{
    "type": "genome",
    "identifier": "GCF_014199935.1",
    "organism": "Methylorubrum rhodinum",
    "title": "Methylorubrum rhodinum",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_014199935.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN14908513",
        "wgs_master": "JACHOP000000000.1",
        "refseq_category": "reference genome",
        "taxid": "29428",
        "species_taxid": "29428",
        "organism_name": "Methylorubrum rhodinum",
        "infraspecific_name": "strain=DSM 2163",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2020/08/14",
        "asm_name": "ASM1419993v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_014199935.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/199/935/GCF_014199935.1_ASM1419993v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "5406054",
        "genome_size_ungapped": "5405958",
        "gc_percent": "70.000000",
        "replicon_count": "0",
        "scaffold_count": "58",
        "contig_count": "58",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_014199935.1-RS_2024_09_29",
        "annotation_date": "2024-09-29",
        "total_gene_count": "5091",
        "protein_coding_gene_count": "4950",
        "non_coding_gene_count": "51",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2020-08-14",
    "dateModified": "2020-08-14",
    "datePublished": "2020-08-14",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Methylorubrum rhodinum"
        ],
        "sample_taxid": [
            "29428"
        ],
        "sample_host_organism": [
            "not applicable"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "1.462 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)": "5406054",
        "Number of Sequences": "58",
        "Longest Sequences (bp)": "521778",
        "N50 (bp)": "170748",
        "Gap Ratio (%)": "0.001776",
        "GCcontent (%)": "69.9",
        "Number of CDSs": "5081",
        "Average Protein Length": "307.2",
        "Coding Ratio (%)": "86.6",
        "Number of rRNAs": "1",
        "Number of tRNAs": "53",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Methylorubrum rhodinum",
                "strain": "strain=DSM 2163",
                "accession": "GCA_014199935.1",
                "taxid": 29428,
                "species_taxid": 29428,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1772,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Methylorubrum salsuginis",
                "strain": "strain=CGMCC 1.6474",
                "accession": "GCA_900114375.1",
                "taxid": 414703,
                "species_taxid": 414703,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.5165,
                "matched_fragments": 1342,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylorubrum suomiense",
                "strain": "strain=DSM 14458",
                "accession": "GCA_022179765.1",
                "taxid": 144191,
                "species_taxid": 144191,
                "relation_to_type": "type",
                "validated": true,
                "ani": 87.4091,
                "matched_fragments": 1294,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylorubrum podarium",
                "strain": "strain=DSM 15083",
                "accession": "GCA_022179745.1",
                "taxid": 200476,
                "species_taxid": 200476,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.3416,
                "matched_fragments": 918,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylorubrum rhodesianum",
                "strain": "strain=DSM 5687",
                "accession": "GCA_014199985.1",
                "taxid": 29427,
                "species_taxid": 29427,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.4361,
                "matched_fragments": 1204,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylorubrum extorquens",
                "strain": "strain=TK 0001",
                "accession": "GCA_900234795.1",
                "taxid": 408,
                "species_taxid": 408,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.4227,
                "matched_fragments": 1205,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylorubrum aminovorans",
                "strain": "strain=NBRC 15686",
                "accession": "GCA_022179725.1",
                "taxid": 269069,
                "species_taxid": 269069,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.3485,
                "matched_fragments": 1198,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylorubrum zatmanii",
                "strain": "strain=LMG 6087",
                "accession": "GCA_014845115.1",
                "taxid": 29429,
                "species_taxid": 29429,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.2713,
                "matched_fragments": 1022,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium hispanicum",
                "strain": "strain=DSM 16372",
                "accession": "GCA_022179285.1",
                "taxid": 270350,
                "species_taxid": 270350,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.9514,
                "matched_fragments": 1055,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium soli",
                "strain": "strain=KCTC 22810",
                "accession": "GCA_022179555.1",
                "taxid": 553447,
                "species_taxid": 553447,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.7267,
                "matched_fragments": 781,
                "total_fragments": 1774,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_014199935.1",
                "gtdb_species": "s__Methylobacterium rhodinum",
                "ani": 100.0,
                "matched_fragments": 1772,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "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_001425465.1",
                "gtdb_species": "s__Methylobacterium sp001425465",
                "ani": 91.088,
                "matched_fragments": 1391,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "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_900114375.1",
                "gtdb_species": "s__Methylobacterium salsuginis",
                "ani": 90.5263,
                "matched_fragments": 1340,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "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_005502455.1",
                "gtdb_species": "s__Methylobacterium sp005502455",
                "ani": 87.3958,
                "matched_fragments": 1236,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "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_003201865.1",
                "gtdb_species": "s__Methylobacterium sp003201865",
                "ani": 85.7,
                "matched_fragments": 1196,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "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_002355515.1",
                "gtdb_species": "s__Methylobacterium populi_A",
                "ani": 85.566,
                "matched_fragments": 1228,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "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_900234795.1",
                "gtdb_species": "s__Methylobacterium extorquens",
                "ani": 85.3921,
                "matched_fragments": 1209,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.03",
                "min_intra_species_ani": "96.19",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.73",
                "num_clustered_genomes": 17,
                "status": "-"
            },
            {
                "accession": "GCF_001542815.1",
                "gtdb_species": "s__Methylobacterium sp001542815",
                "ani": 85.3069,
                "matched_fragments": 1202,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.78",
                "min_intra_species_ani": "98.78",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_014845115.1",
                "gtdb_species": "s__Methylobacterium zatmanii",
                "ani": 85.2635,
                "matched_fragments": 1022,
                "total_fragments": 1774,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylobacterium",
                "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": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": null,
        "optimum_tmp": null,
        "optimum_ph": null,
        "genome_size": null,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": null,
        "sporulation": null,
        "motility": null,
        "range_salinity": null,
        "facultative_respiration": null,
        "anaerobic_respiration": null,
        "aerobic_respiration": null,
        "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": [
        "Methylorubrum",
        "rhodinum"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}