{ "type": "genome", "identifier": "GCF_030440555.1", "organism": "Corynebacterium caspium DSM 44850", "title": "Corynebacterium caspium DSM 44850", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Bielefeld University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030440555.1", "bioproject": "PRJNA224116", "biosample": "SAMN13404515", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1121355", "species_taxid": "234828", "organism_name": "Corynebacterium caspium DSM 44850", "infraspecific_name": "strain=DSM 44850", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/07/12", "asm_name": "ASM3044055v1", "asm_submitter": "Bielefeld University", "gbrs_paired_asm": "GCA_030440555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/440/555/GCF_030440555.1_ASM3044055v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1863130", "genome_size_ungapped": "1863130", "gc_percent": "49.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030440555.1-RS_2024_07_13", "annotation_date": "2024-07-13", "total_gene_count": "1691", "protein_coding_gene_count": "1614", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-07-12", "dateModified": "2023-07-12", "datePublished": "2023-07-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium caspium DSM 44850" ], "sample_taxid": [ "1121355" ], "sample_host_organism": [ "Pusa caspica" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: Inverness, Caspian sea" ], "sample_host_location_id": [], "data_size": "0.531 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)": "1863130", "Number of Sequences": "1", "Longest Sequences (bp)": "1863130", "N50 (bp)": "1863130", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.7", "Number of CDSs": "1652", "Average Protein Length": "334.9", "Coding Ratio (%)": "89.1", "Number of rRNAs": "12", "Number of tRNAs": "51", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium caspium", "strain": "strain=DSM 44850", "accession": "GCA_000379705.1", "taxid": 234828, "species_taxid": 234828, "relation_to_type": "type", "validated": true, "ani": 99.9909, "matched_fragments": 610, "total_fragments": 621, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium crudilactis", "strain": "strain=JZ16", "accession": "GCA_001643015.1", "taxid": 1652495, "species_taxid": 1652495, "relation_to_type": "type", "validated": true, "ani": 79.0141, "matched_fragments": 55, "total_fragments": 621, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium glutamicum", "strain": "strain=ATCC 13032", "accession": "GCA_000011325.1", "taxid": 1718, "species_taxid": 1718, "relation_to_type": "type", "validated": true, "ani": 79.0097, "matched_fragments": 53, "total_fragments": 621, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium glutamicum", "strain": "strain=ATCC 13032 substr. 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000344785.1", "gtdb_species": "s__Corynebacterium callunae", "ani": 78.5176, "matched_fragments": 59, "total_fragments": 621, "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_002563965.1", "gtdb_species": "s__Corynebacterium renale", "ani": 77.9725, "matched_fragments": 59, "total_fragments": 621, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "98.07", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.275, "cell_length": 0.068, "doubling_h": -0.089, "growth_tmp": 37.0, "optimum_tmp": 34.5, "optimum_ph": 7.292, "genome_size": 1843319.5, "gc_content": 49.7, "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": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "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", "caspium", "DSM", "44850" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }