "accession": "GCA_000341345.1", "taxid": 225326, "species_taxid": 225326, "relation_to_type": "type", "validated": true, "ani": 78.7172, "matched_fragments": 308, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium frankenforstense", "strain": "strain=ST18", "accession": "GCA_001941485.1", "taxid": 1230998, "species_taxid": 1230998, "relation_to_type": "type", "validated": true, "ani": 78.6408, "matched_fragments": 311, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium mastitidis", "strain": "strain=DSM 44356", "accession": "GCA_000375365.1", "taxid": 161890, "species_taxid": 161890, "relation_to_type": "type", "validated": true, "ani": 78.4274, "matched_fragments": 274, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium marinum", "strain": "strain=DSM 44953", "accession": "GCA_000835165.1", "taxid": 349751, "species_taxid": 349751, "relation_to_type": "type", "validated": true, "ani": 78.3877, "matched_fragments": 269, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium marinum", "strain": "strain=CGMCC 1.6998", "accession": "GCA_014645275.1", "taxid": 349751, "species_taxid": 349751, "relation_to_type": "type", "validated": true, "ani": 78.3593, "matched_fragments": 269, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium jeddahense", "strain": "strain=JCB", "accession": "GCA_000577555.1", "taxid": 1414719, "species_taxid": 1414719, "relation_to_type": "type", "validated": true, "ani": 78.1649, "matched_fragments": 207, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium ureicelerivorans", "strain": "strain=IMMIB RIV-2301", "accession": "GCA_000747315.1", "taxid": 401472, "species_taxid": 401472, "relation_to_type": "type", "validated": true, "ani": 78.1509, "matched_fragments": 152, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium afermentans subsp. lipophilum", "strain": "strain=CCUG 32105", "accession": "GCA_015351335.1", "taxid": 144184, "species_taxid": 38286, "relation_to_type": "type", "validated": true, "ani": 77.7811, "matched_fragments": 182, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium otitidis", "strain": "strain=ATCC 51513", "accession": "GCA_000296405.1", "taxid": 29321, "species_taxid": 29321, "relation_to_type": "type", "validated": true, "ani": 77.6419, "matched_fragments": 237, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium jeikeium", "strain": "strain=ATCC 43734", "accession": "GCA_000163435.1", "taxid": 38289, "species_taxid": 38289, "relation_to_type": "suspected-type", "validated": true, "ani": 77.4272, "matched_fragments": 131, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium jeikeium", "strain": "strain=ATCC 43734", "accession": "GCA_001999385.1", "taxid": 38289, "species_taxid": 38289, "relation_to_type": "suspected-type", "validated": true, "ani": 77.2821, "matched_fragments": 131, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium jeikeium", "strain": "strain=NCTC11913", "accession": "GCA_900461185.1", "taxid": 38289, "species_taxid": 38289, "relation_to_type": "suspected-type", "validated": true, "ani": 77.2452, "matched_fragments": 134, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gordonia phthalatica", "strain": "strain=QH-11", "accession": "GCA_001305675.1", "taxid": 1136941, "species_taxid": 1136941, "relation_to_type": "type", "validated": true, "ani": 76.8331, "matched_fragments": 120, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Demequina soli", "strain": "strain=NBRC 109394", "accession": "GCA_000971195.1", "taxid": 1638987, "species_taxid": 1638987, "relation_to_type": "type", "validated": true, "ani": 76.1469, "matched_fragments": 90, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium ihuae", "strain": "strain=CV3", "accession": "GCA_900184225.1", "taxid": 1631743, "species_taxid": 1631743, "relation_to_type": "type", "validated": true, "ani": 76.0677, "matched_fragments": 88, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides humilatus", "strain": "strain=BN130099", "accession": "GCA_008373755.1", "taxid": 2607660, "species_taxid": 2607660, "relation_to_type": "type", "validated": true, "ani": 75.8186, "matched_fragments": 81, "total_fragments": 815, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900177745.1", "gtdb_species": "s__Corynebacterium pollutisoli", "ani": 78.9451, "matched_fragments": 306, "total_fragments": 815, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.83", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000819445.1", "gtdb_species": "s__Corynebacterium humireducens", "ani": 78.8623, "matched_fragments": 310, "total_fragments": 815, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "97.60", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000550805.1", "gtdb_species": "s__Corynebacterium vitaeruminis", "ani": 78.7516, "matched_fragments": 289, "total_fragments": 815, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.60", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000341345.1", "gtdb_species": "s__Corynebacterium halotolerans", "ani": 78.7172, "matched_fragments": 308, "total_fragments": 815, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "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": "GCF_001941485.1", "gtdb_species": "s__Corynebacterium frankenforstense", "ani": 78.641, "matched_fragments": 311, "total_fragments": 815, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "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_000375365.1", "gtdb_species": "s__Corynebacterium mastitidis", "ani": 78.3989, "matched_fragments": 276, "total_fragments": 815, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.64", "min_intra_species_ani": "96.64", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000835165.1", "gtdb_species": "s__Corynebacterium marinum", "ani": 78.3734, "matched_fragments": 270, "total_fragments": 815, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.21", "min_intra_species_ani": "98.42", 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"status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.275, "cell_length": 0.068, "doubling_h": -0.089, "growth_tmp": 35.111, "optimum_tmp": 35.173, "optimum_ph": 7.292, "genome_size": 2639223.511, "gc_content": 59.791, "coding_genes": 2390.094, "rRNA16S_genes": 4.282, "tRNA_genes": 52.979, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.75, "facultative_respiration": 0.231, "anaerobic_respiration": 0.063, "aerobic_respiration": 0.705, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.985, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.014, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Corynebacterium", "uropygiale" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }