{ "type": "genome", "identifier": "GCF_025822715.1", "organism": "Mycolicibacillus koreensis", "title": "Mycolicibacillus koreensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Uppsala University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025822715.1", "bioproject": "PRJNA224116", "biosample": "SAMN15568946", "wgs_master": "JACKUI000000000.1", "refseq_category": "na", "taxid": "1069220", "species_taxid": "1069220", "organism_name": "Mycolicibacillus koreensis", "infraspecific_name": "strain=DSM 45576", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/24", "asm_name": "ASM2582271v1", "asm_submitter": "Uppsala University", "gbrs_paired_asm": "GCA_025822715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/822/715/GCF_025822715.1_ASM2582271v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4090183", "genome_size_ungapped": "4090098", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "50", "contig_count": "50", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_025822715.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "4092", "protein_coding_gene_count": "3929", "non_coding_gene_count": "91", "pubmed_id": "36243697" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-10-24", "dateModified": "2022-10-24", "datePublished": "2022-10-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Mycolicibacillus koreensis" ], "sample_taxid": [ "1069220" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Seoul" ], "sample_host_location_id": [], "data_size": "1.108 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 37.0, "max": 37.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4090183", "Number of Sequences": "50", "Longest Sequences (bp)": "488344", "N50 (bp)": "195233", "Gap Ratio (%)": "0.003423", "GCcontent (%)": "69.4", "Number of CDSs": "4025", "Average Protein Length": "311.8", "Coding Ratio (%)": "92.0", "Number of rRNAs": "3", "Number of tRNAs": "88", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mycolicibacter kumamotonensis", "strain": "strain=DSM 45093", "accession": "GCA_002086285.1", "taxid": 354243, "species_taxid": 354243, "relation_to_type": "type", "validated": true, "ani": 80.8821, "matched_fragments": 753, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter senuensis", "strain": "strain=DSM 44999", "accession": "GCA_002101885.1", "taxid": 386913, "species_taxid": 386913, "relation_to_type": "type", "validated": true, "ani": 80.6756, "matched_fragments": 750, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter senuensis", "strain": "strain=JCM 16017", "accession": "GCA_010723225.1", "taxid": 386913, "species_taxid": 386913, "relation_to_type": "type", "validated": true, "ani": 80.6307, "matched_fragments": 763, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter terrae", "strain": "strain=JCM 12143", "accession": "GCA_010727125.1", "taxid": 1788, "species_taxid": 1788, "relation_to_type": "type", "validated": true, "ani": 80.5441, "matched_fragments": 720, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter kumamotonensis", "strain": "strain=CST 7247", "accession": "GCA_010093495.1", "taxid": 354243, "species_taxid": 354243, "relation_to_type": "type", "validated": true, "ani": 80.5429, "matched_fragments": 714, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter terrae", "strain": "strain=CIP 104321", "accession": "GCA_002101955.1", "taxid": 1788, "species_taxid": 1788, "relation_to_type": "type", "validated": true, "ani": 80.5399, "matched_fragments": 710, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter longobardus", "strain": "strain=DSM 45394", "accession": "GCA_002102265.1", "taxid": 1108812, "species_taxid": 1108812, "relation_to_type": "type", "validated": true, "ani": 80.4396, "matched_fragments": 748, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium fallax", "strain": "strain=DSM 44179", "accession": "GCA_002101995.1", "taxid": 1793, "species_taxid": 1793, "relation_to_type": "type", "validated": true, "ani": 80.3373, "matched_fragments": 669, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium fallax", "strain": "strain=JCM 6405", "accession": "GCA_010726955.1", "taxid": 1793, "species_taxid": 1793, "relation_to_type": "type", "validated": true, "ani": 80.3171, "matched_fragments": 683, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium thermoresistibile", "strain": "strain=NCTC10409", "accession": "GCA_900187065.1", "taxid": 1797, "species_taxid": 1797, "relation_to_type": "type", "validated": true, "ani": 80.0192, "matched_fragments": 673, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter nonchromogenicus", "strain": "strain=DSM 44164", "accession": "GCA_002101775.1", "taxid": 1782, "species_taxid": 1782, "relation_to_type": "type", "validated": true, "ani": 79.9365, "matched_fragments": 674, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium chlorophenolicum", "strain": "strain=DSM 43826", "accession": "GCA_001044235.1", "taxid": 37916, "species_taxid": 37916, "relation_to_type": "type", "validated": true, "ani": 79.9001, "matched_fragments": 661, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium chlorophenolicum", "strain": "strain=NBRC 15527", "accession": "GCA_001552315.1", "taxid": 37916, "species_taxid": 37916, "relation_to_type": "type", "validated": true, "ani": 79.8882, "matched_fragments": 659, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium thermoresistibile", "strain": "strain=ATCC 19527", "accession": "GCA_000234585.2", "taxid": 1797, "species_taxid": 1797, "relation_to_type": "type", "validated": true, "ani": 79.8778, "matched_fragments": 679, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacter hiberniae", "strain": "strain=ATCC 49874", "accession": "GCA_002101655.1", "taxid": 29314, "species_taxid": 29314, "relation_to_type": "type", "validated": true, "ani": 79.85, "matched_fragments": 669, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium thermoresistibile", "strain": "strain=JCM6362", "accession": "GCA_001570505.1", "taxid": 1797, "species_taxid": 1797, "relation_to_type": "type", "validated": true, "ani": 79.8265, "matched_fragments": 688, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium cosmeticum", "strain": "strain=DSM 44829", "accession": "GCA_005670675.1", "taxid": 258533, "species_taxid": 258533, "relation_to_type": "type", "validated": true, "ani": 79.7997, "matched_fragments": 635, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium cosmeticum", "strain": "strain=DSM 44829", "accession": "GCA_000613185.1", "taxid": 258533, "species_taxid": 258533, "relation_to_type": "type", "validated": true, "ani": 79.7835, "matched_fragments": 650, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium brumae", "strain": "strain=ATCC 51384", "accession": "GCA_025215495.1", "taxid": 85968, "species_taxid": 85968, "relation_to_type": "type", "validated": true, "ani": 79.6112, "matched_fragments": 604, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium psychrotolerans", "strain": "strain=JCM 13323", "accession": "GCA_010729305.1", "taxid": 216929, "species_taxid": 216929, "relation_to_type": "type", "validated": true, "ani": 79.3638, "matched_fragments": 631, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium kubicae", "strain": "strain=JCM 13573", "accession": "GCA_015689175.1", "taxid": 120959, "species_taxid": 120959, "relation_to_type": "type", "validated": true, "ani": 79.2426, "matched_fragments": 619, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium kubicae", "strain": "strain=CIP 106428", "accession": "GCA_002101745.1", "taxid": 120959, "species_taxid": 120959, "relation_to_type": "type", "validated": true, "ani": 79.2373, "matched_fragments": 608, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycobacterium kubicae", "strain": "strain=JCM 13573", "accession": "GCA_010723135.1", "taxid": 120959, "species_taxid": 120959, "relation_to_type": "type", "validated": true, "ani": 79.1988, "matched_fragments": 621, "total_fragments": 1341, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002104795.1", "gtdb_species": "s__Mycobacterium koreense", "ani": 99.958, "matched_fragments": 1281, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "98.84", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_001668625.1", "gtdb_species": "s__Mycobacterium sp001668625", "ani": 83.9808, "matched_fragments": 898, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_002102395.1", "gtdb_species": "s__Mycobacterium triviale", "ani": 83.7626, "matched_fragments": 929, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_004354905.1", "gtdb_species": "s__Mycobacterium eburneum", "ani": 81.4966, "matched_fragments": 822, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.68", "min_intra_species_ani": "99.68", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018455725.1", "gtdb_species": "s__Mycobacterium sp018455725", "ani": 80.8135, "matched_fragments": 752, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_002086455.1", "gtdb_species": "s__Mycobacterium algericum", "ani": 80.6931, "matched_fragments": 741, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.66", "min_intra_species_ani": "97.92", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002101885.1", "gtdb_species": "s__Mycobacterium senuense", "ani": 80.6834, "matched_fragments": 749, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_010727125.1", "gtdb_species": "s__Mycobacterium terrae", "ani": 80.5058, "matched_fragments": 725, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002102265.1", "gtdb_species": "s__Mycobacterium longobardum", "ani": 80.4516, "matched_fragments": 746, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_010726955.1", "gtdb_species": "s__Mycobacterium fallax", "ani": 80.3302, "matched_fragments": 681, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001021505.1", "gtdb_species": "s__Mycobacterium heraklionense_B", "ani": 80.1215, "matched_fragments": 716, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_003284935.1", "gtdb_species": "s__Mycobacterium arosiense_A", "ani": 80.0794, "matched_fragments": 655, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_900187065.1", "gtdb_species": "s__Mycobacterium thermoresistibile", "ani": 80.0015, "matched_fragments": 675, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.97", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000613185.1", "gtdb_species": "s__Mycobacterium cosmeticum", "ani": 79.8282, "matched_fragments": 645, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.89", "min_intra_species_ani": "98.33", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_004570325.1", "gtdb_species": "s__Mycobacterium sp004570325", "ani": 79.7274, "matched_fragments": 653, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_010731755.1", "gtdb_species": "s__Mycobacterium minnesotense", "ani": 79.5595, "matched_fragments": 615, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_015689175.1", "gtdb_species": "s__Mycobacterium kubicae", "ani": 79.2125, "matched_fragments": 623, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "97.98", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_019245755.1", "gtdb_species": "s__Mycobacterium sp019245755", "ani": 78.8762, "matched_fragments": 539, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.79", "min_intra_species_ani": "99.79", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001673155.1", "gtdb_species": "s__Mycobacterium sp001673155", "ani": 78.8254, "matched_fragments": 551, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_018401645.1", "gtdb_species": "s__Mycobacterium sp018401645", "ani": 77.7838, "matched_fragments": 340, "total_fragments": 1341, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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": 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 }, "_genome_taxon": [ "Mycolicibacillus", "koreensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }