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- Title
Single-base resolution methylomes of upland cotton (Gossypium hirsutum L.) reveal epigenome modifications in response to drought stress.
- Authors
Xuke Lu; Xiaoge Wang; Xiugui Chen; Na Shu; Junjuan Wang; Delong Wang; Shuai Wang; Weili Fan; Lixue Guo; Xiaoning Guo; Wuwei Ye
- Abstract
Background: DNA methylation, with a cryptic role in genome stability, gene transcription and expression, is involved in the drought response process in plants, but the complex regulatory mechanism is still largely unknown. Results: Here, we performed whole-genome bisulfite sequencing (WGBS) and identified long non-coding RNAs on cotton leaves under drought stress and re-watering treatments. We obtained 31,223 and 30,997 differentially methylated regions (representing 2.48% of the genome) after drought stress and re-watering treatments, respectively. Our data also showed that three sequence contexts, including mCpG, mCHG, mCHH, all presented a hyper-methylation pattern under drought stress and were nearly restored to normal levels after the re-watering treatment. Among all the methylation variations, asymmetric CHH methylation was the most consistent with external environments, suggesting that methylation/demethylation in a CHH context may constitute a novel epigenetic modification in response to drought stress. Combined with the targets of long non-coding RNAs, we found that long non-coding RNAs may mediate variations in methylation patterns by splicing into microRNAs. Furthermore, the many hormone-related genes with methylation variations suggested that plant hormones might be a potential mechanism in the drought response. Conclusions: Future crop-improvement strategies may benefit by taking into account not only the DNA genetic variations in cotton varieties but also the epigenetic modifications of the genome.
- Subjects
DNA methylation; COTTON; DROUGHTS; NON-coding DNA; DNA
- Publication
BMC Genomics, 2017, Vol 18, p1
- ISSN
1471-2164
- Publication type
Article
- DOI
10.1186/s12864-017-3681-y