{
    "type": "genome",
    "identifier": "GCF_017163705.1",
    "organism": "Xanthomonas bonasiae",
    "title": "Xanthomonas bonasiae",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Tehran",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_017163705.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN17825093",
        "wgs_master": "JAFIWB000000000.1",
        "refseq_category": "na",
        "taxid": "2810351",
        "species_taxid": "2810351",
        "organism_name": "Xanthomonas bonasiae",
        "infraspecific_name": "strain=FX4",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2021/03/03",
        "asm_name": "ASM1716370v1",
        "asm_submitter": "University of Tehran",
        "gbrs_paired_asm": "GCA_017163705.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/163/705/GCF_017163705.1_ASM1716370v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "5383649",
        "genome_size_ungapped": "5383649",
        "gc_percent": "69.000000",
        "replicon_count": "0",
        "scaffold_count": "89",
        "contig_count": "89",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_017163705.1-RS_2024_05_06",
        "annotation_date": "2024-05-06",
        "total_gene_count": "4585",
        "protein_coding_gene_count": "4465",
        "non_coding_gene_count": "64",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2021-03-03",
    "dateModified": "2021-03-03",
    "datePublished": "2021-03-03",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Xanthomonas bonasiae"
        ],
        "sample_taxid": [
            "2810351"
        ],
        "sample_host_organism": [
            "Ficus benjamina"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Iran"
        ],
        "sample_host_location_id": [],
        "data_size": "1.448 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)": "5383649",
        "Number of Sequences": "89",
        "Longest Sequences (bp)": "652138",
        "N50 (bp)": "123917",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "68.8",
        "Number of CDSs": "4504",
        "Average Protein Length": "345.9",
        "Coding Ratio (%)": "86.8",
        "Number of rRNAs": "3",
        "Number of tRNAs": "66",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Xanthomonas hyacinthi",
                "strain": "strain=CFBP1156",
                "accession": "GCA_002939895.1",
                "taxid": 56455,
                "species_taxid": 56455,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.3455,
                "matched_fragments": 1251,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas hyacinthi",
                "strain": "strain=CFBP 1156",
                "accession": "GCA_009769165.1",
                "taxid": 56455,
                "species_taxid": 56455,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.3075,
                "matched_fragments": 1264,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas translucens",
                "strain": "strain=ATCC 19319",
                "accession": "GCA_020880735.1",
                "taxid": 343,
                "species_taxid": 343,
                "relation_to_type": "type",
                "validated": true,
                "ani": 92.8013,
                "matched_fragments": 1056,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas translucens",
                "strain": "strain=DSM 18974",
                "accession": "GCA_000331775.1",
                "taxid": 343,
                "species_taxid": 343,
                "relation_to_type": "type",
                "validated": true,
                "ani": 92.75,
                "matched_fragments": 1019,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas theicola",
                "strain": "strain=CFBP 4691",
                "accession": "GCA_002940605.1",
                "taxid": 56464,
                "species_taxid": 56464,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.871,
                "matched_fragments": 1058,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas indica",
                "strain": "strain=PPL560",
                "accession": "GCA_022669045.1",
                "taxid": 2912242,
                "species_taxid": 2912242,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.9422,
                "matched_fragments": 1323,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas sacchari",
                "strain": "strain=CFBP4641",
                "accession": "GCA_002940085.1",
                "taxid": 56458,
                "species_taxid": 56458,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 88.8501,
                "matched_fragments": 1344,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stenotrophomonas bentonitica",
                "strain": "strain=DSM 103927",
                "accession": "GCA_013185915.1",
                "taxid": 1450134,
                "species_taxid": 1450134,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.9291,
                "matched_fragments": 851,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas hydrangeae",
                "strain": "strain=LMG 31884",
                "accession": "GCA_905142475.1",
                "taxid": 2775159,
                "species_taxid": 2775159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.4025,
                "matched_fragments": 1049,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas euvesicatoria",
                "strain": "strain=ATCC 11633",
                "accession": "GCA_020880415.1",
                "taxid": 456327,
                "species_taxid": 456327,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.1088,
                "matched_fragments": 1020,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Xanthomonas citri",
                "strain": "strain=ICMP5732",
                "accession": "GCA_021474205.1",
                "taxid": 346,
                "species_taxid": 346,
                "relation_to_type": "pathovar",
                "validated": true,
                "ani": 81.987,
                "matched_fragments": 1034,
                "total_fragments": 1761,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_014236855.1",
                "gtdb_species": "s__Xanthomonas_A sp014236855",
                "ani": 95.048,
                "matched_fragments": 1536,
                "total_fragments": 1761,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.82",
                "min_intra_species_ani": "95.01",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 7,
                "status": "conclusive"
            },
            {
                "accession": "GCF_014197395.1",
                "gtdb_species": "s__Xanthomonas_A translucens_B",
                "ani": 93.8284,
                "matched_fragments": 1536,
                "total_fragments": 1761,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas_A",
                "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_007829315.1",
                "gtdb_species": "s__Xanthomonas_A translucens_A",
                "ani": 93.653,
                "matched_fragments": 1546,
                "total_fragments": 1761,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas_A",
                "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_009769165.1",
                "gtdb_species": "s__Xanthomonas_A hyacinthi",
                "ani": 93.3375,
                "matched_fragments": 1261,
                "total_fragments": 1761,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas_A",
                "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_000331775.1",
                "gtdb_species": "s__Xanthomonas_A translucens",
                "ani": 92.75,
                "matched_fragments": 1019,
                "total_fragments": 1761,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.09",
                "min_intra_species_ani": "95.18",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.77",
                "num_clustered_genomes": 59,
                "status": "-"
            },
            {
                "accession": "GCF_014236795.1",
                "gtdb_species": "s__Xanthomonas_A theicola",
                "ani": 90.5696,
                "matched_fragments": 1136,
                "total_fragments": 1761,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_014199795.1",
                "gtdb_species": "s__Xanthomonas_A sp014199795",
                "ani": 88.8575,
                "matched_fragments": 1330,
                "total_fragments": 1761,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Xanthomonas_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.20",
                "min_intra_species_ani": "98.15",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 4,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": 0.605,
        "growth_tmp": 27.096,
        "optimum_tmp": 27.699,
        "optimum_ph": null,
        "genome_size": 4930960.958,
        "gc_content": 64.384,
        "coding_genes": 4129.338,
        "rRNA16S_genes": 1.991,
        "tRNA_genes": 54.759,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": 0.0,
        "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": [
        "Xanthomonas",
        "bonasiae"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}