{
    "type": "genome",
    "identifier": "GCF_000018465.1",
    "organism": "Nitrosopumilus maritimus SCM1",
    "title": "Nitrosopumilus maritimus SCM1",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "US DOE Joint Genome Institute (JGI-PGF)",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000018465.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN00000032",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "436308",
        "species_taxid": "338192",
        "organism_name": "Nitrosopumilus maritimus SCM1",
        "infraspecific_name": "strain=SCM1",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2007/11/15",
        "asm_name": "ASM1846v1",
        "asm_submitter": "US DOE Joint Genome Institute (JGI-PGF)",
        "gbrs_paired_asm": "GCA_000018465.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/018/465/GCF_000018465.1_ASM1846v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "archaea",
        "genome_size": "1645259",
        "genome_size_ungapped": "1645259",
        "gc_percent": "34.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000018465.1-RS_2024_03_28",
        "annotation_date": "2024-03-28",
        "total_gene_count": "1973",
        "protein_coding_gene_count": "1924",
        "non_coding_gene_count": "48",
        "pubmed_id": "20421470"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2007-11-15",
    "dateModified": "2007-11-15",
    "datePublished": "2007-11-15",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Nitrosopumilus maritimus SCM1"
        ],
        "sample_taxid": [
            "436308"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "0.451 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 95.83,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "1645259",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "1645259",
        "N50 (bp)": "1645259",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "34.2",
        "Number of CDSs": "1901",
        "Average Protein Length": "262.3",
        "Coding Ratio (%)": "90.9",
        "Number of rRNAs": "3",
        "Number of tRNAs": "36",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Nitrosopumilus maritimus",
                "strain": "strain=SCM1",
                "accession": "GCA_000018465.1",
                "taxid": 338192,
                "species_taxid": 338192,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 548,
                "total_fragments": 548,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Nitrosopumilus piranensis",
                "strain": "strain=D3C",
                "accession": "GCA_000875775.1",
                "taxid": 1582439,
                "species_taxid": 1582439,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.3381,
                "matched_fragments": 418,
                "total_fragments": 548,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nitrosopumilus ureiphilus",
                "strain": "strain=PS0",
                "accession": "GCA_013407185.1",
                "taxid": 1470067,
                "species_taxid": 1470067,
                "relation_to_type": "type",
                "validated": true,
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                "matched_fragments": 350,
                "total_fragments": 548,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
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            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000018465.1",
                "gtdb_species": "s__Nitrosopumilus maritimus",
                "ani": 100.0,
                "matched_fragments": 548,
                "total_fragments": 548,
                "gtdb_taxonomy": "d__Archaea;p__Thermoproteota;c__Nitrososphaeria;o__Nitrososphaerales;f__Nitrosopumilaceae;g__Nitrosopumilus",
                "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": "GCA_003702525.1",
                "gtdb_species": "s__Nitrosopumilus sp003702525",
                "ani": 89.243,
                "matched_fragments": 346,
                "total_fragments": 548,
                "gtdb_taxonomy": "d__Archaea;p__Thermoproteota;c__Nitrososphaeria;o__Nitrososphaerales;f__Nitrosopumilaceae;g__Nitrosopumilus",
                "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_003702545.1",
                "gtdb_species": "s__Nitrosopumilus sp003702545",
                "ani": 88.9315,
                "matched_fragments": 337,
                "total_fragments": 548,
                "gtdb_taxonomy": "d__Archaea;p__Thermoproteota;c__Nitrososphaeria;o__Nitrososphaerales;f__Nitrosopumilaceae;g__Nitrosopumilus",
                "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_003702495.1",
                "gtdb_species": "s__Nitrosopumilus sp003702495",
                "ani": 88.3451,
                "matched_fragments": 342,
                "total_fragments": 548,
                "gtdb_taxonomy": "d__Archaea;p__Thermoproteota;c__Nitrososphaeria;o__Nitrososphaerales;f__Nitrosopumilaceae;g__Nitrosopumilus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.96",
                "min_intra_species_ani": "98.67",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_013867245.1",
                "gtdb_species": "s__Nitrosopumilus sp013867245",
                "ani": 84.8298,
                "matched_fragments": 205,
                "total_fragments": 548,
                "gtdb_taxonomy": "d__Archaea;p__Thermoproteota;c__Nitrososphaeria;o__Nitrososphaerales;f__Nitrosopumilaceae;g__Nitrosopumilus",
                "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": -0.741,
        "cell_length": -0.254,
        "doubling_h": 1.462,
        "growth_tmp": null,
        "optimum_tmp": 29.666,
        "optimum_ph": null,
        "genome_size": 1735691.5,
        "gc_content": 33.605,
        "coding_genes": 2066.333,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 42.0,
        "gram_stain": 0.0,
        "sporulation": null,
        "motility": 1.0,
        "range_salinity": 1.0,
        "facultative_respiration": null,
        "anaerobic_respiration": null,
        "aerobic_respiration": null,
        "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": [
        "Nitrosopumilus",
        "maritimus",
        "SCM1"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}