{ "type": "genome", "identifier": "GCF_015686695.1", "organism": "Vibrio nitrifigilis", "title": "Vibrio nitrifigilis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Food Industry Research and Development Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_015686695.1", "bioproject": "PRJNA224116", "biosample": "SAMN16824175", "wgs_master": "JADPMR000000000.1", "refseq_category": "reference genome", "taxid": "2789781", "species_taxid": "2789781", "organism_name": "Vibrio nitrifigilis", "infraspecific_name": "strain=NFV-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/11/24", "asm_name": "ASM1568669v1", "asm_submitter": "Food Industry Research and Development Institute", "gbrs_paired_asm": "GCA_015686695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/015/686/695/GCF_015686695.1_ASM1568669v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5484941", "genome_size_ungapped": "5484941", "gc_percent": "42.500000", "replicon_count": "0", "scaffold_count": "12", "contig_count": "12", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_015686695.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "4954", "protein_coding_gene_count": "4692", "non_coding_gene_count": "158", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-11-24", "dateModified": "2020-11-24", "datePublished": "2020-11-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio nitrifigilis" ], "sample_taxid": [ "2789781" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Taiwan: Dongsha Atoll National Park" ], "sample_host_location_id": [], "data_size": "1.559 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)": "5484941", "Number of Sequences": "12", "Longest Sequences (bp)": "3086989", "N50 (bp)": "3086989", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.5", "Number of CDSs": "4868", "Average Protein Length": "317.6", "Coding Ratio (%)": "84.6", "Number of rRNAs": "34", "Number of tRNAs": "120", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio nitrifigilis", "strain": "strain=NFV-1", "accession": "GCA_015686695.1", "taxid": 2789781, 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"ani": 80.2158, "matched_fragments": 199, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio fluvialis", "strain": "strain=ATCC 33809", "accession": "GCA_001558415.2", "taxid": 676, "species_taxid": 676, "relation_to_type": "type", "validated": true, "ani": 80.0569, "matched_fragments": 331, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio alginolyticus", "strain": "strain=FDAARGOS_97", "accession": "GCA_001471275.2", "taxid": 663, "species_taxid": 663, "relation_to_type": "type", "validated": true, "ani": 80.0479, "matched_fragments": 249, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio alginolyticus", "strain": "strain=NCTC12160", "accession": "GCA_900460285.1", "taxid": 663, "species_taxid": 663, "relation_to_type": "type", "validated": true, "ani": 80.0057, "matched_fragments": 252, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio palustris", "strain": "strain=CECT 9027", "accession": "GCA_024346995.1", "taxid": 1918946, "species_taxid": 1918946, "relation_to_type": "type", "validated": true, "ani": 79.9427, "matched_fragments": 354, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio furnissii", "strain": "strain=FDAARGOS_777", "accession": "GCA_006364355.1", "taxid": 29494, "species_taxid": 29494, "relation_to_type": "type", "validated": true, "ani": 79.9094, "matched_fragments": 337, "total_fragments": 1822, "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": 79.7987, "matched_fragments": 268, "total_fragments": 1822, "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": 79.7174, "matched_fragments": 276, "total_fragments": 1822, "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": 79.5883, "matched_fragments": 254, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio cortegadensis", "strain": "strain=CECT 7227", "accession": "GCA_024347395.1", "taxid": 1328770, "species_taxid": 1328770, "relation_to_type": "type", "validated": true, "ani": 79.4674, "matched_fragments": 241, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio hippocampi", "strain": "strain=CECT 8226", 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104609, "relation_to_type": "type", "validated": true, "ani": 79.3682, "matched_fragments": 213, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio gallaecicus", "strain": "strain=CECT 7244", "accession": "GCA_024347495.1", "taxid": 552386, "species_taxid": 552386, "relation_to_type": "type", "validated": true, "ani": 79.1407, "matched_fragments": 256, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio thalassae", "strain": "strain=CECT8203", "accession": "GCA_900089835.1", "taxid": 1243014, "species_taxid": 1243014, "relation_to_type": "type", "validated": true, "ani": 78.9993, "matched_fragments": 220, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio alginolyticus", "strain": "strain=NBRC 15630", "accession": "GCA_000467145.1", "taxid": 663, "species_taxid": 663, "relation_to_type": "type", "validated": true, "ani": 78.9964, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio aestuarianus subsp. cardii", "strain": "strain=12/122 3T3", "accession": "GCA_011090275.1", "taxid": 2807650, "species_taxid": 28171, "relation_to_type": "type", "validated": true, "ani": 78.7171, "matched_fragments": 306, "total_fragments": 1822, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015686695.1", "gtdb_species": "s__Vibrio nitrifigilis", "ani": 100.0, "matched_fragments": 1816, "total_fragments": 1822, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": 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