{ "type": "genome", "identifier": "GCF_014836715.1", "organism": "Escherichia whittamii", "title": "Escherichia whittamii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Quadram Institutte", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014836715.1", "bioproject": "PRJNA224116", "biosample": "SAMN15803250", "wgs_master": "JACSQI000000000.1", "refseq_category": "reference genome", "taxid": "2762229", "species_taxid": "2762229", "organism_name": "Escherichia whittamii", "infraspecific_name": "strain=Sa2BVA5", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/30", "asm_name": "ASM1483671v1", "asm_submitter": "Quadram Institutte", "gbrs_paired_asm": "GCA_014836715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/836/715/GCF_014836715.1_ASM1483671v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4550254", "genome_size_ungapped": "4549724", "gc_percent": "50.500000", "replicon_count": "0", "scaffold_count": "40", "contig_count": "40", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014836715.1-RS_2024_11_18", "annotation_date": "2024-11-18", "total_gene_count": "4352", "protein_coding_gene_count": "4169", "non_coding_gene_count": "71", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-30", "dateModified": "2020-09-30", "datePublished": "2020-09-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Escherichia whittamii" ], "sample_taxid": [ "2762229" ], "sample_host_organism": [ "Gallus gallus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United 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"below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001660175.1", "gtdb_species": "s__Escherichia sp001660175", "ani": 99.1907, "matched_fragments": 1447, "total_fragments": 1500, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.53", "min_intra_species_ani": "99.22", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_004211955.1", "gtdb_species": "s__Escherichia sp004211955", "ani": 94.8214, "matched_fragments": 1316, "total_fragments": 1500, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", 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"95.57", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.72", "num_clustered_genomes": 26859, "status": "-" }, { "accession": "GCF_002900365.1", "gtdb_species": "s__Escherichia marmotae", "ani": 91.154, "matched_fragments": 1293, "total_fragments": 1500, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "98.77", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 82, "status": "-" }, { "accession": "GCF_000026225.1", "gtdb_species": "s__Escherichia fergusonii", "ani": 89.2067, "matched_fragments": 1098, "total_fragments": 1500, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "98.39", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 77, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.288, "cell_length": 0.301, "doubling_h": -0.472, "growth_tmp": 34.343, "optimum_tmp": 36.99, "optimum_ph": 6.75, "genome_size": 4752613.763, "gc_content": 51.303, "coding_genes": 4404.051, "rRNA16S_genes": 7.033, "tRNA_genes": 88.493, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.75, "range_salinity": 0.0, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "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": [ "Escherichia", "whittamii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }