{ "type": "genome", "identifier": "GCF_009455625.1", "organism": "Paraburkholderia bonniea", "title": "Paraburkholderia bonniea", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Washington University in St. Louis", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009455625.1", "bioproject": "PRJNA224116", "biosample": "SAMN09651436", "wgs_master": "QPEQ00000000.1", "refseq_category": "reference genome", "taxid": "2152891", "species_taxid": "2152891", "organism_name": "Paraburkholderia bonniea", "infraspecific_name": "strain=BbQS859", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/11/01", "asm_name": "ASM945562v1", "asm_submitter": "Washington University in St. Louis", "gbrs_paired_asm": "GCA_009455625.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/455/625/GCF_009455625.1_ASM945562v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4098182", "genome_size_ungapped": "4098182", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009455625.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3557", "protein_coding_gene_count": "3404", "non_coding_gene_count": "72", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-11-01", "dateModified": "2019-11-01", "datePublished": "2019-11-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Paraburkholderia bonniea" ], "sample_taxid": [ "2152891" ], "sample_host_organism": [ "Dictyostelium discoideum" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Virginia" ], "sample_host_location_id": [], "data_size": "1.140 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)": "4098182", "Number of Sequences": "2", "Longest Sequences (bp)": "3175376", "N50 (bp)": "3175376", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.7", "Number of CDSs": "3543", "Average Protein Length": "324.5", "Coding Ratio (%)": "84.1", "Number of rRNAs": "12", "Number of tRNAs": "56", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paraburkholderia bonniea", "strain": "strain=BbQS859", "accession": "GCA_009455625.1", "taxid": 2152891, "species_taxid": 2152891, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1364, "total_fragments": 1365, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Paraburkholderia hayleyella", "strain": "strain=BhQS11", "accession": "GCA_009455685.1", "taxid": 2152889, "species_taxid": 2152889, "relation_to_type": "type", "validated": true, "ani": 81.1782, "matched_fragments": 850, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia ribeironis", "strain": "strain=STM 7296", "accession": "GCA_900019265.2", "taxid": 1247936, "species_taxid": 1247936, "relation_to_type": "type", "validated": true, "ani": 79.0903, "matched_fragments": 517, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia lacunae", "strain": "strain=S27", "accession": "GCA_003353175.1", "taxid": 2211104, "species_taxid": 2211104, "relation_to_type": "type", "validated": true, "ani": 79.0109, "matched_fragments": 560, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia terricola", "strain": "strain=LMG 20594", "accession": "GCA_902833815.1", "taxid": 169427, "species_taxid": 169427, "relation_to_type": "type", "validated": true, "ani": 78.9598, "matched_fragments": 571, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia graminis", "strain": "strain=LMG 18924", "accession": "GCA_902859785.1", "taxid": 60548, "species_taxid": 60548, "relation_to_type": "type", "validated": true, "ani": 78.9304, "matched_fragments": 519, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia phytofirmans", "strain": "strain=PsJN", "accession": "GCA_000020125.1", "taxid": 261302, "species_taxid": 261302, "relation_to_type": "type", "validated": true, "ani": 78.9234, "matched_fragments": 586, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia kirstenboschensis", "strain": "strain=KB15", "accession": "GCA_001636975.1", "taxid": 1245436, "species_taxid": 1245436, "relation_to_type": "type", "validated": true, "ani": 78.9226, "matched_fragments": 424, "total_fragments": 1365, "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": 78.8946, "matched_fragments": 519, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia terricola", "strain": "strain=LMG 20594", "accession": "GCA_900142195.1", "taxid": 169427, "species_taxid": 169427, "relation_to_type": "type", "validated": true, "ani": 78.8354, "matched_fragments": 570, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia panacisoli", "strain": "strain=DCY113", "accession": "GCA_008369935.1", "taxid": 2603818, "species_taxid": 2603818, "relation_to_type": "type", "validated": true, "ani": 78.816, "matched_fragments": 552, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia graminis", "strain": "strain=C4D1M", "accession": "GCA_000172415.1", "taxid": 60548, "species_taxid": 60548, "relation_to_type": "type", "validated": true, "ani": 78.8137, "matched_fragments": 502, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia nemoris", "strain": "strain=LMG 31836", "accession": "GCA_905221015.1", "taxid": 2793076, "species_taxid": 2793076, "relation_to_type": "type", "validated": true, "ani": 78.7926, "matched_fragments": 564, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia saeva", "strain": "strain=LMG 31841", "accession": "GCA_907164555.1", "taxid": 2777537, "species_taxid": 2777537, "relation_to_type": "type", "validated": true, "ani": 78.7903, "matched_fragments": 516, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia hospita", "strain": "strain=DSM 17164", "accession": "GCA_002902965.1", "taxid": 169430, "species_taxid": 169430, "relation_to_type": "type", "validated": true, "ani": 78.7596, "matched_fragments": 543, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia domus", "strain": "strain=LMG 31832", "accession": "GCA_905220705.1", "taxid": 2793075, "species_taxid": 2793075, "relation_to_type": "type", "validated": true, "ani": 78.6925, "matched_fragments": 562, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia azotifigens", "strain": "strain=NF 2-5-3", "accession": "GCA_007995085.1", "taxid": 2057004, "species_taxid": 2057004, "relation_to_type": "type", "validated": true, "ani": 78.6748, "matched_fragments": 531, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia hospita", "strain": "strain=LMG 20598", "accession": "GCA_902833685.1", "taxid": 169430, "species_taxid": 169430, "relation_to_type": "type", "validated": true, "ani": 78.5485, "matched_fragments": 531, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia hospita", "strain": "strain=LMG 20598", "accession": "GCA_900108355.1", "taxid": 169430, "species_taxid": 169430, "relation_to_type": "type", "validated": true, "ani": 78.5466, "matched_fragments": 536, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia sabiae", "strain": "strain=LMG 24235", "accession": "GCA_904848645.1", "taxid": 273251, "species_taxid": 273251, 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"matched_fragments": 137, "total_fragments": 1365, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009455625.1", "gtdb_species": "s__Paraburkholderia bonniea", "ani": 100.0, "matched_fragments": 1364, "total_fragments": 1365, "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": "conclusive" }, { "accession": "GCF_009455685.1", "gtdb_species": "s__Paraburkholderia hayleyella", "ani": 81.1108, "matched_fragments": 850, "total_fragments": 1365, "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": "GCF_003368325.1", "gtdb_species": "s__Paraburkholderia caffeinilytica", "ani": 79.0845, "matched_fragments": 561, "total_fragments": 1365, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia", "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": 3, "status": "-" }, { "accession": "GCF_000739735.1", "gtdb_species": "s__Paraburkholderia ginsengisoli", "ani": 79.0568, "matched_fragments": 551, "total_fragments": 1365, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia", "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_900996235.1", "gtdb_species": "s__Paraburkholderia sp900996235", "ani": 79.0495, "matched_fragments": 546, "total_fragments": 1365, "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": "GCF_902859915.1", "gtdb_species": "s__Paraburkholderia ultramafica", "ani": 79.0429, "matched_fragments": 564, "total_fragments": 1365, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia", 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