{ "type": "genome", "identifier": "GCF_000818595.1", "organism": "Enterobacter ludwigii", "title": "Enterobacter ludwigii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chengdu Military General Hospital", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000818595.1", "bioproject": "PRJNA224116", "biosample": "SAMN03246119", "wgs_master": "JTLO00000000.1", "refseq_category": "na", "taxid": "299767", "species_taxid": "299767", "organism_name": "Enterobacter ludwigii", "infraspecific_name": "strain=EN-119", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/01/15", "asm_name": "ASM81859v1", "asm_submitter": "Chengdu Military General Hospital", "gbrs_paired_asm": "GCA_000818595.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/818/595/GCF_000818595.1_ASM81859v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4952770", "genome_size_ungapped": "4952770", "gc_percent": "54.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000818595.1-RS_2024_05_16", "annotation_date": "2024-05-16", "total_gene_count": "4707", "protein_coding_gene_count": "4526", "non_coding_gene_count": "123", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-01-15", "dateModified": "2015-01-15", "datePublished": "2015-01-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterobacter ludwigii" ], "sample_taxid": [ "299767" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany:Munich" ], "sample_host_location_id": [], "data_size": "1.403 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)": "4952770", "Number of Sequences": "2", "Longest Sequences (bp)": "4857439", "N50 (bp)": "4857439", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "54.6", "Number of CDSs": "4579", "Average Protein Length": "321.1", "Coding Ratio (%)": "89.1", "Number of rRNAs": "27", "Number of tRNAs": "87", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterobacter ludwigii", "strain": "strain=EN-119", "accession": "GCA_000818595.1", "taxid": 299767, "species_taxid": 299767, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1649, "total_fragments": 1650, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter ludwigii", "strain": "strain=EN-119", "accession": "GCA_001750725.1", "taxid": 299767, "species_taxid": 299767, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1649, "total_fragments": 1650, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter ludwigii", "strain": "strain=FDAARGOS 1436", "accession": "GCA_019047005.1", "taxid": 299767, "species_taxid": 299767, "relation_to_type": "type", "validated": true, "ani": 99.9994, "matched_fragments": 1647, "total_fragments": 1650, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter asburiae", "strain": "strain=FDAARGOS_892", "accession": "GCA_016027695.1", "taxid": 61645, "species_taxid": 61645, "relation_to_type": "type", "validated": true, "ani": 89.0791, "matched_fragments": 1270, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter asburiae", "strain": "strain=ATCC 35953", "accession": "GCA_001521715.1", "taxid": 61645, "species_taxid": 61645, "relation_to_type": "type", "validated": true, "ani": 89.0076, "matched_fragments": 1277, "total_fragments": 1650, "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": 88.7517, "matched_fragments": 1242, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter vonholyi", "strain": "strain=E13", "accession": "GCA_008364555.1", "taxid": 2797505, "species_taxid": 2797505, "relation_to_type": "type", "validated": true, "ani": 88.5018, "matched_fragments": 1278, "total_fragments": 1650, "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": 88.4953, "matched_fragments": 1290, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter chengduensis", "strain": "strain=WCHECl-C4 = WCHECh050004", "accession": "GCA_001984825.2", "taxid": 2494701, "species_taxid": 2494701, "relation_to_type": "type", "validated": true, "ani": 88.4047, "matched_fragments": 1299, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter kobei", "strain": "strain=DSM 13645", "accession": "GCA_001729765.1", "taxid": 208224, "species_taxid": 208224, "relation_to_type": "type", "validated": true, "ani": 88.345, "matched_fragments": 1286, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter cloacae", "strain": "strain=DSM 30054", "accession": "GCA_021469225.1", "taxid": 550, "species_taxid": 550, "relation_to_type": "type", "validated": true, "ani": 88.2646, "matched_fragments": 1333, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter oligotrophicus", "strain": "strain=CCA6", "accession": "GCA_009176645.1", "taxid": 2478464, "species_taxid": 2478464, "relation_to_type": "type", "validated": true, "ani": 87.6609, "matched_fragments": 1210, "total_fragments": 1650, "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": 87.5683, "matched_fragments": 1297, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter hormaechei subsp. oharae", "strain": "strain=FDAARGOS_1533", "accession": "GCA_020097195.1", "taxid": 301102, "species_taxid": 158836, "relation_to_type": "type", "validated": true, "ani": 87.0502, "matched_fragments": 1277, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter hormaechei subsp. oharae", "strain": "strain=DSM 16687", "accession": "GCA_001729705.1", "taxid": 301102, "species_taxid": 158836, "relation_to_type": "type", "validated": true, "ani": 87.032, "matched_fragments": 1286, "total_fragments": 1650, "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": 87.0001, "matched_fragments": 1255, "total_fragments": 1650, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001750725.1", "gtdb_species": "s__Enterobacter ludwigii", "ani": 100.0, "matched_fragments": 1649, "total_fragments": 1650, "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", "min_intra_species_ani": "98.47", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.83", "num_clustered_genomes": 88, "status": "conclusive" }, { "accession": "GCF_001521715.1", "gtdb_species": "s__Enterobacter asburiae", "ani": 89.0188, "matched_fragments": 1276, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 96.8818, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 32, "status": "-" }, { "accession": "GCF_007035645.1", "gtdb_species": "s__Enterobacter asburiae_B", "ani": 88.9394, "matched_fragments": 1333, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 96.8818, "mean_intra_species_ani": "98.31", "min_intra_species_ani": "97.34", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 70, "status": "-" }, { "accession": "GCF_003634515.1", "gtdb_species": "s__Enterobacter asburiae_A", "ani": 88.8493, "matched_fragments": 1350, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 96.0274, "mean_intra_species_ani": "97.62", "min_intra_species_ani": "96.46", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_002208095.1", "gtdb_species": "s__Enterobacter cloacae_M", "ani": 88.8357, "matched_fragments": 1332, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 96.7528, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "96.89", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 84, "status": "-" }, { "accession": "GCF_001022965.1", "gtdb_species": "s__Enterobacter cloacae_L", "ani": 88.7745, "matched_fragments": 1354, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.51", "min_intra_species_ani": "97.16", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_009755685.1", "gtdb_species": "s__Enterobacter sp000568095", "ani": 88.7403, "matched_fragments": 1351, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0476, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "98.04", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_001729805.1", "gtdb_species": "s__Enterobacter roggenkampii", "ani": 88.6798, "matched_fragments": 1331, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.21", "min_intra_species_ani": "95.50", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 197, "status": "-" }, { "accession": "GCF_008080435.1", "gtdb_species": "s__Enterobacter asburiae_C", "ani": 88.6646, "matched_fragments": 1348, "total_fragments": 1650, "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_004402045.1", "gtdb_species": "s__Enterobacter nimipressuralis_A", "ani": 88.6135, "matched_fragments": 1361, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "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_008364555.1", "gtdb_species": "s__Enterobacter vonholyi", "ani": 88.5018, "matched_fragments": 1278, "total_fragments": 1650, "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_001984825.2", "gtdb_species": "s__Enterobacter chengduensis", "ani": 88.4095, "matched_fragments": 1300, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.11", "min_intra_species_ani": "95.58", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.79", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCF_003046225.1", "gtdb_species": "s__Enterobacter cloacae_I", "ani": 88.4025, "matched_fragments": 1258, "total_fragments": 1650, "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_001729765.1", "gtdb_species": "s__Enterobacter kobei", "ani": 88.3486, "matched_fragments": 1286, "total_fragments": 1650, "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_000211415.1", "gtdb_species": "s__Enterobacter mori", "ani": 87.7045, "matched_fragments": 1313, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.59", "min_intra_species_ani": "96.13", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 23, "status": "-" }, { "accession": "GCF_014169315.1", "gtdb_species": "s__Enterobacter cloacae_P", "ani": 87.6969, "matched_fragments": 1209, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.13", "min_intra_species_ani": "99.10", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_009176645.1", "gtdb_species": "s__Enterobacter oligotrophicus", "ani": 87.6609, "matched_fragments": 1210, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.55", "min_intra_species_ani": "99.09", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_004331265.1", "gtdb_species": "s__Enterobacter wuhouensis", "ani": 87.5783, "matched_fragments": 1296, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "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_011078175.1", "gtdb_species": "s__Enterobacter cloacae_Q", "ani": 86.7019, "matched_fragments": 1214, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "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": "GCF_019047785.1", "gtdb_species": "s__Enterobacter cancerogenus", "ani": 86.6462, "matched_fragments": 1243, "total_fragments": 1650, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "98.42", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 16, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 33.0, "optimum_tmp": 31.5, "optimum_ph": 5.75, "genome_size": 4950460.143, "gc_content": 54.604, "coding_genes": 4494.5, "rRNA16S_genes": 9.0, "tRNA_genes": 86.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.833, "range_salinity": 1.0, "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": [ "Enterobacter", "ludwigii" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }