Literature DB >> 22700931

A histone acetyltransferase regulates active DNA demethylation in Arabidopsis.

Weiqiang Qian1, Daisuke Miki, Heng Zhang, Yunhua Liu, Xi Zhang, Kai Tang, Yunchao Kan, Honggui La, Xiaojie Li, Shaofang Li, Xiaohong Zhu, Xiaobing Shi, Kangling Zhang, Olga Pontes, Xuemei Chen, Renyi Liu, Zhizhong Gong, Jian-Kang Zhu.   

Abstract

Active DNA demethylation is an important part of epigenetic regulation in plants and animals. How active DNA demethylation is regulated and its relationship with histone modification patterns are unclear. Here, we report the discovery of IDM1, a regulator of DNA demethylation in Arabidopsis. IDM1 is required for preventing DNA hypermethylation of highly homologous multicopy genes and other repetitive sequences that are normally targeted for active DNA demethylation by Repressor of Silencing 1 and related 5-methylcytosine DNA glycosylases. IDM1 binds methylated DNA at chromatin sites lacking histone H3K4 di- or trimethylation and acetylates H3 to create a chromatin environment permissible for 5-methylcytosine DNA glycosylases to function. Our study reveals how some genes are indicated by multiple epigenetic marks for active DNA demethylation and protection from silencing.

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Year:  2012        PMID: 22700931      PMCID: PMC3575687          DOI: 10.1126/science.1219416

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  10 in total

Review 1.  DNA and histone methylation in plants.

Authors:  Muhammad Tariq; Jerzy Paszkowski
Journal:  Trends Genet       Date:  2004-06       Impact factor: 11.639

2.  Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation.

Authors:  Yasuyuki Onodera; Jeremy R Haag; Thomas Ream; Pedro Costa Nunes; Olga Pontes; Craig S Pikaard
Journal:  Cell       Date:  2005-03-11       Impact factor: 41.582

3.  The DNA glycosylase/lyase ROS1 functions in pruning DNA methylation patterns in Arabidopsis.

Authors:  Jianhua Zhu; Avnish Kapoor; Vaniyambadi V Sridhar; Fernanda Agius; Jian-Kang Zhu
Journal:  Curr Biol       Date:  2007-01-09       Impact factor: 10.834

Review 4.  Establishing, maintaining and modifying DNA methylation patterns in plants and animals.

Authors:  Julie A Law; Steven E Jacobsen
Journal:  Nat Rev Genet       Date:  2010-03       Impact factor: 53.242

5.  DNA demethylation in the Arabidopsis genome.

Authors:  Jon Penterman; Daniel Zilberman; Jin Hoe Huh; Tracy Ballinger; Steven Henikoff; Robert L Fischer
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-04       Impact factor: 11.205

6.  Highly integrated single-base resolution maps of the epigenome in Arabidopsis.

Authors:  Ryan Lister; Ronan C O'Malley; Julian Tonti-Filippini; Brian D Gregory; Charles C Berry; A Harvey Millar; Joseph R Ecker
Journal:  Cell       Date:  2008-05-02       Impact factor: 41.582

Review 7.  Active DNA demethylation mediated by DNA glycosylases.

Authors:  Jian-Kang Zhu
Journal:  Annu Rev Genet       Date:  2009       Impact factor: 16.830

8.  Genome-wide analysis of mono-, di- and trimethylation of histone H3 lysine 4 in Arabidopsis thaliana.

Authors:  Xiaoyu Zhang; Yana V Bernatavichute; Shawn Cokus; Matteo Pellegrini; Steven E Jacobsen
Journal:  Genome Biol       Date:  2009-06-09       Impact factor: 13.583

9.  ROS1, a repressor of transcriptional gene silencing in Arabidopsis, encodes a DNA glycosylase/lyase.

Authors:  Zhizhong Gong; Teresa Morales-Ruiz; Rafael R Ariza; Teresa Roldán-Arjona; Lisa David; Jian Kang Zhu
Journal:  Cell       Date:  2002-12-13       Impact factor: 41.582

10.  Arginine methylation at histone H3R2 controls deposition of H3K4 trimethylation.

Authors:  Antonis Kirmizis; Helena Santos-Rosa; Christopher J Penkett; Michael A Singer; Michiel Vermeulen; Matthias Mann; Jürg Bähler; Roland D Green; Tony Kouzarides
Journal:  Nature       Date:  2007-09-26       Impact factor: 49.962

  10 in total
  103 in total

Review 1.  Function of MYB domain transcription factors in abiotic stress and epigenetic control of stress response in plant genome.

Authors:  Sujit Roy
Journal:  Plant Signal Behav       Date:  2016

2.  Dicer-independent RNA-directed DNA methylation in Arabidopsis.

Authors:  Dong-Lei Yang; Guiping Zhang; Kai Tang; Jingwen Li; Lan Yang; Huan Huang; Heng Zhang; Jian-Kang Zhu
Journal:  Cell Res       Date:  2015-12-08       Impact factor: 25.617

Review 3.  Regulation of maintenance DNA methylation via histone ubiquitylation.

Authors:  Atsuya Nishiyama; Luna Yamaguchi; Makoto Nakanishi
Journal:  J Biochem       Date:  2015-11-20       Impact factor: 3.387

Review 4.  Chemical probes in plant epigenetics studies.

Authors:  Huiming Zhang; Bangshing Wang; Cheng-Guo Duan; Jian-Kang Zhu
Journal:  Plant Signal Behav       Date:  2013-06-27

Review 5.  siRNA-mediated DNA methylation and H3K9 dimethylation in plants.

Authors:  Chi Xu; Jing Tian; Beixin Mo
Journal:  Protein Cell       Date:  2013-08-13       Impact factor: 14.870

6.  Seeing the forest for the trees: a wide perspective on RNA-directed DNA methylation.

Authors:  Huiming Zhang; Jian-Kang Zhu
Journal:  Genes Dev       Date:  2012-08-15       Impact factor: 11.361

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

Authors:  Wen-Feng Nie; Mingguang Lei; Mingxuan Zhang; Kai Tang; Huan Huang; Cuijun Zhang; Daisuke Miki; Pan Liu; Yu Yang; Xingang Wang; Heng Zhang; Zhaobo Lang; Na Liu; Xuechen Xu; Ramesh Yelagandula; Huiming Zhang; Zhidan Wang; Xiaoqiang Chai; Andrea Andreucci; Jing-Quan Yu; Frederic Berger; Rosa Lozano-Duran; Jian-Kang Zhu
Journal:  Proc Natl Acad Sci U S A       Date:  2019-07-30       Impact factor: 11.205

8.  What do you mean, "epigenetic"?

Authors:  Carrie Deans; Keith A Maggert
Journal:  Genetics       Date:  2015-04       Impact factor: 4.562

Review 9.  Stress-induced chromatin changes in plants: of memories, metabolites and crop improvement.

Authors:  Cécile Vriet; Lars Hennig; Christophe Laloi
Journal:  Cell Mol Life Sci       Date:  2015-01-13       Impact factor: 9.261

10.  Critical roles of DNA demethylation in the activation of ripening-induced genes and inhibition of ripening-repressed genes in tomato fruit.

Authors:  Zhaobo Lang; Yihai Wang; Kai Tang; Dengguo Tang; Tatsiana Datsenka; Jingfei Cheng; Yijing Zhang; Avtar K Handa; Jian-Kang Zhu
Journal:  Proc Natl Acad Sci U S A       Date:  2017-05-15       Impact factor: 11.205

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