Protocol for assaying chromatin accessibility using ATAC-seq in plants

STAR Protocols

Zhou-Geng Xu¹  Yan-Xia Mai²  Guan-Dong Shang²  Fu-Xiang Wang³  Jia-Wei Wang³  Jian Gao³  Lian-Yu Wu³ 

[1] ShanghaiTech University, Shanghai 200031, China;University of Chinese Academy of Sciences (UCAS), Shanghai 200032, China;National Key Laboratory of Plant Molecular Genetics (NKLPMG), CAS center for Excellence in Molecular Plant Science, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China;

关键词: Bioinformatics;    Sequencing;    Model Organisms;    Gene Expression;   

DOI  :  

来源: DOAJ

【 摘 要 】

Summary: Open or accessible regions of the genome are the primary positions of binding sites for transcription factors and chromatin regulators. Transposase-accessible chromatin sequencing (ATAC-seq) can probe chromatin accessibility in the intact nucleus. Here, we describe a protocol to generate ATAC-seq libraries from fresh Arabidopsis thaliana tissues and establish an easy-to-use bioinformatic analysis pipeline. Our method could be applied to other plants and other tissues and allows for the reliable detection of changes in chromatin accessibility throughout plant growth and development.For complete details on the use and execution of this protocol, please refer to Wang et al. (2020).

【 授权许可】

Unknown