{ "type": "genome", "identifier": "GCF_030408815.1", "organism": "Corynebacterium freiburgense", "title": "Corynebacterium freiburgense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Bielefeld University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030408815.1", "bioproject": "PRJNA224116", "biosample": "SAMN13404522", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "556548", "species_taxid": "556548", "organism_name": "Corynebacterium freiburgense", "infraspecific_name": "strain=DSM 45254", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/07/05", "asm_name": "ASM3040881v1", "asm_submitter": "Bielefeld University", "gbrs_paired_asm": "GCA_030408815.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/408/815/GCF_030408815.1_ASM3040881v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2962293", "genome_size_ungapped": "2962293", "gc_percent": "50.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030408815.1-RS_2024_07_07", "annotation_date": "2024-07-07", "total_gene_count": "2680", "protein_coding_gene_count": "2593", "non_coding_gene_count": "70", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-07-05", "dateModified": "2023-07-05", "datePublished": "2023-07-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium freiburgense" ], "sample_taxid": [ "556548" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany: Freiburg/Breisgau" ], "sample_host_location_id": [], "data_size": "0.845 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)": "2962293", "Number of Sequences": "2", "Longest Sequences (bp)": "2948328", "N50 (bp)": "2948328", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.9", "Number of CDSs": "2635", "Average Protein Length": "322.1", "Coding Ratio (%)": "85.9", "Number of rRNAs": "15", "Number of tRNAs": "52", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium freiburgense", "strain": "strain=DSM 45254", "accession": "GCA_000428805.1", "taxid": 556548, "species_taxid": 556548, "relation_to_type": "type", "validated": true, "ani": 99.9726, "matched_fragments": 958, "total_fragments": 986, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium hindlerae", "strain": "strain=NML 93-0612", "accession": "GCA_014117265.1", "taxid": 699041, "species_taxid": 699041, "relation_to_type": "type", "validated": true, "ani": 79.7141, "matched_fragments": 57, "total_fragments": 986, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium deserti", "strain": "strain=GIMN1.010", "accession": "GCA_001277995.1", "taxid": 1408191, "species_taxid": 1408191, "relation_to_type": "type", "validated": true, "ani": 78.5916, "matched_fragments": 56, "total_fragments": 986, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium durum", "strain": "strain=DSM 45333", "accession": "GCA_013410305.1", "taxid": 61592, "species_taxid": 61592, "relation_to_type": "type", "validated": true, "ani": 78.5396, "matched_fragments": 86, "total_fragments": 986, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium canis", "strain": "strain=CCUG 58627", "accession": "GCA_007859215.1", "taxid": 679663, "species_taxid": 679663, "relation_to_type": "type", "validated": true, "ani": 78.516, "matched_fragments": 269, "total_fragments": 986, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium kalinowskii", "strain": "strain=1959", "accession": "GCA_009734385.1", "taxid": 2675216, "species_taxid": 2675216, "relation_to_type": "type", "validated": true, "ani": 78.3453, "matched_fragments": 62, "total_fragments": 986, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium belfantii", "strain": "", "accession": "GCA_900205605.1", "taxid": 2014537, "species_taxid": 2014537, "relation_to_type": "type", "validated": true, "ani": 76.7686, "matched_fragments": 53, "total_fragments": 986, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000428805.1", "gtdb_species": "s__Corynebacterium freiburgense", "ani": 99.9726, "matched_fragments": 958, "total_fragments": 986, "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_014117265.1", "gtdb_species": "s__Corynebacterium sp014117265", "ani": 79.53, "matched_fragments": 56, "total_fragments": 986, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.31", "min_intra_species_ani": "97.31", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001277995.1", "gtdb_species": "s__Corynebacterium deserti", "ani": 79.2304, "matched_fragments": 59, "total_fragments": 986, "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_009734385.1", "gtdb_species": "s__Corynebacterium sp009734385", "ani": 78.5289, "matched_fragments": 62, "total_fragments": 986, "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_007859215.1", "gtdb_species": "s__Corynebacterium canis", "ani": 78.516, "matched_fragments": 269, "total_fragments": 986, "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_013410305.1", "gtdb_species": "s__Corynebacterium durum", "ani": 78.3652, "matched_fragments": 85, "total_fragments": 986, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.07", "min_intra_species_ani": "97.26", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.275, "cell_length": 0.068, "doubling_h": -0.089, "growth_tmp": 37.0, "optimum_tmp": 35.173, "optimum_ph": 7.292, "genome_size": 2912190.5, "gc_content": 49.8, "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", "freiburgense" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }