{ "type": "genome", "identifier": "GCF_900200035.1", "organism": "Klebsiella grimontii", "title": "Klebsiella grimontii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "INSTITUT PASTEUR", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900200035.1", "bioproject": "PRJNA224116", "biosample": "SAMEA104188450", "wgs_master": "FZTC00000000.1", "refseq_category": "na", "taxid": "2058152", "species_taxid": "2058152", "organism_name": "Klebsiella grimontii", "infraspecific_name": "strain=06D021", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/09/12", "asm_name": "ASM90020003v1", "asm_submitter": "INSTITUT PASTEUR", "gbrs_paired_asm": "GCA_900200035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/200/035/GCF_900200035.1_ASM90020003v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6168876", "genome_size_ungapped": "6168876", "gc_percent": "55.500000", "replicon_count": "0", "scaffold_count": "54", "contig_count": "54", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900200035.1-RS_2024_04_15", "annotation_date": "2024-04-15", "total_gene_count": "5917", "protein_coding_gene_count": "5723", "non_coding_gene_count": "81", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-09-12", "dateModified": "2017-09-12", "datePublished": "2017-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Klebsiella grimontii" ], "sample_taxid": [ "2058152" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.745 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)": "6168876", "Number of Sequences": "54", "Longest Sequences (bp)": "1003224", "N50 (bp)": "407664", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.4", "Number of CDSs": "5812", "Average Protein Length": "310.7", "Coding Ratio (%)": "87.8", "Number of rRNAs": "4", "Number of tRNAs": "72", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Klebsiella grimontii", "strain": "strain=06D021", "accession": "GCA_900200035.1", "taxid": 2058152, "species_taxid": 2058152, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2028, "total_fragments": 2031, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Klebsiella pasteurii", "strain": "", "accession": "GCA_902158725.1", "taxid": 2587529, "species_taxid": 2587529, "relation_to_type": "type", "validated": true, "ani": 96.008, "matched_fragments": 1701, "total_fragments": 2031, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Klebsiella michiganensis", "strain": "strain=CCUG 66515", "accession": "GCA_009173485.1", "taxid": 1134687, "species_taxid": 1134687, "relation_to_type": "type", "validated": true, "ani": 93.8662, "matched_fragments": 1693, "total_fragments": 2031, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella michiganensis", "strain": "strain=DSM 25444", "accession": "GCA_002925905.1", "taxid": 1134687, "species_taxid": 1134687, "relation_to_type": "type", "validated": true, "ani": 93.8589, "matched_fragments": 1703, "total_fragments": 2031, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella oxytoca", "strain": "strain=NBRC 105695", "accession": "GCA_001598695.1", "taxid": 571, "species_taxid": 571, "relation_to_type": "type", "validated": true, "ani": 91.702, "matched_fragments": 1617, "total_fragments": 2031, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella spallanzanii", "strain": "", "accession": "GCA_902158555.1", "taxid": 2587528, "species_taxid": 2587528, "relation_to_type": "type", "validated": true, "ani": 89.2994, "matched_fragments": 1541, "total_fragments": 2031, "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": 84.3125, "matched_fragments": 1311, "total_fragments": 2031, "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": 82.0945, "matched_fragments": 963, "total_fragments": 2031, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter wuhouensis", "strain": "strain=WCHEW120002", "accession": "GCA_004331265.1", "taxid": 2529381, "species_taxid": 2529381, "relation_to_type": "type", "validated": true, "ani": 81.9203, "matched_fragments": 956, "total_fragments": 2031, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter rodentium", "strain": "strain=DSM 16636", "accession": "GCA_021278985.1", "taxid": 67825, "species_taxid": 67825, "relation_to_type": "type", "validated": true, "ani": 81.8022, "matched_fragments": 948, "total_fragments": 2031, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter sichuanensis", "strain": "strain=WCHECL1597", "accession": "GCA_025002605.1", "taxid": 2071710, "species_taxid": 2071710, "relation_to_type": "type", "validated": true, "ani": 81.5032, "matched_fragments": 929, "total_fragments": 2031, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900200035.1", "gtdb_species": "s__Klebsiella grimontii", "ani": 100.0, "matched_fragments": 2028, "total_fragments": 2031, "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": "conclusive" }, { "accession": "GCF_002925905.1", "gtdb_species": "s__Klebsiella michiganensis", "ani": 93.8619, "matched_fragments": 1703, "total_fragments": 2031, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.53", "min_intra_species_ani": "97.41", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 291, "status": "-" }, { "accession": "GCF_001598695.1", "gtdb_species": "s__Klebsiella oxytoca", "ani": 91.7084, "matched_fragments": 1616, "total_fragments": 2031, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "98.97", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 181, "status": "-" }, { "accession": "GCF_009707385.1", "gtdb_species": "s__Klebsiella oxytoca_C", "ani": 90.2677, "matched_fragments": 1523, "total_fragments": 2031, "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": 89.2915, "matched_fragments": 1542, "total_fragments": 2031, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.01", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_003261575.2", "gtdb_species": "s__Klebsiella huaxiensis", "ani": 88.3631, "matched_fragments": 1557, "total_fragments": 2031, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.95", "min_intra_species_ani": "95.21", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 9, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.073, "cell_length": 0.161, "doubling_h": 0.072, "growth_tmp": 33.764, "optimum_tmp": 33.514, "optimum_ph": 7.0, "genome_size": 5754114.408, "gc_content": 56.17, "coding_genes": 5508.809, "rRNA16S_genes": 7.971, "tRNA_genes": 85.856, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.25, "range_salinity": 0.0, "facultative_respiration": 0.2, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.8, "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", "grimontii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }