{ "type": "genome", "identifier": "GCF_014647395.1", "organism": "Aliivibrio fischeri", "title": "Aliivibrio fischeri", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014647395.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245275", "wgs_master": "BMPC00000000.1", "refseq_category": "na", "taxid": "668", "species_taxid": "668", "organism_name": "Aliivibrio fischeri", "infraspecific_name": "strain=JCM 18803", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464739v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014647395.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/647/395/GCF_014647395.1_ASM1464739v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4289740", "genome_size_ungapped": "4274118", "gc_percent": "38.000000", "replicon_count": "0", "scaffold_count": "167", "contig_count": "167", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014647395.1-RS_2024_09_03", "annotation_date": "2024-09-03", "total_gene_count": "3928", "protein_coding_gene_count": "3793", "non_coding_gene_count": "57", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Aliivibrio fischeri" ], "sample_taxid": [ "668" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.216 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)": "4289740", "Number of Sequences": "167", "Longest Sequences (bp)": "268445", "N50 (bp)": "72515", "Gap Ratio (%)": "0.364171", "GCcontent (%)": "38.2", "Number of CDSs": "3814", "Average Protein Length": "324.1", "Coding Ratio (%)": "86.5", "Number of rRNAs": "0", "Number of tRNAs": "52", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aliivibrio fischeri", "strain": "strain=DSM 507", "accession": "GCA_023983475.1", "taxid": 668, "species_taxid": 668, 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"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": 78.3881, "matched_fragments": 221, "total_fragments": 1354, "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": 78.335, "matched_fragments": 223, "total_fragments": 1354, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio marisflavi", "strain": "strain=CECT 7928", "accession": "GCA_921294215.1", "taxid": 1216040, "species_taxid": 1216040, "relation_to_type": "type", "validated": true, "ani": 78.2541, "matched_fragments": 161, "total_fragments": 1354, "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": 78.219, "matched_fragments": 240, "total_fragments": 1354, "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": 78.0537, "matched_fragments": 181, "total_fragments": 1354, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio hibernica", "strain": "strain=B1.19", "accession": "GCA_015223435.1", "taxid": 2587465, "species_taxid": 2587465, "relation_to_type": "type", "validated": true, "ani": 78.0524, "matched_fragments": 176, "total_fragments": 1354, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, 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83.1609, "matched_fragments": 948, "total_fragments": 1354, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Aliivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.51", "min_intra_species_ani": "98.40", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_001690985.1", "gtdb_species": "s__Aliivibrio sp001690985", "ani": 82.7372, "matched_fragments": 846, "total_fragments": 1354, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Aliivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.59", "min_intra_species_ani": "99.19", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000196495.1", "gtdb_species": "s__Aliivibrio salmonicida_A", "ani": 82.0562, "matched_fragments": 781, "total_fragments": 1354, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Aliivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "97.13", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": -0.302, "growth_tmp": 24.5, "optimum_tmp": 24.143, "optimum_ph": null, "genome_size": 4261137.029, "gc_content": 37.732, "coding_genes": 3889.333, "rRNA16S_genes": 12.0, "tRNA_genes": 118.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.0, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "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": 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