Literature DB >> 23284047

DNA repair by reversal of DNA damage.

Chengqi Yi1, Chuan He.   

Abstract

Endogenous and exogenous factors constantly challenge cellular DNA, generating cytotoxic and/or mutagenic DNA adducts. As a result, organisms have evolved different mechanisms to defend against the deleterious effects of DNA damage. Among these diverse repair pathways, direct DNA-repair systems provide cells with simple yet efficient solutions to reverse covalent DNA adducts. In this review, we focus on recent advances in the field of direct DNA repair, namely, photolyase-, alkyltransferase-, and dioxygenase-mediated repair processes. We present specific examples to describe new findings of known enzymes and appealing discoveries of new proteins. At the end of this article, we also briefly discuss the influence of direct DNA repair on other fields of biology and its implication on the discovery of new biology.

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Year:  2013        PMID: 23284047      PMCID: PMC3579392          DOI: 10.1101/cshperspect.a012575

Source DB:  PubMed          Journal:  Cold Spring Harb Perspect Biol        ISSN: 1943-0264            Impact factor:   10.005


  140 in total

1.  Crystal structure and RNA binding properties of the RNA recognition motif (RRM) and AlkB domains in human AlkB homolog 8 (ABH8), an enzyme catalyzing tRNA hypermodification.

Authors:  Chiara Pastore; Irini Topalidou; Farhad Forouhar; Amy C Yan; Matthew Levy; John F Hunt
Journal:  J Biol Chem       Date:  2011-11-07       Impact factor: 5.157

2.  Alkbh2 protects against lethality and mutation in primary mouse embryonic fibroblasts.

Authors:  Stephanie L Nay; Dong-Hyun Lee; Steven E Bates; Timothy R O'Connor
Journal:  DNA Repair (Amst)       Date:  2012-03-17

3.  The Schizosaccharomyces pombe AlkB homolog Abh1 exhibits AP lyase activity but no demethylase activity.

Authors:  Hanne Korvald; Pål Ø Falnes; Jon K Laerdahl; Magnar Bjørås; Ingrun Alseth
Journal:  DNA Repair (Amst)       Date:  2012-02-23

Review 4.  Mechanisms and functions of Tet protein-mediated 5-methylcytosine oxidation.

Authors:  Hao Wu; Yi Zhang
Journal:  Genes Dev       Date:  2011-12-01       Impact factor: 11.361

Review 5.  Balancing repair and tolerance of DNA damage caused by alkylating agents.

Authors:  Dragony Fu; Jennifer A Calvo; Leona D Samson
Journal:  Nat Rev Cancer       Date:  2012-01-12       Impact factor: 60.716

6.  anti-tumor effect of AlkB homolog 3 knockdown in hormone- independent prostate cancer cells.

Authors:  K Koike; Y Ueda; H Hase; K Kitae; Y Fusamae; S Masai; T Inagaki; Y Saigo; S Hirasawa; K Nakajima; I Ohshio; Y Makino; N Konishi; H Yamamoto; K Tsujikawa
Journal:  Curr Cancer Drug Targets       Date:  2012-09       Impact factor: 3.428

7.  Eukaryotic class II cyclobutane pyrimidine dimer photolyase structure reveals basis for improved ultraviolet tolerance in plants.

Authors:  Kenichi Hitomi; Andrew S Arvai; Junpei Yamamoto; Chiharu Hitomi; Mika Teranishi; Tokuhisa Hirouchi; Kazuo Yamamoto; Shigenori Iwai; John A Tainer; Jun Hidema; Elizabeth D Getzoff
Journal:  J Biol Chem       Date:  2011-12-14       Impact factor: 5.157

8.  The DNA dioxygenase ALKBH2 protects Arabidopsis thaliana against methylation damage.

Authors:  Trine J Meza; Marivi N Moen; Cathrine B Vågbø; Hans E Krokan; Arne Klungland; Paul E Grini; Pål Ø Falnes
Journal:  Nucleic Acids Res       Date:  2012-04-24       Impact factor: 16.971

9.  Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA.

Authors:  Liang Zhang; Xingyu Lu; Junyan Lu; Haihua Liang; Qing Dai; Guo-Liang Xu; Cheng Luo; Hualiang Jiang; Chuan He
Journal:  Nat Chem Biol       Date:  2012-02-12       Impact factor: 15.040

10.  Duplex interrogation by a direct DNA repair protein in search of base damage.

Authors:  Chengqi Yi; Baoen Chen; Bo Qi; Wen Zhang; Guifang Jia; Liang Zhang; Charles J Li; Aaron R Dinner; Cai-Guang Yang; Chuan He
Journal:  Nat Struct Mol Biol       Date:  2012-06-03       Impact factor: 15.369

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  50 in total

Review 1.  A role for the base excision repair enzyme NEIL3 in replication-dependent repair of interstrand DNA cross-links derived from psoralen and abasic sites.

Authors:  Zhiyu Yang; Maryam Imani Nejad; Jacqueline Gamboa Varela; Nathan E Price; Yinsheng Wang; Kent S Gates
Journal:  DNA Repair (Amst)       Date:  2017-02-20

2.  Adaptive Response Enzyme AlkB Preferentially Repairs 1-Methylguanine and 3-Methylthymine Adducts in Double-Stranded DNA.

Authors:  Fangyi Chen; Qi Tang; Ke Bian; Zachary T Humulock; Xuedong Yang; Marco Jost; Catherine L Drennan; John M Essigmann; Deyu Li
Journal:  Chem Res Toxicol       Date:  2016-03-15       Impact factor: 3.739

3.  DNA Methylation on N6-Adenine in C. elegans.

Authors:  Eric Lieberman Greer; Mario Andres Blanco; Lei Gu; Erdem Sendinc; Jianzhao Liu; David Aristizábal-Corrales; Chih-Hung Hsu; L Aravind; Chuan He; Yang Shi
Journal:  Cell       Date:  2015-04-30       Impact factor: 41.582

4.  Composition, roles, and regulation of cullin-based ubiquitin e3 ligases.

Authors:  Christina M Choi; William M Gray; Sutton Mooney; Hanjo Hellmann
Journal:  Arabidopsis Book       Date:  2014-11-17

Review 5.  Obesity and cancer: A mechanistic overview of metabolic changes in obesity that impact genetic instability.

Authors:  Pallavi Kompella; Karen M Vasquez
Journal:  Mol Carcinog       Date:  2019-06-05       Impact factor: 4.784

Review 6.  Mechanisms of DNA damage, repair, and mutagenesis.

Authors:  Nimrat Chatterjee; Graham C Walker
Journal:  Environ Mol Mutagen       Date:  2017-05-09       Impact factor: 3.216

Review 7.  Mechanism and function of oxidative reversal of DNA and RNA methylation.

Authors:  Li Shen; Chun-Xiao Song; Chuan He; Yi Zhang
Journal:  Annu Rev Biochem       Date:  2014       Impact factor: 23.643

Review 8.  Oxidative stress and DNA damage after cerebral ischemia: Potential therapeutic targets to repair the genome and improve stroke recovery.

Authors:  Peiying Li; R Anne Stetler; Rehana K Leak; Yejie Shi; Yan Li; Weifeng Yu; Michael V L Bennett; Jun Chen
Journal:  Neuropharmacology       Date:  2017-11-08       Impact factor: 5.250

9.  Differential expression profile analysis of DNA damage repair genes in CD133+/CD133- colorectal cancer cells.

Authors:  Yuhong Lu; Xin Zhou; Qingliang Zeng; Daishun Liu; Changwu Yue
Journal:  Oncol Lett       Date:  2017-06-19       Impact factor: 2.967

Review 10.  The AlkB Family of Fe(II)/α-Ketoglutarate-dependent Dioxygenases: Repairing Nucleic Acid Alkylation Damage and Beyond.

Authors:  Bogdan I Fedeles; Vipender Singh; James C Delaney; Deyu Li; John M Essigmann
Journal:  J Biol Chem       Date:  2015-07-07       Impact factor: 5.157

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