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Deregulation of growth-phase-dependent expression of SdsR causes cell death in Escherichia coli

ABSTRACT: RNA-seq analysis of cells with pulsed overexpression of SdsR Most small noncoding RNAs (sRNAs) are known to base pair with target mRNAs and regulate their stability or translation with the help of Hfq to trigger various changes in cell metabolism. SdsR (also known as RyeB), which is a member of the RpoS regulon, was reported as an abundant sRNA that represses tolC and mutS in E. coli. It is known to be specific to the stationary phase and is not expressed during the exponential phase, but no previous study had examined the importance of this growth phase-dependent regulation for cell growth and survival. In this study, we examined how forced expression of SdsR during the exponential phase alters cell growth and survival. We found that ectopic expression of SdsR during the exponential phase triggered a significant and Hfq-dependent cell death. This SdsR-driven cell death was alleviated by overexpression of RyeA, an sRNA transcribed on the opposite DNA strand, suggesting that SdsR/RyeA may represent a novel type of toxin/antitoxin (T/A) system in which both the toxin and the antitoxin are sRNAs. To identify target genes involved in the observed SdsR-driven cell death, we first performed RNA-seq analysis and used the RNA-seq data to predict which SdsR-targeted mRNAs could contribute to SdsR-driven cell death. We then examined whether repression of translation of each predicted target mRNA could cause the observed SdsR-driven growth defects, and found that the SdsR-driven cell death seen in our system was mainly caused by the SdsR-mediated repression of yhcB, which encodes an inner membrane protein.

ORGANISM(S): Escherichia coli str. K-12 substr. MG1655

PROVIDER: GSE116435 | GEO | 2018/12/26

REPOSITORIES: GEO

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