{
    "type": "genome",
    "identifier": "GCF_000021745.1",
    "organism": "Methylocella silvestris BL2",
    "title": "Methylocella silvestris BL2",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "US DOE Joint Genome Institute (JGI-PGF)",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000021745.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN00000045",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "395965",
        "species_taxid": "199596",
        "organism_name": "Methylocella silvestris BL2",
        "infraspecific_name": "strain=BL2",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2008/12/15",
        "asm_name": "ASM2174v1",
        "asm_submitter": "US DOE Joint Genome Institute (JGI-PGF)",
        "gbrs_paired_asm": "GCA_000021745.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/021/745/GCF_000021745.1_ASM2174v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "4305430",
        "genome_size_ungapped": "4305430",
        "gc_percent": "63.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)",
        "annotation_date": "2023-04-24",
        "total_gene_count": "3978",
        "protein_coding_gene_count": "3856",
        "non_coding_gene_count": "59",
        "pubmed_id": "20472789"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2008-12-15",
    "dateModified": "2008-12-15",
    "datePublished": "2008-12-15",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Methylocella silvestris BL2"
        ],
        "sample_taxid": [
            "395965"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "1.188 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)": "4305430",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "4305430",
        "N50 (bp)": "4305430",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "63.1",
        "Number of CDSs": "3931",
        "Average Protein Length": "314.5",
        "Coding Ratio (%)": "86.1",
        "Number of rRNAs": "6",
        "Number of tRNAs": "52",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Methylocella silvestris",
                "strain": "strain=BL2",
                "accession": "GCA_000021745.1",
                "taxid": 199596,
                "species_taxid": 199596,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1434,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Methylocapsa acidiphila",
                "strain": "strain=B2",
                "accession": "GCA_000427445.1",
                "taxid": 133552,
                "species_taxid": 133552,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.5214,
                "matched_fragments": 432,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylocapsa aurea",
                "strain": "strain=KYG",
                "accession": "GCA_000746085.1",
                "taxid": 663610,
                "species_taxid": 663610,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.5111,
                "matched_fragments": 458,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylocapsa palsarum",
                "strain": "strain=NE2",
                "accession": "GCA_900114285.1",
                "taxid": 1612308,
                "species_taxid": 1612308,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.4512,
                "matched_fragments": 394,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylovirgula ligni",
                "strain": "strain=BW863",
                "accession": "GCA_004135935.1",
                "taxid": 569860,
                "species_taxid": 569860,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.0714,
                "matched_fragments": 327,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylovirgula ligni",
                "strain": "strain=BW863",
                "accession": "GCA_003387225.1",
                "taxid": 569860,
                "species_taxid": 569860,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.0022,
                "matched_fragments": 328,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methyloferula stellata",
                "strain": "strain=AR4T",
                "accession": "GCA_000385335.1",
                "taxid": 876270,
                "species_taxid": 876270,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.9361,
                "matched_fragments": 332,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylosinus trichosporium",
                "strain": "strain=OB3b",
                "accession": "GCA_000178815.2",
                "taxid": 426,
                "species_taxid": 426,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.8432,
                "matched_fragments": 396,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Candidatus Rhodoblastus alkanivorans",
                "strain": "",
                "accession": "GCA_022760755.1",
                "taxid": 2954117,
                "species_taxid": 2954117,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.773,
                "matched_fragments": 303,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylocystis rosea",
                "strain": "strain=SV97",
                "accession": "GCA_000372845.1",
                "taxid": 173366,
                "species_taxid": 173366,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.6602,
                "matched_fragments": 256,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylocystis silviterrae",
                "strain": "strain=FS",
                "accession": "GCA_013350005.1",
                "taxid": 2743612,
                "species_taxid": 2743612,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5635,
                "matched_fragments": 259,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylocystis hirsuta",
                "strain": "strain=CSC1",
                "accession": "GCA_003722355.1",
                "taxid": 369798,
                "species_taxid": 369798,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5534,
                "matched_fragments": 269,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Beijerinckia indica subsp. indica",
                "strain": "strain=ATCC 9039",
                "accession": "GCA_000019845.1",
                "taxid": 31994,
                "species_taxid": 533,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5229,
                "matched_fragments": 256,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylosinus sporium",
                "strain": "strain=DSM 17706",
                "accession": "GCA_009811675.1",
                "taxid": 428,
                "species_taxid": 428,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4287,
                "matched_fragments": 351,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Beijerinckia mobilis",
                "strain": "strain=UQM 1969",
                "accession": "GCA_000745425.1",
                "taxid": 231434,
                "species_taxid": 231434,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4159,
                "matched_fragments": 264,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylosinus sporium",
                "strain": "strain=DSM 17706",
                "accession": "GCA_003113265.1",
                "taxid": 428,
                "species_taxid": 428,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.402,
                "matched_fragments": 339,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Bradyrhizobium septentrionale",
                "strain": "strain=1S1",
                "accession": "GCA_011516645.4",
                "taxid": 1404411,
                "species_taxid": 1404411,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.9277,
                "matched_fragments": 286,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Bradyrhizobium acaciae",
                "strain": "strain=10BB",
                "accession": "GCA_020889785.1",
                "taxid": 2683706,
                "species_taxid": 2683706,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8352,
                "matched_fragments": 254,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Bradyrhizobium oropedii",
                "strain": "strain=Pear76",
                "accession": "GCA_020889685.1",
                "taxid": 1571201,
                "species_taxid": 1571201,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8094,
                "matched_fragments": 264,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium gregans",
                "strain": "strain=NBRC 103626",
                "accession": "GCA_022179245.1",
                "taxid": 374424,
                "species_taxid": 374424,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4928,
                "matched_fragments": 230,
                "total_fragments": 1435,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 95.83,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000021745.1",
                "gtdb_species": "s__Methylocella silvestris",
                "ani": 100.0,
                "matched_fragments": 1435,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocella",
                "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_002891535.1",
                "gtdb_species": "s__Methylocella silvestris_A",
                "ani": 90.6991,
                "matched_fragments": 1158,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocella",
                "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_901905185.1",
                "gtdb_species": "s__Methylocella tundrae",
                "ani": 79.7681,
                "matched_fragments": 688,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.31",
                "min_intra_species_ani": "97.31",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000427445.1",
                "gtdb_species": "s__Methylocella acidiphila",
                "ani": 78.5274,
                "matched_fragments": 432,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocella",
                "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_000746085.1",
                "gtdb_species": "s__Methylocella aurea",
                "ani": 78.4893,
                "matched_fragments": 461,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocella",
                "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_900114285.1",
                "gtdb_species": "s__Methylocella palsarum",
                "ani": 78.451,
                "matched_fragments": 394,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocella",
                "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_004135935.1",
                "gtdb_species": "s__Methylovirgula ligni",
                "ani": 78.0825,
                "matched_fragments": 326,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylovirgula",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_015709515.1",
                "gtdb_species": "s__Methylocystis sp015709515",
                "ani": 77.6334,
                "matched_fragments": 282,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocystis",
                "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_000745215.1",
                "gtdb_species": "s__Methylosinus sp000745215",
                "ani": 77.5989,
                "matched_fragments": 361,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylosinus",
                "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_009773555.1",
                "gtdb_species": "s__Methylocystis sp009773555",
                "ani": 77.5898,
                "matched_fragments": 247,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Methylocystis",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.69",
                "min_intra_species_ani": "99.47",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.93",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_009765775.1",
                "gtdb_species": "s__RH-AL1 sp009765775",
                "ani": 77.5011,
                "matched_fragments": 317,
                "total_fragments": 1435,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__RH-AL1",
                "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": -0.222,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": 23.0,
        "optimum_tmp": 30.0,
        "optimum_ph": 5.75,
        "genome_size": 4305430.0,
        "gc_content": 63.1,
        "coding_genes": 3842.333,
        "rRNA16S_genes": 2.0,
        "tRNA_genes": 48.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "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": [
        "Methylocella",
        "silvestris",
        "BL2"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}