{
    "type": "genome",
    "identifier": "GCF_013394085.1",
    "organism": "Limosilactobacillus fermentum",
    "title": "Limosilactobacillus fermentum",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "North Carolina State University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_013394085.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN11893902",
        "wgs_master": "na",
        "refseq_category": "na",
        "taxid": "1613",
        "species_taxid": "1613",
        "organism_name": "Limosilactobacillus fermentum",
        "infraspecific_name": "strain=DSM 20052",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Chromosome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2020/07/08",
        "asm_name": "ASM1339408v1",
        "asm_submitter": "North Carolina State University",
        "gbrs_paired_asm": "GCA_013394085.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/394/085/GCF_013394085.1_ASM1339408v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "1887974",
        "genome_size_ungapped": "1885974",
        "gc_percent": "52.500000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_013394085.1-RS_2024_03_30",
        "annotation_date": "2024-03-30",
        "total_gene_count": "1901",
        "protein_coding_gene_count": "1745",
        "non_coding_gene_count": "74",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2020-07-08",
    "dateModified": "2020-07-08",
    "datePublished": "2020-07-08",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Limosilactobacillus fermentum"
        ],
        "sample_taxid": [
            "1613"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA"
        ],
        "sample_host_location_id": [],
        "data_size": "0.532 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)": "1887974",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "1887974",
        "N50 (bp)": "1887974",
        "Gap Ratio (%)": "0.106093",
        "GCcontent (%)": "52.5",
        "Number of CDSs": "1875",
        "Average Protein Length": "289.3",
        "Coding Ratio (%)": "86.2",
        "Number of rRNAs": "15",
        "Number of tRNAs": "59",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Limosilactobacillus fermentum",
                "strain": "strain=DSM 20052",
                "accession": "GCA_013394085.1",
                "taxid": 1613,
                "species_taxid": 1613,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 629,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus fermentum",
                "strain": "strain=B1 28",
                "accession": "GCA_005341425.1",
                "taxid": 1613,
                "species_taxid": 1613,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9362,
                "matched_fragments": 622,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus fermentum",
                "strain": "strain=ATCC 14931",
                "accession": "GCA_000159215.1",
                "taxid": 1613,
                "species_taxid": 1613,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.8241,
                "matched_fragments": 591,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Limosilactobacillus gorillae",
                "strain": "strain=KZ01",
                "accession": "GCA_001293735.1",
                "taxid": 1450649,
                "species_taxid": 1450649,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.3106,
                "matched_fragments": 327,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Limosilactobacillus avistercoris",
                "strain": "strain=Sa3CUN2",
                "accession": "GCA_014836425.1",
                "taxid": 2762243,
                "species_taxid": 2762243,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8443,
                "matched_fragments": 54,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Limosilactobacillus antri",
                "strain": "strain=DSM 16041",
                "accession": "GCA_000160835.1",
                "taxid": 227943,
                "species_taxid": 227943,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8141,
                "matched_fragments": 102,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Limosilactobacillus antri",
                "strain": "strain=DSM 16041",
                "accession": "GCA_001435475.1",
                "taxid": 227943,
                "species_taxid": 227943,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.593,
                "matched_fragments": 94,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Limosilactobacillus ingluviei",
                "strain": "strain=DSM 15946",
                "accession": "GCA_001435775.1",
                "taxid": 148604,
                "species_taxid": 148604,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.053,
                "matched_fragments": 143,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Limosilactobacillus panis",
                "strain": "strain=DSM 6035",
                "accession": "GCA_001027985.1",
                "taxid": 47493,
                "species_taxid": 47493,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.857,
                "matched_fragments": 98,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Limosilactobacillus oris",
                "strain": "strain=DSM 4864",
                "accession": "GCA_001434465.1",
                "taxid": 1632,
                "species_taxid": 1632,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.7816,
                "matched_fragments": 99,
                "total_fragments": 629,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_013394085.1",
                "gtdb_species": "s__Limosilactobacillus fermentum",
                "ani": 100.0,
                "matched_fragments": 628,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.65",
                "min_intra_species_ani": "97.32",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.60",
                "num_clustered_genomes": 102,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001293735.1",
                "gtdb_species": "s__Limosilactobacillus gorillae",
                "ani": 81.302,
                "matched_fragments": 327,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "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_000160835.1",
                "gtdb_species": "s__Limosilactobacillus antri",
                "ani": 78.8141,
                "matched_fragments": 102,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.98",
                "min_intra_species_ani": "99.98",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_001436025.1",
                "gtdb_species": "s__Limosilactobacillus mucosae",
                "ani": 78.341,
                "matched_fragments": 84,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.05",
                "min_intra_species_ani": "95.70",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.73",
                "num_clustered_genomes": 22,
                "status": "-"
            },
            {
                "accession": "GCF_002940945.1",
                "gtdb_species": "s__Limosilactobacillus pontis_A",
                "ani": 78.1715,
                "matched_fragments": 80,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "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_001435775.1",
                "gtdb_species": "s__Limosilactobacillus ingluviei",
                "ani": 78.0579,
                "matched_fragments": 143,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.51",
                "min_intra_species_ani": "97.11",
                "mean_intra_species_af": "0.84",
                "min_intra_species_af": "0.81",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_001434465.1",
                "gtdb_species": "s__Limosilactobacillus oris",
                "ani": 77.7816,
                "matched_fragments": 99,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.39",
                "min_intra_species_ani": "95.80",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.80",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
                "accession": "GCA_019117285.1",
                "gtdb_species": "s__Limosilactobacillus intestinigallinarum",
                "ani": 77.6278,
                "matched_fragments": 91,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_905214235.1",
                "gtdb_species": "s__Limosilactobacillus sp905214235",
                "ani": 77.6196,
                "matched_fragments": 100,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "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_012843675.1",
                "gtdb_species": "s__Limosilactobacillus sp012843675",
                "ani": 77.5848,
                "matched_fragments": 94,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.07",
                "min_intra_species_ani": "98.07",
                "mean_intra_species_af": "0.86",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_001435935.1",
                "gtdb_species": "s__Limosilactobacillus panis",
                "ani": 77.49,
                "matched_fragments": 97,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.95",
                "min_intra_species_ani": "99.95",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_019117185.1",
                "gtdb_species": "s__Limosilactobacillus intestinipullorum",
                "ani": 76.8789,
                "matched_fragments": 88,
                "total_fragments": 629,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Limosilactobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.21",
                "min_intra_species_ani": "99.14",
                "mean_intra_species_af": "0.84",
                "min_intra_species_af": "0.80",
                "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",
        "fermentum"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}