{ "type": "genome", "identifier": "GCF_005405525.1", "organism": "Weissella cibaria", "title": "Weissella cibaria", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Northeast Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_005405525.1", "bioproject": "PRJNA224116", "biosample": "SAMD00164450", "wgs_master": "BJEF00000000.1", "refseq_category": "na", "taxid": "137591", "species_taxid": "137591", "organism_name": "Weissella cibaria", "infraspecific_name": "strain=JCM 12495", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/29", "asm_name": "ASM540552v1", "asm_submitter": "Northeast Agricultural University", "gbrs_paired_asm": "GCA_005405525.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/005/405/525/GCF_005405525.1_ASM540552v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2323953", "genome_size_ungapped": "2323953", "gc_percent": "45.000000", "replicon_count": "0", "scaffold_count": "25", "contig_count": "25", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_005405525.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "2210", "protein_coding_gene_count": "2105", "non_coding_gene_count": "91", "pubmed_id": "32100692" }, "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": [ "Weissella cibaria" ], "sample_taxid": [ "137591" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Malaysia" ], "sample_host_location_id": [], "data_size": "0.659 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)": "2323953", "Number of Sequences": "25", "Longest Sequences (bp)": "406515", "N50 (bp)": "243943", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "45.1", "Number of CDSs": "2128", "Average Protein Length": "318.1", "Coding Ratio (%)": "87.4", "Number of rRNAs": "3", "Number of tRNAs": "76", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Weissella cibaria", "strain": "strain=JCM 12495", "accession": "GCA_005405525.1", "taxid": 137591, "species_taxid": 137591, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 759, "total_fragments": 760, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Weissella cibaria", "strain": "strain=KACC 11862", "accession": "GCA_000193635.2", "taxid": 137591, "species_taxid": 137591, "relation_to_type": "type", "validated": true, "ani": 99.9602, "matched_fragments": 738, "total_fragments": 760, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Weissella hellenica", "strain": "strain=NBRC 15553", "accession": "GCA_005405545.1", "taxid": 46256, "species_taxid": 46256, "relation_to_type": "suspected-type", "validated": true, "ani": 79.0971, "matched_fragments": 121, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella paramesenteroides", "strain": "strain=ATCC 33313", "accession": "GCA_000160575.1", "taxid": 1249, "species_taxid": 1249, "relation_to_type": "type", "validated": true, "ani": 79.0024, "matched_fragments": 120, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella viridescens", "strain": "strain=DSM 20410", "accession": "GCA_001437355.1", "taxid": 1629, "species_taxid": 1629, "relation_to_type": "type", "validated": true, "ani": 78.8983, "matched_fragments": 93, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella jogaejeotgali", "strain": "strain=FOL01", "accession": "GCA_001932615.1", "taxid": 1631871, "species_taxid": 1631871, "relation_to_type": "type", "validated": true, "ani": 78.8881, "matched_fragments": 127, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella viridescens", "strain": "strain=NCDO 1655", "accession": "GCA_001460875.1", "taxid": 1629, "species_taxid": 1629, "relation_to_type": "type", "validated": true, "ani": 78.858, "matched_fragments": 88, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella hellenica", "strain": "strain=NBRC 15553", "accession": "GCA_006540065.1", "taxid": 46256, "species_taxid": 46256, "relation_to_type": "suspected-type", "validated": true, "ani": 78.8557, "matched_fragments": 116, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella viridescens", "strain": "strain=NCTC13645", "accession": "GCA_900460455.1", "taxid": 1629, "species_taxid": 1629, "relation_to_type": "type", "validated": true, "ani": 78.8443, "matched_fragments": 102, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella ceti", "strain": "strain=CECT 7719", "accession": "GCA_018394055.1", "taxid": 759620, "species_taxid": 759620, "relation_to_type": "suspected-type", "validated": true, "ani": 78.8361, "matched_fragments": 120, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Weissella thailandensis", "strain": "strain=KCTC 3751", "accession": "GCA_003363255.1", "taxid": 89061, "species_taxid": 89061, "relation_to_type": 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"min_intra_species_af": "0.88", "num_clustered_genomes": 80, "status": "-" }, { "accession": "GCF_004771295.1", "gtdb_species": "s__Weissella confusa_B", "ani": 82.5766, "matched_fragments": 401, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Weissella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.67", "min_intra_species_ani": "96.65", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.87", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.097, "cell_length": 0.176, "doubling_h": null, "growth_tmp": 31.0, "optimum_tmp": 36.125, "optimum_ph": 6.18, "genome_size": 2433940.167, "gc_content": 42.314, "coding_genes": 2154.333, "rRNA16S_genes": 9.0, "tRNA_genes": 88.375, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 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