{
    "type": "genome",
    "identifier": "GCF_013267215.1",
    "organism": "Shewanella oneidensis MR-1",
    "title": "Shewanella oneidensis MR-1",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Maryland School of Medicine",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_013267215.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN14968595",
        "wgs_master": "na",
        "refseq_category": "na",
        "taxid": "211586",
        "species_taxid": "70863",
        "organism_name": "Shewanella oneidensis MR-1",
        "infraspecific_name": "strain=MR-1",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Chromosome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2020/06/04",
        "asm_name": "ASM1326721v1",
        "asm_submitter": "University of Maryland School of Medicine",
        "gbrs_paired_asm": "GCA_013267215.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/267/215/GCF_013267215.1_ASM1326721v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "4972338",
        "genome_size_ungapped": "4972238",
        "gc_percent": "46.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_013267215.1-RS_2024_07_20",
        "annotation_date": "2024-07-20",
        "total_gene_count": "4464",
        "protein_coding_gene_count": "4207",
        "non_coding_gene_count": "138",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2020-06-04",
    "dateModified": "2020-06-04",
    "datePublished": "2020-06-04",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Shewanella oneidensis MR-1"
        ],
        "sample_taxid": [
            "211586"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA: Lake Oneida sediments"
        ],
        "sample_host_location_id": [],
        "data_size": "1.411 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)": "4972238",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "4972238",
        "N50 (bp)": "4972238",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "46.0",
        "Number of CDSs": "4379",
        "Average Protein Length": "320.8",
        "Coding Ratio (%)": "84.8",
        "Number of rRNAs": "27",
        "Number of tRNAs": "102",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
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                "organism_name": "Shewanella oneidensis",
                "strain": "strain=MR-1",
                "accession": "GCA_013267215.1",
                "taxid": 70863,
                "species_taxid": 70863,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1657,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Shewanella oneidensis",
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                "accession": "GCA_000146165.2",
                "taxid": 70863,
                "species_taxid": 70863,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.992,
                "matched_fragments": 1654,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Shewanella xiamenensis",
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                "accession": "GCA_014647135.1",
                "taxid": 332186,
                "species_taxid": 332186,
                "relation_to_type": "type",
                "validated": true,
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                "matched_fragments": 1300,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shewanella decolorationis",
                "strain": "strain=S12",
                "accession": "GCA_000485795.1",
                "taxid": 256839,
                "species_taxid": 256839,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.7763,
                "matched_fragments": 1251,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shewanella seohaensis",
                "strain": "strain=CCUG 60900",
                "accession": "GCA_023283775.1",
                "taxid": 755175,
                "species_taxid": 755175,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.3114,
                "matched_fragments": 1234,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shewanella seohaensis",
                "strain": "strain=KCTC 23556",
                "accession": "GCA_025449215.1",
                "taxid": 755175,
                "species_taxid": 755175,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.1359,
                "matched_fragments": 1245,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shewanella profunda",
                "strain": "strain=DSM 15900",
                "accession": "GCA_023283765.1",
                "taxid": 254793,
                "species_taxid": 254793,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.4865,
                "matched_fragments": 887,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shewanella glacialipiscicola",
                "strain": "strain=LMG 23744",
                "accession": "GCA_023283485.1",
                "taxid": 614069,
                "species_taxid": 614069,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.4189,
                "matched_fragments": 779,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shewanella psychromarinicola",
                "strain": "strain=M2",
                "accession": "GCA_003855155.1",
                "taxid": 2487742,
                "species_taxid": 2487742,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.9763,
                "matched_fragments": 275,
                "total_fragments": 1657,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000146165.2",
                "gtdb_species": "s__Shewanella oneidensis",
                "ani": 99.992,
                "matched_fragments": 1654,
                "total_fragments": 1657,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella",
                "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": "conclusive"
            },
            {
                "accession": "GCF_014647135.1",
                "gtdb_species": "s__Shewanella xiamenensis",
                "ani": 89.3041,
                "matched_fragments": 1301,
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                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.56",
                "min_intra_species_ani": "97.34",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 25,
                "status": "-"
            },
            {
                "accession": "GCF_000485795.1",
                "gtdb_species": "s__Shewanella decolorationis",
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                "total_fragments": 1657,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.60",
                "min_intra_species_ani": "97.51",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_002216875.1",
                "gtdb_species": "s__Shewanella bicestrii",
                "ani": 86.3713,
                "matched_fragments": 1228,
                "total_fragments": 1657,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.51",
                "min_intra_species_ani": "96.32",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_000014665.1",
                "gtdb_species": "s__Shewanella sp000014665",
                "ani": 86.3442,
                "matched_fragments": 1227,
                "total_fragments": 1657,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.13",
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                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000203935.1",
                "gtdb_species": "s__Shewanella sp000203935",
                "ani": 86.2859,
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                "total_fragments": 1657,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella",
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                "mean_intra_species_ani": "95.76",
                "min_intra_species_ani": "95.76",
                "mean_intra_species_af": "0.86",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.302,
        "cell_length": 0.301,
        "doubling_h": -0.08,
        "growth_tmp": 24.667,
        "optimum_tmp": 22.248,
        "optimum_ph": 7.147,
        "genome_size": 5131420.0,
        "gc_content": 45.173,
        "coding_genes": 4214.0,
        "rRNA16S_genes": 9.0,
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        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": 0.333,
        "facultative_respiration": 1.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 0.0,
        "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": [
        "Shewanella",
        "oneidensis",
        "MR-1"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}