Parsing the Regulatory Network between Small RNAs and Target Genesin Ethylene Pathway in Tomato

文献类型： 外文期刊

第一作者： Wang, Yunxiang

作者： Wang, Yunxiang;Wang, Qing;Gao, Lipu;Zuo, Jinhua;Wang, Yunxiang;Wang, Qing;Gao, Lipu;Zuo, Jinhua;Wang, Yunxiang;Wang, Qing;Gao, Lipu;Zuo, Jinhua;Wang, Yunxiang;Wang, Qing;Gao, Lipu;Zuo, Jinhua;Zhu, Benzhong;Ju, Zheng;Luo, Yunbo

作者机构：

关键词： ethylene;microRNAs;target;high-throughput sequencing;regulatory network

期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：5.753； 五年影响因子：6.612 ）

ISSN： 1664-462X

年卷期： 2017 年 8 卷

页码：

收录情况： SCI

摘要： Small RNAs are a class of short non-coding endogenous RNAs that play essential roles in many biological processes. Recent studies have reported that microRNAs (miRNAs) are also involved in ethylene signaling in plants. LeERF1 is one of the ethylene response factors (ERFs) in tomato that locates in the downstream of ethylene signal transduction pathway. To elucidate the intricate regulatory roles of small RNAs in ethylene signaling pathway in tomato, the deep sequencing and bioinformatics methods were combined to decipher the small RNAs landscape in wild and sense-/antisense-LeERF1 transgenic tomato fruits. Except for the known miRNAs, 36 putative novel miRNAs, 6 trans-acting short interfering RNAs (ta-siRNAs), and 958 natural antisense small interfering RNAs (nat-siRNAs) were also found in our results, which enriched the tomato small RNAs repository. Among these small RNAs, 9 miRNAs, and 12 nat-siRNAs were differentially expressed between the wild and transgenic tomato fruits significantly. A large amount of target genes of the small RNAs were identified and some of them were involved in ethylene pathway, including AP2 TFs, auxin response factors, F-box proteins, ERF TFs, APETALA2-like protein, and MADS-box TFs. Degradome sequencing further confirmed the targets of miRNAs and six novel targets were also discovered. Furthermore, a regulatory model which reveals the regulation relationships between the small RNAs and their targets involved in ethylene signaling was set up. This work provides basic information for further investigation of the function of small RNAs in ethylene pathway and fruit ripening.

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