{ "type": "genome", "identifier": "GCF_900176645.1", "organism": "Burkholderia singularis", "title": "Burkholderia singularis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "UZH", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900176645.1", "bioproject": "PRJNA224116", "biosample": "SAMEA103971362", "wgs_master": "FXAN00000000.1", "refseq_category": "na", "taxid": "1503053", "species_taxid": "1503053", "organism_name": "Burkholderia singularis", "infraspecific_name": "strain=LMG 28154", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/07/16", "asm_name": "LMG28154v1", "asm_submitter": "UZH", "gbrs_paired_asm": "GCA_900176645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/176/645/GCF_900176645.1_LMG28154v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5538112", "genome_size_ungapped": "5538112", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "135", "contig_count": "135", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900176645.1-RS_2024_08_14", "annotation_date": "2024-08-14", "total_gene_count": "4884", "protein_coding_gene_count": "4675", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-07-16", "dateModified": "2017-07-16", "datePublished": "2017-07-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Burkholderia singularis" ], "sample_taxid": [ "1503053" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "diseased" ], "sample_host_disease_id": [], "sample_host_location": [ "Canada" ], "sample_host_location_id": [], "data_size": "1.525 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)": "5538112", "Number of Sequences": "135", "Longest Sequences (bp)": "219067", "N50 (bp)": "83558", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.3", "Number of CDSs": "4639", "Average Protein Length": "328.7", "Coding Ratio (%)": "82.6", "Number of rRNAs": "2", "Number of tRNAs": "64", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Burkholderia singularis", "strain": "strain=LMG 28154", "accession": "GCA_900176645.1", "taxid": 1503053, "species_taxid": 1503053, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1775, "total_fragments": 1781, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Burkholderia oklahomensis", "strain": "strain=LMG 23618", "accession": "GCA_900608545.1", "taxid": 342113, "species_taxid": 342113, "relation_to_type": "type", "validated": true, "ani": 85.6502, "matched_fragments": 1275, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia oklahomensis", "strain": "strain=C6786", "accession": "GCA_001522135.2", "taxid": 342113, "species_taxid": 342113, "relation_to_type": "type", "validated": true, "ani": 85.6068, "matched_fragments": 1292, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia thailandensis", "strain": "strain=E264; ATCC 700388", "accession": "GCA_000012365.1", "taxid": 57975, "species_taxid": 57975, "relation_to_type": "type", "validated": true, "ani": 85.5445, "matched_fragments": 1248, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia thailandensis", "strain": "strain=E264", "accession": "GCA_003568605.1", "taxid": 57975, "species_taxid": 57975, "relation_to_type": "type", "validated": true, "ani": 85.5312, "matched_fragments": 1237, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia oklahomensis", "strain": "strain=C6786", "accession": "GCA_000170375.1", "taxid": 342113, "species_taxid": 342113, "relation_to_type": "type", "validated": true, "ani": 85.498, "matched_fragments": 1144, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia thailandensis", "strain": "strain=ATCC 700388", "accession": "GCA_000152285.1", "taxid": 57975, "species_taxid": 57975, "relation_to_type": "type", "validated": true, "ani": 85.496, "matched_fragments": 1179, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia mayonis", "strain": "strain=BDU6", "accession": "GCA_001523745.2", "taxid": 1385591, "species_taxid": 1385591, "relation_to_type": "type", "validated": true, "ani": 85.4564, "matched_fragments": 1248, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia mallei", "strain": "strain=ATCC 23344", "accession": "GCA_000011705.1", "taxid": 13373, "species_taxid": 13373, "relation_to_type": "type", "validated": true, "ani": 85.4071, "matched_fragments": 1197, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia pseudomallei", "strain": "strain=ATCC 23343", "accession": "GCA_001182285.1", "taxid": 28450, "species_taxid": 28450, "relation_to_type": "type", "validated": true, "ani": 85.407, "matched_fragments": 1275, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia mallei", "strain": "strain=NCTC12938", "accession": "GCA_900446245.1", "taxid": 13373, "species_taxid": 13373, "relation_to_type": "type", "validated": true, "ani": 85.3878, "matched_fragments": 1201, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia pseudomallei", "strain": "strain=WRAIR 286", "accession": "GCA_006538545.1", "taxid": 28450, "species_taxid": 28450, "relation_to_type": "type", "validated": true, "ani": 85.3401, "matched_fragments": 1260, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia multivorans", "strain": "strain=ATCC BAA-247", "accession": "GCA_000959525.1", "taxid": 87883, "species_taxid": 87883, "relation_to_type": "type", "validated": true, "ani": 83.5304, "matched_fragments": 1079, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia multivorans", "strain": "strain=NCTC13007", "accession": "GCA_900446205.1", "taxid": 87883, "species_taxid": 87883, "relation_to_type": "type", "validated": true, "ani": 83.5252, "matched_fragments": 1068, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia multivorans", "strain": "strain=ATCC BAA-247", "accession": "GCA_000286555.1", "taxid": 87883, "species_taxid": 87883, "relation_to_type": "type", "validated": true, "ani": 83.5094, "matched_fragments": 928, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia ubonensis", "strain": "", "accession": "GCA_902499185.1", "taxid": 101571, "species_taxid": 101571, "relation_to_type": "type", "validated": true, "ani": 83.3423, "matched_fragments": 1099, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia ubonensis", "strain": "strain=LMG 20358", "accession": "GCA_902833085.1", "taxid": 101571, "species_taxid": 101571, "relation_to_type": "type", "validated": true, "ani": 83.3132, "matched_fragments": 1150, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia pseudomultivorans", "strain": "", "accession": "GCA_902499075.1", "taxid": 1207504, "species_taxid": 1207504, "relation_to_type": "suspected-type", "validated": true, "ani": 83.027, "matched_fragments": 1111, "total_fragments": 1781, "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": 82.8945, "matched_fragments": 1108, "total_fragments": 1781, "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": 81.8904, "matched_fragments": 1056, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia monticola", "strain": "strain=JC2948", "accession": "GCA_001580545.1", "taxid": 1399968, "species_taxid": 1399968, "relation_to_type": "type", "validated": true, "ani": 80.9062, "matched_fragments": 862, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia gardini", "strain": "strain=LMG 32171", "accession": "GCA_907164575.1", "taxid": 2823469, "species_taxid": 2823469, "relation_to_type": "type", "validated": true, "ani": 80.5453, "matched_fragments": 735, "total_fragments": 1781, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900176645.1", "gtdb_species": "s__Burkholderia singularis", "ani": 100.0, "matched_fragments": 1775, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.47", "min_intra_species_ani": "98.45", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_001522865.1", "gtdb_species": "s__Burkholderia sp001522865", "ani": 94.974, "matched_fragments": 1615, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "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_001462435.1", "gtdb_species": "s__Burkholderia humptydooensis", "ani": 85.7653, "matched_fragments": 1255, "total_fragments": 1781, "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", "min_intra_species_ani": "99.18", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCF_000959365.1", "gtdb_species": "s__Burkholderia oklahomensis", "ani": 85.6386, "matched_fragments": 1276, "total_fragments": 1781, "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": "-" }, { "accession": "GCF_000012365.1", "gtdb_species": "s__Burkholderia thailandensis", "ani": 85.5445, "matched_fragments": 1248, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.58", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 53, "status": "-" }, { "accession": "GCF_001524625.2", "gtdb_species": "s__Burkholderia sp001524625", "ani": 85.4966, "matched_fragments": 1302, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.38", "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_000011705.1", "gtdb_species": "s__Burkholderia mallei", "ani": 85.4056, "matched_fragments": 1197, "total_fragments": 1781, "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": "-" }, { "accession": "GCF_000959525.1", "gtdb_species": "s__Burkholderia multivorans", "ani": 83.5672, "matched_fragments": 1075, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "96.90", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 326, "status": "-" }, { "accession": "GCF_000959245.1", "gtdb_species": "s__Burkholderia ubonensis", "ani": 83.4803, "matched_fragments": 1127, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "95.69", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.72", "num_clustered_genomes": 308, "status": "-" }, { "accession": "GCF_902499075.1", "gtdb_species": "s__Burkholderia pseudomultivorans", "ani": 83.0223, "matched_fragments": 1113, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Burkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.22", "min_intra_species_ani": "95.54", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.81", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_001580545.1", "gtdb_species": "s__Paraburkholderia monticola", "ani": 80.9276, "matched_fragments": 858, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia", "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": "GCA_004298475.1", "gtdb_species": "s__Paraburkholderia sp004298475", "ani": 80.7852, "matched_fragments": 678, "total_fragments": 1781, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.94", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.313, "cell_length": 0.083, "doubling_h": -0.157, "growth_tmp": 30.386, "optimum_tmp": 33.887, "optimum_ph": 6.64, "genome_size": 6987293.396, "gc_content": 65.924, "coding_genes": 6506.313, "rRNA16S_genes": 5.424, "tRNA_genes": 66.201, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.8, "range_salinity": 0.25, "facultative_respiration": 0.111, "anaerobic_respiration": 0.037, "aerobic_respiration": 0.851, "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": [ "Burkholderia", "singularis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }