{
    "type": "genome",
    "identifier": "GCF_000470775.1",
    "organism": "Leifsonia xyli subsp. cynodontis DSM 46306",
    "title": "Leifsonia xyli subsp. cynodontis DSM 46306",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "ESALQ-USP",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000470775.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02603223",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "1389489",
        "species_taxid": "1575",
        "organism_name": "Leifsonia xyli subsp. cynodontis DSM 46306",
        "infraspecific_name": "strain=DSM 46306",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2013/09/24",
        "asm_name": "ASM47077v1",
        "asm_submitter": "ESALQ-USP",
        "gbrs_paired_asm": "GCA_000470775.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/470/775/GCF_000470775.1_ASM47077v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2686418",
        "genome_size_ungapped": "2686418",
        "gc_percent": "68.500000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000470775.1-RS_2024_12_11",
        "annotation_date": "2024-12-11",
        "total_gene_count": "2778",
        "protein_coding_gene_count": "2431",
        "non_coding_gene_count": "52",
        "pubmed_id": "24201198"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2013-09-24",
    "dateModified": "2013-09-24",
    "datePublished": "2013-09-24",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Leifsonia xyli subsp. cynodontis DSM 46306"
        ],
        "sample_taxid": [
            "1389489"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "0.732 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)": "2686418",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "2686418",
        "N50 (bp)": "2686418",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "68.3",
        "Number of CDSs": "2853",
        "Average Protein Length": "274.3",
        "Coding Ratio (%)": "87.4",
        "Number of rRNAs": "3",
        "Number of tRNAs": "48",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Leifsonia xyli subsp. cynodontis",
                "strain": "strain=DSM 46306",
                "accession": "GCA_000470775.1",
                "taxid": 31966,
                "species_taxid": 1575,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 890,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Leifsonia shinshuensis",
                "strain": "strain=DSM 15165",
                "accession": "GCA_013410375.1",
                "taxid": 150026,
                "species_taxid": 150026,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.5968,
                "matched_fragments": 560,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Leifsonia aquatica",
                "strain": "strain=ATCC 14665",
                "accession": "GCA_000469485.1",
                "taxid": 144185,
                "species_taxid": 144185,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.0415,
                "matched_fragments": 424,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Leifsonia soli",
                "strain": "strain=DSM 23871",
                "accession": "GCA_013408745.1",
                "taxid": 582665,
                "species_taxid": 582665,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.8848,
                "matched_fragments": 509,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Leifsonia naganoensis",
                "strain": "strain=DSM 15166",
                "accession": "GCA_013410615.1",
                "taxid": 150025,
                "species_taxid": 150025,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.8842,
                "matched_fragments": 554,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Leifsonia aquatica",
                "strain": "strain=DSM 20146",
                "accession": "GCA_014190775.1",
                "taxid": 144185,
                "species_taxid": 144185,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.7168,
                "matched_fragments": 569,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Agromyces marinus",
                "strain": "strain=DSM 26151",
                "accession": "GCA_021442325.1",
                "taxid": 1389020,
                "species_taxid": 1389020,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.0851,
                "matched_fragments": 282,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Agromyces mariniharenae",
                "strain": "strain=NEAU-184",
                "accession": "GCA_008122505.1",
                "taxid": 2604423,
                "species_taxid": 2604423,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.0545,
                "matched_fragments": 324,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Agromyces archimandritae",
                "strain": "strain=G127AT",
                "accession": "GCA_018024495.1",
                "taxid": 2781962,
                "species_taxid": 2781962,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8665,
                "matched_fragments": 296,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Agromyces cavernae",
                "strain": "strain=SYSU K20354",
                "accession": "GCA_021044935.1",
                "taxid": 2898659,
                "species_taxid": 2898659,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.7481,
                "matched_fragments": 305,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clavibacter michiganensis",
                "strain": "strain=LMG7333",
                "accession": "GCA_021216655.1",
                "taxid": 28447,
                "species_taxid": 28447,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 78.6868,
                "matched_fragments": 290,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clavibacter michiganensis subsp. michiganensis",
                "strain": "strain=LMG 7333",
                "accession": "GCA_002240575.1",
                "taxid": 33013,
                "species_taxid": 28447,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.6049,
                "matched_fragments": 297,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Agromyces agglutinans",
                "strain": "strain=CFH 90414",
                "accession": "GCA_009647605.1",
                "taxid": 2662258,
                "species_taxid": 2662258,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.5501,
                "matched_fragments": 327,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Clavibacter michiganensis",
                "strain": "strain=VKM Ac-1403",
                "accession": "GCA_900168345.1",
                "taxid": 28447,
                "species_taxid": 28447,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 78.5427,
                "matched_fragments": 294,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cryobacterium aureum",
                "strain": "strain=Hh31",
                "accession": "GCA_002954245.1",
                "taxid": 995037,
                "species_taxid": 995037,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3945,
                "matched_fragments": 218,
                "total_fragments": 895,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000470775.1",
                "gtdb_species": "s__Leifsonia cynodontis",
                "ani": 100.0,
                "matched_fragments": 888,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_000007665.1",
                "gtdb_species": "s__Leifsonia xyli_C",
                "ani": 92.4548,
                "matched_fragments": 711,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_013410375.1",
                "gtdb_species": "s__Leifsonia shinshuensis",
                "ani": 82.5756,
                "matched_fragments": 562,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_014217625.1",
                "gtdb_species": "s__Leifsonia shinshuensis_A",
                "ani": 82.4081,
                "matched_fragments": 553,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_003664105.1",
                "gtdb_species": "s__Leifsonia sp003664105",
                "ani": 82.1659,
                "matched_fragments": 514,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_001898805.1",
                "gtdb_species": "s__Leifsonia sp001898805",
                "ani": 82.01,
                "matched_fragments": 539,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_013408745.1",
                "gtdb_species": "s__Leifsonia soli",
                "ani": 81.885,
                "matched_fragments": 509,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.25",
                "min_intra_species_ani": "98.25",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_013359685.1",
                "gtdb_species": "s__Leifsonia sp013359685",
                "ani": 81.8651,
                "matched_fragments": 526,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_003367665.1",
                "gtdb_species": "s__Leifsonia sp003367665",
                "ani": 81.8206,
                "matched_fragments": 536,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_001423695.1",
                "gtdb_species": "s__Leifsonia sp001423695",
                "ani": 81.753,
                "matched_fragments": 541,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_014190775.1",
                "gtdb_species": "s__Leifsonia aquatica",
                "ani": 81.7426,
                "matched_fragments": 567,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.62",
                "min_intra_species_ani": "97.25",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_000633535.1",
                "gtdb_species": "s__Leifsonia aquatica_A",
                "ani": 81.6891,
                "matched_fragments": 532,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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_009765225.1",
                "gtdb_species": "s__Leifsonia sp009765225",
                "ani": 81.0632,
                "matched_fragments": 494,
                "total_fragments": 895,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia",
                "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": -0.699,
        "cell_length": 0.097,
        "doubling_h": 0.74,
        "growth_tmp": 28.5,
        "optimum_tmp": 22.5,
        "optimum_ph": 7.3,
        "genome_size": 2764093.5,
        "gc_content": 68.368,
        "coding_genes": 2396.5,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 46.25,
        "gram_stain": 1.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "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": [
        "Leifsonia",
        "xyli",
        "subsp.",
        "cynodontis",
        "DSM",
        "46306"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}