{
    "type": "genome",
    "identifier": "GCF_000420085.1",
    "organism": "Desulfospira joergensenii DSM 10085",
    "title": "Desulfospira joergensenii DSM 10085",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000420085.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02440566",
        "wgs_master": "ATUG00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1265505",
        "species_taxid": "53329",
        "organism_name": "Desulfospira joergensenii DSM 10085",
        "infraspecific_name": "strain=DSM 10085",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2013/07/09",
        "asm_name": "ASM42008v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_000420085.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/420/085/GCF_000420085.1_ASM42008v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "6119470",
        "genome_size_ungapped": "6119470",
        "gc_percent": "50.500000",
        "replicon_count": "0",
        "scaffold_count": "6",
        "contig_count": "6",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000420085.1-RS_2024_04_21",
        "annotation_date": "2024-04-21",
        "total_gene_count": "5472",
        "protein_coding_gene_count": "5395",
        "non_coding_gene_count": "57",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2013-07-09",
    "dateModified": "2013-07-09",
    "datePublished": "2013-07-09",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Desulfospira joergensenii DSM 10085"
        ],
        "sample_taxid": [
            "1265505"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "France"
        ],
        "sample_host_location_id": [],
        "data_size": "1.715 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)": "6119470",
        "Number of Sequences": "6",
        "Longest Sequences (bp)": "2428772",
        "N50 (bp)": "2416792",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "50.6",
        "Number of CDSs": "5496",
        "Average Protein Length": "325.5",
        "Coding Ratio (%)": "87.7",
        "Number of rRNAs": "4",
        "Number of tRNAs": "47",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Desulfospira joergensenii",
                "strain": "strain=DSM 10085",
                "accession": "GCA_000420085.1",
                "taxid": 53329,
                "species_taxid": 53329,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2037,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Desulfotignum balticum",
                "strain": "strain=DSM 7044",
                "accession": "GCA_000421285.1",
                "taxid": 115781,
                "species_taxid": 115781,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.6205,
                "matched_fragments": 347,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulfotignum phosphitoxidans",
                "strain": "strain=DSM 13687",
                "accession": "GCA_000350545.1",
                "taxid": 190898,
                "species_taxid": 190898,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5333,
                "matched_fragments": 337,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulfobacter vibrioformis",
                "strain": "strain=DSM 8776",
                "accession": "GCA_000745975.1",
                "taxid": 34031,
                "species_taxid": 34031,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5111,
                "matched_fragments": 234,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulfobacter curvatus",
                "strain": "strain=DSM 3379",
                "accession": "GCA_000373985.1",
                "taxid": 2290,
                "species_taxid": 2290,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8246,
                "matched_fragments": 211,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulfocicer vacuolatum",
                "strain": "strain=DSM 3385",
                "accession": "GCA_900176365.1",
                "taxid": 2298,
                "species_taxid": 2298,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4727,
                "matched_fragments": 156,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulforapulum autotrophicum",
                "strain": "strain=HRM2",
                "accession": "GCA_000020365.1",
                "taxid": 2296,
                "species_taxid": 2296,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3761,
                "matched_fragments": 167,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulfosarcina ovata subsp. ovata",
                "strain": "strain=oXyS1",
                "accession": "GCA_009689005.1",
                "taxid": 2752305,
                "species_taxid": 83564,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.8658,
                "matched_fragments": 90,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulfosarcina ovata subsp. sediminis",
                "strain": "strain=28bB2T",
                "accession": "GCA_009688985.1",
                "taxid": 885957,
                "species_taxid": 83564,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.8611,
                "matched_fragments": 85,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Desulfosarcina widdelii",
                "strain": "strain=PP31",
                "accession": "GCA_009688965.1",
                "taxid": 947919,
                "species_taxid": 947919,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.8318,
                "matched_fragments": 96,
                "total_fragments": 2038,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000420085.1",
                "gtdb_species": "s__Desulfospira joergensenii",
                "ani": 100.0,
                "matched_fragments": 2036,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfospira",
                "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_011390335.1",
                "gtdb_species": "s__Desulfotignum sp011390335",
                "ani": 77.6494,
                "matched_fragments": 374,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_000421285.1",
                "gtdb_species": "s__Desulfotignum balticum",
                "ani": 77.6288,
                "matched_fragments": 349,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "ani_circumscription_radius": 96.875,
                "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_011390615.1",
                "gtdb_species": "s__Desulfotignum sp011390615",
                "ani": 77.626,
                "matched_fragments": 275,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_011390635.1",
                "gtdb_species": "s__Desulfotignum sp011390635",
                "ani": 77.5744,
                "matched_fragments": 377,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_013792075.1",
                "gtdb_species": "s__NBML01 sp013792075",
                "ani": 77.4552,
                "matched_fragments": 390,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__NBML01",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.85",
                "min_intra_species_ani": "99.75",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_011389555.1",
                "gtdb_species": "s__Desulfotignum sp011389555",
                "ani": 77.4361,
                "matched_fragments": 309,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_012031875.1",
                "gtdb_species": "s__Desulfobacula sp012031875",
                "ani": 77.4153,
                "matched_fragments": 338,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfobacula",
                "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_011389575.1",
                "gtdb_species": "s__Desulfotignum sp011389575",
                "ani": 77.4059,
                "matched_fragments": 310,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_018816605.1",
                "gtdb_species": "s__NBML01 sp018816605",
                "ani": 77.3529,
                "matched_fragments": 330,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__NBML01",
                "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_016743945.1",
                "gtdb_species": "s__NBML01 sp016743945",
                "ani": 77.3064,
                "matched_fragments": 353,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__NBML01",
                "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_018399285.1",
                "gtdb_species": "s__Desulfotignum sp018399285",
                "ani": 77.3007,
                "matched_fragments": 275,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_011389715.1",
                "gtdb_species": "s__Desulfotignum sp011389715",
                "ani": 77.1181,
                "matched_fragments": 206,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_004796375.1",
                "gtdb_species": "s__MADRE2 sp004796375",
                "ani": 76.9558,
                "matched_fragments": 214,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__MADRE2",
                "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_011390085.1",
                "gtdb_species": "s__Desulfobacula sp011390085",
                "ani": 76.8413,
                "matched_fragments": 145,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfobacula",
                "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_000373985.1",
                "gtdb_species": "s__Desulfobacter curvatus",
                "ani": 76.8143,
                "matched_fragments": 212,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfobacter",
                "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_011390695.1",
                "gtdb_species": "s__Desulfotignum sp011390695",
                "ani": 76.7379,
                "matched_fragments": 164,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfotignum",
                "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_900176365.1",
                "gtdb_species": "s__Desulfobacterium_A vacuolatum",
                "ani": 76.4769,
                "matched_fragments": 157,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfobacteraceae;g__Desulfobacterium_A",
                "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_009689005.1",
                "gtdb_species": "s__Desulfosarcina ovata",
                "ani": 75.935,
                "matched_fragments": 91,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfosarcinaceae;g__Desulfosarcina",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.03",
                "min_intra_species_ani": "97.03",
                "mean_intra_species_af": "0.77",
                "min_intra_species_af": "0.77",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_011390345.1",
                "gtdb_species": "s__JAABSP01 sp011390345",
                "ani": 75.6976,
                "matched_fragments": 72,
                "total_fragments": 2038,
                "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobacteria;o__Desulfobacterales;f__Desulfococcaceae;g__JAABSP01",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.08",
                "min_intra_species_ani": "95.08",
                "mean_intra_species_af": "0.82",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": 28.0,
        "optimum_tmp": 30.0,
        "optimum_ph": 7.2,
        "genome_size": 6119470.0,
        "gc_content": 50.6,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": null,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 1.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "bacillus_cell_shape": null,
        "coccus_cell_shape": null,
        "filament_cell_shape": null,
        "coccobacillus_cell_shape": null,
        "vibrio_cell_shape": null,
        "spiral_cell_shape": null
    },
    "_genome_taxon": [
        "Desulfospira",
        "joergensenii",
        "DSM",
        "10085"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}