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Clostridioides difficile R20291

ABSTRACT: Clostridioides difficile CRISPR-cas9 system

PROVIDER: PRJNA398796 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5945685_1.fastq.gz	Fastqsanger.gz
	SRR5945685_2.fastq.gz	Fastqsanger.gz
	SRR5945686_1.fastq.gz	Fastqsanger.gz
	SRR5945686_2.fastq.gz	Fastqsanger.gz
	SRR5945687_1.fastq.gz	Fastqsanger.gz

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Transcriptomic RNA-sequencing analysis of the hypervirulent Clostridioides difficile R20291 strain in response to trehalose

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Project description: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.

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