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Literature DB >> 28586322

DNA N⁶-methyladenine in metazoans: functional epigenetic mark or bystander?

Abstract

The DNA-adenine modification N6-methyladenine (6mA), initially thought to be mainly restricted to prokaryotes and certain unicellular eukaryotes, has recently been found in metazoans. Proposed functions vary from gene activation to transposon suppression. However, since most metazoan genomes possess 5-methylcytosine (5mC) as a dominant epigenetic mark, it raises the question of why 6mA is required. This Perspective summarizes the latest discoveries and suggests potential functional roles for 6mA in metazoan genomes.

Entities: Chemical Gene

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Year: 2017 PMID： 28586322 DOI： 10.1038/nsmb.3412

Source DB: PubMed Journal: Nat Struct Mol Biol ISSN： 1545-9985 Impact factor: 15.369

44 in total

1. Conservation and divergence of methylation patterning in plants and animals.

Authors: Suhua Feng; Shawn J Cokus; Xiaoyu Zhang; Pao-Yang Chen; Magnolia Bostick; Mary G Goll; Jonathan Hetzel; Jayati Jain; Steven H Strauss; Marnie E Halpern; Chinweike Ukomadu; Kirsten C Sadler; Sriharsa Pradhan; Matteo Pellegrini; Steven E Jacobsen
Journal: Proc Natl Acad Sci U S A Date: 2010-04-15 Impact factor: 11.205

2. Maintenance of self-renewal ability of mouse embryonic stem cells in the absence of DNA methyltransferases Dnmt1, Dnmt3a and Dnmt3b.

Authors: Akiko Tsumura; Tomohiro Hayakawa; Yuichi Kumaki; Shin-ichiro Takebayashi; Morito Sakaue; Chisa Matsuoka; Kunitada Shimotohno; Fuyuki Ishikawa; En Li; Hiroki R Ueda; Jun-ichi Nakayama; Masaki Okano
Journal: Genes Cells Date: 2006-07 Impact factor: 1.891

Review 3. An Adenine Code for DNA: A Second Life for N6-Methyladenine.

Authors: Holger Heyn; Manel Esteller
Journal: Cell Date: 2015-04-30 Impact factor: 41.582

4. N6-methyldeoxyadenosine marks active transcription start sites in Chlamydomonas.

Authors: Ye Fu; Guan-Zheng Luo; Kai Chen; Xin Deng; Miao Yu; Dali Han; Ziyang Hao; Jianzhao Liu; Xingyu Lu; Louis C Dore; Xiaocheng Weng; Quanjiang Ji; Laurens Mets; Chuan He
Journal: Cell Date: 2015-04-30 Impact factor: 41.582

5. N6-methyladenine DNA modification in Drosophila.

Authors: Guoqiang Zhang; Hua Huang; Di Liu; Ying Cheng; Xiaoling Liu; Wenxin Zhang; Ruichuan Yin; Dapeng Zhang; Peng Zhang; Jianzhao Liu; Chaoyi Li; Baodong Liu; Yuewan Luo; Yuanxiang Zhu; Ning Zhang; Shunmin He; Chuan He; Hailin Wang; Dahua Chen
Journal: Cell Date: 2015-04-30 Impact factor: 41.582

Review 6. Damage to DNA by reactive oxygen and nitrogen species: role in inflammatory disease and progression to cancer.

Authors: H Wiseman; B Halliwell
Journal: Biochem J Date: 1996-01-01 Impact factor: 3.857

Review 7. Epigenetics in C. elegans: facts and challenges.

Authors: Dirk Wenzel; Francesca Palladino; Monika Jedrusik-Bode
Journal: Genesis Date: 2011-07-22 Impact factor: 2.487

8. Quantitative LC-MS Provides No Evidence for m⁶ dA or m⁴ dC in the Genome of Mouse Embryonic Stem Cells and Tissues.

Authors: Sarah Schiffers; Charlotte Ebert; René Rahimoff; Olesea Kosmatchev; Jessica Steinbacher; Alexandra-Viola Bohne; Fabio Spada; Stylianos Michalakis; Jörg Nickelsen; Markus Müller; Thomas Carell
Journal: Angew Chem Int Ed Engl Date: 2017-03-30 Impact factor: 15.336

9. ALKBH5 is a mammalian RNA demethylase that impacts RNA metabolism and mouse fertility.

Authors: Guanqun Zheng; John Arne Dahl; Yamei Niu; Peter Fedorcsak; Chun-Min Huang; Charles J Li; Cathrine B Vågbø; Yue Shi; Wen-Ling Wang; Shu-Hui Song; Zhike Lu; Ralph P G Bosmans; Qing Dai; Ya-Juan Hao; Xin Yang; Wen-Ming Zhao; Wei-Min Tong; Xiu-Jie Wang; Florian Bogdan; Kari Furu; Ye Fu; Guifang Jia; Xu Zhao; Jun Liu; Hans E Krokan; Arne Klungland; Yun-Gui Yang; Chuan He
Journal: Mol Cell Date: 2012-11-21 Impact factor: 17.970

10. ( 6 N)methyl adenine in the nuclear DNA of a eucaryote, Tetrahymena pyriformis.

Authors: M A Gorovsky; S Hattman; G L Pleger
Journal: J Cell Biol Date: 1973-03 Impact factor: 10.539

23 in total

1. A reassessment of DNA-immunoprecipitation-based genomic profiling.

Authors: Antonio Lentini; Cathrine Lagerwall; Svante Vikingsson; Heidi K Mjoseng; Karolos Douvlataniotis; Hartmut Vogt; Henrik Green; Richard R Meehan; Mikael Benson; Colm E Nestor
Journal: Nat Methods Date: 2018-06-25 Impact factor: 28.547

2. Excision of the doubly methylated base N⁴,5-dimethylcytosine from DNA by Escherichia coli Nei and Fpg proteins.

Authors: Marina Alexeeva; Prashanna Guragain; Almaz N Tesfahun; Miglė Tomkuvienė; Aysha Arshad; Rūta Gerasimaitė; Audronė Rukšėnaitė; Giedrė Urbanavičiūtė; Magnar Bjørås; Jon K Laerdahl; Arne Klungland; Saulius Klimašauskas; Svein Bjelland
Journal: Philos Trans R Soc Lond B Biol Sci Date: 2018-06-05 Impact factor: 6.237

3. Epigenetic DNA Modification N⁶-Methyladenine Causes Site-Specific RNA Polymerase II Transcriptional Pausing.

Authors: Wei Wang; Liang Xu; Lulu Hu; Jenny Chong; Chuan He; Dong Wang
Journal: J Am Chem Soc Date: 2017-10-03 Impact factor: 15.419

Review 4. Deciphering bacterial epigenomes using modern sequencing technologies.

Authors: John Beaulaurier; Eric E Schadt; Gang Fang
Journal: Nat Rev Genet Date: 2019-03 Impact factor: 53.242

Review 5. DNA N⁶-methyldeoxyadenosine in mammals and human disease.

Authors: Chao Shen; Kitty Wang; Xiaolan Deng; Jianjun Chen
Journal: Trends Genet Date: 2022-01-03 Impact factor: 11.639

6. N⁶-Deoxyadenosine Methylation in Mammalian Mitochondrial DNA.

Authors: Ziyang Hao; Tong Wu; Xiaolong Cui; Pingping Zhu; Caiping Tan; Xiaoyang Dou; Kai-Wen Hsu; Yueh-Te Lin; Pei-Hua Peng; Li-Sheng Zhang; Yawei Gao; Lulu Hu; Hui-Lung Sun; Allen Zhu; Jianzhao Liu; Kou-Juey Wu; Chuan He
Journal: Mol Cell Date: 2020-03-16 Impact factor: 17.970

7. The structure of the Thermococcus gammatolerans McrB N-terminal domain reveals a new mode of substrate recognition and specificity among McrB homologs.

Authors: Christopher J Hosford; Anthony Q Bui; Joshua S Chappie
Journal: J Biol Chem Date: 2019-12-10 Impact factor: 5.157

DNA N⁶-methyladenine in metazoans: functional epigenetic mark or bystander?

1. Conservation and divergence of methylation patterning in plants and animals.

2. Maintenance of self-renewal ability of mouse embryonic stem cells in the absence of DNA methyltransferases Dnmt1, Dnmt3a and Dnmt3b.

Review 3. An Adenine Code for DNA: A Second Life for N6-Methyladenine.

4. N6-methyldeoxyadenosine marks active transcription start sites in Chlamydomonas.

5. N6-methyladenine DNA modification in Drosophila.

Review 6. Damage to DNA by reactive oxygen and nitrogen species: role in inflammatory disease and progression to cancer.

Review 7. Epigenetics in C. elegans: facts and challenges.

8. Quantitative LC-MS Provides No Evidence for m⁶ dA or m⁴ dC in the Genome of Mouse Embryonic Stem Cells and Tissues.

9. ALKBH5 is a mammalian RNA demethylase that impacts RNA metabolism and mouse fertility.

10. ( 6 N)methyl adenine in the nuclear DNA of a eucaryote, Tetrahymena pyriformis.

1. A reassessment of DNA-immunoprecipitation-based genomic profiling.

2. Excision of the doubly methylated base N⁴,5-dimethylcytosine from DNA by Escherichia coli Nei and Fpg proteins.

3. Epigenetic DNA Modification N⁶-Methyladenine Causes Site-Specific RNA Polymerase II Transcriptional Pausing.

Review 4. Deciphering bacterial epigenomes using modern sequencing technologies.

Review 5. DNA N⁶-methyldeoxyadenosine in mammals and human disease.

6. N⁶-Deoxyadenosine Methylation in Mammalian Mitochondrial DNA.

7. The structure of the Thermococcus gammatolerans McrB N-terminal domain reveals a new mode of substrate recognition and specificity among McrB homologs.

Review 8. Regulation of transposable elements by DNA modifications.

Review 9. Dynamic DNA methylation: In the right place at the right time.

10. Profiling Protein-DNA Interactions Cell-Type-Specifically with Targeted DamID.

Review 3. An Adenine Code for DNA: A Second Life for N6-Methyladenine.

Review 6. Damage to DNA by reactive oxygen and nitrogen species: role in inflammatory disease and progression to cancer.

Review 7. Epigenetics in C. elegans: facts and challenges.

Review 4. Deciphering bacterial epigenomes using modern sequencing technologies.

Review 5. DNA N6-methyldeoxyadenosine in mammals and human disease.

Review 8. Regulation of transposable elements by DNA modifications.

Review 9. Dynamic DNA methylation: In the right place at the right time.

Review 5. DNA N⁶-methyldeoxyadenosine in mammals and human disease.