{ "type": "genome", "identifier": "GCF_900450635.1", "organism": "Grimontia hollisae", "title": "Grimontia hollisae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900450635.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4384239", "wgs_master": "UGHA00000000.1", "refseq_category": "na", "taxid": "673", "species_taxid": "673", "organism_name": "Grimontia hollisae", "infraspecific_name": "strain=NCTC11640", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/01", "asm_name": "50450_F01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900450635.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/450/635/GCF_900450635.1_50450_F01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4035504", "genome_size_ungapped": "4035504", "gc_percent": "49.500000", "replicon_count": "0", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900450635.1-RS_2024_07_29", "annotation_date": "2024-07-29", "total_gene_count": "3705", "protein_coding_gene_count": "3515", "non_coding_gene_count": "147", "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": [ "Grimontia hollisae" ], "sample_taxid": [ "673" ], "sample_host_organism": [ "Homo sapiens" ], "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": "1.147 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)": "4035504", "Number of Sequences": "4", "Longest Sequences (bp)": "3215332", "N50 (bp)": "3215332", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.5", "Number of CDSs": "3577", "Average Protein Length": "325.0", "Coding Ratio (%)": "86.4", "Number of rRNAs": "28", "Number of tRNAs": "111", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Grimontia hollisae", "strain": "strain=NCTC11640", "accession": "GCA_900450635.1", "taxid": 673, "species_taxid": 673, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1342, "total_fragments": 1343, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Grimontia hollisae", "strain": "strain=CIP 101886", "accession": "GCA_000176515.1", "taxid": 673, "species_taxid": 673, "relation_to_type": "type", "validated": true, "ani": 99.994, "matched_fragments": 1322, "total_fragments": 1343, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Grimontia sedimenti", "strain": "strain=S25", "accession": "GCA_011045095.1", "taxid": 2711294, "species_taxid": 2711294, "relation_to_type": "type", "validated": true, "ani": 81.8446, "matched_fragments": 772, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Grimontia indica", "strain": "strain=AK16", "accession": "GCA_000333895.2", "taxid": 1056512, "species_taxid": 1056512, "relation_to_type": "type", "validated": true, "ani": 81.821, "matched_fragments": 781, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Grimontia celer", "strain": "strain=CECT 9029", "accession": "GCA_900055185.1", "taxid": 1796497, "species_taxid": 1796497, "relation_to_type": "type", "validated": true, "ani": 81.7059, "matched_fragments": 796, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Grimontia marina", "strain": "strain=CECT 8713", "accession": "GCA_900060185.1", "taxid": 646534, "species_taxid": 646534, "relation_to_type": "type", "validated": true, "ani": 81.5647, "matched_fragments": 764, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photobacterium swingsii", "strain": "strain=CECT 7576", "accession": "GCA_024346715.1", "taxid": 680026, "species_taxid": 680026, "relation_to_type": "type", "validated": true, "ani": 79.0254, "matched_fragments": 162, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio furnissii", "strain": "strain=PartQ-Vfurnissii-RM8376", "accession": "GCA_022869905.1", "taxid": 29494, "species_taxid": 29494, "relation_to_type": "type", "validated": true, "ani": 78.701, "matched_fragments": 190, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio stylophorae", "strain": "strain=CECT 7929", "accession": "GCA_921293875.1", "taxid": 659351, "species_taxid": 659351, "relation_to_type": "type", "validated": true, "ani": 78.6937, "matched_fragments": 136, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio albus", "strain": "strain=E4404", "accession": "GCA_003144035.1", "taxid": 2200953, "species_taxid": 2200953, "relation_to_type": "type", "validated": true, "ani": 78.1448, "matched_fragments": 124, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photobacterium galatheae", "strain": "strain=DSM 100496", "accession": "GCA_023653475.1", "taxid": 1654360, "species_taxid": 1654360, "relation_to_type": "type", "validated": true, "ani": 77.9706, "matched_fragments": 209, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000176515.1", "gtdb_species": "s__Enterovibrio hollisae", "ani": 99.994, "matched_fragments": 1322, "total_fragments": 1343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Enterovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.40", "min_intra_species_ani": "99.22", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.96", "num_clustered_genomes": 10, "status": "conclusive" }, { "accession": "GCF_011045095.1", "gtdb_species": "s__Enterovibrio sedimenti", "ani": 81.8295, "matched_fragments": 774, "total_fragments": 1343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Enterovibrio", "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_000333895.2", "gtdb_species": "s__Enterovibrio indicus", "ani": 81.826, "matched_fragments": 782, "total_fragments": 1343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Enterovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.52", "min_intra_species_ani": "96.52", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900055185.1", "gtdb_species": "s__Enterovibrio celer", "ani": 81.7044, "matched_fragments": 795, "total_fragments": 1343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Enterovibrio", "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_900060185.1", "gtdb_species": "s__Enterovibrio marinus", "ani": 81.5647, "matched_fragments": 764, "total_fragments": 1343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Enterovibrio", "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": "GCA_001310415.1", "gtdb_species": "s__Enterovibrio sp001310415", "ani": 80.6983, "matched_fragments": 707, "total_fragments": 1343, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Enterovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.68", "min_intra_species_ani": "96.68", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.302, "cell_length": 0.176, "doubling_h": null, "growth_tmp": 31.5, "optimum_tmp": 27.5, "optimum_ph": null, "genome_size": 3999209.0, "gc_content": 49.492, "coding_genes": 3409.333, "rRNA16S_genes": 9.0, "tRNA_genes": 105.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Grimontia", "hollisae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }