Literature DB >> 23197304

Active DNA demethylation in plants and animals.

H Zhang1, J-K Zhu.   

Abstract

Active DNA demethylation regulates many vital biological processes, including early development and locus-specific gene expression in plants and animals. In Arabidopsis, bifunctional DNA glycosylases directly excise the 5-methylcytosine base and then cleave the DNA backbone at the abasic site. Recent evidence suggests that mammals utilize DNA glycosylases after 5-methylcytosine is oxidized and/or deaminated. In both cases, the resultant single-nucleotide gap is subsequently filled with an unmodified cytosine through the DNA base excision repair pathway. The enzymatic removal of 5-methylcytosine is tightly integrated with histone modifications and possibly noncoding RNAs. Future research will increase our understanding of the mechanisms and critical roles of active DNA demethylation in various cellular processes as well as inspire novel genetic and chemical therapies for epigenetic disorders.

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Year:  2012        PMID: 23197304      PMCID: PMC3657592          DOI: 10.1101/sqb.2012.77.014936

Source DB:  PubMed          Journal:  Cold Spring Harb Symp Quant Biol        ISSN: 0091-7451


  113 in total

1.  DEMETER and REPRESSOR OF SILENCING 1 encode 5-methylcytosine DNA glycosylases.

Authors:  Teresa Morales-Ruiz; Ana Pilar Ortega-Galisteo; María Isabel Ponferrada-Marín; María Isabel Martínez-Macías; Rafael R Ariza; Teresa Roldán-Arjona
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-19       Impact factor: 11.205

2.  Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis.

Authors:  Xiaoyu Zhang; Junshi Yazaki; Ambika Sundaresan; Shawn Cokus; Simon W-L Chan; Huaming Chen; Ian R Henderson; Paul Shinn; Matteo Pellegrini; Steve E Jacobsen; Joseph R Ecker
Journal:  Cell       Date:  2006-08-31       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

4.  Endogenous targets of RNA-directed DNA methylation and Pol IV in Arabidopsis.

Authors:  Bruno Huettel; Tatsuo Kanno; Lucia Daxinger; Werner Aufsatz; Antonius J M Matzke; Marjori Matzke
Journal:  EMBO J       Date:  2006-05-25       Impact factor: 11.598

Review 5.  Epigenetic inheritance in plants.

Authors:  Ian R Henderson; Steven E Jacobsen
Journal:  Nature       Date:  2007-05-24       Impact factor: 49.962

6.  PGC7/Stella protects against DNA demethylation in early embryogenesis.

Authors:  Toshinobu Nakamura; Yoshikazu Arai; Hiroki Umehara; Masaaki Masuhara; Tohru Kimura; Hisaaki Taniguchi; Toshihiro Sekimoto; Masahito Ikawa; Yoshihiro Yoneda; Masaru Okabe; Satoshi Tanaka; Kunio Shiota; Toru Nakano
Journal:  Nat Cell Biol       Date:  2006-12-03       Impact factor: 28.824

7.  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

Review 8.  Nuclear reprogramming of cloned embryos and its implications for therapeutic cloning.

Authors:  Xiangzhong Yang; Sadie L Smith; X Cindy Tian; Harris A Lewin; Jean-Paul Renard; Teruhiko Wakayama
Journal:  Nat Genet       Date:  2007-03       Impact factor: 38.330

9.  Role of the Arabidopsis DNA glycosylase/lyase ROS1 in active DNA demethylation.

Authors:  Fernanda Agius; Avnish Kapoor; Jian-Kang Zhu
Journal:  Proc Natl Acad Sci U S A       Date:  2006-07-24       Impact factor: 11.205

10.  Endogenous cytosine damage products alter the site selectivity of human DNA maintenance methyltransferase DNMT1.

Authors:  Victoria Valinluck; Lawrence C Sowers
Journal:  Cancer Res       Date:  2007-02-01       Impact factor: 12.701

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  54 in total

Review 1.  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

2.  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

3.  Heritable Epigenomic Changes to the Maize Methylome Resulting from Tissue Culture.

Authors:  Zhaoxue Han; Peter A Crisp; Scott Stelpflug; Shawn M Kaeppler; Qing Li; Nathan M Springer
Journal:  Genetics       Date:  2018-05-30       Impact factor: 4.562

Review 4.  RNA-directed DNA methylation: an epigenetic pathway of increasing complexity.

Authors:  Marjori A Matzke; Rebecca A Mosher
Journal:  Nat Rev Genet       Date:  2014-05-08       Impact factor: 53.242

Review 5.  Epigenetics: Beyond Chromatin Modifications and Complex Genetic Regulation.

Authors:  Steven R Eichten; Robert J Schmitz; Nathan M Springer
Journal:  Plant Physiol       Date:  2014-05-28       Impact factor: 8.340

Review 6.  Gene activation and cell fate control in plants: a chromatin perspective.

Authors:  Julia Engelhorn; Robert Blanvillain; Cristel C Carles
Journal:  Cell Mol Life Sci       Date:  2014-04-09       Impact factor: 9.261

7.  Methylation interactions in Arabidopsis hybrids require RNA-directed DNA methylation and are influenced by genetic variation.

Authors:  Qingzhu Zhang; Dong Wang; Zhaobo Lang; Li He; Lan Yang; Liang Zeng; Yanqiang Li; Cheng Zhao; Huan Huang; Heng Zhang; Huiming Zhang; Jian-Kang Zhu
Journal:  Proc Natl Acad Sci U S A       Date:  2016-07-05       Impact factor: 11.205

8.  Characterization of DNA methyltransferase and demethylase genes in Fragaria vesca.

Authors:  Tingting Gu; Shuai Ren; Yuanhua Wang; Yuhui Han; Yi Li
Journal:  Mol Genet Genomics       Date:  2016-03-08       Impact factor: 3.291

9.  RNA-binding protein regulates plant DNA methylation by controlling mRNA processing at the intronic heterochromatin-containing gene IBM1.

Authors:  Xingang Wang; Cheng-Guo Duan; Kai Tang; Bangshing Wang; Huiming Zhang; Mingguang Lei; Kun Lu; Satendra K Mangrauthia; Pengcheng Wang; Guohui Zhu; Yang Zhao; Jian-Kang Zhu
Journal:  Proc Natl Acad Sci U S A       Date:  2013-09-03       Impact factor: 11.205

Review 10.  Role of Base Excision "Repair" Enzymes in Erasing Epigenetic Marks from DNA.

Authors:  Alexander C Drohat; Christopher T Coey
Journal:  Chem Rev       Date:  2016-08-08       Impact factor: 60.622

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