{
    "type": "genome",
    "identifier": "GCF_002287195.1",
    "organism": "Methanosphaera cuniculi",
    "title": "Methanosphaera cuniculi",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of California Santa Barbara",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002287195.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN04229037",
        "wgs_master": "LMVN00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1077256",
        "species_taxid": "1077256",
        "organism_name": "Methanosphaera cuniculi",
        "infraspecific_name": "strain=1R-7",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2017/09/06",
        "asm_name": "ASM228719v1",
        "asm_submitter": "University of California Santa Barbara",
        "gbrs_paired_asm": "GCA_002287195.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/287/195/GCF_002287195.1_ASM228719v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "archaea",
        "genome_size": "1928201",
        "genome_size_ungapped": "1928201",
        "gc_percent": "28.000000",
        "replicon_count": "0",
        "scaffold_count": "29",
        "contig_count": "29",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002287195.1-RS_2024_10_22",
        "annotation_date": "2024-10-22",
        "total_gene_count": "1689",
        "protein_coding_gene_count": "1638",
        "non_coding_gene_count": "38",
        "pubmed_id": "28826405"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2017-09-06",
    "dateModified": "2017-09-06",
    "datePublished": "2017-09-06",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Methanosphaera cuniculi"
        ],
        "sample_taxid": [
            "1077256"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Italy"
        ],
        "sample_host_location_id": [],
        "data_size": "0.519 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)": "1928201",
        "Number of Sequences": "29",
        "Longest Sequences (bp)": "187577",
        "N50 (bp)": "138173",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "28.0",
        "Number of CDSs": "1655",
        "Average Protein Length": "315.8",
        "Coding Ratio (%)": "81.3",
        "Number of rRNAs": "1",
        "Number of tRNAs": "34",
        "Number of CRISPRs": "2"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Methanosphaera cuniculi",
                "strain": "strain=1R-7",
                "accession": "GCA_002287195.1",
                "taxid": 1077256,
                "species_taxid": 1077256,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 626,
                "total_fragments": 627,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Methanosphaera cuniculi",
                "strain": "strain=DSM 4103",
                "accession": "GCA_003149675.1",
                "taxid": 1077256,
                "species_taxid": 1077256,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9459,
                "matched_fragments": 587,
                "total_fragments": 627,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Methanosphaera stadtmanae",
                "strain": "strain=DSM 3091",
                "accession": "GCA_000012545.1",
                "taxid": 2317,
                "species_taxid": 2317,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.2187,
                "matched_fragments": 253,
                "total_fragments": 627,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methanobrevibacter filiformis",
                "strain": "strain=DSM 11501",
                "accession": "GCA_001639265.1",
                "taxid": 55758,
                "species_taxid": 55758,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.2559,
                "matched_fragments": 53,
                "total_fragments": 627,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 95.83,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_003149675.1",
                "gtdb_species": "s__Methanosphaera cuniculi",
                "ani": 99.9459,
                "matched_fragments": 587,
                "total_fragments": 627,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.96",
                "min_intra_species_ani": "99.96",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.98",
                "num_clustered_genomes": 2,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001729965.1",
                "gtdb_species": "s__Methanosphaera sp001729965",
                "ani": 79.2423,
                "matched_fragments": 243,
                "total_fragments": 627,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera",
                "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_000012545.1",
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                "ani": 79.238,
                "matched_fragments": 252,
                "total_fragments": 627,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.82",
                "min_intra_species_ani": "99.70",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.98",
                "num_clustered_genomes": 6,
                "status": "-"
            },
            {
                "accession": "GCA_017431845.1",
                "gtdb_species": "s__Methanosphaera sp017431845",
                "ani": 78.868,
                "matched_fragments": 175,
                "total_fragments": 627,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera",
                "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_902782945.1",
                "gtdb_species": "s__Methanosphaera sp900322125",
                "ani": 78.7464,
                "matched_fragments": 202,
                "total_fragments": 627,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.80",
                "min_intra_species_ani": "97.01",
                "mean_intra_species_af": "0.80",
                "min_intra_species_af": "0.75",
                "num_clustered_genomes": 4,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.222,
        "cell_length": 0.079,
        "doubling_h": 1.781,
        "growth_tmp": 37.0,
        "optimum_tmp": 37.5,
        "optimum_ph": 6.8,
        "genome_size": 1928201.0,
        "gc_content": 28.03,
        "coding_genes": 1523.0,
        "rRNA16S_genes": 4.0,
        "tRNA_genes": 41.0,
        "gram_stain": 1.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 1.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 0.0,
        "coccus_cell_shape": 1.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Methanosphaera",
        "cuniculi"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}