Transcriptomic analysis of maize kernel row number-associated miRNAs between a single segment substitution line and its receptor parent

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• 作者：Bin Wang ; Yadong Xue ; Zuxin Zhang ; Dong Ding ; Zhiyuan Fu…
• 关键词：Gene expression regulation ; Kernel row number ; Maize ; miRNA ; SSSL ; Deep sequencing
• 刊名：Plant Growth Regulation
• 出版年：2016
• 出版时间：March 2016
• 年：2016
• 卷：78
• 期：2
• 页码：145-154
• 全文大小：1,884 KB
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• 作者单位：Bin Wang (1) (2)
  Yadong Xue (1)
  Zuxin Zhang (3)
  Dong Ding (1)
  Zhiyuan Fu (1)
  Jihua Tang (1) (4)
  
  1. National Key Laboratory of Wheat and Maize Crop Science, Collaborative Innovation Center of Henan Grain Crops, College of Agronomy, Henan Agricultural University, Zhengzhou, 450002, China
  2. College of Agronomy, Henan University of Science and Technology, Luoyang, 471023, China
  3. National Key Laboratory of Crop Genetic Improvement, Wuhan, 430070, China
  4. Department of Agronomy, Henan Agricultural University, 95 Wenhua Road, Zhengzhou, 450002, China
  
• 刊物类别：Biomedical and Life Sciences
• 刊物主题：Life Sciences
  Plant Physiology
  
• 出版者：Springer Netherlands
• ISSN：1573-5087

文摘

To detect microRNAs (miRNAs) involved in determining kernel row number in maize, next generation deep sequencing was performed on an elite inbred line Zong3 (row number 14–16) of maize in China and a single segment substitution line (SSSL) SSL-10 (row number 8–10) derived from the same genetic background. In SSL-10, the single segment is inserted in chromosome 1 between molecular marker bnlg1953 and bnlg1811. Twenty-eight miRNAs belonging to 11 conserved miRNA families in maize showed expression differences >2-fold in the two lines, among which 14 members from four miRNA families were up-regulated and 14 members from 7 miRNA families were repressed in SSL-10. A genome wide degradome was sequenced to validate the miRNA target genes in solid experiment. In addition, novel miRNAs associated with ear development were predicted using a series of strict criteria, and 29 miRNAs representing eight families were predicted as novel miRNAs. Among the novel miRNAs, only one showed an expression difference >2-fold. The conserved and novel miRNAs with >2-fold expression differences were treated as candidate miRNAs involved in maize kernel row number determination. MiRNA-dependent gene expression regulation and physiological and morphological effects on ear development may explain why the SSSL changed kernel row number compared with its recurrent parent. Based on the interaction of miRNAs and their target genes, a possible miRNA-dependent pathway leading to the given DNA fragment inducing a change in kernel row number was proposed.