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Proc Natl Acad Sci U S A. 2019 Aug 13;116(33):16641-16650. doi: 10.1073/pnas.1906023116. Epub 2019 Jul 30.

Histone acetylation recruits the SWR1 complex to regulate active DNA demethylation in Arabidopsis.

Author information

1
Shanghai Center for Plant Stress Biology, Center of Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, 201602 Shanghai, China.
2
Department of Horticulture & Landscape Architecture, Purdue University, West Lafayette, IN 47906.
3
Department of Horticulture, Zhejiang University, 310058 Hangzhou, China.
4
University of Chinese Academy of Sciences, 100049 Beijing, China.
5
Institute of Vegetable Science, Zhejiang Academy of Agricultural Science, 310021 Hangzhou, China.
6
Gregor Mendel Institute, Austrian Academy of Sciences, 1030 Vienna, Austria.
7
Department of Biology, University of Pisa, 56126 Pisa, Italy.
8
Shanghai Center for Plant Stress Biology, Center of Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, 201602 Shanghai, China; zhu132@purdue.edu.

Abstract

Active DNA demethylation is critical for controlling the DNA methylomes in plants and mammals. However, little is known about how DNA demethylases are recruited to target loci, and the involvement of chromatin marks in this process. Here, we identify 2 components of the SWR1 chromatin-remodeling complex, PIE1 and ARP6, as required for ROS1-mediated DNA demethylation, and discover 2 SWR1-associated bromodomain-containing proteins, AtMBD9 and nuclear protein X1 (NPX1). AtMBD9 and NPX1 recognize histone acetylation marks established by increased DNA methylation 1 (IDM1), a known regulator of DNA demethylation, redundantly facilitating H2A.Z deposition at IDM1 target loci. We show that at some genomic regions, H2A.Z and DNA methylation marks coexist, and H2A.Z physically interacts with ROS1 to regulate DNA demethylation and antisilencing. Our results unveil a mechanism through which DNA demethylases can be recruited to specific target loci exhibiting particular histone marks, providing a conceptual framework to understand how chromatin marks regulate DNA demethylation.

KEYWORDS:

DNA demethylation pathway; bromodomain; chromatin remodeling; gene silencing; histone variant

PMID:
31363048
PMCID:
PMC6697875
[Available on 2020-01-30]
DOI:
10.1073/pnas.1906023116

Conflict of interest statement

The authors declare no conflict of interest.

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