{ "type": "genome", "identifier": "GCF_900636985.1", "organism": "Klebsiella oxytoca", "title": "Klebsiella oxytoca", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900636985.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3923594", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "571", "species_taxid": "571", "organism_name": "Klebsiella oxytoca", "infraspecific_name": "strain=NCTC13727", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/20", "asm_name": "45889_C01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900636985.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/636/985/GCF_900636985.1_45889_C01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5857964", "genome_size_ungapped": "5857964", "gc_percent": "55.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900636985.1-RS_2024_11_26", "annotation_date": "2024-11-26", "total_gene_count": "5475", "protein_coding_gene_count": "5281", "non_coding_gene_count": "116", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-20", "dateModified": "2018-12-20", "datePublished": "2018-12-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Klebsiella oxytoca" ], "sample_taxid": [ "571" ], "sample_host_organism": [ "not available" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.653 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5857964", "Number of Sequences": "1", "Longest Sequences (bp)": "5857964", "N50 (bp)": "5857964", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.1", "Number of CDSs": "5335", "Average Protein Length": "320.0", "Coding Ratio (%)": "87.4", "Number of rRNAs": "24", "Number of tRNAs": "86", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Klebsiella oxytoca", "strain": "strain=NCTC13727", "accession": "GCA_900636985.1", "taxid": 571, "species_taxid": 571, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1952, "total_fragments": 1952, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Klebsiella oxytoca", "strain": "strain=NBRC 105695", "accession": "GCA_001598695.1", "taxid": 571, "species_taxid": 571, "relation_to_type": "type", "validated": true, "ani": 99.9856, "matched_fragments": 1910, "total_fragments": 1952, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Klebsiella oxytoca", "strain": "strain=DSM 5175", "accession": "GCA_020115535.1", "taxid": 571, "species_taxid": 571, "relation_to_type": "type", "validated": true, "ani": 99.9831, "matched_fragments": 1891, "total_fragments": 1952, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Klebsiella michiganensis", "strain": "strain=DSM 25444", "accession": "GCA_002925905.1", "taxid": 1134687, "species_taxid": 1134687, "relation_to_type": "type", "validated": true, "ani": 92.5093, "matched_fragments": 1650, "total_fragments": 1952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella michiganensis", "strain": "strain=CCUG 66515", "accession": "GCA_009173485.1", "taxid": 1134687, "species_taxid": 1134687, "relation_to_type": "type", "validated": true, "ani": 92.4619, "matched_fragments": 1624, "total_fragments": 1952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella grimontii", "strain": "strain=06D021", "accession": "GCA_900200035.1", "taxid": 2058152, "species_taxid": 2058152, "relation_to_type": "type", "validated": true, "ani": 91.6943, "matched_fragments": 1624, "total_fragments": 1952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae", "strain": "strain=PartO-Kpneumoniae-RM8376", "accession": "GCA_022869665.1", "taxid": 573, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 84.1482, "matched_fragments": 1309, "total_fragments": 1952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella africana", "strain": "strain=200023", "accession": "GCA_020526085.1", "taxid": 2489010, "species_taxid": 2489010, "relation_to_type": "type", "validated": true, "ani": 84.003, "matched_fragments": 1291, "total_fragments": 1952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella africana", "strain": "strain=SB5857", "accession": "GCA_900978845.1", "taxid": 2489010, "species_taxid": 2489010, "relation_to_type": "type", "validated": true, "ani": 83.8488, "matched_fragments": 1286, "total_fragments": 1952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 81.7181, "matched_fragments": 897, "total_fragments": 1952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter hormaechei", "strain": "strain=FDAARGOS 1433", "accession": "GCA_019048245.1", "taxid": 158836, "species_taxid": 158836, "relation_to_type": 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"matched_fragments": 1622, "total_fragments": 1952, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.56", "min_intra_species_ani": "95.68", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 175, "status": "-" }, { "accession": "GCF_009707385.1", "gtdb_species": "s__Klebsiella oxytoca_C", "ani": 89.8638, "matched_fragments": 1566, "total_fragments": 1952, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "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_902158555.1", "gtdb_species": "s__Klebsiella spallanzanii", "ani": 88.8017, "matched_fragments": 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"total_fragments": 1952, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Citrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.01", "min_intra_species_ani": "95.95", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 128, "status": "-" }, { "accession": "GCF_005843885.1", "gtdb_species": "s__Escherichia sp005843885", "ani": 80.9772, "matched_fragments": 768, "total_fragments": 1952, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.83", "min_intra_species_ani": "95.39", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 37, "status": "-" }, { "accession": "GCA_901456055.1", "gtdb_species": "s__Phytobacter ursingii", "ani": 80.5805, "matched_fragments": 838, "total_fragments": 1952, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Phytobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.10", "min_intra_species_ani": "96.01", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.80", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900111105.1", "gtdb_species": "s__Rosenbergiella nectarea", "ani": 78.5755, "matched_fragments": 112, "total_fragments": 1952, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Rosenbergiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.23", "min_intra_species_ani": "96.23", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.301, "cell_length": 0.161, "doubling_h": 1.068, "growth_tmp": 35.5, "optimum_tmp": 35.6, "optimum_ph": 7.0, "genome_size": 6177276.522, "gc_content": 55.159, "coding_genes": 6199.895, "rRNA16S_genes": 8.0, "tRNA_genes": 85.75, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.25, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "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": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Klebsiella", "oxytoca" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }