{ "type": "genome", "identifier": "GCF_000334195.1", "organism": "Vibrio campbellii CAIM 519 = NBRC 15631 = ATCC 25920", "title": "Vibrio campbellii CAIM 519 = NBRC 15631 = ATCC 25920", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CIAD, A.C.", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000334195.1", "bioproject": "PRJNA224116", "biosample": "SAMN02469609", "wgs_master": "AMDG00000000.1", "refseq_category": "na", "taxid": "1224742", "species_taxid": "680", "organism_name": "Vibrio campbellii CAIM 519 = NBRC 15631 = ATCC 25920", "infraspecific_name": "strain=CAIM 519", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/01/29", "asm_name": "Vc-CAIM519", "asm_submitter": "CIAD, A.C.", "gbrs_paired_asm": "GCA_000334195.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/334/195/GCF_000334195.1_Vc-CAIM519", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5076254", "genome_size_ungapped": "5076254", "gc_percent": "45.000000", "replicon_count": "0", "scaffold_count": "213", "contig_count": "213", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-11", "total_gene_count": "4781", "protein_coding_gene_count": "4465", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-01-29", "dateModified": "2013-01-29", "datePublished": "2013-01-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio campbellii CAIM 519 = NBRC 15631 = ATCC 25920" ], "sample_taxid": [ "1224742" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Hawaii" ], "sample_host_location_id": [], "data_size": "1.462 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5076254", "Number of Sequences": "213", "Longest Sequences (bp)": "173221", "N50 (bp)": "46294", "Gap Ratio (%)": "0.000039", "GCcontent (%)": "45.0", "Number of CDSs": "4572", "Average Protein Length": "302.1", "Coding Ratio (%)": "81.6", "Number of rRNAs": "4", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio campbellii", "strain": "strain=CAIM 519", "accession": "GCA_000334195.1", "taxid": 680, "species_taxid": 680, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1579, "total_fragments": 1589, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio owensii", "strain": "strain=DY05", "accession": "GCA_000817815.1", "taxid": 696485, "species_taxid": 696485, "relation_to_type": "type", "validated": true, "ani": 90.5847, "matched_fragments": 1292, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio harveyi", "strain": "strain=FDAARGOS_109", "accession": "GCA_001471575.2", "taxid": 669, "species_taxid": 669, "relation_to_type": "type", "validated": true, "ani": 89.2386, "matched_fragments": 1288, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio harveyi", "strain": "strain=NBRC 15634", "accession": "GCA_001591145.1", "taxid": 669, "species_taxid": 669, "relation_to_type": "type", "validated": true, "ani": 89.1906, "matched_fragments": 1234, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio harveyi", "strain": "strain=ATCC 14126", "accession": "GCA_001263135.1", "taxid": 669, "species_taxid": 669, "relation_to_type": "type", "validated": true, "ani": 89.1833, "matched_fragments": 1221, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio harveyi", "strain": "strain=NCTC12970", "accession": "GCA_900460165.1", "taxid": 669, "species_taxid": 669, "relation_to_type": "type", "validated": true, "ani": 89.1455, "matched_fragments": 1269, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio rotiferianus", "strain": "strain=CAIM 577", "accession": "GCA_002741985.1", "taxid": 190895, "species_taxid": 190895, "relation_to_type": "type", "validated": true, "ani": 88.9886, "matched_fragments": 1138, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio hyugaensis", "strain": "strain=090810a", "accession": "GCA_000818435.1", "taxid": 1534743, "species_taxid": 1534743, "relation_to_type": "type", "validated": true, "ani": 88.1439, "matched_fragments": 1257, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio hyugaensis", "strain": "strain=090810a", "accession": "GCA_002906655.1", "taxid": 1534743, "species_taxid": 1534743, "relation_to_type": "type", "validated": true, "ani": 88.0869, "matched_fragments": 1275, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio natriegens", "strain": "strain=14048", "accession": "GCA_024508015.1", "taxid": 691, "species_taxid": 691, "relation_to_type": "type", "validated": true, "ani": 82.3851, "matched_fragments": 754, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio aquaticus", "strain": "strain=BEI207", "accession": "GCA_003970385.1", "taxid": 2496559, "species_taxid": 2496559, "relation_to_type": "type", "validated": true, "ani": 81.0194, "matched_fragments": 474, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio tubiashii", "strain": "strain=ATCC 19109", "accession": "GCA_000222665.2", "taxid": 29498, "species_taxid": 29498, "relation_to_type": "suspected-type", "validated": true, "ani": 80.7062, "matched_fragments": 483, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio tubiashii", "strain": "strain=ATCC 19109", "accession": "GCA_000772105.1", "taxid": 29498, "species_taxid": 29498, "relation_to_type": "suspected-type", "validated": true, "ani": 80.6342, "matched_fragments": 492, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio europaeus", "strain": "strain=PP-638", "accession": "GCA_001695575.1", "taxid": 300876, "species_taxid": 300876, "relation_to_type": "type", "validated": true, "ani": 80.5713, "matched_fragments": 490, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio panuliri", "strain": "strain=JCM 19500", "accession": "GCA_009938205.1", "taxid": 1381081, "species_taxid": 1381081, "relation_to_type": "type", "validated": true, "ani": 80.5293, "matched_fragments": 378, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio panuliri", "strain": "strain=LBS 2", "accession": "GCA_008830195.1", "taxid": 1381081, "species_taxid": 1381081, "relation_to_type": "type", "validated": true, "ani": 80.5119, "matched_fragments": 385, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio fortis", "strain": "strain=LMG 21557", "accession": "GCA_024347475.1", "taxid": 212667, "species_taxid": 212667, "relation_to_type": "type", "validated": true, "ani": 80.4985, "matched_fragments": 491, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio pelagius", "strain": "strain=ATCC 25916", "accession": "GCA_024347575.1", "taxid": 28169, "species_taxid": 28169, "relation_to_type": "type", "validated": true, "ani": 80.4385, "matched_fragments": 461, "total_fragments": 1589, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002163755.1", "gtdb_species": "s__Vibrio campbellii", "ani": 99.9927, "matched_fragments": 1588, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.60", "min_intra_species_ani": "95.95", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.77", "num_clustered_genomes": 78, "status": "conclusive" }, { "accession": "GCF_000817815.1", "gtdb_species": "s__Vibrio owensii", "ani": 90.59, "matched_fragments": 1291, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.72", "min_intra_species_ani": "96.06", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.79", "num_clustered_genomes": 29, "status": "-" }, { "accession": "GCF_001591145.1", "gtdb_species": "s__Vibrio harveyi", "ani": 89.1906, "matched_fragments": 1234, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "98.53", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.89", "num_clustered_genomes": 41, "status": "-" }, { "accession": "GCF_002741985.1", "gtdb_species": "s__Vibrio rotiferianus", "ani": 88.9704, "matched_fragments": 1140, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.35", "min_intra_species_ani": "95.73", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_000400365.1", "gtdb_species": "s__Vibrio jasicida", "ani": 88.7588, "matched_fragments": 1295, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.91", "min_intra_species_ani": "97.51", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 25, "status": "-" }, { "accession": "GCF_002906655.1", "gtdb_species": "s__Vibrio hyugaensis", "ani": 88.0809, "matched_fragments": 1277, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "97.73", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_000171815.1", "gtdb_species": "s__Vibrio sp000171815", "ani": 85.8111, "matched_fragments": 998, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "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_900460535.1", "gtdb_species": "s__Vibrio parahaemolyticus", "ani": 83.6295, "matched_fragments": 969, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.33", "min_intra_species_ani": "97.74", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.76", "num_clustered_genomes": 1553, "status": "-" }, { "accession": "GCF_000808535.1", "gtdb_species": "s__Vibrio sinaloensis", "ani": 81.7105, "matched_fragments": 457, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "97.23", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_009811315.1", "gtdb_species": "s__Vibrio atypicus", "ani": 80.7985, "matched_fragments": 468, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.15", "min_intra_species_ani": "97.15", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004551525.1", "gtdb_species": "s__Vibrio ouci", "ani": 80.7492, "matched_fragments": 508, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "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_000775715.1", "gtdb_species": "s__Vibrio tubiashii_A", "ani": 80.625, "matched_fragments": 418, "total_fragments": 1589, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "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": -0.18, "cell_length": 0.215, "doubling_h": -0.527, "growth_tmp": 28.5, "optimum_tmp": 27.0, "optimum_ph": 7.4, "genome_size": 5535642.875, "gc_content": 45.104, "coding_genes": 5265.583, "rRNA16S_genes": 11.167, "tRNA_genes": 126.7, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.923, "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": [ "Vibrio", "campbellii", "CAIM", "519", "=", "NBRC", "15631", "=", "ATCC", "25920" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }