Enhancer transcription detected in the nascent transcriptomic landscape of bread wheat

Genome Biology

Zhicheng Dong¹  Min Liu¹  Yilin Xie¹  Jiafu Zhu¹  Yan Chen¹  Zijuan Li²  Yijing Zhang³ 

[1] Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University;National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences;State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Department of Biochemistry, Institute of Plant Biology, School of Life Sciences, Fudan University;

关键词: Bread wheat;    Nascent RNA;    Enhancer;    eRNA;    Subgenome-bias;   

DOI  :  10.1186/s13059-022-02675-1

来源: DOAJ

【 摘 要 】

Abstract The precise spatiotemporal gene expression is orchestrated by enhancers that lack general sequence features and thus are difficult to be computationally identified. By nascent RNA sequencing combined with epigenome profiling, we detect active transcription of enhancers from the complex bread wheat genome. We find that genes associated with transcriptional enhancers are expressed at significantly higher levels, and enhancer RNA is more precise and robust in predicting enhancer activity compared to chromatin features. We demonstrate that sub-genome-biased enhancer transcription could drive sub-genome-biased gene expression. This study highlights enhancer transcription as a hallmark in regulating gene expression in wheat.

【 授权许可】

Unknown