{
    "type": "genome",
    "identifier": "GCF_009755805.1",
    "organism": "Sphingomonas prati",
    "title": "Sphingomonas prati",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Shanghai Jiao Tong University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_009755805.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN13404026",
        "wgs_master": "WRPJ00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1843237",
        "species_taxid": "1843237",
        "organism_name": "Sphingomonas prati",
        "infraspecific_name": "strain=W18RD",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/12/16",
        "asm_name": "ASM975580v1",
        "asm_submitter": "Shanghai Jiao Tong University",
        "gbrs_paired_asm": "GCA_009755805.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/755/805/GCF_009755805.1_ASM975580v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3831002",
        "genome_size_ungapped": "3830902",
        "gc_percent": "67.000000",
        "replicon_count": "0",
        "scaffold_count": "29",
        "contig_count": "29",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_009755805.1-RS_2024_12_13",
        "annotation_date": "2024-12-13",
        "total_gene_count": "3512",
        "protein_coding_gene_count": "3425",
        "non_coding_gene_count": "52",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-12-16",
    "dateModified": "2019-12-16",
    "datePublished": "2019-12-16",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Sphingomonas prati"
        ],
        "sample_taxid": [
            "1843237"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "1.046 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)": "3831002",
        "Number of Sequences": "29",
        "Longest Sequences (bp)": "1356937",
        "N50 (bp)": "382680",
        "Gap Ratio (%)": "0.002610",
        "GCcontent (%)": "66.9",
        "Number of CDSs": "3466",
        "Average Protein Length": "324.8",
        "Coding Ratio (%)": "88.2",
        "Number of rRNAs": "3",
        "Number of tRNAs": "49",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Sphingomonas prati",
                "strain": "strain=W18RD",
                "accession": "GCA_009755805.1",
                "taxid": 1843237,
                "species_taxid": 1843237,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1258,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Sphingomonas prati",
                "strain": "strain=CGMCC 1.15645",
                "accession": "GCA_014643515.1",
                "taxid": 1843237,
                "species_taxid": 1843237,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.998,
                "matched_fragments": 1253,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Sphingomonas prati",
                "strain": "strain=DSM 103336",
                "accession": "GCA_014199405.1",
                "taxid": 1843237,
                "species_taxid": 1843237,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9954,
                "matched_fragments": 1251,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Sphingomonas montana",
                "strain": "strain=W16RD",
                "accession": "GCA_001956315.1",
                "taxid": 1843236,
                "species_taxid": 1843236,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.8214,
                "matched_fragments": 783,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas solaris",
                "strain": "strain=R4DWN",
                "accession": "GCA_007785815.1",
                "taxid": 2529389,
                "species_taxid": 2529389,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.1206,
                "matched_fragments": 459,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas profundi",
                "strain": "strain=LMO-1",
                "accession": "GCA_009739515.1",
                "taxid": 2681549,
                "species_taxid": 2681549,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.9225,
                "matched_fragments": 486,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas hankookensis",
                "strain": "strain=KCTC 22579",
                "accession": "GCA_022664465.1",
                "taxid": 563996,
                "species_taxid": 563996,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.4228,
                "matched_fragments": 424,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingomonas changnyeongensis",
                "strain": "strain=C33",
                "accession": "GCA_009913435.1",
                "taxid": 2698679,
                "species_taxid": 2698679,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.246,
                "matched_fragments": 339,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhizorhabdus phycosphaerae",
                "strain": "strain=MK52",
                "accession": "GCA_011044255.1",
                "taxid": 2711156,
                "species_taxid": 2711156,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.1849,
                "matched_fragments": 336,
                "total_fragments": 1261,
                "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": 78.0187,
                "matched_fragments": 482,
                "total_fragments": 1261,
                "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": 77.9922,
                "matched_fragments": 459,
                "total_fragments": 1261,
                "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": 77.9761,
                "matched_fragments": 469,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Sphingosinicella ginsenosidimutans",
                "strain": "strain=BS-11",
                "accession": "GCA_007995055.1",
                "taxid": 1176539,
                "species_taxid": 1176539,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.533,
                "matched_fragments": 331,
                "total_fragments": 1261,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_014643515.1",
                "gtdb_species": "s__Sphingomonas_G prati",
                "ani": 99.998,
                "matched_fragments": 1253,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_G",
                "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": 3,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001956315.1",
                "gtdb_species": "s__Sphingomonas_G montana",
                "ani": 86.7942,
                "matched_fragments": 784,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_G",
                "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_007785815.1",
                "gtdb_species": "s__Sphingomonas_G solaris",
                "ani": 79.131,
                "matched_fragments": 458,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_G",
                "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_009739515.1",
                "gtdb_species": "s__Sphingomonas_G sp009739515",
                "ani": 78.9493,
                "matched_fragments": 484,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_G",
                "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_018139225.1",
                "gtdb_species": "s__Sphingomonas sp018139225",
                "ani": 78.6971,
                "matched_fragments": 428,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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_011762195.1",
                "gtdb_species": "s__Sphingomonas_N oligoaromativorans",
                "ani": 78.6605,
                "matched_fragments": 396,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_N",
                "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_001421505.1",
                "gtdb_species": "s__Sphingomonas sp001421505",
                "ani": 78.6308,
                "matched_fragments": 420,
                "total_fragments": 1261,
                "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_001428605.1",
                "gtdb_species": "s__Rhizorhabdus sp001428605",
                "ani": 78.5431,
                "matched_fragments": 428,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Rhizorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.98",
                "min_intra_species_ani": "99.98",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_001429065.1",
                "gtdb_species": "s__Rhizorhabdus sp001429065",
                "ani": 78.5083,
                "matched_fragments": 365,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Rhizorhabdus",
                "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_003034225.1",
                "gtdb_species": "s__Sphingomonas_E fennica",
                "ani": 78.4319,
                "matched_fragments": 434,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_E",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.08",
                "min_intra_species_ani": "97.94",
                "mean_intra_species_af": "0.82",
                "min_intra_species_af": "0.81",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_001421765.1",
                "gtdb_species": "s__Sphingomonas sp001421765",
                "ani": 78.3112,
                "matched_fragments": 435,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas",
                "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": 3,
                "status": "-"
            },
            {
                "accession": "GCF_011044255.1",
                "gtdb_species": "s__Rhizorhabdus sp011044255",
                "ani": 78.2072,
                "matched_fragments": 334,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Rhizorhabdus",
                "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_001421995.1",
                "gtdb_species": "s__Sphingomonas sp001421995",
                "ani": 78.0525,
                "matched_fragments": 380,
                "total_fragments": 1261,
                "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_900177405.1",
                "gtdb_species": "s__Allosphingosinicella indica",
                "ani": 78.0522,
                "matched_fragments": 325,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Allosphingosinicella",
                "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_009753715.1",
                "gtdb_species": "s__Sphingomonas_B horti",
                "ani": 78.0265,
                "matched_fragments": 371,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_B",
                "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_001721295.1",
                "gtdb_species": "s__Sphingomonas turrisvirgatae",
                "ani": 77.8491,
                "matched_fragments": 318,
                "total_fragments": 1261,
                "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_007995055.1",
                "gtdb_species": "s__Allosphingosinicella ginsenosidimutans",
                "ani": 77.5342,
                "matched_fragments": 330,
                "total_fragments": 1261,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Allosphingosinicella",
                "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": -0.288,
        "cell_length": 0.14,
        "doubling_h": null,
        "growth_tmp": 28.0,
        "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",
        "prati"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}