{ "type": "genome", "identifier": "GCF_000025565.1", "organism": "Enterobacter cloacae subsp. cloacae ATCC 13047", "title": "Enterobacter cloacae subsp. cloacae ATCC 13047", "description": "na", "data type": "Genome sequencing and assembly", "organization": "TEDA School of Biological Sciences and Biotechnology, Nankai University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000025565.1", "bioproject": "PRJNA224116", "biosample": "SAMN02603901", "wgs_master": "na", "refseq_category": "na", "taxid": "716541", "species_taxid": "550", "organism_name": "Enterobacter cloacae subsp. cloacae ATCC 13047", "infraspecific_name": "strain=ATCC 13047", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2010/04/23", "asm_name": "ASM2556v1", "asm_submitter": "TEDA School of Biological Sciences and Biotechnology, Nankai University", "gbrs_paired_asm": "GCA_000025565.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/025/565/GCF_000025565.1_ASM2556v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5598796", "genome_size_ungapped": "5598796", "gc_percent": "54.500000", "replicon_count": "3", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000025565.1-RS_2024_03_20", "annotation_date": "2024-03-20", "total_gene_count": "5518", "protein_coding_gene_count": "5233", "non_coding_gene_count": "117", "pubmed_id": "20207761" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2010-04-23", "dateModified": "2010-04-23", "datePublished": "2010-04-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterobacter cloacae subsp. cloacae ATCC 13047" ], "sample_taxid": [ "716541" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.586 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)": "5598796", "Number of Sequences": "3", "Longest Sequences (bp)": "5314581", "N50 (bp)": "5314581", "Gap Ratio (%)": "0.000018", "GCcontent (%)": "54.6", "Number of CDSs": "5494", "Average Protein Length": "301.1", "Coding Ratio (%)": "88.6", "Number of rRNAs": "25", "Number of tRNAs": "85", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterobacter cloacae subsp. cloacae", "strain": "strain=ATCC 13047", "accession": "GCA_000025565.1", "taxid": 336306, "species_taxid": 550, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1862, "total_fragments": 1865, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter cloacae", "strain": "strain=FDAARGOS 1431", "accession": "GCA_019047105.1", "taxid": 550, "species_taxid": 550, "relation_to_type": "type", "validated": true, "ani": 99.9915, "matched_fragments": 1859, "total_fragments": 1865, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter cloacae", "strain": "strain=DSM 30054", "accession": "GCA_013376815.1", "taxid": 550, "species_taxid": 550, "relation_to_type": "type", "validated": true, "ani": 99.9908, "matched_fragments": 1859, "total_fragments": 1865, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter cloacae", "strain": "strain=ATCC 13047", "accession": "GCA_000755525.1", "taxid": 550, "species_taxid": 550, "relation_to_type": "type", 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"total_fragments": 1865, "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": 89.1827, "matched_fragments": 1291, "total_fragments": 1865, "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": 87.827, "matched_fragments": 1298, "total_fragments": 1865, "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": "suspected-type", "validated": true, "ani": 87.6697, "matched_fragments": 1327, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leclercia pneumoniae", "strain": "strain=49125", "accession": "GCA_017348915.1", "taxid": 2815358, "species_taxid": 2815358, "relation_to_type": "type", "validated": true, "ani": 84.0962, "matched_fragments": 1083, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leclercia pneumoniae", "strain": "strain=49125", "accession": "GCA_018987305.1", "taxid": 2815358, "species_taxid": 2815358, "relation_to_type": "type", "validated": true, "ani": 84.0826, "matched_fragments": 1075, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio artabrorum", "strain": "strain=CECT 7226", "accession": "GCA_024347295.1", "taxid": 446374, "species_taxid": 446374, "relation_to_type": "type", "validated": true, "ani": 79.6145, "matched_fragments": 50, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea deleyi", "strain": "strain=LMG24200", "accession": "GCA_022647325.1", "taxid": 470932, "species_taxid": 470932, "relation_to_type": "type", "validated": true, "ani": 79.0617, "matched_fragments": 553, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea deleyi", "strain": "strain=LMG 24200", "accession": "GCA_006494415.1", "taxid": 470932, "species_taxid": 470932, "relation_to_type": "type", "validated": true, "ani": 78.8669, "matched_fragments": 535, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea deleyi", "strain": "strain=LMG 24200", "accession": "GCA_002095375.1", "taxid": 470932, "species_taxid": 470932, "relation_to_type": "type", "validated": true, "ani": 78.7898, "matched_fragments": 515, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea conspicua", "strain": "strain=LMG 24534", "accession": "GCA_002095315.1", "taxid": 472705, "species_taxid": 472705, "relation_to_type": "type", "validated": true, "ani": 78.7443, "matched_fragments": 476, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Edwardsiella piscicida", "strain": "strain=ACC35.1", "accession": "GCA_001896205.1", "taxid": 1263550, "species_taxid": 1263550, "relation_to_type": "reftype", "validated": true, "ani": 78.1708, "matched_fragments": 341, "total_fragments": 1865, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000025565.1", "gtdb_species": "s__Enterobacter cloacae", "ani": 100.0, "matched_fragments": 1863, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.05", "min_intra_species_ani": "95.14", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.80", "num_clustered_genomes": 129, "status": "conclusive" }, { "accession": "GCF_002939185.1", "gtdb_species": "s__Enterobacter sichuanensis", "ani": 89.2873, "matched_fragments": 1288, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.38", "min_intra_species_ani": "97.99", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 19, "status": "-" }, { "accession": "GCF_007035645.1", "gtdb_species": "s__Enterobacter asburiae_B", "ani": 89.1129, "matched_fragments": 1349, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 96.8818, "mean_intra_species_ani": 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"min_intra_species_ani": "98.99", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900324475.1", "gtdb_species": "s__Enterobacter bugandensis", "ani": 88.808, "matched_fragments": 1339, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.49", "min_intra_species_ani": "95.52", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.88", "num_clustered_genomes": 115, "status": "-" }, { "accession": "GCF_008080435.1", "gtdb_species": "s__Enterobacter asburiae_C", "ani": 88.7535, "matched_fragments": 1334, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.5575, "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_008364555.1", "gtdb_species": "s__Enterobacter vonholyi", "ani": 88.6963, "matched_fragments": 1283, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.34", "min_intra_species_ani": "98.09", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_001729765.1", "gtdb_species": "s__Enterobacter kobei", "ani": 88.5149, "matched_fragments": 1353, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.45", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 141, "status": "-" }, { "accession": "GCF_003046225.1", "gtdb_species": "s__Enterobacter cloacae_I", "ani": 88.4076, "matched_fragments": 1284, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.61", "min_intra_species_ani": "95.47", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_001750725.1", "gtdb_species": "s__Enterobacter ludwigii", "ani": 88.2801, "matched_fragments": 1347, "total_fragments": 1865, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", 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"N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 30.667, "optimum_tmp": 36.0, "optimum_ph": 7.0, "genome_size": 4955732.502, "gc_content": 54.827, "coding_genes": 4684.0, "rRNA16S_genes": 7.889, "tRNA_genes": 84.694, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 1.0, "facultative_respiration": 0.428, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.571, "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": [ "Enterobacter", "cloacae", "subsp.", "cloacae", "ATCC", "13047" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }