The RNA degradation pathway regulates the function of GAS5 a non-coding RNA in mammalian cells

PLoS One. 2013;8(1):e55684. doi: 10.1371/journal.pone.0055684. Epub 2013 Jan 30.

Abstract

Studies of various mRNAs have revealed that changes in the abundance of transcripts, through mRNA degradation, act as a critical step in the control of various biological pathways. Similarly, the regulation of non-coding RNA (ncRNA) levels is also considered to be important for their biological functions; however, far less is known about the mechanisms and biological importance of ncRNA turnover for the regulation of ncRNA functions. The growth arrest-specific 5 (GAS5) ncRNA accumulates during growth arrest induced by serum starvation and its transcript is degraded by the well characterized nonsense-mediated RNA decay (NMD) pathway. Historically, NMD was discovered as a RNA quality control system to eliminate aberrant transcripts; however, accumulating evidence shows that NMD also regulates the abundance of physiological transcripts. Interestingly, the GAS5 transcript has the ability to bind the glucocorticoid receptor (GR), resulting in the inhibition of its ligand-dependent association with DNA. The GR binds the promoters of various glucocorticoid-responsive genes, including apoptosis-related genes. In this study, we examined whether the RNA degradation pathway can regulate this function of GAS5. We measured the steady-state abundance and the decay rate of GAS5 in UPF1-depleted human cells using the 5'-bromo-uridine immunoprecipitation chase (BRIC) method, an inhibitor-free method for directly measuring RNA stability. We found that levels of the GAS5 transcript were elevated owing to prolonged decay rates in response to UPF1 depletion, and consequently the apoptosis-related genes, cIAP2 and SGK1, were down-regulated. In addition, serum starvation also increased the transcript levels of GAS5 because of prolonged decay rates, and conversely decreased levels of cIAP2 and SGK1 mRNA. Taken together, we found that the RNA degradation pathway can regulate the function of the GAS5 ncRNA in mammalian cells.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Apoptosis / genetics
  • Cell Line
  • Gene Expression Regulation*
  • Humans
  • Mammals
  • Nonsense Mediated mRNA Decay
  • RNA Interference
  • RNA Stability*
  • RNA, Messenger / genetics
  • RNA, Messenger / metabolism
  • RNA, Small Nucleolar / genetics*
  • RNA, Small Nucleolar / metabolism*
  • RNA, Untranslated / genetics*
  • RNA, Untranslated / metabolism*
  • Receptors, Glucocorticoid / metabolism
  • Transcription, Genetic

Substances

  • RNA, Messenger
  • RNA, Small Nucleolar
  • RNA, Untranslated
  • Receptors, Glucocorticoid
  • growth arrest specific transcript 5

Grants and funding

This work was financially supported by the Takeda Science Foundation, the Naito Foundation, Grants-in-Aid for Scientific Research, Research Fellowship of the Japan Society for the Promotion of Science, the Funding Program for World-Leading Innovative R&D on Science and Technology of the Japan Society for the Promotion of Science, and Grant-in-Aid for Scientific Research on Innovative Areas ‘Functional machinery for non-coding RNAs’ from the Ministry of Education, Culture, Sports, Science and Technology of Japan. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.