{ "type": "genome", "identifier": "GCF_009724685.1", "organism": "Lysinibacillus cavernae", "title": "Lysinibacillus cavernae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Guizhou Medical University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009724685.1", "bioproject": "PRJNA224116", "biosample": "SAMN13245916", "wgs_master": "WMEF00000000.1", "refseq_category": "reference genome", "taxid": "2666135", "species_taxid": "2666135", "organism_name": "Lysinibacillus cavernae", "infraspecific_name": "strain=SYSU K30005", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/12/02", "asm_name": "ASM972468v1", "asm_submitter": "Guizhou Medical University", "gbrs_paired_asm": "GCA_009724685.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/724/685/GCF_009724685.1_ASM972468v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4690315", "genome_size_ungapped": "4690315", "gc_percent": "37.000000", "replicon_count": "0", "scaffold_count": "38", "contig_count": "38", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009724685.1-RS_2024_03_27", "annotation_date": "2024-03-27", "total_gene_count": "4680", "protein_coding_gene_count": "4541", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-12-02", "dateModified": "2019-12-02", "datePublished": "2019-12-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Lysinibacillus cavernae" ], "sample_taxid": [ "2666135" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Gui Zhou" ], "sample_host_location_id": [], "data_size": "1.328 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4690315", "Number of Sequences": "38", "Longest Sequences (bp)": "893745", "N50 (bp)": "290528", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.2", "Number of CDSs": "4598", "Average Protein Length": "289.0", "Coding Ratio (%)": "85.0", "Number of rRNAs": "3", "Number of tRNAs": "80", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lysinibacillus cavernae", "strain": "strain=SYSU K30005", "accession": "GCA_009724685.1", "taxid": 2666135, "species_taxid": 2666135, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus fusiformis", "strain": "strain=NBRC 15717", "accession": "GCA_006540205.1", "taxid": 28031, "species_taxid": 28031, "relation_to_type": "type", "validated": true, "ani": 85.6192, "matched_fragments": 1209, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus fusiformis", "strain": "strain=ATCC 7055", "accession": "GCA_003049525.1", "taxid": 28031, "species_taxid": 28031, "relation_to_type": "type", "validated": true, "ani": 85.5453, "matched_fragments": 1211, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus contaminans", "strain": "strain=DSM 25560", "accession": "GCA_001278945.1", "taxid": 1293441, "species_taxid": 1293441, "relation_to_type": "type", "validated": true, "ani": 79.8513, "matched_fragments": 510, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solibacillus merdavium", "strain": "strain=Sa1YVA6", "accession": "GCA_014836935.1", "taxid": 2762218, "species_taxid": 2762218, "relation_to_type": "type", "validated": true, "ani": 78.3341, "matched_fragments": 204, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus composti", "strain": "strain=DSM 24785", "accession": "GCA_016908465.1", "taxid": 720633, "species_taxid": 720633, "relation_to_type": "type", "validated": true, "ani": 78.1611, "matched_fragments": 212, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Viridibacillus soli", "strain": "strain=YIM B01967", "accession": "GCA_016612995.1", "taxid": 2798301, "species_taxid": 2798301, "relation_to_type": "type", "validated": true, "ani": 78.1364, "matched_fragments": 221, "total_fragments": 1542, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solibacillus 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Lysinibacillus", "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": -0.083, "cell_length": 0.466, "doubling_h": null, "growth_tmp": 30.812, "optimum_tmp": 31.818, "optimum_ph": 7.361, "genome_size": 4462064.672, "gc_content": 38.136, "coding_genes": 4438.19, "rRNA16S_genes": 11.166, "tRNA_genes": 100.944, "gram_stain": 0.875, "sporulation": 1.0, "motility": 0.916, "range_salinity": 0.5, "facultative_respiration": 0.083, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.916, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Lysinibacillus", "cavernae" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }