Combined small RNA and degradome sequencing reveals microRNA regulation during immature maize embryo dedifferentiation

作     者：Shen, Yaou Jiang, Zhou Lu, Sifen Lin, Haijian Gao, Shibin Peng, Huanwei Yuan, Guangsheng Liu, Li Zhang, Zhiming Zhao, Maojun Rong, Tingzhao Pan, Guangtang 

作者机构：Sichuan Agr Univ Maize Res Inst Chengdu 611130 Peoples R China BGI Shenzhen 518083 Peoples R China Sichuan Agr Univ Inst Anim Nutr Yaan 625014 Peoples R China Sichuan Agr Univ Coll Life & Sci Yaan 625014 Peoples R China 

出 版 物：《BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS》 (生物化学与生物物理学研究通讯)

年 卷 期：2013年第441卷第2期

页      面：425-430页

核心收录：

学科分类：0710[理学-生物学] 071010[理学-生物化学与分子生物学] 07[理学] 

基　　金：National Natural Science Foundation of China Project of Transgenic New Variety Cultivation [2013ZX08003-003] Major Project of Education Department in Sichuan [11ZA087] 

主　　题：Maize Immature embryo Dedifferentiation Small RNA sequencing Degradome sequencing miRNA regulation 

摘      要：Genetic transformation of maize is highly dependent on the development of embryonic calli from the dedifferentiated immature embryo. To better understand the regulatory mechanism of immature embryo dedifferentiation, we generated four small RNA and degradome libraries from samples representing the major stages of dedifferentiation. More than 186 million raw reads of small RNA and degradome sequence data were generated. We detected 102 known miRNAs belonging to 23 miRNA families. In total, we identified 51, 70 and 63 differentially expressed miRNAs (DEMs) in the stage I, II, III samples, respectively, compared to the control. However, only 6 miRNAs were continually up-regulated by more than fivefold throughout the process of dedifferentiation. A total of 87 genes were identified as the targets of 21 DEM families. This group of targets was enriched in members of four significant pathways including plant hormone signal transduction, antigen processing and presentation, ECM-receptor interaction, and alpha-linolenic acid metabolism. The hormone signal transduction pathway appeared to be particularly significant, involving 21 of the targets. While the targets of the most significant DEMs have been proved to play essential roles in cell dedifferentiation. Our results provide important information regarding the regulatory networks that control immature embryo dedifferentiation in maize. (C) 2013 Elsevier Inc. All rights reserved.