{
    "type": "genome",
    "identifier": "GCF_000168255.1",
    "organism": "Limosilactobacillus reuteri subsp. rodentium",
    "title": "Limosilactobacillus reuteri subsp. rodentium",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000168255.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN00623049",
        "wgs_master": "AAPZ00000000.2",
        "refseq_category": "na",
        "taxid": "349123",
        "species_taxid": "1598",
        "organism_name": "Limosilactobacillus reuteri subsp. rodentium",
        "infraspecific_name": "strain=100-23",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2008/07/25",
        "asm_name": "ASM16825v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_000168255.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/168/255/GCF_000168255.1_ASM16825v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2305557",
        "genome_size_ungapped": "2305557",
        "gc_percent": "38.500000",
        "replicon_count": "0",
        "scaffold_count": "2",
        "contig_count": "2",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)",
        "annotation_date": "2024-02-07",
        "total_gene_count": "2247",
        "protein_coding_gene_count": "2103",
        "non_coding_gene_count": "95",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2008-07-25",
    "dateModified": "2008-07-25",
    "datePublished": "2008-07-25",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Limosilactobacillus reuteri subsp. rodentium"
        ],
        "sample_taxid": [
            "349123"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "0.648 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)": "2305557",
        "Number of Sequences": "2",
        "Longest Sequences (bp)": "1576206",
        "N50 (bp)": "1576206",
        "Gap Ratio (%)": "0.000173",
        "GCcontent (%)": "38.7",
        "Number of CDSs": "2190",
        "Average Protein Length": "305.3",
        "Coding Ratio (%)": "87.0",
        "Number of rRNAs": "18",
        "Number of tRNAs": "74",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Limosilactobacillus reuteri subsp. rodentium",
                "strain": "strain=100-23",
                "accession": "GCA_000168255.1",
                "taxid": 349123,
                "species_taxid": 1598,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 767,
                "total_fragments": 768,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus reuteri subsp. suis",
                "strain": "strain=ATCC 53608",
                "accession": "GCA_000236455.2",
                "taxid": 927703,
                "species_taxid": 1598,
                "relation_to_type": "type",
                "validated": true,
                "ani": 96.1573,
                "matched_fragments": 549,
                "total_fragments": 768,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus reuteri subsp. reuteri",
                "strain": "strain=DSM 20016",
                "accession": "GCA_001434615.1",
                "taxid": 557436,
                "species_taxid": 1598,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.5189,
                "matched_fragments": 521,
                "total_fragments": 768,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus reuteri subsp. reuteri",
                "strain": "strain=DSM 20016",
                "accession": "GCA_000016825.1",
                "taxid": 557436,
                "species_taxid": 1598,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.4944,
                "matched_fragments": 538,
                "total_fragments": 768,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus reuteri subsp. reuteri",
                "strain": "strain=JCM 1112",
                "accession": "GCA_000010005.1",
                "taxid": 557436,
                "species_taxid": 1598,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.4234,
                "matched_fragments": 552,
                "total_fragments": 768,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus reuteri subsp. murium",
                "strain": "strain=lpuph1",
                "accession": "GCA_000179455.1",
                "taxid": 863368,
                "species_taxid": 1598,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.3994,
                "matched_fragments": 552,
                "total_fragments": 768,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus balticus",
                "strain": "strain=BG-AF3-A",
                "accession": "GCA_014145615.1",
                "taxid": 2759747,
                "species_taxid": 2759747,
                "relation_to_type": "type",
                "validated": true,
                "ani": 94.2754,
                "matched_fragments": 569,
                "total_fragments": 768,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000016825.1",
                "gtdb_species": "s__Limosilactobacillus reuteri",
                "ani": 95.4977,
                "matched_fragments": 539,
                "total_fragments": 768,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.73",
                "min_intra_species_ani": "95.25",
                "mean_intra_species_af": "0.84",
                "min_intra_species_af": "0.75",
                "num_clustered_genomes": 135,
                "status": "inconclusive"
            },
            {
                "accession": "GCA_003072625.1",
                "gtdb_species": "s__Limosilactobacillus reuteri_D",
                "ani": 95.4007,
                "matched_fragments": 538,
                "total_fragments": 768,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.43",
                "min_intra_species_ani": "95.30",
                "mean_intra_species_af": "0.77",
                "min_intra_species_af": "0.72",
                "num_clustered_genomes": 32,
                "status": "inconclusive"
            },
            {
                "accession": "GCF_014145615.1",
                "gtdb_species": "s__Limosilactobacillus balticus",
                "ani": 94.2684,
                "matched_fragments": 568,
                "total_fragments": 768,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.51",
                "min_intra_species_ani": "98.51",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_013694365.1",
                "gtdb_species": "s__Limosilactobacillus reuteri_E",
                "ani": 93.5658,
                "matched_fragments": 520,
                "total_fragments": 768,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.28",
                "min_intra_species_ani": "96.40",
                "mean_intra_species_af": "0.80",
                "min_intra_species_af": "0.72",
                "num_clustered_genomes": 58,
                "status": "-"
            },
            {
                "accession": "GCF_014145585.1",
                "gtdb_species": "s__Limosilactobacillus agrestis",
                "ani": 90.6781,
                "matched_fragments": 508,
                "total_fragments": 768,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.60",
                "min_intra_species_ani": "98.25",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 3,
                "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": [
        "Limosilactobacillus",
        "reuteri",
        "subsp.",
        "rodentium"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}