{ "type": "genome", "identifier": "GCF_004151275.2", "organism": "Flavobacterium dauae", "title": "Flavobacterium dauae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Yonsei University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004151275.2", "bioproject": "PRJNA224116", "biosample": "SAMN03142400", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1563479", "species_taxid": "1563479", "organism_name": "Flavobacterium dauae", "infraspecific_name": "strain=TCH3-2", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/08/03", "asm_name": "ASM415127v2", "asm_submitter": "Yonsei University", "gbrs_paired_asm": "GCA_004151275.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/151/275/GCF_004151275.2_ASM415127v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2944828", "genome_size_ungapped": "2944828", "gc_percent": "34.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004151275.2-RS_2024_08_08", "annotation_date": "2024-08-08", "total_gene_count": "2826", "protein_coding_gene_count": "2706", "non_coding_gene_count": "94", "pubmed_id": "34596509" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-08-03", "dateModified": "2023-08-03", "datePublished": "2023-08-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium dauae" ], "sample_taxid": [ "1563479" ], "sample_host_organism": [ "tomato" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Busan" ], "sample_host_location_id": [], "data_size": "0.815 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)": "2944828", "Number of Sequences": "1", "Longest Sequences (bp)": "2944828", "N50 (bp)": "2944828", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.7", "Number of CDSs": "2734", "Average Protein Length": "319.0", "Coding Ratio (%)": "88.8", "Number of rRNAs": "18", "Number of tRNAs": "72", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium ummariense", "strain": "strain=DS-12", "accession": "GCA_900115115.1", "taxid": 913024, "species_taxid": 913024, "relation_to_type": "type", "validated": true, "ani": 85.8205, "matched_fragments": 653, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium baculatum", "strain": "strain=SNL9", "accession": "GCA_008629655.1", "taxid": 2608000, "species_taxid": 2608000, "relation_to_type": "type", "validated": true, "ani": 85.5553, "matched_fragments": 627, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium viscosum", "strain": "strain=YIM 102796", "accession": "GCA_003858535.1", "taxid": 2488729, "species_taxid": 2488729, "relation_to_type": "type", "validated": true, "ani": 84.1322, "matched_fragments": 618, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tangerinum", "strain": "strain=YIM 102701-2", "accession": "GCA_003865405.1", "taxid": 2488728, "species_taxid": 2488728, "relation_to_type": "type", "validated": true, "ani": 78.402, "matched_fragments": 293, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myroides marinus", "strain": "strain=DSM 23048", "accession": "GCA_900109075.1", "taxid": 703342, "species_taxid": 703342, "relation_to_type": "type", "validated": true, "ani": 78.3304, "matched_fragments": 86, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium inviolabile", "strain": "strain=P2-65", "accession": "GCA_013389455.1", "taxid": 2748320, "species_taxid": 2748320, "relation_to_type": "type", "validated": true, "ani": 78.2988, "matched_fragments": 121, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sediminilitoris", "strain": "strain=YSM-43", "accession": "GCA_023008245.1", "taxid": 2024526, "species_taxid": 2024526, "relation_to_type": "type", "validated": true, "ani": 77.7299, "matched_fragments": 116, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium amniphilum", "strain": "strain=KYPY10", "accession": "GCA_023634845.1", "taxid": 1834035, "species_taxid": 1834035, "relation_to_type": "type", "validated": true, "ani": 77.3774, "matched_fragments": 107, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium haoranii", "strain": "strain=DSM 22807", "accession": "GCA_900142055.1", "taxid": 683124, "species_taxid": 683124, "relation_to_type": "type", "validated": true, "ani": 77.3524, "matched_fragments": 139, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sasangense", "strain": "strain=DSM 21067", "accession": "GCA_000686885.1", "taxid": 503361, "species_taxid": 503361, "relation_to_type": "type", "validated": true, "ani": 77.1512, "matched_fragments": 152, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium terrigena", "strain": "strain=DSM 17934", "accession": "GCA_900108955.1", "taxid": 402734, "species_taxid": 402734, "relation_to_type": "type", "validated": true, "ani": 77.0046, "matched_fragments": 136, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter pectinis", "strain": "strain=L12M9", "accession": "GCA_014352875.1", "taxid": 2738844, "species_taxid": 2738844, "relation_to_type": "type", "validated": true, "ani": 76.6181, "matched_fragments": 89, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium franklandianum", "strain": "strain=LB3P56", "accession": "GCA_007097365.1", "taxid": 2594430, "species_taxid": 2594430, "relation_to_type": "type", "validated": true, "ani": 76.4135, "matched_fragments": 105, "total_fragments": 981, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004151275.1", 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ummariense", "ani": 85.806, "matched_fragments": 654, "total_fragments": 981, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "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_008629655.1", "gtdb_species": "s__Flavobacterium baculatum", "ani": 85.5513, "matched_fragments": 627, "total_fragments": 981, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "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_003858535.1", "gtdb_species": "s__Flavobacterium viscosum", "ani": 84.0747, 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"total_fragments": 981, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002360925.1", "gtdb_species": "s__Flavobacterium sp002360925", "ani": 80.0433, "matched_fragments": 457, "total_fragments": 981, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.326, "cell_length": 0.278, "doubling_h": 1.271, "growth_tmp": 24.705, "optimum_tmp": 25.047, "optimum_ph": 7.141, "genome_size": 3988255.815, "gc_content": 34.893, "coding_genes": 3154.048, "rRNA16S_genes": 5.145, "tRNA_genes": 58.611, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.347, "range_salinity": 0.333, "facultative_respiration": 0.049, "anaerobic_respiration": 0.019, "aerobic_respiration": 0.931, "mesophilic_range_tmp": 0.789, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.21, "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": [ "Flavobacterium", "dauae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }