{ "type": "genome", "identifier": "GCF_006334925.1", "organism": "Corynebacterium tapiri", "title": "Corynebacterium tapiri", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese center for disease control and prevention", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006334925.1", "bioproject": "PRJNA224116", "biosample": "SAMN11928016", "wgs_master": "VDHJ00000000.1", "refseq_category": "reference genome", "taxid": "1448266", "species_taxid": "1448266", "organism_name": "Corynebacterium tapiri", "infraspecific_name": "strain=LMG 28165", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/06/12", "asm_name": "ASM633492v1", "asm_submitter": "Chinese center for disease control and prevention", "gbrs_paired_asm": "GCA_006334925.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/334/925/GCF_006334925.1_ASM633492v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2253722", "genome_size_ungapped": "2253722", "gc_percent": "62.500000", "replicon_count": "0", "scaffold_count": "40", "contig_count": "40", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006334925.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "2128", "protein_coding_gene_count": "2059", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-06-12", "dateModified": "2019-06-12", "datePublished": "2019-06-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium tapiri" ], "sample_taxid": [ "1448266" ], "sample_host_organism": [ "tapir" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Austria: Vienna" ], "sample_host_location_id": [], "data_size": "0.638 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)": "2253722", "Number of Sequences": "40", "Longest Sequences (bp)": "319706", "N50 (bp)": "178663", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.3", "Number of CDSs": "2082", "Average Protein Length": "330.2", "Coding Ratio (%)": "91.5", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium tapiri", "strain": "strain=LMG 28165", "accession": "GCA_006334925.1", "taxid": 1448266, "species_taxid": 1448266, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 731, "total_fragments": 732, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium doosanense", "strain": "strain=DSM 45436", "accession": "GCA_000372245.1", "taxid": 1121358, "species_taxid": 1121358, "relation_to_type": "type", "validated": true, "ani": 78.7224, "matched_fragments": 317, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium doosanense", "strain": "strain=CAU 212", "accession": "GCA_000767055.1", "taxid": 1121358, "species_taxid": 1121358, "relation_to_type": "type", "validated": true, "ani": 78.6833, "matched_fragments": 318, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium uterequi", "strain": "strain=DSM 45634", "accession": "GCA_001021065.1", "taxid": 1072256, "species_taxid": 1072256, "relation_to_type": "type", "validated": true, "ani": 78.664, "matched_fragments": 236, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium maris", "strain": "strain=DSM 45190", "accession": "GCA_000442645.1", "taxid": 575200, "species_taxid": 575200, "relation_to_type": "type", "validated": true, "ani": 78.6393, "matched_fragments": 246, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium humireducens", "strain": "strain=NBRC 106098", "accession": "GCA_001571025.1", "taxid": 1223514, "species_taxid": 1223514, "relation_to_type": "type", "validated": true, "ani": 78.6043, "matched_fragments": 230, "total_fragments": 732, "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": 78.5342, "matched_fragments": 272, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium massiliense", "strain": "strain=DSM 45435", "accession": "GCA_000420605.1", "taxid": 441501, "species_taxid": 441501, "relation_to_type": "type", "validated": true, "ani": 78.4928, "matched_fragments": 187, "total_fragments": 732, "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": 78.3168, "matched_fragments": 189, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium mycetoides", "strain": "strain=DSM 20632", "accession": "GCA_900103625.1", "taxid": 38302, "species_taxid": 38302, "relation_to_type": "type", "validated": true, "ani": 78.2788, "matched_fragments": 196, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium testudinoris", "strain": "strain=DSM 44614", "accession": "GCA_001021045.1", "taxid": 136857, "species_taxid": 136857, "relation_to_type": "type", "validated": true, "ani": 78.1789, "matched_fragments": 183, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium tuberculostearicum", "strain": "strain=DSM 44922", "accession": "GCA_013408445.1", "taxid": 38304, "species_taxid": 38304, "relation_to_type": "type", "validated": true, "ani": 78.0291, "matched_fragments": 156, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium tuberculostearicum", "strain": "strain=FDAARGOS_1117", "accession": "GCA_016728365.1", "taxid": 38304, "species_taxid": 38304, "relation_to_type": "type", "validated": true, "ani": 78.0071, "matched_fragments": 155, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium lowii", "strain": "strain=NML 130206", "accession": "GCA_001412085.1", "taxid": 1544413, "species_taxid": 1544413, "relation_to_type": "type", "validated": true, "ani": 77.881, "matched_fragments": 146, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium aquatimens", "strain": "strain=DSM 45632", "accession": "GCA_015752125.1", "taxid": 1190508, "species_taxid": 1190508, "relation_to_type": "type", "validated": true, "ani": 77.532, "matched_fragments": 138, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium crudilactis", "strain": "strain=JZ16", "accession": "GCA_001643015.1", "taxid": 1652495, "species_taxid": 1652495, "relation_to_type": "type", "validated": true, "ani": 77.2933, "matched_fragments": 69, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis lurida", "strain": "strain=DSM 43134", "accession": "GCA_900105055.1", "taxid": 31959, "species_taxid": 31959, "relation_to_type": "type", "validated": true, "ani": 76.2749, "matched_fragments": 63, "total_fragments": 732, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006334925.1", "gtdb_species": "s__Corynebacterium tapiri", "ani": 100.0, "matched_fragments": 731, "total_fragments": 732, "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": "conclusive" }, { "accession": "GCF_003065405.1", "gtdb_species": "s__Corynebacterium yudongzhengii", "ani": 78.7652, "matched_fragments": 271, "total_fragments": 732, "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_001021065.1", "gtdb_species": "s__Corynebacterium uterequi", "ani": 78.7006, "matched_fragments": 234, "total_fragments": 732, "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_000767055.1", "gtdb_species": "s__Corynebacterium doosanense", "ani": 78.6833, "matched_fragments": 318, "total_fragments": 732, "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_000442645.1", "gtdb_species": "s__Corynebacterium maris", "ani": 78.6226, "matched_fragments": 247, "total_fragments": 732, "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_001807265.1", "gtdb_species": "s__Corynebacterium sp001807265", "ani": 78.5547, "matched_fragments": 197, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.96", "min_intra_species_ani": "97.96", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000341345.1", "gtdb_species": "s__Corynebacterium halotolerans", "ani": 78.5488, "matched_fragments": 271, "total_fragments": 732, "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_000819445.1", "gtdb_species": "s__Corynebacterium humireducens", "ani": 78.4987, "matched_fragments": 235, "total_fragments": 732, "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_000420605.1", "gtdb_species": "s__Corynebacterium massiliense", "ani": 78.4928, "matched_fragments": 187, "total_fragments": 732, "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_000577555.1", "gtdb_species": "s__Corynebacterium jeddahense", "ani": 78.3379, "matched_fragments": 189, "total_fragments": 732, "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_900103625.1", "gtdb_species": "s__Corynebacterium mycetoides", "ani": 78.2788, "matched_fragments": 196, "total_fragments": 732, "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_001021045.1", "gtdb_species": "s__Corynebacterium testudinoris", "ani": 78.1789, "matched_fragments": 183, "total_fragments": 732, "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_013408445.1", "gtdb_species": "s__Corynebacterium tuberculostearicum", "ani": 78.0071, "matched_fragments": 157, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 96.3332, "mean_intra_species_ani": "98.29", "min_intra_species_ani": "96.59", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001412085.1", "gtdb_species": "s__Corynebacterium lowii", "ani": 77.9294, "matched_fragments": 144, "total_fragments": 732, "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": "GCA_012838985.1", "gtdb_species": "s__Corynebacterium sp012838985", "ani": 77.7537, "matched_fragments": 186, "total_fragments": 732, "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": "GCA_900539985.1", "gtdb_species": "s__Corynebacterium sp900539985", "ani": 77.6791, "matched_fragments": 143, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001643015.1", "gtdb_species": "s__Corynebacterium crudilactis", "ani": 77.3293, "matched_fragments": 68, "total_fragments": 732, "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_900105055.1", "gtdb_species": "s__Amycolatopsis lurida", "ani": 76.2749, "matched_fragments": 63, "total_fragments": 732, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.56", "min_intra_species_ani": "95.13", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "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": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "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", "tapiri" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }