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Cascading cis-Cleavage on Transcript from trans-Acting siRNA-Producing Locus 3
College of Horticulture, Jinling Institute of Technology, Nanjing 210038, China
College of Forest Resources and Environment, Nanjing Forestry University, Nanjing 210037, China
State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing 210093, China
These authors contributed equally to this work.
* Author to whom correspondence should be addressed.
Received: 2 May 2013; in revised form: 24 June 2013 / Accepted: 4 July 2013 / Published: 12 July 2013
Abstract: 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.
Keywords: trans-acting siRNA; cis-cleavage; ta-siRNA-producing locus; miRNA
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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.
Zhang C, Li G, Wang J, Zhu S, Li H. Cascading cis-Cleavage on Transcript from trans-Acting siRNA-Producing Locus 3. International Journal of Molecular Sciences. 2013; 14(7):14689-14699.
Zhang, Changqing; Li, Guangping; Wang, Jin; Zhu, Shinong; Li, Hailing. 2013. "Cascading cis-Cleavage on Transcript from trans-Acting siRNA-Producing Locus 3." Int. J. Mol. Sci. 14, no. 7: 14689-14699.