Synthetic tolerance: three noncoding small RNAs, DsrA, ArcZ and RprA, acting supra-additively against acid stress

Nucleic Acids Res. 2013 Oct;41(18):8726-37. doi: 10.1093/nar/gkt651. Epub 2013 Jul 27.

Abstract

Synthetic acid tolerance, especially during active cell growth, is a desirable phenotype for many biotechnological applications. Natively, acid resistance in Escherichia coli is largely a stationary-phase phenotype attributable to mechanisms mostly under the control of the stationary-phase sigma factor RpoS. We show that simultaneous overexpression of noncoding small RNAs (sRNAs), DsrA, RprA and ArcZ, which are translational RpoS activators, increased acid tolerance (based on a low-pH survival assay) supra-additively up to 8500-fold during active cell growth, and provided protection against carboxylic acid and oxidative stress. Overexpression of rpoS without its regulatory 5'-UTR resulted in inferior acid tolerance. The supra-additive effect of overexpressing the three sRNAs results from the impact their expression has on RpoS-protein levels, and the beneficial perturbation of the interconnected RpoS and H-NS networks, thus leading to superior tolerance during active growth. Unlike the overexpression of proteins, overexpression of sRNAs imposes hardly any metabolic burden on cells, and constitutes a more effective strain engineering strategy.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Bacterial Proteins / metabolism
  • Carboxylic Acids / toxicity
  • Escherichia coli / genetics*
  • Escherichia coli / growth & development
  • Escherichia coli / metabolism
  • Hydrogen-Ion Concentration
  • Microbial Viability
  • Oxidative Stress
  • RNA, Messenger / metabolism
  • RNA, Small Untranslated / metabolism*
  • Regulon
  • Sigma Factor / metabolism

Substances

  • Bacterial Proteins
  • Carboxylic Acids
  • DsrA RNA, E coli
  • RNA, Messenger
  • RNA, Small Untranslated
  • Sigma Factor
  • sigma factor KatF protein, Bacteria