{ "type": "genome", "identifier": "GCF_003350325.1", "organism": "Vibrio rhodolitus", "title": "Vibrio rhodolitus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Federal University of Rio de Janeiro", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003350325.1", "bioproject": "PRJNA224116", "biosample": "SAMN09437463", "wgs_master": "QLYZ00000000.1", "refseq_category": "reference genome", "taxid": "2231649", "species_taxid": "2231649", "organism_name": "Vibrio rhodolitus", "infraspecific_name": "strain=G98", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/07/31", "asm_name": "ASM335032v1", "asm_submitter": "Federal University of Rio de Janeiro", "gbrs_paired_asm": "GCA_003350325.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/350/325/GCF_003350325.1_ASM335032v1", "excluded_from_refseq": 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Abrolhos" ], "sample_host_location_id": [], "data_size": "1.302 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)": "4559723", "Number of Sequences": "62", "Longest Sequences (bp)": "460880", "N50 (bp)": "161923", "Gap Ratio (%)": "0.000833", "GCcontent (%)": "45.2", "Number of CDSs": "4026", "Average Protein Length": "325.6", "Coding Ratio (%)": "86.2", "Number of rRNAs": "8", "Number of tRNAs": "107", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio rhodolitus", "strain": "strain=G98", "accession": "GCA_003350325.1", "taxid": 2231649, "species_taxid": 2231649, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1490, "total_fragments": 1492, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio ponticus", "strain": "strain=DSM 16217", "accession": "GCA_009938225.1", "taxid": 265668, "species_taxid": 265668, "relation_to_type": "type", "validated": true, "ani": 87.9883, "matched_fragments": 1083, "total_fragments": 1492, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio panuliri", "strain": "strain=LBS 2", "accession": "GCA_008830195.1", "taxid": 1381081, "species_taxid": 1381081, "relation_to_type": "type", "validated": true, "ani": 83.3789, "matched_fragments": 881, "total_fragments": 1492, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio panuliri", "strain": "strain=JCM 19500", "accession": "GCA_009938205.1", "taxid": 1381081, "species_taxid": 1381081, "relation_to_type": "type", "validated": true, "ani": 83.3738, "matched_fragments": 895, "total_fragments": 1492, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio marinisediminis", 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"species_taxid": 28169, "relation_to_type": "type", "validated": true, "ani": 80.017, "matched_fragments": 392, "total_fragments": 1492, "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": 79.3525, "matched_fragments": 360, "total_fragments": 1492, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003350325.1", "gtdb_species": "s__Vibrio rhodolitus", "ani": 100.0, "matched_fragments": 1490, "total_fragments": 1492, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.24", "min_intra_species_ani": "97.24", 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_009938205.1", "gtdb_species": "s__Vibrio panuliri", "ani": 83.3835, "matched_fragments": 894, "total_fragments": 1492, "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": "98.57", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_009938165.1", "gtdb_species": "s__Vibrio taketomensis", "ani": 82.7076, "matched_fragments": 774, "total_fragments": 1492, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.31", "min_intra_species_ani": "98.31", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014050145.1", "gtdb_species": "s__Vibrio marinisediminis", "ani": 82.183, "matched_fragments": 824, "total_fragments": 1492, "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", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000222585.1", "gtdb_species": "s__Vibrio scophthalmi", "ani": 81.1704, "matched_fragments": 649, "total_fragments": 1492, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.31", "min_intra_species_ani": "96.70", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.18, "cell_length": 0.215, "doubling_h": -0.527, "growth_tmp": 27.81, "optimum_tmp": 26.308, "optimum_ph": 7.4, "genome_size": 4870437.62, "gc_content": 44.906, "coding_genes": 4624.827, "rRNA16S_genes": 10.063, "tRNA_genes": 116.411, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.864, "range_salinity": 0.923, "facultative_respiration": 0.602, "anaerobic_respiration": 0.011, "aerobic_respiration": 0.386, "mesophilic_range_tmp": 0.976, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.023, "bacillus_cell_shape": 0.637, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.034, "vibrio_cell_shape": 0.327, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Vibrio", "rhodolitus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }