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Open AccessArticle

Cascading cis-Cleavage on Transcript from trans-Acting siRNA-Producing Locus 3

1
College of Horticulture, Jinling Institute of Technology, Nanjing 210038, China
2
College of Forest Resources and Environment, Nanjing Forestry University, Nanjing 210037, China
3
State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing 210093, China
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Int. J. Mol. Sci. 2013, 14(7), 14689-14699; https://doi.org/10.3390/ijms140714689
Received: 2 May 2013 / Revised: 24 June 2013 / Accepted: 4 July 2013 / Published: 12 July 2013
(This article belongs to the Special Issue Regulation by non-coding RNAs 2013)
The production of small RNAs (sRNAs) from phased positions set by microRNA-directed cleavage of trans-acting-siRNA-producing locus (TAS) transcript has been characterized extensively; however, the production of sRNAs from non-phased positions remains unknown. We report three cis-cleavages that occurred in TAS3 transcripts in Vitis vinifera, by combining high-throughput sRNA deep sequencing information with evolutional conservation and genome-wide RNA degradome analysis. The three cis-cleavages can be deciphered to generate an orderly cleavage cascade, and can also produce distinct phasing patterns. Each of the patterns, either upstream or downstream of the cis-cleaved position, had a set of sRNAs arranged in 21-nucleotide increments. Part of the cascading cis-cleavages was also conserved in Arabidopsis thaliana. Our results will enhance the understanding of the production of sRNAs from non-phased positions that are not set by microRNA-directed cleavage. View Full-Text
Keywords: trans-acting siRNA; cis-cleavage; ta-siRNA-producing locus; miRNA trans-acting siRNA; cis-cleavage; ta-siRNA-producing locus; miRNA
MDPI and ACS Style

Zhang, C.; Li, G.; Wang, J.; Zhu, S.; Li, H. Cascading cis-Cleavage on Transcript from trans-Acting siRNA-Producing Locus 3. Int. J. Mol. Sci. 2013, 14, 14689-14699.

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