{
    "type": "genome",
    "identifier": "GCF_024347595.1",
    "organism": "Vibrio pomeroyi",
    "title": "Vibrio pomeroyi",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Laboratory of Microbiology, Division of Marine Life Science, Faculty of Fisheries Sciences, Hokkaido University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_024347595.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMD00428698",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "198832",
        "species_taxid": "198832",
        "organism_name": "Vibrio pomeroyi",
        "infraspecific_name": "strain=LMG 20537",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2022/07/13",
        "asm_name": "ASM2434759v1",
        "asm_submitter": "Laboratory of Microbiology, Division of Marine Life Science, Faculty of Fisheries Sciences, Hokkaido University",
        "gbrs_paired_asm": "GCA_024347595.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/347/595/GCF_024347595.1_ASM2434759v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "5659581",
        "genome_size_ungapped": "5659581",
        "gc_percent": "44.500000",
        "replicon_count": "2",
        "scaffold_count": "2",
        "contig_count": "2",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_024347595.1-RS_2024_10_11",
        "annotation_date": "2024-10-11",
        "total_gene_count": "4979",
        "protein_coding_gene_count": "4745",
        "non_coding_gene_count": "185",
        "pubmed_id": "34905112"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2022-07-13",
    "dateModified": "2022-07-13",
    "datePublished": "2022-07-13",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Vibrio pomeroyi"
        ],
        "sample_taxid": [
            "198832"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "1.599 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)": "5659581",
        "Number of Sequences": "2",
        "Longest Sequences (bp)": "3635862",
        "N50 (bp)": "3635862",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "44.6",
        "Number of CDSs": "4812",
        "Average Protein Length": "331.4",
        "Coding Ratio (%)": "84.5",
        "Number of rRNAs": "43",
        "Number of tRNAs": "138",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Vibrio pomeroyi",
                "strain": "strain=LMG 20537",
                "accession": "GCA_024347595.1",
                "taxid": 198832,
                "species_taxid": 198832,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1873,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Vibrio crassostreae",
                "strain": "strain=LMG 22240",
                "accession": "GCA_024347415.1",
                "taxid": 246167,
                "species_taxid": 246167,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.4319,
                "matched_fragments": 1486,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio crassostreae",
                "strain": "strain=LGP7",
                "accession": "GCA_001048535.1",
                "taxid": 246167,
                "species_taxid": 246167,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.3026,
                "matched_fragments": 1424,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio gigantis",
                "strain": "strain=LMG 22741",
                "accession": "GCA_024347515.1",
                "taxid": 296199,
                "species_taxid": 296199,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.3904,
                "matched_fragments": 1478,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio gigantis",
                "strain": "strain=LGP 13",
                "accession": "GCA_002156475.1",
                "taxid": 296199,
                "species_taxid": 296199,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.3204,
                "matched_fragments": 1424,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio celticus",
                "strain": "strain=CECT 7224",
                "accession": "GCA_024347335.1",
                "taxid": 446372,
                "species_taxid": 446372,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.7711,
                "matched_fragments": 1418,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio celticus",
                "strain": "strain=CECT 7224",
                "accession": "GCA_900089965.1",
                "taxid": 446372,
                "species_taxid": 446372,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.7275,
                "matched_fragments": 1366,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio toranzoniae",
                "strain": "strain=CECT 7225",
                "accession": "GCA_024347655.1",
                "taxid": 1194427,
                "species_taxid": 1194427,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.5354,
                "matched_fragments": 1278,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio coralliirubri",
                "strain": "strain=DSM 27495",
                "accession": "GCA_024347375.1",
                "taxid": 1516159,
                "species_taxid": 1516159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.3782,
                "matched_fragments": 1497,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio coralliirubri",
                "strain": "strain=Corallo1",
                "accession": "GCA_002156455.1",
                "taxid": 1516159,
                "species_taxid": 1516159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.3684,
                "matched_fragments": 1417,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio bathopelagicus",
                "strain": "strain=Sal10",
                "accession": "GCA_014879975.1",
                "taxid": 2777577,
                "species_taxid": 2777577,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.7782,
                "matched_fragments": 1520,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio kanaloae",
                "strain": "strain=LMG 20539",
                "accession": "GCA_024347535.1",
                "taxid": 170673,
                "species_taxid": 170673,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.7542,
                "matched_fragments": 1294,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio chagasii",
                "strain": "strain=LMG 21353",
                "accession": "GCA_024347355.1",
                "taxid": 170679,
                "species_taxid": 170679,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 88.6703,
                "matched_fragments": 1340,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio chagasii",
                "strain": "strain=LMG 21353",
                "accession": "GCA_005281815.1",
                "taxid": 170679,
                "species_taxid": 170679,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 88.5088,
                "matched_fragments": 1288,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio chagasii",
                "strain": "strain=CCUG 48643",
                "accession": "GCA_008801295.1",
                "taxid": 170679,
                "species_taxid": 170679,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 88.4871,
                "matched_fragments": 1286,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Vibrio atlanticus",
                "strain": "strain=CECT 7223",
                "accession": "GCA_900089855.1",
                "taxid": 693153,
                "species_taxid": 693153,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.3187,
                "matched_fragments": 1290,
                "total_fragments": 1885,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_013394185.1",
                "gtdb_species": "s__Vibrio sp013394185",
                "ani": 96.0824,
                "matched_fragments": 1640,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "conclusive"
            },
            {
                "accession": "GCF_000316985.1",
                "gtdb_species": "s__Vibrio sp000316985",
                "ani": 94.6426,
                "matched_fragments": 1434,
                "total_fragments": 1885,
                "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_001048535.1",
                "gtdb_species": "s__Vibrio crassostreae",
                "ani": 91.3116,
                "matched_fragments": 1423,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.86",
                "min_intra_species_ani": "96.20",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 177,
                "status": "-"
            },
            {
                "accession": "GCF_002156475.1",
                "gtdb_species": "s__Vibrio gigantis",
                "ani": 90.314,
                "matched_fragments": 1425,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.72",
                "min_intra_species_ani": "97.43",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_000272105.2",
                "gtdb_species": "s__Vibrio splendidus_I",
                "ani": 90.3097,
                "matched_fragments": 1361,
                "total_fragments": 1885,
                "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_007858795.1",
                "gtdb_species": "s__Vibrio sp007858795",
                "ani": 90.1137,
                "matched_fragments": 1409,
                "total_fragments": 1885,
                "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_000272045.2",
                "gtdb_species": "s__Vibrio crassostreae_C",
                "ani": 89.9905,
                "matched_fragments": 1411,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.007,
                "mean_intra_species_ani": "97.54",
                "min_intra_species_ani": "97.16",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 25,
                "status": "-"
            },
            {
                "accession": "GCF_002875705.1",
                "gtdb_species": "s__Vibrio sp002875705",
                "ani": 89.7231,
                "matched_fragments": 1373,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.93",
                "min_intra_species_ani": "99.66",
                "mean_intra_species_af": "0.96",
                "min_intra_species_af": "0.93",
                "num_clustered_genomes": 9,
                "status": "-"
            },
            {
                "accession": "GCF_900089765.1",
                "gtdb_species": "s__Vibrio toranzoniae",
                "ani": 89.4921,
                "matched_fragments": 1256,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.372,
                "mean_intra_species_ani": "98.37",
                "min_intra_species_ani": "97.69",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 7,
                "status": "-"
            },
            {
                "accession": "GCF_002156455.1",
                "gtdb_species": "s__Vibrio coralliirubri",
                "ani": 89.3608,
                "matched_fragments": 1418,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.2787,
                "mean_intra_species_ani": "96.55",
                "min_intra_species_ani": "95.77",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 22,
                "status": "-"
            },
            {
                "accession": "GCF_001557875.1",
                "gtdb_species": "s__Vibrio splendidus_F",
                "ani": 89.3423,
                "matched_fragments": 1411,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.50",
                "min_intra_species_ani": "97.50",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.93",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_014879975.1",
                "gtdb_species": "s__Vibrio bathopelagicus",
                "ani": 88.7712,
                "matched_fragments": 1520,
                "total_fragments": 1885,
                "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_005281815.1",
                "gtdb_species": "s__Vibrio chagasii",
                "ani": 88.5,
                "matched_fragments": 1289,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.30",
                "min_intra_species_ani": "95.30",
                "mean_intra_species_af": "0.86",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 10,
                "status": "-"
            },
            {
                "accession": "GCF_008801285.1",
                "gtdb_species": "s__Vibrio kanaloae",
                "ani": 88.452,
                "matched_fragments": 1269,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.372,
                "mean_intra_species_ani": "98.50",
                "min_intra_species_ani": "98.26",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 16,
                "status": "-"
            },
            {
                "accession": "GCF_002954585.1",
                "gtdb_species": "s__Vibrio chagasii_A",
                "ani": 87.9601,
                "matched_fragments": 1345,
                "total_fragments": 1885,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.42",
                "min_intra_species_ani": "95.44",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_001635455.1",
                "gtdb_species": "s__Vibrio sp001635455",
                "ani": 87.5089,
                "matched_fragments": 1227,
                "total_fragments": 1885,
                "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": 27.0,
        "optimum_tmp": 26.308,
        "optimum_ph": 7.4,
        "genome_size": 4870437.62,
        "gc_content": 44.906,
        "coding_genes": 4624.827,
        "rRNA16S_genes": 10.063,
        "tRNA_genes": 116.411,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.864,
        "range_salinity": 0.923,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "mesophilic_range_tmp": 0.976,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.023,
        "bacillus_cell_shape": 0.637,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.034,
        "vibrio_cell_shape": 0.327,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Vibrio",
        "pomeroyi"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}