{
    "type": "genome",
    "identifier": "GCF_000337475.1",
    "organism": "Natrinema limicola JCM 13563",
    "title": "Natrinema limicola JCM 13563",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of California, Davis",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000337475.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02471681",
        "wgs_master": "AOIT00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1230457",
        "species_taxid": "370323",
        "organism_name": "Natrinema limicola JCM 13563",
        "infraspecific_name": "strain=JCM 13563",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2013/02/04",
        "asm_name": "ASM33747v1",
        "asm_submitter": "University of California, Davis",
        "gbrs_paired_asm": "GCA_000337475.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/337/475/GCF_000337475.1_ASM33747v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "archaea",
        "genome_size": "3522035",
        "genome_size_ungapped": "3522035",
        "gc_percent": "62.000000",
        "replicon_count": "0",
        "scaffold_count": "94",
        "contig_count": "94",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000337475.1-RS_2024_10_21",
        "annotation_date": "2024-10-21",
        "total_gene_count": "3636",
        "protein_coding_gene_count": "3425",
        "non_coding_gene_count": "69",
        "pubmed_id": "25393412"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2013-02-04",
    "dateModified": "2013-02-04",
    "datePublished": "2013-02-04",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Natrinema limicola JCM 13563"
        ],
        "sample_taxid": [
            "1230457"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "0.984 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 100.0,
        "contamination": 8.33,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "3522035",
        "Number of Sequences": "94",
        "Longest Sequences (bp)": "315206",
        "N50 (bp)": "113767",
        "Gap Ratio (%)": "0.004742",
        "GCcontent (%)": "61.8",
        "Number of CDSs": "3477",
        "Average Protein Length": "276.9",
        "Coding Ratio (%)": "82.0",
        "Number of rRNAs": "4",
        "Number of tRNAs": "50",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Haloterrigena limicola",
                "strain": "strain=JCM 13563",
                "accession": "GCA_000337475.1",
                "taxid": 370323,
                "species_taxid": 370323,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1135,
                "total_fragments": 1138,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Haloterrigena hispanica",
                "strain": "strain=DSM 18328",
                "accession": "GCA_004217335.1",
                "taxid": 392421,
                "species_taxid": 392421,
                "relation_to_type": "type",
                "validated": true,
                "ani": 94.1548,
                "matched_fragments": 1029,
                "total_fragments": 1138,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Natrinema amylolyticum",
                "strain": "strain=LT61",
                "accession": "GCA_020515625.1",
                "taxid": 2878679,
                "species_taxid": 2878679,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.1192,
                "matched_fragments": 741,
                "total_fragments": 1138,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Natrinema versiforme",
                "strain": "strain=JCM 10478",
                "accession": "GCA_000337195.1",
                "taxid": 88724,
                "species_taxid": 88724,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.9742,
                "matched_fragments": 725,
                "total_fragments": 1138,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Natrinema salaciae",
                "strain": "strain=DSM 25055",
                "accession": "GCA_900110865.1",
                "taxid": 1186196,
                "species_taxid": 1186196,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.724,
                "matched_fragments": 774,
                "total_fragments": 1138,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Natrinema altunense",
                "strain": "strain=JCM 12890",
                "accession": "GCA_000337155.1",
                "taxid": 222984,
                "species_taxid": 222984,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.6958,
                "matched_fragments": 719,
                "total_fragments": 1138,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halopiger salifodinae",
                "strain": "strain=CGMCC 1.12284",
                "accession": "GCA_900110455.1",
                "taxid": 1202768,
                "species_taxid": 1202768,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.415,
                "matched_fragments": 709,
                "total_fragments": 1138,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 8.33,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000337475.1",
                "gtdb_species": "s__Natrinema limicola",
                "ani": 100.0,
                "matched_fragments": 1135,
                "total_fragments": 1138,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "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_004217335.1",
                "gtdb_species": "s__Natrinema hispanicum",
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                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "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_900111485.1",
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                "total_fragments": 1138,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.65",
                "min_intra_species_ani": "99.65",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.93",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_005938085.1",
                "gtdb_species": "s__Natrinema sp005938085",
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                "total_fragments": 1138,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "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_005576615.1",
                "gtdb_species": "s__Natrinema versiforme_A",
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                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
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                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_002494345.1",
                "gtdb_species": "s__Natrinema ejinorense",
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                "total_fragments": 1138,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.42",
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                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_900110865.1",
                "gtdb_species": "s__Natrinema salaciae",
                "ani": 82.6862,
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                "total_fragments": 1138,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "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": -0.161,
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        "optimum_ph": 7.05,
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        "gc_content": 63.96,
        "coding_genes": 4112.0,
        "rRNA16S_genes": 3.0,
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        "gram_stain": 0.0,
        "sporulation": 0.0,
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        "range_salinity": null,
        "facultative_respiration": 0.0,
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        "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
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    "_genome_taxon": [
        "Natrinema",
        "limicola",
        "JCM",
        "13563"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}