{ "type": "genome", "identifier": "GCF_001012815.1", "organism": "Vibrio mexicanus", "title": "Vibrio mexicanus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CIAD, A.C. Mazatlan Unit for Aquaculture", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001012815.1", "bioproject": "PRJNA224116", "biosample": "SAMN03339753", "wgs_master": "JYJP00000000.1", "refseq_category": "reference genome", "taxid": "1004326", "species_taxid": "1004326", "organism_name": "Vibrio mexicanus", "infraspecific_name": "strain=CAIM 1540", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/05/22", "asm_name": "ASM101281v1", "asm_submitter": "CIAD, A.C. Mazatlan Unit for Aquaculture", "gbrs_paired_asm": "GCA_001012815.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/012/815/GCF_001012815.1_ASM101281v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4811405", "genome_size_ungapped": "4811405", "gc_percent": "45.000000", "replicon_count": "0", "scaffold_count": "147", "contig_count": "147", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001012815.1-RS_2024_03_21", "annotation_date": "2024-03-21", "total_gene_count": "4626", "protein_coding_gene_count": "3743", "non_coding_gene_count": "75", "pubmed_id": "26021481" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-05-22", "dateModified": "2015-05-22", "datePublished": "2015-05-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio mexicanus" ], "sample_taxid": [ "1004326" ], "sample_host_organism": [ "Crassostrea corteziensis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Mexico: La Cruz, Sinaloa State" ], "sample_host_location_id": [], "data_size": "1.384 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4811405", "Number of Sequences": "147", "Longest Sequences (bp)": "228813", "N50 (bp)": "88203", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "45.1", "Number of CDSs": "5038", "Average Protein Length": "269.6", "Coding Ratio (%)": "84.7", "Number of rRNAs": "2", "Number of tRNAs": "67", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { 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"accession": "GCA_000222665.2", "taxid": 29498, "species_taxid": 29498, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4032, "matched_fragments": 463, "total_fragments": 1545, "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": 80.3444, "matched_fragments": 418, "total_fragments": 1545, "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": 80.3102, "matched_fragments": 427, "total_fragments": 1545, "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": 80.2434, "matched_fragments": 468, "total_fragments": 1545, "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": 80.2069, "matched_fragments": 467, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio orientalis", "strain": "strain=CIP 102891", "accession": "GCA_000176235.1", "taxid": 28175, "species_taxid": 28175, "relation_to_type": "type", "validated": true, "ani": 80.2003, "matched_fragments": 463, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio orientalis", "strain": "strain=CIP 102891", "accession": "GCA_000222645.2", "taxid": 28175, "species_taxid": 28175, "relation_to_type": "type", "validated": true, "ani": 80.15, "matched_fragments": 464, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio campbellii", "strain": "strain=CAIM 519", "accession": "GCA_000334195.1", "taxid": 680, "species_taxid": 680, "relation_to_type": "type", "validated": true, "ani": 80.1341, "matched_fragments": 418, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio variabilis", "strain": "strain=CAIM 1454", "accession": "GCA_003263785.1", "taxid": 990271, "species_taxid": 990271, "relation_to_type": "type", "validated": true, "ani": 80.1274, "matched_fragments": 327, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio owensii", "strain": "strain=DY05", "accession": "GCA_000817815.1", "taxid": 696485, "species_taxid": 696485, "relation_to_type": "type", "validated": true, "ani": 80.1181, "matched_fragments": 447, "total_fragments": 1545, "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": 80.0916, "matched_fragments": 421, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio coralliilyticus", "strain": "strain=ATCC BAA-450", "accession": "GCA_000176135.1", "taxid": 190893, "species_taxid": 190893, "relation_to_type": "type", "validated": true, "ani": 80.0497, "matched_fragments": 415, "total_fragments": 1545, "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": 80.0476, "matched_fragments": 428, "total_fragments": 1545, "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": 80.0382, "matched_fragments": 426, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio natriegens", "strain": "strain=CCUG 16371", "accession": "GCA_001680045.1", "taxid": 691, "species_taxid": 691, "relation_to_type": "type", "validated": true, "ani": 80.0174, "matched_fragments": 379, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio antiquarius", "strain": "strain=EX25", "accession": "GCA_000024825.1", "taxid": 150340, "species_taxid": 150340, "relation_to_type": "suspected-type", "validated": true, "ani": 79.974, "matched_fragments": 388, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio natriegens", "strain": "strain=ATCC 14048", "accession": "GCA_000417905.1", "taxid": 691, "species_taxid": 691, "relation_to_type": "type", "validated": true, "ani": 79.9521, "matched_fragments": 381, "total_fragments": 1545, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio parahaemolyticus", "strain": "strain=NCTC10903", "accession": "GCA_900460535.1", "taxid": 670, "species_taxid": 670, "relation_to_type": "type", "validated": true, "ani": 79.8983, "matched_fragments": 423, "total_fragments": 1545, "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": 79.893, "matched_fragments": 383, "total_fragments": 1545, "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", 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"N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000808535.1", "gtdb_species": "s__Vibrio sinaloensis", "ani": 80.3881, "matched_fragments": 436, "total_fragments": 1545, "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": 80.376, "matched_fragments": 440, "total_fragments": 1545, "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", 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