{ "type": "genome", "identifier": "GCF_900129185.1", "organism": "Vibrio gazogenes DSM 21264 = NBRC 103151", "title": "Vibrio gazogenes DSM 21264 = NBRC 103151", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900129185.1", "bioproject": "PRJNA224116", "biosample": "SAMN02745781", "wgs_master": "FQUH00000000.1", "refseq_category": "na", "taxid": "1123492", "species_taxid": "687", "organism_name": "Vibrio gazogenes DSM 21264 = NBRC 103151", "infraspecific_name": "strain=DSM 21264", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/12/03", "asm_name": "IMG-taxon 2582581274 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900129185.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/129/185/GCF_900129185.1_IMG-taxon_2582581274_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4635841", "genome_size_ungapped": "4629107", "gc_percent": "45.000000", "replicon_count": "0", "scaffold_count": "45", "contig_count": "45", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900129185.1-RS_2024_04_11", "annotation_date": "2024-04-11", "total_gene_count": "4143", "protein_coding_gene_count": "4022", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-12-03", "dateModified": "2016-12-03", "datePublished": "2016-12-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio gazogenes DSM 21264 = NBRC 103151" ], "sample_taxid": [ "1123492" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.322 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)": "4635841", "Number of Sequences": "45", "Longest Sequences (bp)": "527261", "N50 (bp)": "165718", "Gap Ratio (%)": "0.145260", "GCcontent (%)": "45.1", "Number of CDSs": "4028", "Average Protein Length": "324.1", "Coding Ratio (%)": "84.5", "Number of rRNAs": "0", "Number of tRNAs": "48", "Number of CRISPRs": "6" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio gazogenes", "strain": "strain=DSM 21264", "accession": "GCA_900129185.1", "taxid": 687, "species_taxid": 687, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1518, "total_fragments": 1524, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio gazogenes", "strain": "strain=PB1", "accession": "GCA_023920225.1", "taxid": 687, "species_taxid": 687, "relation_to_type": "type", "validated": true, "ani": 99.9911, "matched_fragments": 1519, "total_fragments": 1524, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio gazogenes", "strain": "strain=ATCC 29988", "accession": "GCA_024346915.1", "taxid": 687, "species_taxid": 687, "relation_to_type": "type", "validated": true, "ani": 99.9863, "matched_fragments": 1521, "total_fragments": 1524, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio gazogenes", "strain": "strain=type strain: CECT 5068", "accession": "GCA_900163915.1", "taxid": 687, "species_taxid": 687, "relation_to_type": "type", "validated": true, "ani": 99.8907, "matched_fragments": 1207, "total_fragments": 1524, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio spartinae", "strain": "strain=CECT 9026", "accession": "GCA_900149295.1", "taxid": 1918945, "species_taxid": 1918945, "relation_to_type": "type", "validated": true, "ani": 91.9305, "matched_fragments": 1324, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio spartinae", "strain": "strain=CECT 9026", "accession": "GCA_024347135.1", "taxid": 1918945, "species_taxid": 1918945, "relation_to_type": "type", "validated": true, "ani": 91.9082, "matched_fragments": 1317, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio rhizosphaerae", "strain": "strain=LMG 23790", "accession": "GCA_024347095.1", "taxid": 398736, "species_taxid": 398736, "relation_to_type": "type", "validated": true, "ani": 85.768, "matched_fragments": 1177, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio mangrovi", "strain": "strain=CECT 7927", "accession": "GCA_024346955.1", "taxid": 474394, "species_taxid": 474394, "relation_to_type": "type", "validated": true, "ani": 81.3274, "matched_fragments": 878, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio diazotrophicus", "strain": "strain=NBRC 103148", "accession": "GCA_000740015.1", "taxid": 685, "species_taxid": 685, "relation_to_type": "type", "validated": true, "ani": 78.2133, "matched_fragments": 182, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio plantisponsor", "strain": "strain=LMG 24470", "accession": "GCA_013041605.1", "taxid": 664643, "species_taxid": 664643, "relation_to_type": "type", "validated": true, "ani": 78.1765, "matched_fragments": 192, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900129185.1", "gtdb_species": "s__Vibrio gazogenes", "ani": 100.0, "matched_fragments": 1518, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_002196515.1", "gtdb_species": "s__Vibrio gazogenes_A", "ani": 94.171, "matched_fragments": 1343, "total_fragments": 1524, "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", 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