{ "type": "genome", "identifier": "GCF_001311485.1", "organism": "Apilactobacillus ozensis DSM 23829 = JCM 17196", "title": "Apilactobacillus ozensis DSM 23829 = JCM 17196", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The University of Tokyo", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001311485.1", "bioproject": "PRJNA224116", "biosample": "SAMD00000456", "wgs_master": "BBAX00000000.1", "refseq_category": "na", "taxid": "1423781", "species_taxid": "866801", "organism_name": "Apilactobacillus ozensis DSM 23829 = JCM 17196", "infraspecific_name": "strain=JCM 17196", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/10/01", "asm_name": "ASM131148v1", "asm_submitter": "The University of Tokyo", "gbrs_paired_asm": "GCA_001311485.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/311/485/GCF_001311485.1_ASM131148v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1470202", "genome_size_ungapped": "1470202", "gc_percent": "32.000000", "replicon_count": "0", "scaffold_count": "43", "contig_count": "43", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001311485.1-RS_2024_08_08", "annotation_date": "2024-08-08", "total_gene_count": "1929", "protein_coding_gene_count": "1363", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-10-01", "dateModified": "2015-10-01", "datePublished": "2015-10-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Apilactobacillus ozensis DSM 23829 = JCM 17196" ], "sample_taxid": [ "1423781" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.411 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)": "1470202", "Number of Sequences": "43", "Longest Sequences (bp)": "176636", "N50 (bp)": "62868", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "31.9", "Number of CDSs": "2313", "Average Protein Length": "174.7", "Coding Ratio (%)": "82.5", "Number of rRNAs": "2", "Number of tRNAs": "54", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Apilactobacillus ozensis", "strain": "strain=JCM 17196", "accession": "GCA_001311485.1", "taxid": 866801, "species_taxid": 866801, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 464, "total_fragments": 466, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Apilactobacillus ozensis", "strain": "strain=DSM 23829", "accession": "GCA_001435995.1", "taxid": 866801, "species_taxid": 866801, "relation_to_type": "type", "validated": true, "ani": 99.8303, "matched_fragments": 464, "total_fragments": 466, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Apilactobacillus xinyiensis", "strain": "strain=F575-4", "accession": "GCA_019656235.1", "taxid": 2841032, "species_taxid": 2841032, "relation_to_type": "type", "validated": true, "ani": 84.5663, "matched_fragments": 340, "total_fragments": 466, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Apilactobacillus apisilvae", "strain": "strain=SG5_A10", "accession": "GCA_023380225.1", "taxid": 2923364, "species_taxid": 2923364, "relation_to_type": "type", "validated": true, "ani": 79.2366, "matched_fragments": 158, "total_fragments": 466, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Apilactobacillus timberlakei", "strain": "strain=HV_12", "accession": "GCA_002993965.1", "taxid": 2008380, "species_taxid": 2008380, "relation_to_type": "type", "validated": true, "ani": 79.0473, "matched_fragments": 159, "total_fragments": 466, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Apilactobacillus micheneri", "strain": "strain=Hlig3", "accession": "GCA_002993975.1", "taxid": 1899430, "species_taxid": 1899430, "relation_to_type": "type", "validated": true, "ani": 78.9386, "matched_fragments": 163, "total_fragments": 466, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Apilactobacillus quenuiae", "strain": "strain=HV_6", "accession": "GCA_002994005.1", "taxid": 2008377, "species_taxid": 2008377, "relation_to_type": "type", "validated": true, "ani": 78.8992, "matched_fragments": 156, "total_fragments": 466, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001435995.1", "gtdb_species": "s__Apilactobacillus ozensis", "ani": 99.8303, "matched_fragments": 464, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.83", "min_intra_species_ani": "99.83", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_001308205.1", "gtdb_species": "s__Apilactobacillus kunkeei_B", "ani": 79.2167, "matched_fragments": 94, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "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_005930975.1", "gtdb_species": "s__Apilactobacillus kunkeei_E", "ani": 79.1798, "matched_fragments": 97, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "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_002993965.1", "gtdb_species": "s__Apilactobacillus timberlakei", "ani": 79.0473, "matched_fragments": 159, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.96", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_001949975.2", "gtdb_species": "s__Apilactobacillus kunkeei_A", "ani": 79.036, "matched_fragments": 104, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.15", "min_intra_species_ani": "95.05", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_003627035.1", "gtdb_species": "s__Apilactobacillus bombintestini", "ani": 79.0183, "matched_fragments": 130, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "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_002993975.1", "gtdb_species": "s__Apilactobacillus micheneri", "ani": 78.9667, "matched_fragments": 162, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "96.49", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 21, "status": "-" }, { "accession": "GCF_002994005.1", "gtdb_species": "s__Apilactobacillus quenuiae", "ani": 78.8992, "matched_fragments": 156, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "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_001281175.1", "gtdb_species": "s__Apilactobacillus apinorum", "ani": 78.681, "matched_fragments": 118, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Apilactobacillus", "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_001436555.1", "gtdb_species": "s__Lentilactobacillus senioris", "ani": 77.555, "matched_fragments": 53, "total_fragments": 466, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.77", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "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": [ "Apilactobacillus", "ozensis", "DSM", "23829", "=", "JCM", "17196" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }