Comprehensive transcriptomic analysis of three varieties with different brown planthopper-resistance identifies leaf sheath lncRNAs in rice.
Comprehensive transcriptomic analysis of three varieties with different brown planthopper-resistance identifies leaf sheath lncRNAs in rice.
复制标题
DOI：
10.1186/s12870-023-04374-w
复制
发表时间：
2023-07-22
影响因子：
5.3
通讯作者：
Li, Chunmei
中科院分区：
文献类型：
--
作者：
Liu, Kai;Ma, Xiaozhi;Zhao, Luyao;Lai, Xiaofeng;Chen, Jie;Lang, Xingxuan;Han, Qunxin;Wan, Xiaorong;Li, Chunmei
长非编码RNA(LncRNAs)因其在多种生物学过程中的重要作用而备受关注。然而，系统地鉴定与水稻专化性害虫褐飞虱(BPH)、水稻防御相关的lncRNAs仍未被探索。本研究以感病水稻台中原生一号(TN1)和抗病水稻IR36和R476为材料，进行了全基因组高通量测序分析。共鉴定出2283个lncRNAs，其中649个差异表达。在BPH侵染过程中，仅在TN1、IR36和R476中发现了84个(共120个)、52个(共70个)和63个(共94个)差异表达的LncRNA。通过分析它们的顺式、反式和靶标模拟活性，不仅确定了针对抗病基因(NBS-LRR和RLKs)和转录因子的lncRNAs，而且还鉴定了作为与胁迫相关的miRNAs(miR2118、MIR528和miR1320)靶标的lncRNAs。在取食褐飞虱之前，TN1与IR36和TN1与R476分别有238和312个LncRNAs差异表达。在它们可能的靶标中，植物-病原菌相互作用途径显著丰富。推测抗病水稻是通过lncRNAs的调控处于启动状态的。此外，通过加权基因共表达网络分析(WGCNA)筛选出广泛参与褐飞虱取食反应的lncRNAs，并构建了关键的lncRNAs可能的调控网络。这些lncRNAs调控不同的途径，这些途径有助于水稻对褐飞虱的基础防御和特异性抗性。综上所述，我们确定了在褐飞虱侵染过程中针对每个品种中与胁迫相关的miRNAs、抗性基因和转录因子的特定LncRNAs。此外，还构建了WGCNA揭示的广泛响应褐飞虱取食的lncRNAs的可能调控网络。这些发现将为进一步了解LncRNAs在BPH防御中的调控作用提供依据，并为候选LncRNAs的功能研究奠定基础。网上版载有补充材料，可在10.1186/s12870023-04374-w查阅。
Long 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. In 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. In 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. The online version contains supplementary material available at 10.1186/s12870-023-04374-w.
登录
查看更多内容
褐飞虱抗性 14 的卷曲螺旋和核苷酸结合域在水稻抗稻飞虱信号传导和抗性中的作用
影响因子：
11.6
作者：
Hu, Liang;Wu, Yan;He, Guangcun
通讯作者：
He, Guangcun
Schaftoside 与 NICDK1 蛋白相互作用：水稻抗褐飞虱的机制
影响因子：
5.6
作者：
Hao PY;Feng YL;Zhou YS;Song XM;Li HL;Ma Y;Ye CL;Yu XP
通讯作者：
Yu XP
DOI：
10.1073/pnas.1419030111
发表时间：
2014-11-11
影响因子：
11.1
作者：
Csorba, Tibor;Questa, Julia I.;Dean, Caroline
通讯作者：
Dean, Caroline
影响因子：
56.9
作者：
Heo, Jae Bok;Sung, Sibum
通讯作者：
Sung, Sibum
影响因子：
7.3
作者：
Chen, Su;Sun, Bo;Li, Haichao
通讯作者：
Li, Haichao