{ "type": "genome", "identifier": "GCF_008693105.1", "organism": "Corynebacterium flavescens", "title": "Corynebacterium flavescens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Gothenburg - CCUG", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008693105.1", "bioproject": "PRJNA224116", "biosample": "SAMN12771119", "wgs_master": "VXKK00000000.1", "refseq_category": "na", "taxid": "28028", "species_taxid": "28028", "organism_name": "Corynebacterium flavescens", "infraspecific_name": "strain=CCUG 28791T", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/09/24", "asm_name": "ASM869310v1", "asm_submitter": "University of Gothenburg - CCUG", "gbrs_paired_asm": "GCA_008693105.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/693/105/GCF_008693105.1_ASM869310v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2696142", "genome_size_ungapped": "2696142", "gc_percent": "60.000000", "replicon_count": "0", "scaffold_count": "46", "contig_count": "46", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008693105.1-RS_2024_05_17", "annotation_date": "2024-05-17", "total_gene_count": "2511", "protein_coding_gene_count": "2402", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-09-24", "dateModified": "2019-09-24", "datePublished": "2019-09-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium flavescens" ], "sample_taxid": [ "28028" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Missing" ], "sample_host_location_id": [], "data_size": "0.768 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)": "2696142", "Number of Sequences": "46", "Longest Sequences (bp)": "297759", "N50 (bp)": "144965", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.0", "Number of CDSs": "2497", "Average Protein Length": "320.7", "Coding Ratio (%)": "89.1", "Number of rRNAs": "2", "Number of tRNAs": "53", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium flavescens", "strain": "strain=CCUG 28791T", "accession": "GCA_008693105.1", "taxid": 28028, "species_taxid": 28028, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 877, "total_fragments": 877, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium flavescens", "strain": "strain=OJ8", "accession": "GCA_001941465.1", "taxid": 28028, "species_taxid": 28028, "relation_to_type": "type", "validated": true, "ani": 99.9734, "matched_fragments": 868, "total_fragments": 877, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium flavescens", "strain": "strain=NBRC 14136", "accession": "GCA_006539465.1", "taxid": 28028, "species_taxid": 28028, "relation_to_type": "type", "validated": true, "ani": 99.9206, "matched_fragments": 826, "total_fragments": 877, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium striatum", "strain": "strain=FDAARGOS_1054", "accession": "GCA_016403285.1", "taxid": 43770, "species_taxid": 43770, "relation_to_type": "type", "validated": true, "ani": 78.7255, "matched_fragments": 298, "total_fragments": 877, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium striatum", "strain": "strain=NBRC 15291", "accession": "GCA_006538485.1", "taxid": 43770, "species_taxid": 43770, "relation_to_type": "type", "validated": true, "ani": 78.7078, "matched_fragments": 298, "total_fragments": 877, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium aurimucosum", "strain": "strain=DSM 44532", "accession": "GCA_024138775.1", "taxid": 169292, "species_taxid": 169292, "relation_to_type": "suspected-type", "validated": true, "ani": 78.3395, "matched_fragments": 303, "total_fragments": 877, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium aurimucosum", "strain": "strain=FDAARGOS_1109", "accession": "GCA_016728705.1", "taxid": 169292, "species_taxid": 169292, "relation_to_type": "suspected-type", "validated": true, "ani": 78.2919, "matched_fragments": 308, "total_fragments": 877, "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": 78.2166, "matched_fragments": 262, "total_fragments": 877, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium lizhenjunii", "strain": "strain=ZJ-599", "accession": "GCA_011038655.2", "taxid": 2709394, "species_taxid": 2709394, "relation_to_type": "type", "validated": true, "ani": 77.9023, "matched_fragments": 178, "total_fragments": 877, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_008693105.1", "gtdb_species": "s__Corynebacterium flavescens", "ani": 100.0, "matched_fragments": 877, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.46", "min_intra_species_ani": "98.96", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCF_000159135.1", "gtdb_species": "s__Corynebacterium striatum", "ani": 78.7737, "matched_fragments": 293, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "95.19", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 41, "status": "-" }, { "accession": "GCF_001586215.1", "gtdb_species": "s__Corynebacterium simulans", "ani": 78.7016, "matched_fragments": 286, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.78", "min_intra_species_ani": "97.47", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_002861385.1", "gtdb_species": "s__Corynebacterium aurimucosum_C", "ani": 78.6167, "matched_fragments": 312, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.04", "min_intra_species_ani": "96.50", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 28, "status": "-" }, { "accession": "GCF_001836165.1", "gtdb_species": "s__Corynebacterium sp001836165", "ani": 78.6102, "matched_fragments": 294, "total_fragments": 877, "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": "97.92", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900539985.1", "gtdb_species": "s__Corynebacterium sp900539985", "ani": 78.5365, "matched_fragments": 242, "total_fragments": 877, "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_000175635.1", "gtdb_species": "s__Corynebacterium tuberculostearicum_C", "ani": 78.5156, "matched_fragments": 267, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 96.3332, "mean_intra_species_ani": "96.71", "min_intra_species_ani": "96.71", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016894265.1", "gtdb_species": "s__Corynebacterium tuberculostearicum_D", "ani": 78.4919, "matched_fragments": 273, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.1108, "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_000022905.1", "gtdb_species": "s__Corynebacterium aurimucosum", "ani": 78.4754, "matched_fragments": 297, "total_fragments": 877, "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": 3, "status": "-" }, { "accession": "GCF_016728705.1", "gtdb_species": "s__Corynebacterium sp001807205", "ani": 78.2919, "matched_fragments": 308, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.15", "min_intra_species_ani": "96.83", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_900092335.1", "gtdb_species": "s__Corynebacterium phoceense", "ani": 78.2308, "matched_fragments": 261, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.96", "min_intra_species_ani": "96.08", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_011038655.2", "gtdb_species": "s__Corynebacterium lizhenjunii", "ani": 77.9023, "matched_fragments": 178, "total_fragments": 877, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "98.69", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_903645305.1", "gtdb_species": "s__Corynebacterium sp001764565", "ani": 77.2304, "matched_fragments": 118, "total_fragments": 877, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.275, "cell_length": 0.068, "doubling_h": -0.089, "growth_tmp": 30.5, "optimum_tmp": 35.173, "optimum_ph": 7.292, "genome_size": 2735714.6, "gc_content": 59.939, "coding_genes": 2296.5, "rRNA16S_genes": 5.0, "tRNA_genes": 53.0, "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", "flavescens" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }