{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Wei Hong"],"instrument_platform":["Illumina NovaSeq X"],"study_type":["RNA-seq of coding RNA"],"organism":["Clostridium difficile 630"],"species":["Clostridium difficile 630"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15780"],"description":["To reveal the effects of deleting the ΔsigV and Δanti-sigV on clindamycin tolerance in Clostridioides difficile, we first constructed knockout mutants of the sigV and anti-sigV genes and then examined the resulting phenotypic changes, with a particular focus on alterations in clindamycin tolerance. To further elucidate the mechanism underlying the observed changes in clindamycin tolerance, we performed transcriptomic data analysis to identify how sigV and anti-sigV regulate clindamycin-related pathways."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic Acid Extraction - Total RNA was extracted from WT, ΔsigV, and Δanti-sigV using a bacterial total RNA extraction kit (DP430, TIANGEN, Beijing).","Library Construction - Once the samples were deemed satisfactory, the following steps were conducted for sequencing: (1) Removal of ribosomal RNA; (2) Enrichment and purification of mRNA; (3) Fragmentation of mRNA; (4) Construction of the sequencing library and quality assessment of the library.","Sequencing - The sequencing library was then sequenced on the lllumina NovaSeqXPlus platform.","Sample Collection - The WT, ΔsigV, and Δanti-sigV strains were inoculated into BHIS medium and cultured until an OD600 of 0.6 was reached. The cultures were then centrifuged at 13,500 × g for 10 min, the supernatant was discarded, and the bacterial pellets of each strain were collected. The samples were transported with sufficient dry ice in a foam box to Shanghai Majorbio Bio-Pharm Technology Co., Ltd. for transcriptome sequencing."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Wei Hong"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq of  Clostridioides difficile  ΔsigV、Δanti-sigV against wild-type strain control","description":"To reveal the effects of deleting the ΔsigV and Δanti-sigV on clindamycin tolerance in Clostridioides difficile, we first constructed knockout mutants of the sigV and anti-sigV genes and then examined the resulting phenotypic changes, with a particular focus on alterations in clindamycin tolerance. To further elucidate the mechanism underlying the observed changes in clindamycin tolerance, we performed transcriptomic data analysis to identify how sigV and anti-sigV regulate clindamycin-related pathways.","dates":{"release":"2025-12-31T00:00:00Z","modification":"2025-12-31T02:02:53.847Z","creation":"2025-10-20T10:44:56.601Z"},"accession":"E-MTAB-15780","cross_references":{"ENA":["ERP182492"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003738","EFO_0004184"]}}