{ "type": "genome", "identifier": "GCF_009495475.1", "organism": "Lentilactobacillus buchneri", "title": "Lentilactobacillus buchneri", "description": "na", "data type": "Genome sequencing and assembly", "organization": "North Carolina State University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009495475.1", "bioproject": "PRJNA224116", "biosample": "SAMN12018362", "wgs_master": "VFBO00000000.1", "refseq_category": "na", "taxid": "1581", "species_taxid": "1581", "organism_name": "Lentilactobacillus buchneri", "infraspecific_name": "strain=ATCC 4005", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/11/01", "asm_name": "ASM949547v1", "asm_submitter": "North Carolina State University", "gbrs_paired_asm": "GCA_009495475.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/495/475/GCF_009495475.1_ASM949547v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2498872", "genome_size_ungapped": "2492995", "gc_percent": "44.500000", "replicon_count": "0", "scaffold_count": "8", "contig_count": "8", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009495475.1-RS_2024_11_18", "annotation_date": "2024-11-18", "total_gene_count": "2479", "protein_coding_gene_count": "2350", "non_coding_gene_count": "70", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-11-01", "dateModified": "2019-11-01", "datePublished": "2019-11-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Lentilactobacillus buchneri" ], "sample_taxid": [ "1581" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "0.708 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)": "2498872", "Number of Sequences": "8", "Longest Sequences (bp)": "2429733", "N50 (bp)": "2429733", "Gap Ratio (%)": "0.235186", "GCcontent (%)": "44.3", "Number of CDSs": "2403", "Average Protein Length": "298.5", "Coding Ratio (%)": "86.1", "Number of rRNAs": "9", "Number of tRNAs": "61", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lentilactobacillus buchneri", "strain": "strain=ATCC 4005", "accession": "GCA_009495475.1", "taxid": 1581, "species_taxid": 1581, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 828, "total_fragments": 828, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lentilactobacillus buchneri", "strain": "strain=DSM 20057", "accession": "GCA_001434735.1", "taxid": 1581, "species_taxid": 1581, "relation_to_type": "type", "validated": true, "ani": 99.9396, "matched_fragments": 768, "total_fragments": 828, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lentilactobacillus buchneri", "strain": "strain=ATCC 4005", "accession": "GCA_018314255.1", "taxid": 1581, "species_taxid": 1581, "relation_to_type": "type", "validated": true, "ani": 99.9045, "matched_fragments": 814, "total_fragments": 828, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lentilactobacillus buchneri", "strain": "strain=ATCC 4005", "accession": "GCA_004354745.1", "taxid": 1581, "species_taxid": 1581, "relation_to_type": "type", "validated": true, "ani": 99.8997, "matched_fragments": 792, "total_fragments": 828, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lentilactobacillus buchneri subsp. silagei", "strain": "strain=SG162", "accession": "GCA_013167835.1", "taxid": 2737512, "species_taxid": 1581, "relation_to_type": "type", "validated": true, "ani": 97.1606, "matched_fragments": 760, "total_fragments": 828, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lentilactobacillus otakiensis", "strain": "strain=JCM 15040", "accession": "GCA_001311395.1", "taxid": 481720, "species_taxid": 481720, "relation_to_type": "type", "validated": true, "ani": 83.3079, "matched_fragments": 560, "total_fragments": 828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentilactobacillus rapi subsp. rapi", "strain": "strain=JCM 15042", "accession": "GCA_001311445.1", "taxid": 2944812, "species_taxid": 481723, "relation_to_type": "type", "validated": true, "ani": 79.132, "matched_fragments": 255, "total_fragments": 828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Secundilactobacillus silagei", "strain": "strain=DSM 27022", "accession": "GCA_004354595.1", "taxid": 1293415, "species_taxid": 1293415, "relation_to_type": "type", "validated": true, "ani": 78.5131, "matched_fragments": 76, "total_fragments": 828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Secundilactobacillus silagei", "strain": "strain=JCM 19001", "accession": "GCA_001313225.1", "taxid": 1293415, "species_taxid": 1293415, "relation_to_type": "type", "validated": true, "ani": 77.9605, "matched_fragments": 71, "total_fragments": 828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Secundilactobacillus silagei", "strain": "strain=IWT126", "accession": "GCA_002217945.1", "taxid": 1293415, "species_taxid": 1293415, "relation_to_type": "type", "validated": true, "ani": 77.6766, "matched_fragments": 72, "total_fragments": 828, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018314255.1", "gtdb_species": "s__Lentilactobacillus buchneri", "ani": 99.9045, "matched_fragments": 814, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.61", "min_intra_species_ani": "97.12", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 27, "status": "conclusive" }, { "accession": "GCF_002157585.1", "gtdb_species": "s__Lentilactobacillus parakefiri", "ani": 85.7729, "matched_fragments": 624, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.70", "min_intra_species_ani": "99.39", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001434145.1", "gtdb_species": "s__Lentilactobacillus otakiensis", "ani": 83.3383, "matched_fragments": 564, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.91", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001435575.1", "gtdb_species": "s__Lentilactobacillus sunkii", "ani": 82.3851, "matched_fragments": 534, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.44", "min_intra_species_ani": "96.44", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007989105.1", "gtdb_species": "s__Lentilactobacillus kefiri", "ani": 82.1322, "matched_fragments": 502, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.76", "min_intra_species_ani": "99.64", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_001435315.1", "gtdb_species": "s__Lentilactobacillus parabuchneri", "ani": 81.6632, "matched_fragments": 502, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.90", "min_intra_species_ani": "97.37", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.87", "num_clustered_genomes": 27, "status": "-" }, { "accession": "GCF_001436255.1", "gtdb_species": "s__Lentilactobacillus rapi", "ani": 79.1671, "matched_fragments": 259, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lentilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.89", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002217925.1", "gtdb_species": "s__Secundilactobacillus mixtipabuli", "ani": 78.1451, "matched_fragments": 63, "total_fragments": 828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Secundilactobacillus", "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": [ "Lentilactobacillus", "buchneri" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }