{ "type": "genome", "identifier": "GCF_001412085.1", "organism": "Corynebacterium lowii", "title": "Corynebacterium lowii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Public Health Agency of Canada", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001412085.1", "bioproject": "PRJNA224116", "biosample": "SAMN04091594", "wgs_master": "LKEV00000000.1", "refseq_category": "reference genome", "taxid": "1544413", "species_taxid": "1544413", "organism_name": "Corynebacterium lowii", "infraspecific_name": "strain=NML 130206", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/10/23", "asm_name": "ASM141208v1", "asm_submitter": "Public Health Agency of Canada", "gbrs_paired_asm": "GCA_001412085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/412/085/GCF_001412085.1_ASM141208v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2354433", "genome_size_ungapped": "2354433", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "11", "contig_count": "11", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001412085.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "2295", "protein_coding_gene_count": "2210", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-10-23", "dateModified": "2015-10-23", "datePublished": "2015-10-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium lowii" ], "sample_taxid": [ "1544413" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "n/a" ], "sample_host_location_id": [], "data_size": "0.658 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.54, "contamination": 0.52, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2354433", "Number of Sequences": "11", "Longest Sequences (bp)": "683104", "N50 (bp)": "246851", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.9", "Number of CDSs": "2283", "Average Protein Length": "310.1", "Coding Ratio (%)": "90.2", "Number of rRNAs": "1", "Number of tRNAs": "52", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium lowii", "strain": "strain=NML 130206", "accession": "GCA_001412085.1", "taxid": 1544413, "species_taxid": 1544413, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 781, "total_fragments": 781, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium mastitidis", "strain": "strain=DSM 44356", "accession": "GCA_000375365.1", "taxid": 161890, "species_taxid": 161890, "relation_to_type": "type", "validated": true, "ani": 83.5196, "matched_fragments": 598, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium oculi", "strain": "strain=NML 130210", "accession": "GCA_001412105.1", "taxid": 1544416, "species_taxid": 1544416, "relation_to_type": "type", "validated": true, "ani": 83.104, "matched_fragments": 608, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium uberis", "strain": "strain=18M0132", "accession": "GCA_020616335.1", "taxid": 2883169, "species_taxid": 2883169, "relation_to_type": "type", "validated": true, "ani": 78.5054, "matched_fragments": 259, "total_fragments": 781, "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": 78.3078, "matched_fragments": 266, "total_fragments": 781, "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": 78.043, "matched_fragments": 227, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium vitaeruminis", "strain": "strain=DSM 20294", "accession": "GCA_000550805.1", "taxid": 38305, "species_taxid": 38305, "relation_to_type": "type", "validated": true, "ani": 77.9, "matched_fragments": 212, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium bouchesdurhonense", "strain": "strain=SN14", "accession": "GCA_900078305.2", "taxid": 1720192, "species_taxid": 1720192, "relation_to_type": "type", "validated": true, "ani": 77.7726, "matched_fragments": 173, "total_fragments": 781, "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": 77.4925, "matched_fragments": 203, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora pegani", "strain": "strain=TRM 65233", "accession": "GCA_009745975.1", "taxid": 2654637, "species_taxid": 2654637, "relation_to_type": "type", "validated": true, "ani": 76.0299, "matched_fragments": 81, "total_fragments": 781, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.52, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001412085.1", "gtdb_species": "s__Corynebacterium lowii", "ani": 100.0, "matched_fragments": 781, "total_fragments": 781, "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_000375365.1", "gtdb_species": "s__Corynebacterium mastitidis", "ani": 83.5043, "matched_fragments": 599, "total_fragments": 781, "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": 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"num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001941485.1", "gtdb_species": "s__Corynebacterium frankenforstense", "ani": 78.3078, "matched_fragments": 266, "total_fragments": 781, "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_000341345.1", "gtdb_species": "s__Corynebacterium halotolerans", "ani": 78.0275, "matched_fragments": 228, "total_fragments": 781, "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", 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"num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000835165.1", "gtdb_species": "s__Corynebacterium marinum", "ani": 77.4913, "matched_fragments": 201, "total_fragments": 781, "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", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_009745975.1", "gtdb_species": "s__Actinokineospora pegani", "ani": 76.0101, "matched_fragments": 82, "total_fragments": 781, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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": -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", "lowii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }