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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcriptomic profile of a Clostridioides difficile rsbW deletion mutant compared to parental R20291 strain

ABSTRACT: RNA-seq was conducted to uncover the regulatory roles of RsbW in the lifestyle of Clostridioides difficile strain R20291. RNA were extracted from planktonic cultures, which were grown in BHI-S (Sigma-Aldrich, USA) to early stationary phase (10h). The cells were re-suspended in LETS buffer and lysed using Fast-prep 24 instrument (MP Bioscience) and RNA was extracted using 1 ml Trizol (Ambion, USA). Samples were cleaned and sequenced by Novogene Company Limited, PE150 with approximately 10 million reads per sample. After QC, reads were aligned to R20291 (NC_013316.1) with Bowtie2 and readcounts were generated with Samtools and Bedtools. Differential gene expression analysis was conducted with DESeq2 with a p-value of 0.05, differential gene expression was determined with ± -2 logFC.

INSTRUMENT(S): Illumina NovaSeq 6000

ORGANISM(S): Clostridioides difficile

SUBMITTER: Jeffrey Cheng

PROVIDER: E-MTAB-12114 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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