{ "type": "genome", "identifier": "GCF_001514515.1", "organism": "Lelliottia amnigena NBRC 105700", "title": "Lelliottia amnigena NBRC 105700", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001514515.1", "bioproject": "PRJNA224116", "biosample": "SAMD00034176", "wgs_master": "BCNN00000000.1", "refseq_category": "na", "taxid": "1219085", "species_taxid": "61646", "organism_name": "Lelliottia amnigena NBRC 105700", "infraspecific_name": "strain=NBRC 105700", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/01/06", "asm_name": "ASM151451v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_001514515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/514/515/GCF_001514515.1_ASM151451v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4431882", "genome_size_ungapped": "4431882", "gc_percent": "53.000000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-08-06", "total_gene_count": "4235", "protein_coding_gene_count": "4091", "non_coding_gene_count": "85", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-01-06", "dateModified": "2016-01-06", "datePublished": "2016-01-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Lelliottia amnigena NBRC 105700" ], "sample_taxid": [ "1219085" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "NA" ], "sample_host_location_id": [], "data_size": "1.260 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4431882", "Number of Sequences": "20", "Longest Sequences (bp)": "997182", "N50 (bp)": "447079", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.9", "Number of CDSs": "4117", "Average Protein Length": "314.6", "Coding Ratio (%)": "87.7", "Number of rRNAs": "4", "Number of tRNAs": "75", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lelliottia amnigena", "strain": "strain=NBRC 105700", "accession": "GCA_001514515.1", "taxid": 61646, "species_taxid": 61646, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1468, "total_fragments": 1469, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lelliottia amnigena", "strain": "strain=FDAARGOS 1444", "accession": "GCA_019047465.1", "taxid": 61646, "species_taxid": 61646, "relation_to_type": "type", "validated": true, "ani": 99.9972, "matched_fragments": 1469, "total_fragments": 1469, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lelliottia amnigena", "strain": "strain=LMG 2784", "accession": "GCA_002553545.1", "taxid": 61646, "species_taxid": 61646, "relation_to_type": "type", "validated": true, "ani": 99.9879, "matched_fragments": 1418, "total_fragments": 1469, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lelliottia aquatilis", "strain": "strain=6331-17", "accession": "GCA_002923025.1", "taxid": 2080838, "species_taxid": 2080838, "relation_to_type": "type", "validated": true, "ani": 85.8059, "matched_fragments": 1170, "total_fragments": 1469, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lelliottia nimipressuralis", "strain": "strain=CCUG 25894", "accession": "GCA_004115925.1", "taxid": 69220, "species_taxid": 69220, "relation_to_type": "type", "validated": true, "ani": 85.7521, "matched_fragments": 1149, "total_fragments": 1469, "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": 84.0195, "matched_fragments": 1095, "total_fragments": 1469, "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": 83.9117, "matched_fragments": 1074, "total_fragments": 1469, "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": 83.8333, "matched_fragments": 1071, "total_fragments": 1469, "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": 83.7663, "matched_fragments": 1081, "total_fragments": 1469, "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": 83.7616, "matched_fragments": 1013, "total_fragments": 1469, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter bugandensis", "strain": "", "accession": "GCA_900324475.1", "taxid": 881260, "species_taxid": 881260, "relation_to_type": "type", "validated": true, "ani": 83.7205, "matched_fragments": 1091, "total_fragments": 1469, "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": 83.7091, "matched_fragments": 1065, "total_fragments": 1469, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter cancerogenus", "strain": "", "accession": "GCA_900185905.1", "taxid": 69218, "species_taxid": 69218, "relation_to_type": "type", "validated": true, "ani": 83.6988, "matched_fragments": 1072, "total_fragments": 1469, "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": 83.651, "matched_fragments": 1040, "total_fragments": 1469, "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": 83.5175, "matched_fragments": 1083, "total_fragments": 1469, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900635465.1", "gtdb_species": "s__Lelliottia amnigena", "ani": 99.9657, "matched_fragments": 1469, "total_fragments": 1469, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Lelliottia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.20", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 15, "status": "conclusive" }, { "accession": "GCF_000016325.1", "gtdb_species": "s__Lelliottia sp000016325", "ani": 93.6613, "matched_fragments": 1329, "total_fragments": 1469, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Lelliottia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.60", "min_intra_species_ani": "95.60", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002271215.1", "gtdb_species": "s__Lelliottia jeotgali", "ani": 85.7609, "matched_fragments": 1178, "total_fragments": 1469, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Lelliottia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.80", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_004115925.1", "gtdb_species": "s__Lelliottia nimipressuralis", "ani": 85.7424, "matched_fragments": 1150, "total_fragments": 1469, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Lelliottia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.29", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCA_009668015.1", "gtdb_species": "s__Lelliottia sp009668015", "ani": 85.5705, "matched_fragments": 1143, "total_fragments": 1469, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Lelliottia", "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_009176645.1", "gtdb_species": "s__Enterobacter oligotrophicus", "ani": 83.9106, "matched_fragments": 1074, "total_fragments": 1469, "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_001652505.2", "gtdb_species": "s__Lelliottia amnigena_A", "ani": 83.8607, "matched_fragments": 1088, "total_fragments": 1469, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Lelliottia", "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_009755685.1", "gtdb_species": "s__Enterobacter sp000568095", "ani": 83.83, "matched_fragments": 1066, "total_fragments": 1469, "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_003634515.1", "gtdb_species": "s__Enterobacter asburiae_A", "ani": 83.8169, "matched_fragments": 1072, "total_fragments": 1469, "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_003594915.1", "gtdb_species": "s__Enterobacter chuandaensis", "ani": 83.813, "matched_fragments": 1072, "total_fragments": 1469, "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": "98.32", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_008080435.1", "gtdb_species": "s__Enterobacter asburiae_C", "ani": 83.8043, "matched_fragments": 1050, "total_fragments": 1469, "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_900322725.1", "gtdb_species": "s__Enterobacter quasihormaechei", "ani": 83.6156, "matched_fragments": 1068, "total_fragments": 1469, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.46", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.89", "num_clustered_genomes": 41, "status": "-" }, { "accession": "GCF_000025565.1", "gtdb_species": "s__Enterobacter cloacae", "ani": 83.5355, "matched_fragments": 1100, "total_fragments": 1469, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 30.5, "optimum_tmp": 30.0, "optimum_ph": null, "genome_size": 4570566.286, "gc_content": 53.352, "coding_genes": 4173.332, "rRNA16S_genes": 7.0, "tRNA_genes": 82.5, "gram_stain": 0.0, "sporulation": null, "motility": 1.0, "range_salinity": null, "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": [ "Lelliottia", "amnigena", "NBRC", "105700" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }