{ "type": "genome", "identifier": "GCF_019308285.1", "organism": "Flavobacterium quisquiliarum", "title": "Flavobacterium quisquiliarum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hbtcm.edu.cn", "publication": [ {} ], "properties": { "assembly_accession": "GCF_019308285.1", "bioproject": "PRJNA224116", "biosample": "SAMN13715485", "wgs_master": "WWEM00000000.1", "refseq_category": "na", "taxid": "1834436", "species_taxid": "1834436", "organism_name": "Flavobacterium quisquiliarum", "infraspecific_name": "strain=EA-12", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/21", "asm_name": "ASM1930828v1", "asm_submitter": "Hbtcm.edu.cn", "gbrs_paired_asm": "GCA_019308285.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/308/285/GCF_019308285.1_ASM1930828v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6170040", "genome_size_ungapped": "6169617", "gc_percent": "34.000000", "replicon_count": "0", "scaffold_count": "43", "contig_count": "43", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_019308285.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "5234", "protein_coding_gene_count": "5127", "non_coding_gene_count": "62", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-07-21", "dateModified": "2021-07-21", "datePublished": "2021-07-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium quisquiliarum" ], "sample_taxid": [ "1834436" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Fujian" ], "sample_host_location_id": [], "data_size": "1.718 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)": "6170040", "Number of Sequences": "43", "Longest Sequences (bp)": "605807", "N50 (bp)": "281877", "Gap Ratio (%)": "0.006888", "GCcontent (%)": "33.9", "Number of CDSs": "5123", "Average Protein Length": "346.7", "Coding Ratio (%)": "86.4", "Number of rRNAs": "5", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium quisquiliarum", "strain": "strain=EA-12", "accession": "GCA_019308285.1", "taxid": 1834436, "species_taxid": 1834436, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2027, "total_fragments": 2034, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium phragmitis", "strain": "strain=CGMCC 1.10370", "accession": "GCA_900112575.1", "taxid": 739143, "species_taxid": 739143, "relation_to_type": "type", "validated": true, "ani": 91.3962, "matched_fragments": 1613, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium crocinum", "strain": "strain=HYN0056", "accession": "GCA_003122385.1", "taxid": 2183896, "species_taxid": 2183896, "relation_to_type": "type", "validated": true, "ani": 90.0399, "matched_fragments": 1591, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium panacis", "strain": "strain=DCY106", "accession": "GCA_024649945.1", "taxid": 2962567, "species_taxid": 2962567, "relation_to_type": "type", "validated": true, "ani": 86.0087, "matched_fragments": 1484, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium nitrogenifigens", "strain": "strain=NXU-44", "accession": "GCA_003254565.1", "taxid": 1617283, "species_taxid": 1617283, "relation_to_type": "type", "validated": true, "ani": 85.5296, "matched_fragments": 1194, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium nitrogenifigens", "strain": "strain=DSM 29982", "accession": "GCA_900182675.1", "taxid": 1617283, "species_taxid": 1617283, "relation_to_type": "type", "validated": true, "ani": 85.5163, "matched_fragments": 1214, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sharifuzzamanii", "strain": "strain=A7.6", "accession": "GCA_003254585.1", "taxid": 2211133, "species_taxid": 2211133, "relation_to_type": "type", "validated": true, "ani": 85.3236, "matched_fragments": 1226, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tyrosinilyticum", "strain": "strain=KCTC 42726", "accession": "GCA_023656565.1", "taxid": 1658740, "species_taxid": 1658740, "relation_to_type": "type", "validated": true, "ani": 85.301, "matched_fragments": 1266, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium johnsoniae", "strain": "strain=UW101; ATCC 17061", "accession": "GCA_000016645.1", "taxid": 986, "species_taxid": 986, "relation_to_type": "type", "validated": true, "ani": 84.3114, "matched_fragments": 1262, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium johnsoniae", "strain": "strain=DSM 2064", "accession": "GCA_900142355.1", "taxid": 986, "species_taxid": 986, "relation_to_type": "type", "validated": true, "ani": 84.3075, "matched_fragments": 1276, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium johnsoniae", "strain": "strain=ATCC 17061", "accession": "GCA_002221975.1", "taxid": 986, "species_taxid": 986, "relation_to_type": "type", "validated": true, "ani": 84.2635, "matched_fragments": 1272, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium soyae", "strain": "strain=SCIV07", "accession": "GCA_021245985.1", "taxid": 2903098, "species_taxid": 2903098, "relation_to_type": "type", "validated": true, "ani": 83.4214, "matched_fragments": 1088, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium denitrificans", "strain": "strain=DSM 15936", "accession": "GCA_000425445.1", "taxid": 281361, "species_taxid": 281361, "relation_to_type": "type", "validated": true, "ani": 83.3863, "matched_fragments": 1054, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium endoglycinae", "strain": "strain=BB8", "accession": "GCA_017352115.1", "taxid": 2816357, "species_taxid": 2816357, "relation_to_type": "type", "validated": true, "ani": 83.1648, "matched_fragments": 1181, "total_fragments": 2034, "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": 76.7198, "matched_fragments": 244, "total_fragments": 2034, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013393195.1", "gtdb_species": "s__Flavobacterium collinsii_A", "ani": 99.7183, "matched_fragments": 1897, "total_fragments": 2034, "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": "conclusive" }, { "accession": "GCF_900112575.1", "gtdb_species": "s__Flavobacterium phragmitis", "ani": 91.4067, "matched_fragments": 1612, "total_fragments": 2034, "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_003122385.1", "gtdb_species": "s__Flavobacterium crocinum", "ani": 90.0399, "matched_fragments": 1591, "total_fragments": 2034, "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_014207905.1", "gtdb_species": "s__Flavobacterium notoginsengisoli", "ani": 86.5146, "matched_fragments": 1382, "total_fragments": 2034, "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": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_902167265.1", "gtdb_species": "s__Flavobacterium anhuiense_B", "ani": 85.729, "matched_fragments": 1518, "total_fragments": 2034, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_013388355.1", "gtdb_species": "s__Flavobacterium sp013388355", "ani": 85.5831, "matched_fragments": 959, "total_fragments": 2034, "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_003254565.1", "gtdb_species": "s__Flavobacterium nitrogenifigens", "ani": 85.5389, "matched_fragments": 1193, "total_fragments": 2034, "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": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002303885.1", "gtdb_species": "s__Flavobacterium sp002303885", "ani": 85.4431, "matched_fragments": 1276, "total_fragments": 2034, "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_016735615.1", "gtdb_species": "s__Flavobacterium sp016735615", "ani": 85.4377, "matched_fragments": 1265, "total_fragments": 2034, "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_003254625.1", "gtdb_species": "s__Flavobacterium ginsenosidimutans", "ani": 85.4098, "matched_fragments": 1351, "total_fragments": 2034, "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_003254585.1", "gtdb_species": "s__Flavobacterium sharifuzzamanii", "ani": 85.3237, "matched_fragments": 1226, "total_fragments": 2034, "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_003312915.1", "gtdb_species": "s__Flavobacterium sp003312915", "ani": 85.1858, "matched_fragments": 1244, "total_fragments": 2034, "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_000016645.1", "gtdb_species": "s__Flavobacterium johnsoniae", "ani": 84.3114, "matched_fragments": 1262, "total_fragments": 2034, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "96.72", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.86", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000425445.1", "gtdb_species": "s__Flavobacterium denitrificans", "ani": 83.4014, "matched_fragments": 1053, "total_fragments": 2034, "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", "quisquiliarum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }