{ "type": "genome", "identifier": "GCF_900460295.1", "organism": "Vibrio metschnikovii", "title": "Vibrio metschnikovii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900460295.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4442457", "wgs_master": "UHIH00000000.1", "refseq_category": "reference genome", "taxid": "28172", "species_taxid": "28172", "organism_name": "Vibrio metschnikovii", "infraspecific_name": "strain=NCTC8443", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/01", "asm_name": "51108_A01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900460295.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/460/295/GCF_900460295.1_51108_A01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3831334", "genome_size_ungapped": "3831334", "gc_percent": "44.000000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900460295.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3435", "protein_coding_gene_count": "3228", "non_coding_gene_count": "125", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-01", "dateModified": "2018-08-01", "datePublished": "2018-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio metschnikovii" ], "sample_taxid": [ "28172" ], "sample_host_organism": [ "Birds (Fowl)" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.087 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)": "3831334", "Number of Sequences": "3", "Longest Sequences (bp)": "2829732", "N50 (bp)": "2829732", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "44.2", "Number of CDSs": "3328", "Average Protein Length": "326.8", "Coding Ratio (%)": "85.2", "Number of rRNAs": "22", "Number of tRNAs": "99", "Number of CRISPRs": "6" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio metschnikovii", "strain": "strain=NCTC8443", "accession": "GCA_900460295.1", "taxid": 28172, "species_taxid": 28172, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1275, "total_fragments": 1276, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio metschnikovii", "strain": "strain=CIP 69.14", "accession": "GCA_000176155.1", "taxid": 28172, "species_taxid": 28172, "relation_to_type": "type", "validated": true, "ani": 99.9981, "matched_fragments": 1263, "total_fragments": 1276, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio injensis", "strain": "strain=M12-1144", "accession": "GCA_001895205.1", "taxid": 1307414, "species_taxid": 1307414, "relation_to_type": "type", "validated": true, "ani": 92.8429, "matched_fragments": 1038, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio fujianensis", "strain": "strain=FJ201301", "accession": "GCA_002749895.1", "taxid": 1974215, "species_taxid": 1974215, "relation_to_type": "type", "validated": true, "ani": 81.0675, "matched_fragments": 558, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio cincinnatiensis", "strain": "strain=NCTC12012", "accession": "GCA_900460255.1", "taxid": 675, "species_taxid": 675, "relation_to_type": "type", "validated": true, "ani": 80.5421, "matched_fragments": 550, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio cincinnatiensis", "strain": "strain=DSM 19608", "accession": "GCA_900167345.1", "taxid": 675, "species_taxid": 675, "relation_to_type": "type", "validated": true, "ani": 80.4355, "matched_fragments": 517, "total_fragments": 1276, "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": 79.8226, "matched_fragments": 368, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio furnissii", "strain": "strain=CIP 102972", "accession": "GCA_000176175.1", "taxid": 29494, "species_taxid": 29494, "relation_to_type": "type", "validated": true, "ani": 79.4617, "matched_fragments": 365, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio ziniensis", "strain": "strain=ZWAL4003", "accession": "GCA_011064285.1", "taxid": 2711221, "species_taxid": 2711221, "relation_to_type": "type", "validated": true, "ani": 79.3498, "matched_fragments": 296, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio tarriae", "strain": "strain=2521-89", "accession": "GCA_002216685.1", "taxid": 2014742, "species_taxid": 2014742, "relation_to_type": "type", "validated": true, "ani": 79.2019, "matched_fragments": 358, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio nitrifigilis", "strain": "strain=NFV-1", "accession": "GCA_015686695.1", "taxid": 2789781, "species_taxid": 2789781, "relation_to_type": "type", "validated": true, "ani": 78.9856, "matched_fragments": 271, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio zhugei", "strain": "strain=KCTC 62784", "accession": "GCA_024347155.1", "taxid": 2479546, "species_taxid": 2479546, "relation_to_type": "type", "validated": true, "ani": 78.9754, "matched_fragments": 223, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio hippocampi", "strain": "strain=CECT 8226", "accession": "GCA_921292975.1", "taxid": 654686, "species_taxid": 654686, "relation_to_type": "type", "validated": true, "ani": 78.8468, "matched_fragments": 187, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio vulnificus", "strain": "strain=ATCC 27562", "accession": "GCA_000299635.1", "taxid": 672, "species_taxid": 672, "relation_to_type": "suspected-type", "validated": true, "ani": 78.8022, "matched_fragments": 215, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio algicola", "strain": "strain=SM1977", "accession": "GCA_009601765.2", "taxid": 2662262, "species_taxid": 2662262, "relation_to_type": "type", "validated": true, "ani": 78.5715, "matched_fragments": 160, "total_fragments": 1276, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000176155.1", "gtdb_species": "s__Vibrio metschnikovii", "ani": 99.9981, "matched_fragments": 1263, "total_fragments": 1276, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.65", "min_intra_species_ani": "97.32", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 50, "status": "conclusive" }, { "accession": "GCF_001895205.1", 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81.0518, "matched_fragments": 559, "total_fragments": 1276, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.21", "min_intra_species_ani": "99.14", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_900167345.1", "gtdb_species": "s__Vibrio cincinnatiensis", "ani": 80.4365, "matched_fragments": 515, "total_fragments": 1276, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.06", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_000176175.1", "gtdb_species": "s__Vibrio furnissii", "ani": 79.4551, "matched_fragments": 363, 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.11", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002849855.1", "gtdb_species": "s__Vibrio azureus", "ani": 78.8837, "matched_fragments": 206, "total_fragments": 1276, "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": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.18, "cell_length": 0.215, "doubling_h": -0.527, "growth_tmp": 30.0, "optimum_tmp": 25.0, "optimum_ph": 7.4, "genome_size": 3815101.0, "gc_content": 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