Characterization of lncRNAs and mRNAs involved in powdery mildew resistance in cucumber
Characterization of lncRNAs and mRNAs involved in powdery mildew resistance in cucumber
复制标题
参与黄瓜白粉病抗性的 lncRNA 和 mRNA 的表征
DOI：
10.1094/phyto-11-20-0521-r
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发表时间：
2021
期刊：
影响因子：
3.2
通讯作者：
Gang Wu
中科院分区：
文献类型：
--
作者：
Jingtao Nie;Huasen Wang;Wanlu Zhang;Xue Teng;Chao Yu;Run Cai;Gang Wu
黄瓜白粉病是一种世界性的黄瓜病害。鉴定黄瓜抗PM的遗传因子对分子标记辅助育种具有重要意义。长链非编码RNA（lncRNA）和microRNA（miRNAs）在植物发育和免疫中起着重要作用，但它们是否参与瓜类作物的PM反应尚不清楚。本研究利用黄瓜近等基因系（NIL）S1003和NIL（Pm5.1）感染PM后叶片的RNA进行了RNA链特异性测序和miRNA测序，系统地分析了黄瓜对PM应答的lncRNA和信使RNA（mRNA）的表达谱。总共，我们鉴定了12，903个lncRNA和25，598个mRNA对PM有反应。差异表达分析表明，与PM抗性相关的lncRNA和mRNAs分别为119个和136个。对这些DE lncRNA和DE mRNA的功能分析表明，它们与苯丙烷生物合成、苯丙氨酸代谢、泛醌和其他萜类醌生物合成以及内吞作用显着相关。特别是LNC_006805和LNC_012667这两个lncRNA可能在PM抗性中起重要作用。此外，我们还预测了参与PM抗性的成熟miRNA和lncRNA-miRNA-mRNA的竞争性内源RNA（ceRNA）网络。共49个DE lncRNA可能作为106个miRNA的靶标模拟物。这些结果为进一步研究黄瓜抗多菌灵的lncRNA、mRNAs、miRNAs和ceRNAs提供了丰富的资源，也为黄瓜抗多菌灵的分子育种提供了参考。
Powdery mildew (PM) is a severe fungal disease of cucumber worldwide. Identification of genetic factors resistant to PM is of great importance for marker-assisted breeding to ensure cucumber production. Long noncoding RNAs (lncRNAs) and microRNAs (miRNAs) have been shown to play important roles in plant development and immunity; however, whether they have a role in PM response in cucurbit crops remains unknown. We performed strand-specific RNA sequencing and miRNA sequencing using RNA from cucumber leaves of two near-isogenic lines (NILs), S1003 and NIL (Pm5.1) infected with PM, and systematically characterized the profiles of cucumber lncRNAs and messenger RNA (mRNAs) responsive to PM. In total, we identified 12,903 lncRNAs and 25,598 mRNAs responsive to PM. Differential expression (DE) analysis showed that 119 lncRNAs and 136 mRNAs correlated with PM resistance. Functional analysis of these DE lncRNAs and DE mRNAs revealed that they are significantly associated with phenylpropanoid biosynthesis, phenylalanine metabolism, ubiquinone and other terpenoid-quinone biosynthesis, and endocytosis. Particularly, two lncRNAs, LNC_006805 and LNC_012667, might play important roles in PM resistance. In addition, we also predicted mature miRNAs and competing endogenous RNA (ceRNA) networks of lncRNA–miRNA–mRNA involved in PM resistance. A total of 49 DE lncRNAs could potentially act as target mimics for 106 miRNAs. Taken together, our results provide an abundant resource for further exploration of cucumber lncRNAs, mRNAs, miRNAs, and ceRNAs in PM resistance, and will facilitate the molecular breeding for PM-resistant varieties to control this severe disease in cucumber.