{
    "type": "genome",
    "identifier": "GCF_003350265.1",
    "organism": "Trinickia caryophylli",
    "title": "Trinickia caryophylli",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Helsinki",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_003350265.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN09428657",
        "wgs_master": "QLKX00000000.1",
        "refseq_category": "na",
        "taxid": "28094",
        "species_taxid": "28094",
        "organism_name": "Trinickia caryophylli",
        "infraspecific_name": "strain=HAMBI_2159",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/07/31",
        "asm_name": "ASM335026v1",
        "asm_submitter": "University of Helsinki",
        "gbrs_paired_asm": "GCA_003350265.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/350/265/GCF_003350265.1_ASM335026v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "6527402",
        "genome_size_ungapped": "6527292",
        "gc_percent": "64.500000",
        "replicon_count": "0",
        "scaffold_count": "57",
        "contig_count": "57",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_003350265.1-RS_2024_03_29",
        "annotation_date": "2024-03-29",
        "total_gene_count": "5811",
        "protein_coding_gene_count": "5665",
        "non_coding_gene_count": "58",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-07-31",
    "dateModified": "2018-07-31",
    "datePublished": "2018-07-31",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Trinickia caryophylli"
        ],
        "sample_taxid": [
            "28094"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "not applicable"
        ],
        "sample_host_location_id": [],
        "data_size": "1.803 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)": "6527402",
        "Number of Sequences": "57",
        "Longest Sequences (bp)": "590902",
        "N50 (bp)": "222449",
        "Gap Ratio (%)": "0.001685",
        "GCcontent (%)": "64.7",
        "Number of CDSs": "5726",
        "Average Protein Length": "331.6",
        "Coding Ratio (%)": "87.3",
        "Number of rRNAs": "3",
        "Number of tRNAs": "56",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Trinickia caryophylli",
                "strain": "strain=HAMBI_2159",
                "accession": "GCA_003350265.1",
                "taxid": 28094,
                "species_taxid": 28094,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2147,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Trinickia caryophylli",
                "strain": "strain=LMG 2155",
                "accession": "GCA_902833925.1",
                "taxid": 28094,
                "species_taxid": 28094,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9982,
                "matched_fragments": 2144,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Trinickia caryophylli",
                "strain": "strain=DSM 50341",
                "accession": "GCA_007097545.1",
                "taxid": 28094,
                "species_taxid": 28094,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9957,
                "matched_fragments": 2149,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Trinickia caryophylli",
                "strain": "strain=Ballard 720",
                "accession": "GCA_002879875.1",
                "taxid": 28094,
                "species_taxid": 28094,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9842,
                "matched_fragments": 2133,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Trinickia symbiotica",
                "strain": "strain=JPY-345",
                "accession": "GCA_002934455.1",
                "taxid": 863227,
                "species_taxid": 863227,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.9204,
                "matched_fragments": 975,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Trinickia dabaoshanensis",
                "strain": "strain=GIMN1.004",
                "accession": "GCA_002879885.1",
                "taxid": 564714,
                "species_taxid": 564714,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.2685,
                "matched_fragments": 908,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Trinickia soli",
                "strain": "strain=LMG 24076",
                "accession": "GCA_902859815.1",
                "taxid": 380675,
                "species_taxid": 380675,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.2635,
                "matched_fragments": 888,
                "total_fragments": 2149,
                "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": 80.2526,
                "matched_fragments": 908,
                "total_fragments": 2149,
                "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": 80.2287,
                "matched_fragments": 894,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paraburkholderia acidipaludis",
                "strain": "strain=NBRC 101816",
                "accession": "GCA_000684975.1",
                "taxid": 660537,
                "species_taxid": 660537,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.1114,
                "matched_fragments": 796,
                "total_fragments": 2149,
                "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": 79.9325,
                "matched_fragments": 894,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paraburkholderia pallida",
                "strain": "strain=7MH5",
                "accession": "GCA_004524855.1",
                "taxid": 2547399,
                "species_taxid": 2547399,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.8623,
                "matched_fragments": 871,
                "total_fragments": 2149,
                "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": 79.7115,
                "matched_fragments": 845,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paraburkholderia silviterrae",
                "strain": "strain=4M-K11",
                "accession": "GCA_004353915.1",
                "taxid": 2528715,
                "species_taxid": 2528715,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.6756,
                "matched_fragments": 844,
                "total_fragments": 2149,
                "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": 79.6178,
                "matched_fragments": 729,
                "total_fragments": 2149,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_007097545.1",
                "gtdb_species": "s__Trinickia caryophylli",
                "ani": 99.9957,
                "matched_fragments": 2149,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "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": 5,
                "status": "conclusive"
            },
            {
                "accession": "GCF_003628145.1",
                "gtdb_species": "s__Trinickia fusca",
                "ani": 81.2331,
                "matched_fragments": 897,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "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_002934455.1",
                "gtdb_species": "s__Trinickia symbiotica",
                "ani": 80.9338,
                "matched_fragments": 973,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.34",
                "min_intra_species_ani": "95.03",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_013282575.1",
                "gtdb_species": "s__Trinickia sp013282575",
                "ani": 80.8916,
                "matched_fragments": 1003,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "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_017315725.1",
                "gtdb_species": "s__Trinickia sp017315725",
                "ani": 80.8281,
                "matched_fragments": 910,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "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_017315705.1",
                "gtdb_species": "s__Trinickia sp017315705",
                "ani": 80.7303,
                "matched_fragments": 846,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "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_005144415.1",
                "gtdb_species": "s__Trinickia sp005144415",
                "ani": 80.6275,
                "matched_fragments": 948,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "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_002870125.1",
                "gtdb_species": "s__Paraburkholderia sp002870125",
                "ani": 80.4164,
                "matched_fragments": 682,
                "total_fragments": 2149,
                "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_000012365.1",
                "gtdb_species": "s__Burkholderia thailandensis",
                "ani": 80.2915,
                "matched_fragments": 902,
                "total_fragments": 2149,
                "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_002879855.1",
                "gtdb_species": "s__Trinickia soli",
                "ani": 80.2781,
                "matched_fragments": 881,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.68",
                "min_intra_species_ani": "99.37",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_001524625.2",
                "gtdb_species": "s__Burkholderia sp001524625",
                "ani": 80.2625,
                "matched_fragments": 894,
                "total_fragments": 2149,
                "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_002879885.1",
                "gtdb_species": "s__Trinickia dabaoshanensis",
                "ani": 80.2531,
                "matched_fragments": 910,
                "total_fragments": 2149,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Trinickia",
                "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": 80.2355,
                "matched_fragments": 671,
                "total_fragments": 2149,
                "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": "-"
            },
            {
                "accession": "GCF_000959365.1",
                "gtdb_species": "s__Burkholderia oklahomensis",
                "ani": 80.2343,
                "matched_fragments": 902,
                "total_fragments": 2149,
                "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_000959525.1",
                "gtdb_species": "s__Burkholderia multivorans",
                "ani": 80.22,
                "matched_fragments": 895,
                "total_fragments": 2149,
                "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_000684975.1",
                "gtdb_species": "s__Paraburkholderia acidipaludis",
                "ani": 80.1153,
                "matched_fragments": 795,
                "total_fragments": 2149,
                "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_000685035.1",
                "gtdb_species": "s__Paraburkholderia ferrariae",
                "ani": 80.078,
                "matched_fragments": 838,
                "total_fragments": 2149,
                "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": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": null,
        "optimum_tmp": null,
        "optimum_ph": null,
        "genome_size": null,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": null,
        "sporulation": null,
        "motility": null,
        "range_salinity": null,
        "facultative_respiration": null,
        "anaerobic_respiration": null,
        "aerobic_respiration": null,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "bacillus_cell_shape": null,
        "coccus_cell_shape": null,
        "filament_cell_shape": null,
        "coccobacillus_cell_shape": null,
        "vibrio_cell_shape": null,
        "spiral_cell_shape": null
    },
    "_genome_taxon": [
        "Trinickia",
        "caryophylli"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}