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Polysome Fractionation and Analysis of Mammalian Translatomes on a Genome-wide Scale
Published on: May 17, 2014
Staufen1 regulates diverse classes of mammalian transcripts
Yoon Ki Kim1, Luc Furic, Marc Parisien
1Department of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, Rochester, NY 14642, USA.
The EMBO Journal
|May 19, 2007
Summary
The double-stranded RNA-binding protein Staufen (Stau)1 regulates gene expression in mammalian cells. Stau1 depletion impacts thousands of transcripts, suggesting a broad role in cellular physiology.
Area of Science:
- Molecular Biology
- Gene Regulation
- RNA Metabolism
Background:
- The role of double-stranded RNA-binding protein Staufen (Stau)1 in mammalian gene regulation is not fully understood.
- Stau1 binding to the 3'-untranslated region (3'-UTR) of ADP ribosylation factor (ARF)1 mRNA mediates mRNA decay (SMD).
- ARF1 SMD involves translation and recruitment of the nonsense-mediated mRNA decay factor Upf1.
Purpose of the Study:
- To investigate the extent of Staufen (Stau)1 utilization in mammalian gene expression regulation.
- To identify natural Stau1-mediated mRNA decay (SMD) targets.
- To explore the role of Stau1 in cellular differentiation.
Main Methods:
- Microarray analysis to assess transcriptomic changes upon Stau1 depletion in HeLa cells.
- Localization of Stau1 binding sites within the 3'-UTR of target mRNAs.
- Studying Stau1-mediated mRNA decay (SMD) during C2C12 myoblast differentiation.
Main Results:
- Staufen (Stau)1 binds to a complex structure in the ARF1 3'-UTR.
- Depletion of Stau1 led to significant upregulation (1.1%) and downregulation (1.0%) of transcripts in HeLa cells.
- Four novel natural SMD targets were identified, and SMD efficiency increased during C2C12 myoblast differentiation.
Conclusions:
- Staufen (Stau)1 influences the expression of a wide range of physiological transcripts and metabolic pathways.
- Stau1 plays a significant role in post-transcriptional gene regulation.
- Stau1-mediated mRNA decay (SMD) is a crucial mechanism for controlling gene expression during cellular differentiation.
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