{
    "type": "genome",
    "identifier": "GCF_001889025.1",
    "organism": "Sphingorhabdus lutea",
    "title": "Sphingorhabdus lutea",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Korea University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001889025.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN05945924",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "1913578",
        "species_taxid": "1913578",
        "organism_name": "Sphingorhabdus lutea",
        "infraspecific_name": "strain=LPB0140",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2016/12/05",
        "asm_name": "ASM188902v1",
        "asm_submitter": "Korea University",
        "gbrs_paired_asm": "GCA_001889025.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/889/025/GCF_001889025.1_ASM188902v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2533041",
        "genome_size_ungapped": "2533041",
        "gc_percent": "46.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)",
        "annotation_date": "2024-03-04",
        "total_gene_count": "2421",
        "protein_coding_gene_count": "2363",
        "non_coding_gene_count": "51",
        "pubmed_id": "31460859"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2016-12-05",
    "dateModified": "2016-12-05",
    "datePublished": "2016-12-05",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Sphingorhabdus lutea"
        ],
        "sample_taxid": [
            "1913578"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "South Korea"
        ],
        "sample_host_location_id": [],
        "data_size": "0.702 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)": "2533041",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "2533041",
        "N50 (bp)": "2533041",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "46.1",
        "Number of CDSs": "2365",
        "Average Protein Length": "325.4",
        "Coding Ratio (%)": "91.1",
        "Number of rRNAs": "6",
        "Number of tRNAs": "42",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Sphingorhabdus lutea",
                "strain": "strain=LPB0140",
                "accession": "GCA_001889025.1",
                "taxid": 1913578,
                "species_taxid": 1913578,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 841,
                "total_fragments": 844,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Sphingorhabdus profundilacus",
                "strain": "strain=IMCC26285",
                "accession": "GCA_009769755.1",
                "taxid": 2509718,
                "species_taxid": 2509718,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3354,
                "matched_fragments": 75,
                "total_fragments": 844,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001889025.1",
                "gtdb_species": "s__Sphingorhabdus_B sp001889025",
                "ani": 100.0,
                "matched_fragments": 842,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "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_007280415.1",
                "gtdb_species": "s__Sphingorhabdus_B contaminans",
                "ani": 76.5499,
                "matched_fragments": 58,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "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_015478735.1",
                "gtdb_species": "s__Parasphingorhabdus sp015478735",
                "ani": 76.3199,
                "matched_fragments": 50,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Parasphingorhabdus",
                "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_903868245.1",
                "gtdb_species": "s__Sphingorhabdus_B sp903868245",
                "ani": 76.1251,
                "matched_fragments": 56,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "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_002278855.1",
                "gtdb_species": "s__Sphingorhabdus_B sp002278855",
                "ani": 76.028,
                "matched_fragments": 55,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.65",
                "min_intra_species_ani": "99.65",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.97",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_002299895.1",
                "gtdb_species": "s__Sphingorhabdus_B sp002299895",
                "ani": 76.0135,
                "matched_fragments": 56,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "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_013297725.1",
                "gtdb_species": "s__Sphingorhabdus_B sp013297725",
                "ani": 75.9222,
                "matched_fragments": 69,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "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_016462305.1",
                "gtdb_species": "s__Sphingorhabdus_B sp016462305",
                "ani": 75.829,
                "matched_fragments": 52,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.63",
                "min_intra_species_ani": "98.63",
                "mean_intra_species_af": "0.82",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_002255985.1",
                "gtdb_species": "s__Sphingorhabdus_B sp002255985",
                "ani": 75.7721,
                "matched_fragments": 60,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.49",
                "min_intra_species_ani": "98.44",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_013823985.1",
                "gtdb_species": "s__Sphingorhabdus_B sp013823985",
                "ani": 75.7664,
                "matched_fragments": 61,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "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_002282385.1",
                "gtdb_species": "s__Sphingorhabdus_B sp002282385",
                "ani": 75.7551,
                "matched_fragments": 74,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.98",
                "min_intra_species_ani": "99.95",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.98",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCA_903821685.1",
                "gtdb_species": "s__Sphingorhabdus_B sp903821685",
                "ani": 75.6092,
                "matched_fragments": 55,
                "total_fragments": 844,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingorhabdus_B",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.60",
                "min_intra_species_ani": "99.60",
                "mean_intra_species_af": "0.86",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.328,
        "cell_length": 0.068,
        "doubling_h": null,
        "growth_tmp": 26.857,
        "optimum_tmp": 25.5,
        "optimum_ph": 7.166,
        "genome_size": 3545148.555,
        "gc_content": 58.0,
        "coding_genes": 3305.0,
        "rRNA16S_genes": 2.0,
        "tRNA_genes": 46.0,
        "gram_stain": 0.333,
        "sporulation": 0.0,
        "motility": 0.666,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "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": [
        "Sphingorhabdus",
        "lutea"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}