Literature DB >> 27501078

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

Alexander C Drohat1, Christopher T Coey1.   

Abstract

Base excision repair (BER) is one of several DNA repair pathways found in all three domains of life. BER counters the mutagenic and cytotoxic effects of damage that occurs continuously to the nitrogenous bases in DNA, and its critical role in maintaining genomic integrity is well established. However, BER also performs essential functions in processes other than DNA repair, where it acts on natn class="Chemical">urally modified bases in DNA. A prominent example is the central role of BER in mediating active DNA demethylation, a multistep process that erases the epigenetic mark 5-methylcytosine (5mC), and derivatives thereof, converting them back to cytosine. Herein, we review recent advances in the understanding of how BER mediates this critical component of epigenetic regulation in plants and animals.

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Year:  2016        PMID: 27501078      PMCID: PMC5299066          DOI: 10.1021/acs.chemrev.6b00191

Source DB:  PubMed          Journal:  Chem Rev        ISSN: 0009-2665            Impact factor:   60.622


  195 in total

Review 1.  Base-excision repair of oxidative DNA damage.

Authors:  Sheila S David; Valerie L O'Shea; Sucharita Kundu
Journal:  Nature       Date:  2007-06-21       Impact factor: 49.962

2.  Human thymine DNA glycosylase binds to apurinic sites in DNA but is displaced by human apurinic endonuclease 1.

Authors:  T R Waters; P Gallinari; J Jiricny; P F Swann
Journal:  J Biol Chem       Date:  1999-01-01       Impact factor: 5.157

Review 3.  Base excision repair.

Authors:  Hans E Krokan; Magnar Bjørås
Journal:  Cold Spring Harb Perspect Biol       Date:  2013-04-01       Impact factor: 10.005

4.  Separation-of-function mutants unravel the dual-reaction mode of human 8-oxoguanine DNA glycosylase.

Authors:  Bjørn Dalhus; Monika Forsbring; Ina Høydal Helle; Erik Sebastian Vik; Rune Johansen Forstrøm; Paul Hoff Backe; Ingrun Alseth; Magnar Bjørås
Journal:  Structure       Date:  2011-01-12       Impact factor: 5.006

Review 5.  Reading the unique DNA methylation landscape of the brain: Non-CpG methylation, hydroxymethylation, and MeCP2.

Authors:  Benyam Kinde; Harrison W Gabel; Caitlin S Gilbert; Eric C Griffith; Michael E Greenberg
Journal:  Proc Natl Acad Sci U S A       Date:  2015-03-04       Impact factor: 11.205

6.  Dependence of substrate binding and catalysis on pH, ionic strength, and temperature for thymine DNA glycosylase: Insights into recognition and processing of G·T mispairs.

Authors:  Atanu Maiti; Alexander C Drohat
Journal:  DNA Repair (Amst)       Date:  2011-04-06

7.  Uracil-DNA glycosylase acts by substrate autocatalysis.

Authors:  A R Dinner; G M Blackburn; M Karplus
Journal:  Nature       Date:  2001-10-18       Impact factor: 49.962

8.  Fe(II)/alpha-ketoglutarate hydroxylases involved in nucleobase, nucleoside, nucleotide, and chromatin metabolism.

Authors:  Jana M Simmons; Tina A Müller; Robert P Hausinger
Journal:  Dalton Trans       Date:  2008-06-27       Impact factor: 4.390

9.  Activation-induced cytidine deaminase deaminates 5-methylcytosine in DNA and is expressed in pluripotent tissues: implications for epigenetic reprogramming.

Authors:  Hugh D Morgan; Wendy Dean; Heather A Coker; Wolf Reik; Svend K Petersen-Mahrt
Journal:  J Biol Chem       Date:  2004-09-24       Impact factor: 5.157

10.  5-halogenated pyrimidine lesions within a CpG sequence context mimic 5-methylcytosine by enhancing the binding of the methyl-CpG-binding domain of methyl-CpG-binding protein 2 (MeCP2).

Authors:  Victoria Valinluck; Pingfang Liu; Joseph I Kang; Artur Burdzy; Lawrence C Sowers
Journal:  Nucleic Acids Res       Date:  2005-05-25       Impact factor: 16.971

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  29 in total

1.  Comparison of DNA and RNA substrate effects on TET2 structure.

Authors:  Emmett M Leddin; G Andrés Cisneros
Journal:  Adv Protein Chem Struct Biol       Date:  2019-06-11       Impact factor: 3.507

Review 2.  Repair of oxidatively induced DNA damage by DNA glycosylases: Mechanisms of action, substrate specificities and excision kinetics.

Authors:  Miral Dizdaroglu; Erdem Coskun; Pawel Jaruga
Journal:  Mutat Res Rev Mutat Res       Date:  2017-02-16       Impact factor: 5.657

3.  APURINIC/APYRIMIDINIC ENDONUCLEASE2 and ZINC FINGER DNA 3'-PHOSPHOESTERASE Play Overlapping Roles in the Maintenance of Epigenome and Genome Stability.

Authors:  Jinchao Li; Wenjie Liang; Yan Li; Weiqiang Qian
Journal:  Plant Cell       Date:  2018-08-22       Impact factor: 11.277

4.  Excision of 5-Carboxylcytosine by Thymine DNA Glycosylase.

Authors:  Lakshmi S Pidugu; Qing Dai; Shuja S Malik; Edwin Pozharski; Alexander C Drohat
Journal:  J Am Chem Soc       Date:  2019-11-18       Impact factor: 15.419

5.  Defining the Role of Nucleotide Flipping in Enzyme Specificity Using 19F NMR.

Authors:  Blaine J Dow; Shuja S Malik; Alexander C Drohat
Journal:  J Am Chem Soc       Date:  2019-03-14       Impact factor: 15.419

6.  5-Carboxylcytosine and Cytosine Protonation Distinctly Alter the Stability and Dehybridization Dynamics of the DNA Duplex.

Authors:  Brennan Ashwood; Paul J Sanstead; Qing Dai; Chuan He; Andrei Tokmakoff
Journal:  J Phys Chem B       Date:  2020-01-14       Impact factor: 2.991

7.  Dynamics of the excised base release in thymine DNA glycosylase during DNA repair process.

Authors:  Lin-Tai Da; Yi Shi; Guodong Ning; Jin Yu
Journal:  Nucleic Acids Res       Date:  2018-01-25       Impact factor: 16.971

8.  Defining the impact of sumoylation on substrate binding and catalysis by thymine DNA glycosylase.

Authors:  Christopher T Coey; Alexander C Drohat
Journal:  Nucleic Acids Res       Date:  2018-06-01       Impact factor: 16.971

9.  Base-flipping dynamics from an intrahelical to an extrahelical state exerted by thymine DNA glycosylase during DNA repair process.

Authors:  Lin-Tai Da; Jin Yu
Journal:  Nucleic Acids Res       Date:  2018-06-20       Impact factor: 16.971

Review 10.  Harnessing natural DNA modifying activities for editing of the genome and epigenome.

Authors:  Jamie E DeNizio; Emily K Schutsky; Kiara N Berrios; Monica Yun Liu; Rahul M Kohli
Journal:  Curr Opin Chem Biol       Date:  2018-02-13       Impact factor: 8.822

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