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Genome-wide identification of microRNAs and phased siRNAs in soybean roots under long-term salt stress

文献类型： 外文期刊

作者： Wang, Qian 1 ; Yang, Yingxia 1 ; Lu, Guoqing 1 ; Sun, Xianjun 2 ; Feng, Youren 3 ; Yan, Shuangyong 4 ; Zhang, Huiyuan; 1 ;

作者机构： 1.Tianjin Acad Agr Sci, Biotechnol Res Inst, Tianjin 300381, Peoples R China

2.Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Genet Resources & Improvement, Beijing 100081, Peoples R China

3.Tianjin Acad Agr Sci, Tianjin 300192, Peoples R China

4.Tianjin Acad Agr Sci, Tianjin Crop Res Inst, Tianjin Key Lab Crop Genet & Breeding, Tianjin 300384, Peoples R China

关键词： Long-term salt stress; Soybean roots; MicroRNA; Phased siRNA; Endogenous target mimicry

期刊名称：GENES & GENOMICS （ 影响因子：1.839； 五年影响因子：1.329 ）

ISSN： 1976-9571

年卷期： 2020 年 42 卷 11 期

页码：

收录情况： SCI

摘要： Background Salinity stress, as the key limiting factor for agricultural productivity, can activate a series of molecular responses and alter gene expression in plants. Endogenous regulatory small RNAs, such as microRNAs (miRNAs) and phased siRNAs (phasiRNAs), play crucial roles during stress adaptation and prevent the injury from environmental circumstances. Objective To identify long-term salt stress responsive miRNAs and phasiRNAs as well as their associated genes and pathways in soybean roots. Methods Small RNA and degradome sequencing strategies were applied to genome widely investigate miRNAs and phasiRNAs in soybean roots under control and long-term salt stress conditions. Results In this study, stringent bioinformatic analysis led to the identification of 253 conserved and 38 novel miRNA candidates. Results of expression profiling, target and endogenous target mimics predictions provided valuable clues to their functional roles. Furthermore, 156 genes were identified to be capable of generating 21 nt and 24 nt phasiRNAs, in which 37 candidates were confirmed by degradome data for miRNA-directed cleavage. Approximately 90% of these phasiRNA loci were protein coding genes. And GO enrichment analysis pointed to "signal transduction" and "ADP binding" entries and reflected the functional roles of identified phasiRNA genes. Conclusion Taken together, our findings extended the knowledge of salt responsive miRNAs and phasiRNAs in soybean roots, and provided valuable information for a better understanding of the regulatory events caused by small RNAs underlying plant adaptations to long-term salt stress.

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