{ "type": "genome", "identifier": "GCF_000474215.1", "organism": "Edwardsiella hoshinae NBRC 105699 = ATCC 33379", "title": "Edwardsiella hoshinae NBRC 105699 = ATCC 33379", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000474215.1", "bioproject": "PRJNA224116", "biosample": "SAMD00041802", "wgs_master": "BAUC00000000.1", "refseq_category": "na", "taxid": "1216966", "species_taxid": "93378", "organism_name": "Edwardsiella hoshinae NBRC 105699 = ATCC 33379", "infraspecific_name": "strain=NBRC 105699", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/10/11", "asm_name": "ASM47421v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_000474215.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/474/215/GCF_000474215.1_ASM47421v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3706608", "genome_size_ungapped": "3706608", "gc_percent": "57.000000", "replicon_count": "0", "scaffold_count": "110", "contig_count": "110", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000474215.1-RS_2024_08_08", "annotation_date": "2024-08-08", "total_gene_count": "3446", "protein_coding_gene_count": "3298", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-10-11", "dateModified": "2013-10-11", "datePublished": "2013-10-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Edwardsiella hoshinae NBRC 105699 = ATCC 33379" ], "sample_taxid": [ "1216966" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.058 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.96, "contamination": 0.46, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3706608", "Number of Sequences": "110", "Longest Sequences (bp)": "235505", "N50 (bp)": "108638", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.8", "Number of CDSs": "3333", "Average Protein Length": "311.9", "Coding Ratio (%)": "84.1", "Number of rRNAs": "3", "Number of tRNAs": "58", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Edwardsiella hoshinae", "strain": "strain=NBRC 105699", "accession": "GCA_000474215.1", "taxid": 93378, "species_taxid": 93378, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1184, "total_fragments": 1186, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Edwardsiella hoshinae", "strain": "strain=FDAARGOS_940", "accession": "GCA_016026395.1", "taxid": 93378, "species_taxid": 93378, "relation_to_type": "type", "validated": true, "ani": 99.9991, "matched_fragments": 1184, "total_fragments": 1186, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Edwardsiella hoshinae", "strain": "strain=NCTC12121", "accession": "GCA_900447315.1", "taxid": 93378, "species_taxid": 93378, "relation_to_type": "type", "validated": true, "ani": 99.9986, "matched_fragments": 1185, "total_fragments": 1186, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Edwardsiella tarda", "strain": "strain=NBRC 105688", "accession": "GCA_000341505.1", "taxid": 636, "species_taxid": 636, "relation_to_type": "type", "validated": true, "ani": 88.6945, "matched_fragments": 986, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Edwardsiella tarda", "strain": "strain=ATCC 15947", "accession": "GCA_003113495.2", "taxid": 636, "species_taxid": 636, "relation_to_type": "type", "validated": true, "ani": 88.6752, "matched_fragments": 1008, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Edwardsiella tarda", "strain": "strain=ATCC 15947", "accession": "GCA_000264805.1", "taxid": 636, "species_taxid": 636, "relation_to_type": "type", "validated": true, "ani": 88.6269, "matched_fragments": 915, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia nevei", "strain": "strain=S15", "accession": "GCA_008364245.1", "taxid": 2703794, "species_taxid": 2703794, "relation_to_type": "type", "validated": true, "ani": 78.585, "matched_fragments": 392, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia bockelmannii", "strain": "strain=S3", "accession": "GCA_008011855.1", "taxid": 2703793, "species_taxid": 2703793, "relation_to_type": "type", "validated": true, "ani": 78.5271, "matched_fragments": 387, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter wuhouensis", "strain": "strain=WCHEW120002", "accession": "GCA_004331265.1", "taxid": 2529381, "species_taxid": 2529381, "relation_to_type": "type", "validated": true, "ani": 78.2681, "matched_fragments": 229, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 77.7809, "matched_fragments": 257, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.46, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_000474215.1", "gtdb_species": "s__Edwardsiella hoshinae", "ani": 100.0, "matched_fragments": 1184, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Edwardsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.86", "min_intra_species_ani": "99.58", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_000341505.1", "gtdb_species": "s__Edwardsiella tarda", "ani": 88.6945, "matched_fragments": 986, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Edwardsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "97.25", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.84", "num_clustered_genomes": 19, "status": "-" }, { "accession": "GCF_001896205.1", "gtdb_species": "s__Edwardsiella piscicida", "ani": 83.3949, "matched_fragments": 872, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Edwardsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.37", "min_intra_species_ani": "99.20", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 23, "status": "-" }, { "accession": "GCF_000264765.2", "gtdb_species": "s__Edwardsiella anguillarum", "ani": 83.2828, "matched_fragments": 889, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Edwardsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.86", "min_intra_species_ani": "99.66", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.97", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_000264785.1", "gtdb_species": "s__Edwardsiella ictaluri", "ani": 82.5257, "matched_fragments": 775, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Edwardsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.74", "min_intra_species_ani": "99.41", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_000738675.1", "gtdb_species": "s__Serratia nematodiphila", "ani": 78.6965, "matched_fragments": 401, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Serratia", "ani_circumscription_radius": 96.8494, "mean_intra_species_ani": "98.32", "min_intra_species_ani": "97.66", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 85, "status": "-" }, { "accession": "GCF_002900365.1", "gtdb_species": "s__Escherichia marmotae", "ani": 78.0228, "matched_fragments": 222, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "98.77", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 82, "status": "-" }, { "accession": "GCF_007680145.1", "gtdb_species": "s__Pseudescherichia sp002298805", "ani": 78.0225, "matched_fragments": 248, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pseudescherichia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "96.56", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 13, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 29.0, "optimum_tmp": 37.0, "optimum_ph": 4.75, "genome_size": 3769633.2, "gc_content": 56.85, "coding_genes": 3224.5, "rRNA16S_genes": 9.0, "tRNA_genes": 101.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "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": [ "Edwardsiella", "hoshinae", "NBRC", "105699", "=", "ATCC", "33379" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }