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Comprehensive transcriptomic analysis of three varieties with different brown planthopper-resistance identifies leaf sheath lncRNAs in rice

文献类型： 外文期刊

作者： Liu, Kai 1 ; Ma, Xiaozhi 3 ; Zhao, Luyao 1 ; Lai, Xiaofeng 1 ; Chen, Jie 1 ; Lang, Xingxuan 1 ; Han, Qunxin 1 ; Wan, Xiaorong 1 ; Li, Chunmei 1 ;

作者机构： 1.Zhongkai Univ Agr & Engn, Guangdong Univ, Guangzhou Key Lab Res & Dev Crop Germplasm Resourc, Minist Agr & Rural Affairs,Key Lab Sustainable Con, Guangzhou 510225, Peoples R China

2.Zhongkai Univ Agr & Engn, Key Lab Green Prevent & Control Fruits & Vegetable, Minist Agr & Rural Affairs, Guangzhou 510225, Peoples R China

3.Guangdong Acad Agr Sci, Rice Res Inst, Guangdong Prov Key Lab New Technol Rice Breeding, Guangzhou 510642, Peoples R China

关键词： Resistant rice; Nilaparvata lugens; Transcriptome; Long non-coding RNAs; Expression analysis

期刊名称：BMC PLANT BIOLOGY （ 影响因子：5.3； 五年影响因子：5.9 ）

ISSN： 1471-2229

年卷期： 2023 年 23 卷 1 期

页码：

收录情况： SCI

摘要： BackgroundLong non-coding RNAs (lncRNAs) have been brought great attention for their crucial roles in diverse biological processes. However, systematic identification of lncRNAs associated with specialized rice pest, brown planthopper (BPH), defense in rice remains unexplored.ResultsIn this study, a genome-wide high throughput sequencing analysis was performed using leaf sheaths of susceptible rice Taichung Native 1 (TN1) and resistant rice IR36 and R476 with and without BPH feeding. A total of 2283 lncRNAs were identified, of which 649 lncRNAs were differentially expressed. During BPH infestation, 84 (120 in total), 52 (70 in total) and 63 (94 in total) of differentially expressed lncRNAs were found only in TN1, IR36 and R476, respectively. Through analyzing their cis-, trans-, and target mimic-activities, not only the lncRNAs targeting resistance genes (NBS-LRR and RLKs) and transcription factors, but also the lncRNAs acting as the targets of the well-studied stress-related miRNAs (miR2118, miR528, and miR1320) in each variety were identified. Before the BPH feeding, 238 and 312 lncRNAs were found to be differentially expressed in TN1 vs. IR36 and TN1 vs. R476, respectively. Among their putative targets, the plant-pathogen interaction pathway was significantly enriched. It is speculated that the resistant rice was in a priming state by the regulation of lncRNAs. Furthermore, the lncRNAs extensively involved in response to BPH feeding were identified by Weighted Gene Co-expression Network Analysis (WGCNA), and the possible regulation networks of the key lncRNAs were constructed. These lncRNAs regulate different pathways that contribute to the basal defense and specific resistance of rice to the BPH.ConclusionIn summary, we identified the specific lncRNAs targeting the well-studied stress-related miRNAs, resistance genes, and transcription factors in each variety during BPH infestation. Additionally, the possible regulating network of the lncRNAs extensively responding to BPH feeding revealed by WGCNA were constructed. These findings will provide further understanding of the regulatory roles of lncRNAs in BPH defense, and lay a foundation for functional research on the candidate lncRNAs.

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