{ "type": "genome", "identifier": "GCF_003545715.1", "organism": "Taibaiella koreensis", "title": "Taibaiella koreensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Nanjing Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003545715.1", "bioproject": "PRJNA224116", "biosample": "SAMN09829961", "wgs_master": "QVNU00000000.1", "refseq_category": "reference genome", "taxid": "1268548", "species_taxid": "1268548", "organism_name": "Taibaiella koreensis", "infraspecific_name": "strain=THG-DT86", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/09/11", "asm_name": "ASM354571v1", "asm_submitter": "Nanjing Agricultural University", "gbrs_paired_asm": "GCA_003545715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/545/715/GCF_003545715.1_ASM354571v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5945070", "genome_size_ungapped": "5945070", "gc_percent": "50.000000", "replicon_count": "0", "scaffold_count": "27", "contig_count": "27", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003545715.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "5104", "protein_coding_gene_count": "5035", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-09-11", "dateModified": "2018-09-11", "datePublished": "2018-09-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Taibaiella koreensis" ], "sample_taxid": [ "1268548" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not collected" ], "sample_host_location_id": [], "data_size": "1.687 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5945070", "Number of Sequences": "27", "Longest Sequences (bp)": "1591845", "N50 (bp)": "680615", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.9", "Number of CDSs": "4927", "Average Protein Length": "345.3", "Coding Ratio (%)": "85.9", "Number of rRNAs": "6", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Taibaiella koreensis", "strain": "strain=THG-DT86", "accession": "GCA_003545715.1", "taxid": 1268548, "species_taxid": 1268548, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1967, "total_fragments": 1969, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Taibaiella helva", "strain": "strain=F-4", "accession": "GCA_003545695.1", "taxid": 2301235, "species_taxid": 2301235, "relation_to_type": "type", "validated": true, "ani": 81.2688, "matched_fragments": 1082, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Taibaiella chishuiensis", "strain": "strain=CGMCC 1.12700", "accession": "GCA_003014535.1", "taxid": 1434707, "species_taxid": 1434707, "relation_to_type": "type", "validated": true, "ani": 77.5225, "matched_fragments": 373, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Taibaiella lutea", "strain": "strain=KVB11", "accession": "GCA_008629695.1", "taxid": 2608001, "species_taxid": 2608001, "relation_to_type": "type", "validated": true, "ani": 77.2464, "matched_fragments": 128, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella koreensis", "strain": "strain=GR20-10", "accession": "GCA_000246855.1", "taxid": 354356, "species_taxid": 354356, "relation_to_type": "type", "validated": true, "ani": 77.1545, "matched_fragments": 51, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Edaphocola flava", "strain": "strain=HME-24", "accession": "GCA_004118155.1", "taxid": 2499629, "species_taxid": 2499629, "relation_to_type": "type", "validated": true, "ani": 76.3495, "matched_fragments": 66, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sediminibacterium ginsengisoli", "strain": "strain=DSM 22335", "accession": "GCA_900167075.1", "taxid": 413434, "species_taxid": 413434, "relation_to_type": "type", "validated": true, "ani": 76.3105, "matched_fragments": 60, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Edaphocola aurantiacus", "strain": "strain=H2", "accession": "GCA_019797745.1", "taxid": 2601682, "species_taxid": 2601682, "relation_to_type": "type", "validated": true, "ani": 76.1746, "matched_fragments": 70, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga lutea", "strain": "strain=ZY74", "accession": "GCA_003813775.1", "taxid": 2488634, "species_taxid": 2488634, "relation_to_type": "type", "validated": true, "ani": 76.0682, "matched_fragments": 63, "total_fragments": 1969, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003545715.1", "gtdb_species": "s__Edaphocola koreensis", "ani": 100.0, "matched_fragments": 1967, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Edaphocola", "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_003545695.1", "gtdb_species": "s__Edaphocola helva", "ani": 81.265, "matched_fragments": 1083, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Edaphocola", "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_003014535.1", "gtdb_species": "s__Edaphocola chishuiensis", "ani": 77.5254, "matched_fragments": 374, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Edaphocola", "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_008629695.1", "gtdb_species": "s__Edaphocola lutea", "ani": 77.2601, "matched_fragments": 124, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Edaphocola", "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_000246855.1", "gtdb_species": "s__Niastella koreensis", "ani": 76.937, "matched_fragments": 50, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Niastella", "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": "GCA_001897155.1", "gtdb_species": "s__Edaphocola sp001897155", "ani": 76.8272, "matched_fragments": 79, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Edaphocola", "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_008086345.1", "gtdb_species": "s__Chitinophaga sp008086345", "ani": 76.8013, "matched_fragments": 51, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "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_016786525.1", "gtdb_species": "s__UBA1312 sp016786525", "ani": 76.1781, "matched_fragments": 68, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__UBA1312", "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_003813775.1", "gtdb_species": "s__Chitinophaga lutea", "ani": 76.0953, "matched_fragments": 62, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "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_018267915.1", "gtdb_species": "s__Flavipsychrobacter sp018267915", "ani": 76.0407, "matched_fragments": 54, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Flavipsychrobacter", "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_001897525.1", "gtdb_species": "s__Edaphocola sp001897525", "ani": 76.0376, "matched_fragments": 80, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Edaphocola", "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_016786705.1", "gtdb_species": "s__Edaphocola sp016786705", "ani": 75.9273, "matched_fragments": 71, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Edaphocola", "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_019091455.1", "gtdb_species": "s__Chitinophaga sp019091455", "ani": 75.8497, "matched_fragments": 69, "total_fragments": 1969, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "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": -0.302, "cell_length": 0.278, "doubling_h": null, "growth_tmp": null, "optimum_tmp": 26.5, "optimum_ph": 6.5, "genome_size": 5841105.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": 0.0, "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": [ "Taibaiella", "koreensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }