{ "type": "genome", "identifier": "GCF_005405085.1", "organism": "Lactiplantibacillus daowaiensis", "title": "Lactiplantibacillus daowaiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Northeast Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_005405085.1", "bioproject": "PRJNA224116", "biosample": "SAMD00164300", "wgs_master": "BJDJ00000000.1", "refseq_category": "na", "taxid": "2559918", "species_taxid": "2559918", "organism_name": "Lactiplantibacillus daowaiensis", "infraspecific_name": "strain=203-3", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/29", "asm_name": "ASM540508v1", "asm_submitter": "Northeast Agricultural University", "gbrs_paired_asm": "GCA_005405085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/005/405/085/GCF_005405085.1_ASM540508v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2851257", "genome_size_ungapped": "2851257", "gc_percent": "44.000000", "replicon_count": "0", "scaffold_count": "46", "contig_count": "46", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_005405085.1-RS_2024_06_17", "annotation_date": "2024-06-17", "total_gene_count": "2800", "protein_coding_gene_count": "2715", "non_coding_gene_count": "62", "pubmed_id": "31361212" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-29", "dateModified": "2019-03-29", "datePublished": "2019-03-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Lactiplantibacillus daowaiensis" ], "sample_taxid": [ "2559918" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "0.812 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)": "2851257", "Number of Sequences": "46", "Longest Sequences (bp)": "270164", "N50 (bp)": "111673", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "44.0", "Number of CDSs": "2754", "Average Protein Length": "300.6", "Coding Ratio (%)": "87.1", "Number of rRNAs": "3", "Number of tRNAs": "55", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lactiplantibacillus daowaiensis", "strain": "strain=203-3", "accession": "GCA_005405085.1", "taxid": 2559918, "species_taxid": 2559918, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 925, "total_fragments": 931, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactiplantibacillus mudanjiangensis", "strain": "strain=11050", "accession": "GCA_005405385.1", "taxid": 1296538, "species_taxid": 1296538, "relation_to_type": "type", "validated": true, "ani": 82.0299, "matched_fragments": 561, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus songbeiensis", "strain": "strain=398-2", "accession": "GCA_005405125.1", "taxid": 2559920, "species_taxid": 2559920, "relation_to_type": "type", "validated": true, "ani": 81.2151, "matched_fragments": 491, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus dongliensis", "strain": "strain=218-3", "accession": "GCA_005405105.1", "taxid": 2559919, "species_taxid": 2559919, "relation_to_type": "type", "validated": true, "ani": 81.0429, "matched_fragments": 486, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus fabifermentans", "strain": "strain=DSM 21115", "accession": "GCA_000498955.2", "taxid": 483011, "species_taxid": 483011, "relation_to_type": "type", "validated": true, "ani": 80.6851, "matched_fragments": 407, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus nangangensis", "strain": "strain=381-7", "accession": "GCA_005405065.1", "taxid": 2559917, "species_taxid": 2559917, "relation_to_type": "type", "validated": true, "ani": 80.5904, "matched_fragments": 385, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus daoliensis", "strain": "strain=116-1A", "accession": "GCA_005405005.1", "taxid": 2559916, "species_taxid": 2559916, "relation_to_type": "type", "validated": true, "ani": 80.4568, "matched_fragments": 362, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus pentosus", "strain": "strain=DSM 20314", "accession": "GCA_003641185.1", "taxid": 1589, "species_taxid": 1589, "relation_to_type": "type", "validated": true, "ani": 80.2583, "matched_fragments": 313, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus xiangfangensis", "strain": "strain=LMG 26013", "accession": "GCA_001438845.1", "taxid": 942150, "species_taxid": 942150, "relation_to_type": "type", "validated": true, "ani": 80.2094, "matched_fragments": 319, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus pentosus", "strain": "strain=DSM 20314", "accession": "GCA_001433755.1", "taxid": 1589, "species_taxid": 1589, "relation_to_type": "type", "validated": true, "ani": 80.1859, "matched_fragments": 315, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactiplantibacillus modestisalitolerans", "strain": "strain=NBRC 107235", "accession": "GCA_005405425.1", "taxid": 1457219, "species_taxid": 1457219, "relation_to_type": "type", "validated": true, "ani": 79.692, "matched_fragments": 257, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Secundilactobacillus odoratitofui", "strain": "strain=JCM 15043", "accession": "GCA_001313185.1", "taxid": 480930, "species_taxid": 480930, "relation_to_type": "type", "validated": true, "ani": 78.1711, "matched_fragments": 68, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Secundilactobacillus mixtipabuli", "strain": "strain=IWT30", "accession": "GCA_002217925.1", "taxid": 1435342, "species_taxid": 1435342, "relation_to_type": "type", "validated": true, "ani": 78.0374, "matched_fragments": 61, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_005405085.1", "gtdb_species": "s__Lactiplantibacillus daowaiensis", "ani": 100.0, "matched_fragments": 925, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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": "GCF_005405385.1", "gtdb_species": "s__Lactiplantibacillus mudanjiangensis", "ani": 82.0169, "matched_fragments": 562, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.38", "min_intra_species_ani": "99.14", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_005405125.1", "gtdb_species": "s__Lactiplantibacillus songbeiensis", "ani": 81.2017, "matched_fragments": 492, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_005405105.1", "gtdb_species": "s__Lactiplantibacillus dongliensis", "ani": 81.0429, "matched_fragments": 486, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_000498955.2", "gtdb_species": "s__Lactiplantibacillus fabifermentans", "ani": 80.7158, "matched_fragments": 405, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.67", "min_intra_species_ani": "99.67", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005405065.1", "gtdb_species": "s__Lactiplantibacillus nangangensis", "ani": 80.5589, "matched_fragments": 387, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_005405005.1", "gtdb_species": "s__Lactiplantibacillus daoliensis", "ani": 80.4563, "matched_fragments": 362, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_001438845.1", "gtdb_species": "s__Lactiplantibacillus xiangfangensis", "ani": 80.2268, "matched_fragments": 318, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_002970935.1", "gtdb_species": "s__Lactiplantibacillus sp002970935", "ani": 80.2142, "matched_fragments": 359, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_002970915.1", "gtdb_species": "s__Lactiplantibacillus sp002970915", "ani": 80.2129, "matched_fragments": 341, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_000463075.2", "gtdb_species": "s__Lactiplantibacillus plantarum_A", "ani": 80.0643, "matched_fragments": 320, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.70", "min_intra_species_ani": "97.70", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005405425.1", "gtdb_species": "s__Lactiplantibacillus modestisalitolerans", "ani": 79.692, "matched_fragments": 257, "total_fragments": 931, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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": 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": [ "Lactiplantibacillus", "daowaiensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }