{
    "type": "genome",
    "identifier": "GCF_002968635.1",
    "organism": "Neorhizobium alkalisoli",
    "title": "Neorhizobium alkalisoli",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Centre for Plant Biotechnology and Genomics UPM-INIA",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002968635.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN08554967",
        "wgs_master": "PVBN00000000.1",
        "refseq_category": "reference genome",
        "taxid": "528178",
        "species_taxid": "528178",
        "organism_name": "Neorhizobium alkalisoli",
        "infraspecific_name": "strain=DSM 21826",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/03/05",
        "asm_name": "ASM296863v1",
        "asm_submitter": "Centre for Plant Biotechnology and Genomics UPM-INIA",
        "gbrs_paired_asm": "GCA_002968635.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/968/635/GCF_002968635.1_ASM296863v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "5869725",
        "genome_size_ungapped": "5869725",
        "gc_percent": "60.500000",
        "replicon_count": "0",
        "scaffold_count": "68",
        "contig_count": "68",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002968635.1-RS_2024_12_01",
        "annotation_date": "2024-12-01",
        "total_gene_count": "5710",
        "protein_coding_gene_count": "5541",
        "non_coding_gene_count": "56",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-03-05",
    "dateModified": "2018-03-05",
    "datePublished": "2018-03-05",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Neorhizobium alkalisoli"
        ],
        "sample_taxid": [
            "528178"
        ],
        "sample_host_organism": [
            "Caragana korshinskii"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Germany"
        ],
        "sample_host_location_id": [],
        "data_size": "1.652 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)": "5869725",
        "Number of Sequences": "68",
        "Longest Sequences (bp)": "892309",
        "N50 (bp)": "390987",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "60.3",
        "Number of CDSs": "5635",
        "Average Protein Length": "307.4",
        "Coding Ratio (%)": "88.5",
        "Number of rRNAs": "3",
        "Number of tRNAs": "48",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Neorhizobium alkalisoli",
                "strain": "strain=DSM 21826",
                "accession": "GCA_002968635.1",
                "taxid": 528178,
                "species_taxid": 528178,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1934,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Neorhizobium huautlense",
                "strain": "strain=DSM 21817",
                "accession": "GCA_002968575.1",
                "taxid": 67774,
                "species_taxid": 67774,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.9095,
                "matched_fragments": 1404,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Neorhizobium vignae",
                "strain": "strain=CCBAU 05176",
                "accession": "GCA_000732195.1",
                "taxid": 690585,
                "species_taxid": 690585,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.6382,
                "matched_fragments": 1188,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Neorhizobium galegae",
                "strain": "strain=HAMBI 540",
                "accession": "GCA_000731315.1",
                "taxid": 399,
                "species_taxid": 399,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 82.5836,
                "matched_fragments": 1175,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhizobium petrolearium",
                "strain": "strain=DSM 26482",
                "accession": "GCA_017873175.1",
                "taxid": 515361,
                "species_taxid": 515361,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.1484,
                "matched_fragments": 1124,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhizobium populisoli",
                "strain": "strain=XQZ8",
                "accession": "GCA_019430945.1",
                "taxid": 2859785,
                "species_taxid": 2859785,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.6718,
                "matched_fragments": 1112,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shinella zoogloeoides",
                "strain": "strain=ATCC 19623",
                "accession": "GCA_020883495.1",
                "taxid": 352475,
                "species_taxid": 352475,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.7793,
                "matched_fragments": 594,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhizobium phaseoli",
                "strain": "strain=ATCC 14482",
                "accession": "GCA_003985125.1",
                "taxid": 396,
                "species_taxid": 396,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.5498,
                "matched_fragments": 729,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhizobium chutanense",
                "strain": "strain=C5",
                "accession": "GCA_002531935.1",
                "taxid": 2035448,
                "species_taxid": 2035448,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.5261,
                "matched_fragments": 738,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shinella yambaruensis",
                "strain": "strain=DSM 18801",
                "accession": "GCA_022899355.1",
                "taxid": 415996,
                "species_taxid": 415996,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.4758,
                "matched_fragments": 698,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhizobium mongolense subsp. loessense",
                "strain": "strain=CGMCC 1.3401",
                "accession": "GCA_900099775.1",
                "taxid": 158890,
                "species_taxid": 57676,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.1967,
                "matched_fragments": 625,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Agrobacterium leguminum",
                "strain": "strain=MOPV5",
                "accession": "GCA_015704895.1",
                "taxid": 2792015,
                "species_taxid": 2792015,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.9887,
                "matched_fragments": 679,
                "total_fragments": 1935,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_002968635.1",
                "gtdb_species": "s__Neorhizobium alkalisoli",
                "ani": 100.0,
                "matched_fragments": 1934,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "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_900469955.1",
                "gtdb_species": "s__Neorhizobium sp900469955",
                "ani": 93.7265,
                "matched_fragments": 1549,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "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_002968575.1",
                "gtdb_species": "s__Neorhizobium huautlense",
                "ani": 88.8971,
                "matched_fragments": 1406,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.14",
                "min_intra_species_ani": "97.99",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_900177415.1",
                "gtdb_species": "s__Neorhizobium oryzae_A",
                "ani": 83.2373,
                "matched_fragments": 1149,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "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_000985895.1",
                "gtdb_species": "s__Neorhizobium galegae_B",
                "ani": 83.0249,
                "matched_fragments": 1169,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.06",
                "min_intra_species_ani": "98.00",
                "mean_intra_species_af": "0.96",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_000282095.2",
                "gtdb_species": "s__Neorhizobium sp000282095",
                "ani": 82.8028,
                "matched_fragments": 1176,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "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_017877055.1",
                "gtdb_species": "s__Neorhizobium galegae_D",
                "ani": 82.7427,
                "matched_fragments": 1169,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "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_002968845.1",
                "gtdb_species": "s__Neorhizobium tomejilense",
                "ani": 82.7093,
                "matched_fragments": 1196,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.02",
                "min_intra_species_ani": "95.22",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.84",
                "num_clustered_genomes": 9,
                "status": "-"
            },
            {
                "accession": "GCA_000985875.1",
                "gtdb_species": "s__Neorhizobium galegae_C",
                "ani": 82.7057,
                "matched_fragments": 1192,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.95",
                "min_intra_species_ani": "97.84",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_003425685.1",
                "gtdb_species": "s__Neorhizobium sp003425685",
                "ani": 82.4405,
                "matched_fragments": 1187,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "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_001005825.1",
                "gtdb_species": "s__Neorhizobium sp001005825",
                "ani": 80.9922,
                "matched_fragments": 922,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_004358025.1",
                "gtdb_species": "s__Neorhizobium deserti",
                "ani": 80.1625,
                "matched_fragments": 813,
                "total_fragments": 1935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Neorhizobium",
                "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": -0.398,
        "cell_length": 0.301,
        "doubling_h": null,
        "growth_tmp": 28.0,
        "optimum_tmp": 28.0,
        "optimum_ph": 7.0,
        "genome_size": 6401216.8,
        "gc_content": 61.253,
        "coding_genes": 6089.6,
        "rRNA16S_genes": 3.0,
        "tRNA_genes": 50.667,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "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": [
        "Neorhizobium",
        "alkalisoli"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}