{ "type": "genome", "identifier": "GCF_014284085.1", "organism": "Winogradskyella echinorum", "title": "Winogradskyella echinorum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "ocean university of China", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014284085.1", "bioproject": "PRJNA224116", "biosample": "SAMN15763371", "wgs_master": "JACOME000000000.1", "refseq_category": "na", "taxid": "538189", "species_taxid": "538189", "organism_name": "Winogradskyella echinorum", "infraspecific_name": "strain=KCTC 22026", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/24", "asm_name": "ASM1428408v1", "asm_submitter": "ocean university of China", "gbrs_paired_asm": "GCA_014284085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/284/085/GCF_014284085.1_ASM1428408v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3784537", "genome_size_ungapped": "3784537", "gc_percent": "32.500000", "replicon_count": "0", "scaffold_count": "10", "contig_count": "10", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014284085.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3379", "protein_coding_gene_count": "3329", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-24", "dateModified": "2020-08-24", "datePublished": "2020-08-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Winogradskyella echinorum" ], "sample_taxid": [ "538189" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "1.050 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)": "3784537", "Number of Sequences": "10", "Longest Sequences (bp)": "1623862", "N50 (bp)": "1027909", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "32.3", "Number of CDSs": "3353", "Average Protein Length": "342.8", "Coding Ratio (%)": "91.1", "Number of rRNAs": "2", "Number of tRNAs": "42", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Winogradskyella echinorum", "strain": "strain=KCTC 22026", "accession": "GCA_014284085.1", "taxid": 538189, "species_taxid": 538189, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1255, "total_fragments": 1256, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Winogradskyella echinorum", "strain": "strain=KCTC 22026", "accession": "GCA_014297365.1", "taxid": 538189, "species_taxid": 538189, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1255, "total_fragments": 1256, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Winogradskyella litoriviva", "strain": "strain=KMM6491", "accession": "GCA_013249065.1", "taxid": 1220182, "species_taxid": 1220182, "relation_to_type": "type", "validated": true, "ani": 80.2674, "matched_fragments": 656, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella eckloniae", "strain": "strain=EC29", "accession": "GCA_013249045.1", "taxid": 1089306, "species_taxid": 1089306, "relation_to_type": "type", "validated": true, "ani": 79.7963, "matched_fragments": 580, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella endarachnes", "strain": "strain=HL2-2", "accession": "GCA_009741275.1", "taxid": 2681965, "species_taxid": 2681965, "relation_to_type": "type", "validated": true, "ani": 79.6844, "matched_fragments": 627, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella thalassocola", "strain": "strain=DSM 15363", "accession": "GCA_900099995.1", "taxid": 262004, "species_taxid": 262004, "relation_to_type": "type", "validated": true, "ani": 79.6765, "matched_fragments": 660, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella helgolandensis", "strain": "strain=Z963", "accession": "GCA_013404085.1", "taxid": 2697010, "species_taxid": 2697010, "relation_to_type": "type", "validated": true, "ani": 79.6327, "matched_fragments": 643, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella vidalii", "strain": "strain=HL634", "accession": "GCA_013403955.1", "taxid": 2615024, "species_taxid": 2615024, "relation_to_type": "type", "validated": true, "ani": 79.1043, "matched_fragments": 523, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella ouciana", "strain": "strain=ZXX205", "accession": "GCA_009709615.1", "taxid": 2608631, "species_taxid": 2608631, "relation_to_type": "type", "validated": true, "ani": 79.0001, "matched_fragments": 567, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Winogradskyella flava", "strain": "strain=KCTC 52348", "accession": "GCA_014243395.1", "taxid": 1884876, "species_taxid": 1884876, "relation_to_type": "type", "validated": true, "ani": 78.9017, "matched_fragments": 542, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychroserpens luteolus", "strain": "strain=XSD401", "accession": "GCA_021032705.1", "taxid": 2855840, "species_taxid": 2855840, "relation_to_type": "type", "validated": true, "ani": 77.737, "matched_fragments": 328, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella ulvae", "strain": "strain=HU1-3", "accession": "GCA_016827605.1", "taxid": 2799948, "species_taxid": 2799948, "relation_to_type": "type", "validated": true, "ani": 77.0811, "matched_fragments": 214, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella flava", "strain": "strain=T58", "accession": "GCA_004310325.1", "taxid": 2527939, "species_taxid": 2527939, "relation_to_type": "type", "validated": true, "ani": 77.0746, "matched_fragments": 209, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavivirga algicola", "strain": "strain=Y03", "accession": "GCA_012910715.1", "taxid": 2729136, "species_taxid": 2729136, "relation_to_type": "type", "validated": true, "ani": 77.0592, "matched_fragments": 239, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Joostella atrarenae", "strain": "strain=M1-2", "accession": "GCA_021764745.1", "taxid": 679257, "species_taxid": 679257, "relation_to_type": "type", "validated": true, "ani": 76.5174, "matched_fragments": 119, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014297365.1", "gtdb_species": "s__Winogradskyella echinorum", "ani": 100.0, "matched_fragments": 1255, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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": "conclusive" }, { "accession": "GCA_000171875.1", "gtdb_species": "s__Winogradskyella sp000171875", "ani": 81.9594, "matched_fragments": 793, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_016744625.1", "gtdb_species": "s__Winogradskyella sp016744625", "ani": 80.6842, "matched_fragments": 677, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_003386165.1", "gtdb_species": "s__Winogradskyella eximia", "ani": 80.5309, "matched_fragments": 722, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_013249065.1", "gtdb_species": "s__Winogradskyella litoriviva", "ani": 80.2585, "matched_fragments": 658, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_018860565.1", "gtdb_species": "s__Winogradskyella psychrotolerans_B", "ani": 80.2179, "matched_fragments": 664, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_000828715.1", "gtdb_species": "s__Winogradskyella sp000828715", "ani": 80.1627, "matched_fragments": 661, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_009741275.1", "gtdb_species": "s__Winogradskyella endarachnes", "ani": 79.705, "matched_fragments": 623, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_013404085.1", "gtdb_species": "s__Winogradskyella helgolandensis", "ani": 79.6169, "matched_fragments": 645, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.14", "min_intra_species_ani": "98.14", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002364335.1", "gtdb_species": "s__Winogradskyella sp002364335", "ani": 79.4968, "matched_fragments": 570, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_019203985.1", "gtdb_species": "s__Winogradskyella sp019203985", "ani": 79.2449, "matched_fragments": 501, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_013403955.1", "gtdb_species": "s__Winogradskyella vidalii", "ani": 79.0997, "matched_fragments": 524, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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_009709615.1", "gtdb_species": "s__Winogradskyella ouciana", "ani": 79.0048, "matched_fragments": 567, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.22", "min_intra_species_ani": "97.22", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002682935.1", "gtdb_species": "s__Winogradskyella sp002682935", "ani": 78.8226, "matched_fragments": 518, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "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": -0.347, "cell_length": 0.29, "doubling_h": null, "growth_tmp": 25.6, "optimum_tmp": 20.5, "optimum_ph": 7.642, "genome_size": 3803524.5, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 1.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Winogradskyella", "echinorum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }