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Analyses of a Glycine max Degradome Library Identify microRNA Targets and MicroRNAs that Trigger Secondary SiRNA Biogenesis
Author(s) -
Hu Zheng,
Jiang Qiyan,
Ni Zhiyong,
Chen Rui,
Xu Shuo,
Zhang Hui
Publication year - 2013
Publication title -
journal of integrative plant biology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.734
H-Index - 83
eISSN - 1744-7909
pISSN - 1672-9072
DOI - 10.1111/jipb.12002
Subject(s) - dicer , microrna , biology , small interfering rna , gene silencing , small rna , drosha , trans acting sirna , biogenesis , rna interference , gene , genetics , gene expression , rna , computational biology , microbiology and biotechnology
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.