{ "type": "genome", "identifier": "GCF_024453815.1", "organism": "Corynebacterium pseudogenitalium", "title": "Corynebacterium pseudogenitalium", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Gothenburg - CCUG", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024453815.1", "bioproject": "PRJNA224116", "biosample": "SAMN18647611", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "38303", "species_taxid": "38303", "organism_name": "Corynebacterium pseudogenitalium", "infraspecific_name": "strain=CCUG 27540", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/07/27", "asm_name": "ASM2445381v1", "asm_submitter": "University of Gothenburg - CCUG", "gbrs_paired_asm": "GCA_024453815.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/453/815/GCF_024453815.1_ASM2445381v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2389603", "genome_size_ungapped": "2389603", "gc_percent": "60.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-03-09", "total_gene_count": "2242", "protein_coding_gene_count": "2159", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-07-27", "dateModified": "2022-07-27", "datePublished": "2022-07-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium pseudogenitalium" ], "sample_taxid": [ "38303" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.673 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)": "2389603", "Number of Sequences": "1", "Longest Sequences (bp)": "2389603", "N50 (bp)": "2389603", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.7", "Number of CDSs": "2182", "Average Protein Length": "327.2", "Coding Ratio (%)": "89.6", "Number of rRNAs": "12", "Number of tRNAs": "56", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium riegelii", "strain": "strain=FDAARGOS_1114", "accession": "GCA_016728505.1", "taxid": 156976, "species_taxid": 156976, "relation_to_type": "type", "validated": true, "ani": 80.3704, "matched_fragments": 259, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium coyleae", "strain": "strain=DSM 44184", "accession": "GCA_900105505.1", "taxid": 53374, "species_taxid": 53374, "relation_to_type": "type", "validated": true, "ani": 80.0976, "matched_fragments": 299, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium coyleae", "strain": "strain=FDAARGOS 1425", "accession": "GCA_019048165.1", "taxid": 53374, "species_taxid": 53374, "relation_to_type": "type", "validated": true, "ani": 80.0742, "matched_fragments": 300, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium imitans", "strain": "strain=NCTC13015", "accession": "GCA_900187215.1", "taxid": 156978, "species_taxid": 156978, "relation_to_type": "type", "validated": true, "ani": 79.8664, "matched_fragments": 352, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium imitans", "strain": "strain=DSM 44264", "accession": "GCA_000739455.1", "taxid": 156978, "species_taxid": 156978, "relation_to_type": "type", "validated": true, "ani": 79.8046, "matched_fragments": 349, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium godavarianum", "strain": "strain=PRD07", "accession": "GCA_016785885.1", "taxid": 2054421, "species_taxid": 2054421, "relation_to_type": "type", "validated": true, "ani": 79.729, "matched_fragments": 330, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium godavarianum", "strain": "strain=LMG 29598", "accession": "GCA_007559235.1", "taxid": 2054421, "species_taxid": 2054421, "relation_to_type": "type", "validated": true, "ani": 79.5695, "matched_fragments": 332, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium haemomassiliense", "strain": "strain=Marseille-Q3615", "accession": "GCA_013978595.1", "taxid": 2754726, "species_taxid": 2754726, "relation_to_type": "type", "validated": true, "ani": 79.4891, "matched_fragments": 330, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium gottingense", "strain": "strain=DSM 103494", "accession": "GCA_003693265.1", "taxid": 2041036, "species_taxid": 2041036, "relation_to_type": "type", "validated": true, "ani": 79.3424, "matched_fragments": 312, "total_fragments": 796, "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": 79.3041, "matched_fragments": 295, "total_fragments": 796, "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": 79.2814, "matched_fragments": 286, "total_fragments": 796, "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": 79.2099, "matched_fragments": 162, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium ihumii", "strain": "strain=GD7", "accession": "GCA_000403725.2", "taxid": 1232427, "species_taxid": 1232427, "relation_to_type": "type", "validated": true, "ani": 79.1921, "matched_fragments": 289, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium lujinxingii", "strain": "strain=zg-917", "accession": "GCA_014490555.1", "taxid": 2763010, "species_taxid": 2763010, "relation_to_type": "type", "validated": true, "ani": 79.1101, "matched_fragments": 294, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium fournieri", "strain": "strain=Marseille-P2948", "accession": "GCA_900176865.1", "taxid": 1852390, "species_taxid": 1852390, "relation_to_type": "type", "validated": true, "ani": 79.0967, "matched_fragments": 282, "total_fragments": 796, "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": 78.9888, "matched_fragments": 254, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium lujinxingii", "strain": "strain=zg-917", "accession": "GCA_014267325.1", "taxid": 2763010, "species_taxid": 2763010, "relation_to_type": "type", "validated": true, "ani": 78.9475, "matched_fragments": 288, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium tuscaniense", "strain": "strain=CCUG 51321T", "accession": "GCA_008693065.1", "taxid": 302449, "species_taxid": 302449, "relation_to_type": "type", "validated": true, "ani": 78.8883, "matched_fragments": 159, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium liangguodongii", "strain": "strain=2184", "accession": "GCA_003070865.1", "taxid": 2079535, "species_taxid": 2079535, "relation_to_type": "type", "validated": true, "ani": 78.7583, "matched_fragments": 215, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium diphtheriae", "strain": "strain=NCTC11397", "accession": "GCA_001457455.1", "taxid": 1717, "species_taxid": 1717, "relation_to_type": "type", "validated": true, "ani": 78.5189, "matched_fragments": 84, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium diphtheriae", "strain": "", "accession": "GCA_902809765.1", "taxid": 1717, "species_taxid": 1717, "relation_to_type": "type", "validated": true, "ani": 78.4885, "matched_fragments": 84, "total_fragments": 796, "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": 78.4113, "matched_fragments": 144, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium phoceense", "strain": "strain=MC1", "accession": "GCA_900092335.1", "taxid": 1686286, "species_taxid": 1686286, "relation_to_type": "type", "validated": true, "ani": 78.2302, "matched_fragments": 158, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium suranareeae", "strain": "strain=N24", "accession": "GCA_002355155.1", "taxid": 2506452, "species_taxid": 2506452, "relation_to_type": "type", "validated": true, "ani": 78.0769, "matched_fragments": 80, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium diphtheriae", "strain": "strain=DSM 44123", "accession": "GCA_001913265.1", "taxid": 1717, "species_taxid": 1717, "relation_to_type": "type", "validated": true, "ani": 77.573, "matched_fragments": 77, "total_fragments": 796, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001767255.1", "gtdb_species": "s__Corynebacterium sp001767255", "ani": 97.9488, "matched_fragments": 757, "total_fragments": 796, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.41", "min_intra_species_ani": "96.75", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_001875725.1", "gtdb_species": "s__Corynebacterium sp001875725", "ani": 89.7194, "matched_fragments": 665, "total_fragments": 796, "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_001875665.1", "gtdb_species": "s__Corynebacterium sp001875665", "ani": 88.5716, "matched_fragments": 648, "total_fragments": 796, "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_016728505.1", "gtdb_species": "s__Corynebacterium riegelii", "ani": 80.3723, "matched_fragments": 258, "total_fragments": 796, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.34", "min_intra_species_ani": "97.30", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001831515.1", "gtdb_species": "s__Corynebacterium sp001831515", "ani": 79.9599, "matched_fragments": 346, "total_fragments": 796, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.57", "min_intra_species_ani": "96.57", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000739455.1", "gtdb_species": "s__Corynebacterium imitans", "ani": 79.8713, "matched_fragments": 348, "total_fragments": 796, "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_015351335.1", "gtdb_species": "s__Corynebacterium lipophilum", "ani": 79.2961, "matched_fragments": 296, "total_fragments": 796, "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": 79.2647, "matched_fragments": 287, "total_fragments": 796, "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_903645305.1", "gtdb_species": "s__Corynebacterium sp001764565", "ani": 79.2584, "matched_fragments": 275, "total_fragments": 796, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.10", "min_intra_species_ani": "98.10", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900156035.1", "gtdb_species": "s__Corynebacterium afermentans", "ani": 79.1931, "matched_fragments": 292, "total_fragments": 796, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "97.60", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_900176865.1", "gtdb_species": "s__Corynebacterium fournieri", "ani": 79.1046, "matched_fragments": 282, "total_fragments": 796, "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_014490555.1", "gtdb_species": "s__Corynebacterium sp014490555", "ani": 79.0947, "matched_fragments": 295, "total_fragments": 796, "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": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900103625.1", "gtdb_species": "s__Corynebacterium mycetoides", "ani": 78.9799, "matched_fragments": 255, "total_fragments": 796, "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_008693065.1", "gtdb_species": "s__Corynebacterium tuscaniense", "ani": 78.9155, "matched_fragments": 158, "total_fragments": 796, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "98.40", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003070865.1", "gtdb_species": "s__Corynebacterium liangguodongii", "ani": 78.7591, "matched_fragments": 215, "total_fragments": 796, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.275, "cell_length": 0.068, "doubling_h": -0.089, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 7.292, "genome_size": 2600726.0, "gc_content": 59.6, "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": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Corynebacterium", "pseudogenitalium" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }