J Integr Plant Biol. ›› 2013, Vol. 55 ›› Issue (2): 160-176.DOI: 10.1111/jipb.12002

• Metabolism and Biochemistry • Previous Articles     Next Articles

Analyses of a Glycine max Degradome Library Identify microRNA Targets and MicroRNAs that Trigger Secondary SiRNA Biogenesis

Zheng Hu1, Qiyan Jiang1, Zhiyong Ni1, Rui Chen2, Shuo Xu1 and Hui Zhang1*   

  1. 1The National Key Facilities for Crop Genetic Resources and Improvement, Institute of Crop Sciences, The Chinese Academy of Agricultural Sciences, Beijing 100081, China
    2Central Laboratory of Tianjin Academy of Agricultural Sciences, Tianjin 300381, China
  • Received:2012-09-27 Accepted:2012-10-23 Published:2013-02-04
  • About author:*Corresponding author Tel./Fax: +86 10 6218 6649; E-mail: zhang_hui@mail.caas.net.cn

Abstract:

Plant microRNAs (miRNAs) regulate gene expression mainly by guiding cleavage of target mRNAs. In this study, a degradome library constructed from different soybean (Glycine max (L.) Merr.) tissues was deep-sequenced. 428 potential targets of small interfering RNAs and 25 novel miRNA families were identified. A total of 211 potential miRNA targets, including 174 conserved miRNA targets and 37 soybean-specific miRNA targets, were identified. Among them, 121 targets were first discovered in soybean. The signature distribution of soybean primary miRNAs (pri-miRNAs) showed that most pri-miRNAs had the characteristic pattern of Dicer processing. The biogenesis of TAS3 small interfering RNAs (siRNAs) was conserved in soybean, and nine Auxin Response Factors were identified as TAS3 siRNA targets. Twenty-three miRNA targets produced secondary small interfering RNAs (siRNAs) in soybean. These targets were guided by five miRNAs: gma-miR393, gma-miR1508, gma-miR1510, gma-miR1514, and novel-11. Multiple targets of these secondary siRNAs were detected. These 23 miRNA targets may be the putative novel TAS genes in soybean. Global identification of miRNA targets and potential novel TAS genes will contribute to research on the functions of miRNAs in soybean.

Hu Z, Jiang Q, Ni Z, Chen R, Xu S, Zhang H (2013) Analyses of a Glycine max degradome library identify microRNA targets and microRNAs that trigger secondary SiRNA biogenesis. J. Integr. Plant Biol. 55(2), 160–176.

Key words: miRNAs, miRNA targets, secondary siRNAs, degradome, Glycine max

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