{
    "type": "genome",
    "identifier": "GCF_013366925.1",
    "organism": "Paraburkholderia youngii",
    "title": "Paraburkholderia youngii",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Pretoria",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_013366925.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN14144370",
        "wgs_master": "JAALDK000000000.1",
        "refseq_category": "reference genome",
        "taxid": "2782701",
        "species_taxid": "2782701",
        "organism_name": "Paraburkholderia youngii",
        "infraspecific_name": "strain=JPY169",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2020/06/22",
        "asm_name": "ASM1336692v1",
        "asm_submitter": "University of Pretoria",
        "gbrs_paired_asm": "GCA_013366925.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/366/925/GCF_013366925.1_ASM1336692v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "9492390",
        "genome_size_ungapped": "9492390",
        "gc_percent": "63.000000",
        "replicon_count": "0",
        "scaffold_count": "4",
        "contig_count": "4",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_013366925.1-RS_2024_09_29",
        "annotation_date": "2024-09-29",
        "total_gene_count": "8849",
        "protein_coding_gene_count": "8291",
        "non_coding_gene_count": "97",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2020-06-22",
    "dateModified": "2020-06-22",
    "datePublished": "2020-06-22",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Paraburkholderia youngii"
        ],
        "sample_taxid": [
            "2782701"
        ],
        "sample_host_organism": [
            "Mimosa xanthocentra var. subsericea"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Brazil"
        ],
        "sample_host_location_id": [],
        "data_size": "2.622 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)": "9492390",
        "Number of Sequences": "4",
        "Longest Sequences (bp)": "6823646",
        "N50 (bp)": "6823646",
        "Gap Ratio (%)": "0.000042",
        "GCcontent (%)": "62.8",
        "Number of CDSs": "8777",
        "Average Protein Length": "302.9",
        "Coding Ratio (%)": "84.0",
        "Number of rRNAs": "14",
        "Number of tRNAs": "83",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Paraburkholderia youngii",
                "strain": "strain=JPY169",
                "accession": "GCA_013366925.1",
                "taxid": 2782701,
                "species_taxid": 2782701,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 3163,
                "total_fragments": 3163,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Paraburkholderia atlantica",
                "strain": "strain=CNPSo 3155",
                "accession": "GCA_009362785.1",
                "taxid": 2654982,
                "species_taxid": 2654982,
                "relation_to_type": "type",
                "validated": true,
                "ani": 94.7127,
                "matched_fragments": 2332,
                "total_fragments": 3163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paraburkholderia tuberum",
                "strain": "strain=LMG 21444",
                "accession": "GCA_902833905.1",
                "taxid": 157910,
                "species_taxid": 157910,
                "relation_to_type": "type",
                "validated": true,
                "ani": 92.3429,
                "matched_fragments": 1986,
                "total_fragments": 3163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paraburkholderia podalyriae",
                "strain": "strain=WC7.3b",
                "accession": "GCA_014397785.1",
                "taxid": 1938811,
                "species_taxid": 1938811,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.0951,
                "matched_fragments": 1921,
                "total_fragments": 3163,
                "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": 90.6482,
                "matched_fragments": 1837,
                "total_fragments": 3163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paraburkholderia haematera",
                "strain": "strain=LMG 31837",
                "accession": "GCA_905220975.1",
                "taxid": 2793077,
                "species_taxid": 2793077,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.9854,
                "matched_fragments": 1402,
                "total_fragments": 3163,
                "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": 83.863,
                "matched_fragments": 1444,
                "total_fragments": 3163,
                "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": 83.8539,
                "matched_fragments": 1507,
                "total_fragments": 3163,
                "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": 83.3367,
                "matched_fragments": 1193,
                "total_fragments": 3163,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_013366925.1",
                "gtdb_species": "s__Paraburkholderia youngii",
                "ani": 100.0,
                "matched_fragments": 3163,
                "total_fragments": 3163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.48",
                "min_intra_species_ani": "97.40",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 5,
                "status": "conclusive"
            },
            {
                "accession": "GCF_009362785.1",
                "gtdb_species": "s__Paraburkholderia atlantica",
                "ani": 94.7218,
                "matched_fragments": 2329,
                "total_fragments": 3163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.68",
                "min_intra_species_ani": "97.45",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 7,
                "status": "-"
            },
            {
                "accession": "GCF_902833905.1",
                "gtdb_species": "s__Paraburkholderia tuberum",
                "ani": 92.3781,
                "matched_fragments": 1982,
                "total_fragments": 3163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.72",
                "min_intra_species_ani": "96.26",
                "mean_intra_species_af": "0.82",
                "min_intra_species_af": "0.75",
                "num_clustered_genomes": 13,
                "status": "-"
            },
            {
                "accession": "GCF_004197395.1",
                "gtdb_species": "s__Paraburkholderia sp004197395",
                "ani": 92.1563,
                "matched_fragments": 2110,
                "total_fragments": 3163,
                "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_014397785.1",
                "gtdb_species": "s__Paraburkholderia sp014397785",
                "ani": 91.1062,
                "matched_fragments": 1919,
                "total_fragments": 3163,
                "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_000173575.1",
                "gtdb_species": "s__Paraburkholderia sp000173575",
                "ani": 90.9021,
                "matched_fragments": 1862,
                "total_fragments": 3163,
                "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_001865575.1",
                "gtdb_species": "s__Paraburkholderia sprentiae",
                "ani": 90.7265,
                "matched_fragments": 1915,
                "total_fragments": 3163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paraburkholderia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.96",
                "min_intra_species_ani": "99.96",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_001580545.1",
                "gtdb_species": "s__Paraburkholderia monticola",
                "ani": 90.6482,
                "matched_fragments": 1837,
                "total_fragments": 3163,
                "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": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.206,
        "cell_length": 0.138,
        "doubling_h": 0.0,
        "growth_tmp": 29.45,
        "optimum_tmp": 29.643,
        "optimum_ph": 6.11,
        "genome_size": 7672919.331,
        "gc_content": 62.985,
        "coding_genes": 7196.441,
        "rRNA16S_genes": 5.571,
        "tRNA_genes": 61.73,
        "gram_stain": 0.0,
        "sporulation": 0.035,
        "motility": 0.689,
        "range_salinity": 0.5,
        "facultative_respiration": 0.029,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 0.97,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 0.945,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.054,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Paraburkholderia",
        "youngii"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}