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Single-base resolution methylome of different ecotype from Pyrus betulaefolia reveals epigenomic changes in response to salt stress

文献类型： 外文期刊

作者： Li, Hui 1 ; Zhang, Yu-feng 1 ; Zhou, Xiang -yang 3 ; Lin, Jin 1 ; Liu, Chun-xiao 1 ; Li, Xiao-gang 1 ; Chang, You-hong 1 ;

作者机构： 1.Jiangsu Acad Agr Sci, Inst Pomol, Nanjing 210014, Peoples R China

2.Nanjing Forestry Univ, Coll Biol & Environm, Nanjing 210037, Peoples R China

3.Genepioneer Biotechnol Co Ltd, Nanjing 210023, Peoples R China

4.Jiangsu Key Lab Hort Crop Genet Improvement, Nanjing 210014, Peoples R China

关键词： Pyrus betulaefolia; Salt stress; Transcriptome; Methylome; Ca (2+) sensor gene; Sodium -potassium balance

期刊名称：SCIENTIA HORTICULTURAE （ 影响因子：4.342； 五年影响因子：4.342 ）

ISSN： 0304-4238

年卷期： 2022 年 306 卷

页码：

收录情况： SCI

摘要： The root is the first organ to feel salt stress in woody fruit trees. Understanding the potential epigenetic mechanism induced by salt stress in roots of Pyrus betulaefolia is important for pear breeding using diverse genetic resources. With the help of whole-genome bisulfite sequencing, cytosine methylation was mapped at single-base resolution across the whole genome of P. betulaefolia roots. The P. betulaefolia root genome revealed nearly 11.40%, 39.93%, 22.73%, and 4.17% methylation across all sequenced C sites and in the CG, CHG, and CHH sequence contexts, respectively. Then, the changes in the methylome of the roots relating to salt stress were comparatively analysed in two ecotypes with different salt-stress tolerances. After a global methylome and transcriptome combined analysis, gene body methylation demonstrated an obvious negative correlation with transcription levels, whereas promoter-methylated genes presented lower expression levels than promoterunmethylated genes. Furthermore, the methylation profiles of Ca2+ sensor genes in roots of P. betulaefolia. were described, and some were demethylated under salt-stress conditions. In detail, the up-regulation of Ca2+ sensors and their downstream genes, PbCDPK20.1, PbCDPK20.2, PbAKT1, and PbHAK25, resulted from saltinduced promoter methylation changes. Finally, K+ accumulation was promoted, and a higher K+/Na+ratio was maintained in roots under salt-stress compared with normal conditions. Additionally, the application of the DNA methylation inhibitor 5-azacytidine in vitro induced DNA demethylation and promoted K+ enrichment, whereas the accelerator methyl trifluoromethanesulfonate produced the opposite effects. In conclusion, our result revealed the relationship of DNA methylation and gene expression in P. betulaefolia during salt stress, which will increase our understanding of the epigenetic mechanisms of woody trees.

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