Literature DB >> 27826841

N6-Methyladenine: A Conserved and Dynamic DNA Mark.

Zach Klapholz O'Brown1,2, Eric Lieberman Greer3,4.   

Abstract

Chromatin, consisting of deoxyribonucleic acid (DNA) wrapped around histone proteins, facilitates DNA compaction and allows identical DNA codes to confer many different cellular phenotypes. This biological versatility is accomplished in large part by posttranslational modifications to histones and chemical modifications to DNA. These modifications direct the cellular machinery to expand or compact specific chromatin regions and mark regions of the DNA as important for cellular functions. While each of the four bases that make up DNA can be modified (Iyer et al. 2011), this chapter will focus on methylation of the sixth position on adenines (6mA), as this modification has been poorly characterized in recently evolved eukaryotes, but shows promise as a new conserved layer of epigenetic regulation. 6mA was previously thought to be restricted to unicellular organisms, but recent work has revealed its presence in metazoa. Here, we will briefly describe the history of 6mA, examine its evolutionary conservation, and evaluate the current methods for detecting 6mA. We will discuss the enzymes that bind and regulate this mark and finally examine known and potential functions of 6mA in eukaryotes.

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Year:  2016        PMID: 27826841      PMCID: PMC5291743          DOI: 10.1007/978-3-319-43624-1_10

Source DB:  PubMed          Journal:  Adv Exp Med Biol        ISSN: 0065-2598            Impact factor:   2.622


  205 in total

1.  Structure of the N6-adenine DNA methyltransferase M.TaqI in complex with DNA and a cofactor analog.

Authors:  K Goedecke; M Pignot; R S Goody; A J Scheidig; E Weinhold
Journal:  Nat Struct Biol       Date:  2001-02

2.  Transcriptional activation mediated by binding of a plant GATA-type zinc finger protein AGP1 to the AG-motif (AGATCCAA) of the wound-inducible Myb gene NtMyb2.

Authors:  Kazuhiko Sugimoto; Shin Takeda; Hirohiko Hirochika
Journal:  Plant J       Date:  2003-11       Impact factor: 6.417

3.  A DNA methylation ratchet governs progression through a bacterial cell cycle.

Authors:  Justine Collier; Harley H McAdams; Lucy Shapiro
Journal:  Proc Natl Acad Sci U S A       Date:  2007-10-17       Impact factor: 11.205

4.  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

5.  N(6)-methyladenosine Modulates Messenger RNA Translation Efficiency.

Authors:  Xiao Wang; Boxuan Simen Zhao; Ian A Roundtree; Zhike Lu; Dali Han; Honghui Ma; Xiaocheng Weng; Kai Chen; Hailing Shi; Chuan He
Journal:  Cell       Date:  2015-06-04       Impact factor: 41.582

6.  A glycosylated liver-specific transcription factor stimulates transcription of the albumin gene.

Authors:  S Lichtsteiner; U Schibler
Journal:  Cell       Date:  1989-06-30       Impact factor: 41.582

7.  DNA methylation of viruses infecting a eukaryotic Chlorella-like green alga.

Authors:  J L Van Etten; A M Schuster; L Girton; D E Burbank; D Swinton; S Hattman
Journal:  Nucleic Acids Res       Date:  1985-05-24       Impact factor: 16.971

8.  Clonal inheritance of the pattern of DNA methylation in mouse cells.

Authors:  R Stein; Y Gruenbaum; Y Pollack; A Razin; H Cedar
Journal:  Proc Natl Acad Sci U S A       Date:  1982-01       Impact factor: 11.205

9.  Macronuclear DNA of the hypotrichous ciliate Oxytricha fallax.

Authors:  P M Rae; B B Spear
Journal:  Proc Natl Acad Sci U S A       Date:  1978-10       Impact factor: 11.205

10.  Dam methylation participates in the regulation of PmrA/PmrB and RcsC/RcsD/RcsB two component regulatory systems in Salmonella enterica serovar Enteritidis.

Authors:  Sebastián Hernán Sarnacki; María del Rosario Aya Castañeda; Mariángeles Noto Llana; Mónica Nancy Giacomodonato; Miguel Ángel Valvano; María Cristina Cerquetti
Journal:  PLoS One       Date:  2013-02-13       Impact factor: 3.240

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  23 in total

1.  N6-methyladenine DNA Modification in Glioblastoma.

Authors:  Qi Xie; Tao P Wu; Ryan C Gimple; Zheng Li; Briana C Prager; Qiulian Wu; Yang Yu; Pengcheng Wang; Yinsheng Wang; David U Gorkin; Cheng Zhang; Alexis V Dowiak; Kaixuan Lin; Chun Zeng; Yinghui Sui; Leo J Y Kim; Tyler E Miller; Li Jiang; Christine H Lee; Zhi Huang; Xiaoguang Fang; Kui Zhai; Stephen C Mack; Maike Sander; Shideng Bao; Amber E Kerstetter-Fogle; Andrew E Sloan; Andrew Z Xiao; Jeremy N Rich
Journal:  Cell       Date:  2018-11-01       Impact factor: 41.582

2.  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

3.  Engineering Epigenetic Regulation Using Synthetic Read-Write Modules.

Authors:  Minhee Park; Nikit Patel; Albert J Keung; Ahmad S Khalil
Journal:  Cell       Date:  2018-12-06       Impact factor: 41.582

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

Authors:  Guan-Zheng Luo; Chuan He
Journal:  Nat Struct Mol Biol       Date:  2017-06-06       Impact factor: 15.369

Review 5.  Means, mechanisms and consequences of adenine methylation in DNA.

Authors:  Konstantinos Boulias; Eric Lieberman Greer
Journal:  Nat Rev Genet       Date:  2022-03-07       Impact factor: 59.581

6.  Effects of Gut Microbiome on Carcinogenic DNA Damage.

Authors:  Yun-Chung Hsiao; Chih-Wei Liu; Liang Chi; Yifei Yang; Kun Lu
Journal:  Chem Res Toxicol       Date:  2020-07-31       Impact factor: 3.739

7.  i6mA-Fuse: improved and robust prediction of DNA 6 mA sites in the Rosaceae genome by fusing multiple feature representation.

Authors:  Md Mehedi Hasan; Balachandran Manavalan; Watshara Shoombuatong; Mst Shamima Khatun; Hiroyuki Kurata
Journal:  Plant Mol Biol       Date:  2020-03-05       Impact factor: 4.076

Review 8.  Regulation of transposable elements by DNA modifications.

Authors:  Özgen Deniz; Jennifer M Frost; Miguel R Branco
Journal:  Nat Rev Genet       Date:  2019-07       Impact factor: 53.242

Review 9.  A Lexicon of DNA Modifications: Their Roles in Embryo Development and the Germline.

Authors:  Qifan Zhu; Reinhard Stöger; Ramiro Alberio
Journal:  Front Cell Dev Biol       Date:  2018-03-27

10.  Genome-wide expert annotation of the epigenetic machinery of the plant-parasitic nematodes Meloidogyne spp., with a focus on the asexually reproducing species.

Authors:  Loris Pratx; Corinne Rancurel; Martine Da Rocha; Etienne G J Danchin; Philippe Castagnone-Sereno; Pierre Abad; Laetitia Perfus-Barbeoch
Journal:  BMC Genomics       Date:  2018-05-03       Impact factor: 3.969

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