Genome-wide effects on Escherichia coli transcription from ppGpp binding to its two sites on RNA polymerase.

ABSTRACT: The second messenger nucleotide ppGpp dramatically alters gene expression in bacteria to adjust cellular metabolism to nutrient availability. ppGpp binds to two sites on RNA polymerase (RNAP) in Escherichia coli, but it has also been reported to bind to many other proteins. To determine the role of the RNAP binding sites in the genome-wide effects of ppGpp on transcription, we used RNA-seq to analyze transcripts produced in response to elevated ppGpp levels in strains with/without the ppGpp binding sites on RNAP. We examined RNAs rapidly after ppGpp production without an accompanying nutrient starvation. This procedure enriched for direct effects of ppGpp on RNAP rather than for indirect effects on transcription resulting from starvation-induced changes in metabolism or on secondary

SUBMITTER: Sanchez-Vazquez P 

PROVIDER: S-EPMC6486775 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature