{
    "type": "genome",
    "identifier": "GCF_019429535.1",
    "organism": "Sphingomonas citricola",
    "title": "Sphingomonas citricola",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Institute of Microbiology, Guangdong Academy of Sciences",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_019429535.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN20346133",
        "wgs_master": "JAHXZM000000000.1",
        "refseq_category": "reference genome",
        "taxid": "2862498",
        "species_taxid": "2862498",
        "organism_name": "Sphingomonas citricola",
        "infraspecific_name": "strain=RHCKR47",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2021/07/31",
        "asm_name": "ASM1942953v1",
        "asm_submitter": "Institute of Microbiology, Guangdong Academy of Sciences",
        "gbrs_paired_asm": "GCA_019429535.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/429/535/GCF_019429535.1_ASM1942953v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3506167",
        "genome_size_ungapped": "3506167",
        "gc_percent": "67.500000",
        "replicon_count": "0",
        "scaffold_count": "12",
        "contig_count": "12",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_019429535.1-RS_2024_09_03",
        "annotation_date": "2024-09-03",
        "total_gene_count": "3445",
        "protein_coding_gene_count": "3374",
        "non_coding_gene_count": "55",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2021-07-31",
    "dateModified": "2021-07-31",
    "datePublished": "2021-07-31",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Sphingomonas citricola"
        ],
        "sample_taxid": [
            "2862498"
        ],
        "sample_host_organism": [
            "citrus"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "China: Renhua County, Guangdong Province"
        ],
        "sample_host_location_id": [],
        "data_size": "0.953 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)": "3506167",
        "Number of Sequences": "12",
        "Longest Sequences (bp)": "796155",
        "N50 (bp)": "604371",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "67.5",
        "Number of CDSs": "3400",
        "Average Protein Length": "314.3",
        "Coding Ratio (%)": "91.4",
        "Number of rRNAs": "3",
        "Number of tRNAs": "51",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Sphingomonas citricola",
                "strain": "strain=RHCKR47",
                "accession": "GCA_019429535.1",
                "taxid": 2862498,
                "species_taxid": 2862498,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1162,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Sphingomonas hominis",
                "strain": "strain=HHU CXW",
                "accession": "GCA_013328205.1",
                "taxid": 2741495,
                "species_taxid": 2741495,
                "relation_to_type": "type",
                "validated": true,
                "ani": 87.4281,
                "matched_fragments": 846,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas palmae",
                "strain": "strain=JS21-1",
                "accession": "GCA_900109565.1",
                "taxid": 1855283,
                "species_taxid": 1855283,
                "relation_to_type": "type",
                "validated": true,
                "ani": 87.0209,
                "matched_fragments": 865,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas endophytica",
                "strain": "strain=DSM 101535",
                "accession": "GCA_014199415.1",
                "taxid": 869719,
                "species_taxid": 869719,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.6782,
                "matched_fragments": 649,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas adhaesiva",
                "strain": "strain=NBRC 15099",
                "accession": "GCA_001592345.1",
                "taxid": 28212,
                "species_taxid": 28212,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.6734,
                "matched_fragments": 575,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas folli",
                "strain": "strain=RHCKR7",
                "accession": "GCA_019429525.1",
                "taxid": 2862497,
                "species_taxid": 2862497,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.5795,
                "matched_fragments": 703,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas citri",
                "strain": "strain=RRHST34",
                "accession": "GCA_019429485.1",
                "taxid": 2862499,
                "species_taxid": 2862499,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.5161,
                "matched_fragments": 695,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas corticis",
                "strain": "strain=36D10-4-7",
                "accession": "GCA_012035195.1",
                "taxid": 2722791,
                "species_taxid": 2722791,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.4554,
                "matched_fragments": 674,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas yunnanensis",
                "strain": "strain=YIM 3",
                "accession": "GCA_019898765.1",
                "taxid": 310400,
                "species_taxid": 310400,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.4252,
                "matched_fragments": 678,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas trueperi",
                "strain": "strain=DSM 7225",
                "accession": "GCA_011927635.1",
                "taxid": 53317,
                "species_taxid": 53317,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.7934,
                "matched_fragments": 495,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Crenobacter cavernae",
                "strain": "strain=K1W11S-77",
                "accession": "GCA_003355495.1",
                "taxid": 2290923,
                "species_taxid": 2290923,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.5949,
                "matched_fragments": 107,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudofulvimonas gallinarii",
                "strain": "strain=DSM 21944",
                "accession": "GCA_004343305.1",
                "taxid": 634155,
                "species_taxid": 634155,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.5139,
                "matched_fragments": 72,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudofulvimonas gallinarii",
                "strain": "strain=DSM 21944",
                "accession": "GCA_004798975.1",
                "taxid": 634155,
                "species_taxid": 634155,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.5134,
                "matched_fragments": 70,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Pseudofulvimonas gallinarii",
                "strain": "strain=DSM 21944",
                "accession": "GCA_003732435.1",
                "taxid": 634155,
                "species_taxid": 634155,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.4141,
                "matched_fragments": 68,
                "total_fragments": 1163,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_013328205.1",
                "gtdb_species": "s__Sphingomonas hominis",
                "ani": 87.4281,
                "matched_fragments": 846,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_900109565.1",
                "gtdb_species": "s__Sphingomonas palmae",
                "ani": 87.0063,
                "matched_fragments": 866,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_000382485.1",
                "gtdb_species": "s__Sphingomonas sp000382485",
                "ani": 86.3324,
                "matched_fragments": 841,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_014199415.1",
                "gtdb_species": "s__Sphingomonas endophytica",
                "ani": 81.6835,
                "matched_fragments": 648,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.00",
                "min_intra_species_ani": "98.00",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_004345855.1",
                "gtdb_species": "s__Sphingomonas sp004345855",
                "ani": 81.5855,
                "matched_fragments": 695,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_014194975.1",
                "gtdb_species": "s__Sphingomonas sp014194975",
                "ani": 81.5495,
                "matched_fragments": 710,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_012035195.1",
                "gtdb_species": "s__Sphingomonas sp012035195",
                "ani": 81.4653,
                "matched_fragments": 673,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_003243195.1",
                "gtdb_species": "s__Sphingomonas taxi_B",
                "ani": 81.2635,
                "matched_fragments": 607,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_001476895.1",
                "gtdb_species": "s__Sphingomonas endophytica_A",
                "ani": 81.2431,
                "matched_fragments": 609,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_902506455.1",
                "gtdb_species": "s__Sphingomonas sp902506455",
                "ani": 81.2167,
                "matched_fragments": 616,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_016820445.1",
                "gtdb_species": "s__Sphingomonas sp016820445",
                "ani": 80.1506,
                "matched_fragments": 588,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.21",
                "min_intra_species_ani": "97.21",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_003050705.1",
                "gtdb_species": "s__Sphingomonas aurantiaca",
                "ani": 79.8961,
                "matched_fragments": 618,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.29",
                "min_intra_species_ani": "95.02",
                "mean_intra_species_af": "0.87",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_001421415.1",
                "gtdb_species": "s__Sphingomonas sp001421415",
                "ani": 79.6565,
                "matched_fragments": 555,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_001555965.1",
                "gtdb_species": "s__Sphingomonas sp001555965",
                "ani": 78.9672,
                "matched_fragments": 445,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.33",
                "min_intra_species_ani": "97.92",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.78",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
                "accession": "GCF_016743815.1",
                "gtdb_species": "s__Sphingomonas sp016743815",
                "ani": 78.7703,
                "matched_fragments": 468,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_001314325.1",
                "gtdb_species": "s__Sphingopyxis macrogoltabida",
                "ani": 77.8623,
                "matched_fragments": 388,
                "total_fragments": 1163,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingopyxis",
                "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": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.288,
        "cell_length": 0.14,
        "doubling_h": null,
        "growth_tmp": 28.338,
        "optimum_tmp": 28.407,
        "optimum_ph": 7.016,
        "genome_size": 4164406.103,
        "gc_content": 66.116,
        "coding_genes": 4592.69,
        "rRNA16S_genes": 2.285,
        "tRNA_genes": 51.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.586,
        "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": 0.98,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.019
    },
    "_genome_taxon": [
        "Sphingomonas",
        "citricola"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}