文献类型： 外文期刊

作者： Cao, Qiang ¹ ; Huang, Lin ¹ ; Li, Jiamin ¹ ; Qu, Peng ¹ ; Tao, Pang ² ; Crabbe, M. James C. ³ ; Zhang, Ticao ⁶ ; Qiao, Qin ⁷ ;

作者机构： 1.Yunnan Univ, Sch Agr, Kunming, Peoples R China

2.Yunnan Acad Agr Sci, Hort Res Inst, Kunming 650205, Peoples R China

3.Univ Oxford, Wolfson Coll, Oxford OX2 6UD, England

4.Univ Bedfordshire, Inst Biomed & Environm Sci & Technol, Sch Life Sci, Pk Sq, Luton LU1 3JU, England

5.Shanxi Univ, Sch Life Sci, Taiyuan 030006, Shanxi, Peoples R China

6.Yunnan Univ Chinese Med, Coll Chinese Mat Med, Kunming 650500, Peoples R China

7.Yunnan Agr Univ, Coll Hort & Landscape, Kunming 650201, Peoples R China

关键词： Fragaria nilgerrensis; Strawberry; DNA methylation; RNA-Seq; Drought stress; WGCNA

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： 2022 年 22 卷 1 期

页码：

收录情况： SCI

摘要： Background: Fragaria nilgerrensis, which is a diploid wild strawberry with excellent drought-resistance, would provide useful candidate genes for improving drought resistance of cultivated strawberry. So far, its molecular regulatory networks involved in drought stress are unclear. We therefore investigated the drought response regulatory networks of F. nilgerrensis based on the integrated analysis of DNA methylation, transcriptome and physiological traits during four time points under drought stress. Results: The most differentially expressed genes and the physiological changes were found at 8 days (T8) compared with 0 day (T0, control). Methylome analysis revealed slight dynamic changes in genome-wide mC levels under drought conditions, while the most hypomethylated and hypermethylated regions were identified at T4 and T8. Association analysis of the methylome and transcriptome revealed that unexpressed genes exhibited expected hypermethylation levels in mCHG and mCHH contexts, and highly expressed genes exhibited corresponding hypomethylation levels in the gene body, but mCG contexts showed the opposite trend. Then, 835 differentially methylated and expressed genes were identified and grouped into four clustering patterns to characterize their functions. The genes with either negative or positive correlation between methylation and gene expression were mainly associated with kinases, Reactive Oxygen Species (ROS) synthesis, scavenging, and the abscisic acid (ABA) signal pathway. Consistently, weighted gene co-expression network analysis (WGCNA) revealed Hub genes including NCED, CYP707A2, PP2Cs and others that play important roles in the ABA signaling pathway. Conclusion: F. nilgerrensis drought is dominated by ABA-dependent pathways, possibly accompanied by ABA-independent crosstalk. DNA methylation may affect gene expression, but their correlation was more subtle and multiple types of association exist. Maintaining the balance between ROS regeneration and scavenging is an important factor in drought resistance in F. nilgerrensis. These results deepen our understanding of drought resistance and its application in breeding in strawberry plants.