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Plant and Cell Physiology Advance Access published online on June 13, 2007
Plant and Cell Physiology, doi:10.1093/pcp/pcm075
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© The Author 2007. Published by Oxford University Press on behalf of Japanese Society of Plant Physiologists. All rights reserved. For Permissions, please e-mail: journals.permissions@oxfordjournals.org

Context analysis of termination codons in mRNA that are recognized by plant NMD

Koichi Hori1,2 and Yuichiro Watanabe1

1 Department of Life Sciences, Graduate School of Arts and Sciences, University of Tokyo, Komaba, Meguro, Tokyo 153-8902, Japan.
2 Present address: Department of Life Science, College of Science, Rikkyo (St. Paul's) University, 3-34-1 Nishi-ikebukuro, Toshima-ku, Tokyo 171-8501, Japan.

Corresponding author: Yuichiro Watanabe1 Department of Life Science, Graduate School of Arts and Sciences,University of Tokyo, Komaba, Meguro, Tokyo 153-8902, Japan. Tel: 81-3-5454-6776;, FAX: 81-3-5454-6776, E-mail: solan{at}bio.c.u-tokyo.ac.jp


  Abstract

The nonsense-mediated mRNA decay (NMD) system is an RNA surveillance system that degrades mRNAs possessing premature translation termination codons (PTCs). Although NMD factors are well-conserved in eukaryotes, it is speculated that the contexts of those termination codons that are subject to NMD are different depending on the organism. Context analysis of termination codons that are recognized by the plant NMD system would clarify NMD target mRNAs in plants, and contribute to our understanding of its biological relevance in plants.

In the present study we analyzed the positions of termination codons that were recognized as PTCs using an Agrobacterium transient expression assay; that is, the accumulation of a series of plant mRNAs with nonsense mutations in different contexts was tested in plants. The results indicated that termination codons that are located distantly from the mRNA 3' termini or more than 50 nts upstream of the 3’-most exon-exon junction, are recognized as substrates for NMD.

Keywords: Untranslated region - Nonsense-mediated decay - Post-transcriptional regulation - mRNA surveillance - Premature termination codon - mRNA stability


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