Lyu Zhongrui, Zhang Guoyun, Song Yating, Diao Songfeng, He Caiyun, Zhang Jianguo
State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of State Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China.
Non-timber Forestry Research and Development Center, Chinese Academy of Forestry & Key Laboratory of Non-timber Forest Germplasm Enhancement & Utilization of National Forestry and Grassland Administration, Zhengzhou 450003, China.
Genomics. 2022 May;114(3):110345. doi: 10.1016/j.ygeno.2022.110345. Epub 2022 Mar 20.
Sea buckthorn is a typical drought-resistant tree species. However, there is a general lack of understanding of the pattern of DNA methylation linked with sea buckthorn responses to drought, and its relationship with drought tolerance mechanisms. In this study, we performed whole-transcriptome RNA sequencing and methylome sequencing in response to drought stress to explore differentially expressed mRNAs, miRNAs, lncRNAs and circRNAs in sea buckthorn leaves. Based on predicted DE pairs, we constructed a competitive endogenous RNA network, which revealed potential transcriptional regulatory roles in response to drought stress. The results of methylome sequencing revealed that the DNA methylation level was increased in sea buckthorn leaves under drought stress. We identified 13,405 differentially methylated regions between CK and TR. We found one DMR-associated DEG (Vacuolar-sorting receptor 6) involved in the ABA accumulation pathway. In addition, two DNA methyltransferases (HrMET1 and HrDRM1) were closely associated with drought-induced hypermethylation in sea buckthorn. Together, we firstly conducted a comprehensive transcriptomic and epigenetic analysis of sea buckthorn under drought stress, providing a resource for further study of the potential functions of genes, miRNAs, lncRNAs, circRNAs and DNA methyltransferases.
沙棘是一种典型的抗旱树种。然而，目前人们对与沙棘干旱响应相关的DNA甲基化模式及其与耐旱机制的关系普遍缺乏了解。在本研究中，我们针对干旱胁迫进行了全转录组RNA测序和甲基化组测序，以探索沙棘叶片中差异表达的mRNA、miRNA、lncRNA和circRNA。基于预测的差异表达对，我们构建了一个竞争性内源RNA网络，该网络揭示了在干旱胁迫响应中的潜在转录调控作用。甲基化组测序结果表明，干旱胁迫下沙棘叶片中的DNA甲基化水平升高。我们在对照（CK）和处理组（TR）之间鉴定出13405个差异甲基化区域。我们发现一个与差异甲基化区域相关的差异表达基因（液泡分选受体6）参与脱落酸积累途径。此外，两种DNA甲基转移酶（HrMET1和HrDRM1）与沙棘干旱诱导的高甲基化密切相关。总之，我们首次对干旱胁迫下的沙棘进行了全面的转录组和表观遗传分析，为进一步研究基因、miRNA、lncRNA、circRNA和DNA甲基转移酶的潜在功能提供了资源。
