{ "type": "genome", "identifier": "GCF_030297255.1", "organism": "Burkholderia pseudomallei", "title": "Burkholderia pseudomallei", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Department of Molecular Bacteriology, Research Institute for Microbial Diseases, Osaka University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030297255.1", "bioproject": "PRJNA224116", "biosample": "SAMD00592127", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "28450", "species_taxid": "28450", "organism_name": "Burkholderia pseudomallei", "infraspecific_name": "strain=GTC3P0254T", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/05/16", "asm_name": "ASM3029725v1", "asm_submitter": "Department of Molecular Bacteriology, Research Institute for Microbial Diseases, Osaka University", "gbrs_paired_asm": "GCA_030297255.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/297/255/GCF_030297255.1_ASM3029725v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7081111", "genome_size_ungapped": "7081111", "gc_percent": "68.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030297255.1-RS_2024_06_21", "annotation_date": "2024-06-21", "total_gene_count": "6291", "protein_coding_gene_count": "6077", "non_coding_gene_count": "76", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-05-16", "dateModified": "2023-05-16", "datePublished": "2023-05-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Burkholderia pseudomallei" ], "sample_taxid": [ "28450" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.877 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7081111", "Number of Sequences": "2", "Longest Sequences (bp)": "3937683", "N50 (bp)": "3937683", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.2", "Number of CDSs": "5894", "Average Protein Length": "335.2", "Coding Ratio (%)": "83.7", "Number of rRNAs": "8", "Number of tRNAs": "84", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Burkholderia pseudomallei", "strain": "strain=ATCC 23343", "accession": "GCA_001182285.1", "taxid": 28450, "species_taxid": 28450, "relation_to_type": "type", "validated": true, "ani": 99.9754, "matched_fragments": 2313, "total_fragments": 2359, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Burkholderia pseudomallei", "strain": "strain=WRAIR 286", "accession": "GCA_006538545.1", "taxid": 28450, "species_taxid": 28450, "relation_to_type": "type", "validated": true, "ani": 99.9503, "matched_fragments": 2257, "total_fragments": 2359, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Burkholderia mallei", "strain": "strain=ATCC 23344", "accession": "GCA_000011705.1", "taxid": 13373, "species_taxid": 13373, "relation_to_type": "type", "validated": true, "ani": 99.2092, "matched_fragments": 1873, "total_fragments": 2359, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Burkholderia mallei", "strain": "strain=NCTC12938", "accession": "GCA_900446245.1", "taxid": 13373, "species_taxid": 13373, "relation_to_type": "type", 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"total_fragments": 2359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia anthina", "strain": "strain=DSM 16086", "accession": "GCA_016836725.1", "taxid": 179879, "species_taxid": 179879, "relation_to_type": "suspected-type", "validated": true, "ani": 84.6093, "matched_fragments": 1393, "total_fragments": 2359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia perseverans", "strain": "strain=INN12", "accession": "GCA_022870505.1", "taxid": 2615214, "species_taxid": 2615214, "relation_to_type": "type", "validated": true, "ani": 83.2138, "matched_fragments": 1358, "total_fragments": 2359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia flava", "strain": "strain=LD6", "accession": "GCA_004359985.1", "taxid": 2547393, "species_taxid": 2547393, "relation_to_type": "type", "validated": true, "ani": 81.6414, "matched_fragments": 1117, "total_fragments": 2359, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000011705.1", "gtdb_species": "s__Burkholderia mallei", "ani": 99.1976, "matched_fragments": 1873, "total_fragments": 2359, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "98.71", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.78", "num_clustered_genomes": 1780, "status": "conclusive" }, { "accession": "GCF_001462435.1", "gtdb_species": "s__Burkholderia humptydooensis", "ani": 93.1347, "matched_fragments": 1803, "total_fragments": 2359, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", 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"min_intra_species_ani": "99.33", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_000959365.1", "gtdb_species": "s__Burkholderia oklahomensis", "ani": 90.9513, "matched_fragments": 1894, "total_fragments": 2359, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "95.09", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.85", "num_clustered_genomes": 15, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.398, "cell_length": 0.301, "doubling_h": -0.188, "growth_tmp": 37.0, "optimum_tmp": 38.5, "optimum_ph": 6.64, "genome_size": 7199658.923, "gc_content": 67.966, "coding_genes": 6700.806, "rRNA16S_genes": 4.0, "tRNA_genes": 60.37, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, 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