Two tandem RNase III cleavage sites determine betT mRNA stability in response to osmotic stress in Escherichia coli

PLoS One. 2014 Jun 23;9(6):e100520. doi: 10.1371/journal.pone.0100520. eCollection 2014.

Abstract

While identifying genes regulated by ribonuclease III (RNase III) in Escherichia coli, we observed that steady-state levels of betT mRNA, which encodes a transporter mediating the influx of choline, are dependent on cellular concentrations of RNase III. In the present study, we also observed that steady-state levels of betT mRNA are dependent on RNase III activity upon exposure to osmotic stress, indicating the presence of cis-acting elements controlled by RNase III in betT mRNA. Primer extension analyses of betT mRNA revealed two tandem RNase III cleavage sites in its stem-loop region, which were biochemically confirmed via in vitro cleavage assays. Analyses of cleavage sites suggested the stochastic selection of cleavage sites by RNase III, and mutational analyses indicated that RNase III cleavage at either site individually is insufficient for efficient betT mRNA degradation. In addition, both the half-life and abundance of betT mRNA were significantly increased in association with decreased RNase III activity under hyper-osmotic stress conditions. Our findings demonstrate that betT mRNA stability is controlled by RNase III at the post-transcriptional level under conditions of osmotic stress.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Blotting, Northern
  • Cells, Cultured
  • Choline / metabolism*
  • Escherichia coli / genetics
  • Escherichia coli / growth & development
  • Escherichia coli / metabolism*
  • Escherichia coli Proteins / genetics
  • Escherichia coli Proteins / metabolism*
  • Half-Life
  • Membrane Transport Proteins / genetics*
  • Membrane Transport Proteins / metabolism
  • Osmotic Pressure*
  • RNA Stability / genetics*
  • RNA, Messenger / genetics
  • Real-Time Polymerase Chain Reaction
  • Reverse Transcriptase Polymerase Chain Reaction
  • Ribonuclease III / metabolism*

Substances

  • Escherichia coli Proteins
  • Membrane Transport Proteins
  • RNA, Messenger
  • choline transporter
  • Ribonuclease III
  • Choline

Grants and funding

This work was supported by the National Research Foundation of Korea (2010-0029167 to Y Lee and 2011-0028553 to K Lee) and the Next-Generation BioGreen 21 Program, Rural Development Administration, Republic of Korea (SSAC, PJ009025 to K Lee). The funders had no role in the study design, data collection and analysis, decision to publish, or preparation of the manuscript.