DNA Methyltransferases and DNA Damage.


Journal

Advances in experimental medicine and biology
ISSN: 0065-2598
Titre abrégé: Adv Exp Med Biol
Pays: United States
ID NLM: 0121103

Informations de publication

Date de publication:
2022
Historique:
entrez: 9 11 2022
pubmed: 10 11 2022
medline: 15 11 2022
Statut: ppublish

Résumé

Ever since the discovery of depletion of CG sites in mammalian genomes it has been clear that cytosine DNA methyltransferases (DNMTs) are linked to the rate at which mutations accumulate in DNA. Research in the intervening decades has shown that DNMTs influence mutation rates through the indirect consequences of methylation on the mechanism of mutation and the mechanisms for DNA repair. Additionally, recent studies have shown that DNA methyltransferases have the potential to directly introduce damage into DNA. Here, I will discuss both aspects of the connection between DNMTs and DNA damage, evaluating the potential consequences for evolution across species and in human diseases such as cancer where cellular evolution plays a key role.

Identifiants

pubmed: 36350517
doi: 10.1007/978-3-031-11454-0_14
doi:

Substances chimiques

DNA (Cytosine-5-)-Methyltransferases EC 2.1.1.37
DNA Modification Methylases EC 2.1.1.-
DNA 9007-49-2

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

349-361

Informations de copyright

© 2022. The Author(s), under exclusive license to Springer Nature Switzerland AG.

Références

Acharya S, Foster PL, Brooks P, Fishel R (2003) The coordinated functions of the E. coli MutS and MutL proteins in mismatch repair. Mol Cell 12(1):233–246. https://doi.org/10.1016/S1097-2765(03)00219-3
doi: 10.1016/S1097-2765(03)00219-3 pubmed: 12887908
Adhikari S, Curtis PD (2016) DNA methyltransferases and epigenetic regulation in bacteria. FEMS Microbiol Rev 40:575–591. https://doi.org/10.1093/femsre/fuw023
doi: 10.1093/femsre/fuw023 pubmed: 27476077
Alexandrov LB, Nik-Zainal S, Wedge DC, Aparicio SAJR, Behjati S, Biankin AV et al (2013) Signatures of mutational processes in human cancer. Nature 500(7463):415–421. https://doi.org/10.1038/nature12477
doi: 10.1038/nature12477 pubmed: 23945592 pmcid: 3776390
Amouroux R, Nashun B, Shirane K, Nakagawa S, Hill PWS, D’Souza Z et al (2016) De novo DNA methylation drives 5hmC accumulation in mouse zygotes. Nat Cell Biol 18(2):225–233. https://doi.org/10.1038/ncb3296
doi: 10.1038/ncb3296 pubmed: 26751286 pmcid: 4765106
Amselem J, Lebrun MH, Quesneville H (2015) Whole genome comparative analysis of transposable elements provides new insight into mechanisms of their inactivation in fungal genomes. BMC Genomics 16(1). https://doi.org/10.1186/s12864-015-1347-1
Andrianova MA, Bazykin GA, Nikolaev SI, Seplyarskiy VB (2017) Human mismatch repair system balances mutation rates between strands by removing more mismatches from the lagging strand. Genome Res. https://doi.org/10.1101/gr.219915.116
Aramayo R, Selker EU (2013) Neurospora crassa, a model system for epigenetics research. Cold Spring Harb Perspect Biol 5(10). https://doi.org/10.1101/cshperspect.a017921
Barau J, Teissandier A, Zamudio N, Roy S, Nalesso V, Hérault Y et al (2016) The DNA methyltransferase DNMT3C protects male germ cells from transposon activity. Science 354(6314):909–912. https://doi.org/10.1126/science.aah5143
doi: 10.1126/science.aah5143 pubmed: 27856912
Beh LY, Debelouchina GT, Clay DM, Thompson RE, Lindblad KA, Hutton ER et al (2019) Identification of a DNA N6-adenine methyltransferase complex and its impact on chromatin organization. Cell 177(7):1781–1796.e25. https://doi.org/10.1016/j.cell.2019.04.028
doi: 10.1016/j.cell.2019.04.028 pubmed: 31104845 pmcid: 6570567
Bellacosa A, Drohat AC (2015) Role of base excision repair in maintaining the genetic and epigenetic integrity of CpG sites. DNA Repair 32:33–42. https://doi.org/10.1016/j.dnarep.2015.04.011
doi: 10.1016/j.dnarep.2015.04.011 pubmed: 26021671 pmcid: 4903958
Bewick AJ, Vogel KJ, Moore AJ, Schmitz RJ (2017) Evolution of DNA methylation across insects. Mol Biol Evol 34(3):654–665. https://doi.org/10.1093/molbev/msw264
doi: 10.1093/molbev/msw264 pubmed: 28025279
Bird AP (1980) DNA methylation and the frequency of CpG in animal DNA. Nucleic Acids Res 8(7):1499–1504. https://doi.org/10.1093/nar/8.7.1499
doi: 10.1093/nar/8.7.1499 pubmed: 6253938 pmcid: 324012
Bochtler M, Fernandes H (2021) DNA adenine methylation in eukaryotes: enzymatic mark or a form of DNA damage? Bioessays 43. https://doi.org/10.1002/bies.202000243
Bourc’his D, Bestor TH (2004) Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3L. Nature 431:96–99. https://doi.org/10.1038/nature02886
doi: 10.1038/nature02886 pubmed: 15318244
Cannataro VL, Townsend JP (2018) Neutral theory and the somatic evolution of cancer. Mol Biol Evol 35(6):1308–1315. https://doi.org/10.1093/molbev/msy079
doi: 10.1093/molbev/msy079 pubmed: 29684198 pmcid: 5967571
Catania S, Dumesic PA, Pimentel H, Nasif A, Stoddard CI, Burke JE et al (2020) Evolutionary persistence of DNA methylation for millions of years after ancient loss of a de novo methyltransferase. Cell 180(2):263–277.e20. https://doi.org/10.1016/j.cell.2019.12.012
doi: 10.1016/j.cell.2019.12.012 pubmed: 31955845 pmcid: 7197499
Cheng X (1995) Structure and function of DNA methyl transferases. Annu Rev Biophys Biomol Struct 24:293–318. https://doi.org/10.1146/annurev.bb.24.060195.001453
doi: 10.1146/annurev.bb.24.060195.001453 pubmed: 7663118
Choi Y, Gehring M, Johnson L, Hannon M, Harada JJ, Goldberg RB et al (2002) DEMETER, a DNA glycosylase domain protein, is required for endosperm gene imprinting and seed viability in Arabidopsis. Cell 110(1):33–42. https://doi.org/10.1016/S0092-8674(02)00807-3
doi: 10.1016/S0092-8674(02)00807-3 pubmed: 12150995
Choi K, Zhao X, Kelly KA, Venn O, Higgins JD, Yelina NE et al (2013) Arabidopsis meiotic crossover hot spots overlap with H2A.Z nucleosomes at gene promoters. Nat Genet 45(11):1327–1338. https://doi.org/10.1038/ng.2766
doi: 10.1038/ng.2766 pubmed: 24056716
Choi K, Zhao X, Tock AJ, Lambing C, Underwood CJ, Hardcastle TJ et al (2018) Nucleosomes and DNA methylation shape meiotic DSB frequency in Arabidopsis thaliana transposons and gene regulatory regions. Genome Res 28(4):532–546. https://doi.org/10.1101/gr.225599.117
doi: 10.1101/gr.225599.117 pubmed: 29530928 pmcid: 5880243
Cohen NM, Kenigsberg E, Tanay A (2011) Primate CpG islands are maintained by heterogeneous evolutionary regimes involving minimal selection. Cell 145(5):773–786. https://doi.org/10.1016/j.cell.2011.04.024
doi: 10.1016/j.cell.2011.04.024 pubmed: 21620139
Cole F, Keeney S, Jasin M (2010) Evolutionary conservation of meiotic DSB proteins: more than just Spo11. Genes Dev 24:1201–1207. https://doi.org/10.1101/gad.1944710
doi: 10.1101/gad.1944710 pubmed: 20551169 pmcid: 2885656
Cooper DL, Lahue RS, Modrich P (1993) Methyl-directed mismatch repair is bidirectional. J Biol Chem 268(16):11823–11829. https://doi.org/10.1016/s0021-9258(19)50274-5
doi: 10.1016/s0021-9258(19)50274-5 pubmed: 8389365
Cortellino S, Xu J, Sannai M, Moore R, Caretti E, Cigliano A et al (2011) Thymine DNA glycosylase is essential for active DNA demethylation by linked deamination-base excision repair. Cell 146(1):67–79. https://doi.org/10.1016/j.cell.2011.06.020
doi: 10.1016/j.cell.2011.06.020 pubmed: 21722948 pmcid: 3230223
Dao V, Modrich P (1998) Mismatch-, MutS-, MutL-, and helicase II-dependent unwinding from the single-strand break of an incised heteroduplex. J Biol Chem 273(15):9202–9207. https://doi.org/10.1074/jbc.273.15.9202
doi: 10.1074/jbc.273.15.9202 pubmed: 9535911
De Bont R, van Larebeke N (2004) Endogenous DNA damage in humans: a review of quantitative data. Mutagenesis 19:169–185. https://doi.org/10.1093/mutage/geh025
doi: 10.1093/mutage/geh025 pubmed: 15123782
de Mendoza A, Hatleberg WL, Pang K, Leininger S, Bogdanovic O, Pflueger J et al (2019) Convergent evolution of a vertebrate-like methylome in a marine sponge. Nat Ecol Evol 3(10):1464–1473. https://doi.org/10.1038/s41559-019-0983-2
doi: 10.1038/s41559-019-0983-2 pubmed: 31558833 pmcid: 6783312
de Mendoza A, Lister R, Bogdanovic O (2020) Evolution of DNA methylome diversity in eukaryotes. J Mol Biol 432:1687–1705. https://doi.org/10.1016/j.jmb.2019.11.003
doi: 10.1016/j.jmb.2019.11.003
de Mendoza A, Poppe D, Buckberry S, Pflueger J, Albertin CB, Daish T et al (2021) The emergence of the brain non-CpG methylation system in vertebrates. Nat Ecol Evol 5(3):369–378. https://doi.org/10.1038/s41559-020-01371-2
doi: 10.1038/s41559-020-01371-2 pubmed: 33462491 pmcid: 7116863
Dukatz M, Requena CE, Emperle M, Hajkova P, Sarkies P, Jeltsch A (2019) Mechanistic insights into cytosine-N3 methylation by DNA methyltransferase DNMT3A. J Mol Biol. https://doi.org/10.1016/j.jmb.2019.06.015
Edwards JR, Yarychkivska O, Boulard M, Bestor TH (2017) DNA methylation and DNA methyltransferases. Epigenetics Chromatin 10(1):1–10. https://doi.org/10.1186/s13072-017-0130-8
doi: 10.1186/s13072-017-0130-8
Feng S, Cokus SJ, Zhang X, Chen P-Y, Bostick M, Goll MG et al (2010) Conservation and divergence of methylation patterning in plants and animals. Proc Natl Acad Sci USA 107(19):8689–8694. https://doi.org/10.1073/pnas.1002720107
doi: 10.1073/pnas.1002720107 pubmed: 20395551 pmcid: 2889301
Francioli LC, Polak PP, Koren A, Menelaou A, Chun S, Renkens I et al (2015) Genome-wide patterns and properties of de novo mutations in humans. Nat Genet 47(7):822–826. https://doi.org/10.1038/ng.3292
doi: 10.1038/ng.3292 pubmed: 25985141 pmcid: 4485564
Freitag M, Williams RL, Kothe GO, Selker EU (2002) A cytosine methyltransferase homologue is essential for repeat-induced point mutation in Neurospora crassa. Proc Natl Acad Sci U S A 99(13):8802–8807. https://doi.org/10.1073/pnas.132212899
doi: 10.1073/pnas.132212899 pubmed: 12072568 pmcid: 124379
Gardiner-Garden M, Frommer M (1987) CpG Islands in vertebrate genomes. J Mol Biol 196(2):261–282. https://doi.org/10.1016/0022-2836(87)90689-9
doi: 10.1016/0022-2836(87)90689-9 pubmed: 3656447
Gladyshev E (2017) Repeat-induced point mutation and other genome defense mechanisms in fungi. Microbiol Spectr 5(4). https://doi.org/10.1128/microbiolspec.funk-0042-2017
Gladyshev E, Kleckner N (2017) DNA sequence homology induces cytosine-to-thymine mutation by a heterochromatin-related pathway in Neurospora. Nat Genet 49(6):887–894. https://doi.org/10.1038/ng.3857
doi: 10.1038/ng.3857 pubmed: 28459455 pmcid: 5474309
Gong Z, Morales-Ruiz T, Ariza RR, Roldán-Arjona T, David L, Zhu JK (2002) ROS1, a repressor of transcriptional gene silencing in Arabidopsis, encodes a DNA glycosylase/lyase. Cell 111(6):803–814. https://doi.org/10.1016/S0092-8674(02)01133-9
doi: 10.1016/S0092-8674(02)01133-9 pubmed: 12526807
Greenberg MVC, Bourc’his D (2019) The diverse roles of DNA methylation in mammalian development and disease. Nat Rev Mol Cell Biol 20:590–607. https://doi.org/10.1038/s41580-019-0159-6
doi: 10.1038/s41580-019-0159-6 pubmed: 31399642
Greer EL, Blanco MA, Gu L, Sendinc E, Liu J, Aristizábal-Corrales D et al (2015) DNA methylation on N6-adenine in C. elegans. Cell 161(4):868–878. https://doi.org/10.1016/j.cell.2015.04.005
doi: 10.1016/j.cell.2015.04.005 pubmed: 25936839 pmcid: 4427530
He Y, Ecker JR (2015) Non-CG methylation in the human genome. Annu Rev Genomics Hum Genet. https://doi.org/10.1146/annurev-genom-090413-025437
Herman GE, Modrich P (1981) Escherichia coli K-12 clones that overproduce dam methylase are hypermutable. J Bacteriol 145(1):644–646. https://doi.org/10.1128/jb.145.1.644-646.1981
doi: 10.1128/jb.145.1.644-646.1981 pubmed: 7007328 pmcid: 217318
Holliday R (2006) Epigenetics: a historical overview. Epigenetics 1:76–80. https://doi.org/10.4161/epi.1.2.2762
doi: 10.4161/epi.1.2.2762 pubmed: 17998809
Huff JT, Zilberman D (2014) Dnmt1-independent CG methylation contributes to nucleosome positioning in diverse eukaryotes. Cell 156(6):1286–1297. https://doi.org/10.1016/j.cell.2014.01.029
doi: 10.1016/j.cell.2014.01.029 pubmed: 24630728 pmcid: 3969382
Illingworth RS, Bird AP (2009) CpG islands—“A rough guide”. FEBS Lett 583:1713–1720. https://doi.org/10.1016/j.febslet.2009.04.012
doi: 10.1016/j.febslet.2009.04.012 pubmed: 19376112
Jeltsch A (2006) Molecular enzymology of mammalian DNA methyltransferases. Curr Top Microbiol Immunol 301:203–225. https://doi.org/10.1007/3-540-31390-7_7
doi: 10.1007/3-540-31390-7_7 pubmed: 16570849
Jurkowski TP, Jeltsch A (2011) On the evolutionary origin of eukaryotic DNA methyltransferases and Dnmt2. PLoS One 6(11). https://doi.org/10.1371/journal.pone.0028104
Keller TE, Han P, Yi SV (2016) Evolutionary transition of promoter and gene body DNA methylation across invertebrate-vertebrate boundary. Mol Biol Evol 33(4):1019–1028. https://doi.org/10.1093/molbev/msv345
doi: 10.1093/molbev/msv345 pubmed: 26715626
Kunkel TA, Erie DA (2015) Eukaryotic mismatch repair in relation to DNA replication. Annu Rev Genet 49:291–313. https://doi.org/10.1146/annurev-genet-112414-054722
doi: 10.1146/annurev-genet-112414-054722 pubmed: 26436461 pmcid: 5439269
Kusmartsev V, Drozdz M, Schuster-Böckler B, Warnecke T (2020) Cytosine methylation affects the mutability of neighboring nucleotides in germline and soma. Genetics 214(4):809–823. https://doi.org/10.1534/GENETICS.120.303028
doi: 10.1534/GENETICS.120.303028 pubmed: 32079595 pmcid: 7153944
Lahue RS, Su SS, Modrich P (1987) Requierement for d(GATC) sequences in Escherichia coli mutHLS mismatch correction. Proc Natl Acad Sci U S A 84(6):1482–1486. https://doi.org/10.1073/pnas.84.6.1482
doi: 10.1073/pnas.84.6.1482 pubmed: 3550791 pmcid: 304458
Lamers M, Perrakis A, Enzlin J, Winterwerp H, de Wind N, Sixma TK (2000) Crystal structure of the E. coli DNA mismatch repair protein MutS in complex with a GT mismatch. Acta Crystallogr A Found Crystallogr 56(s1):s90. https://doi.org/10.1107/s0108767300022546
doi: 10.1107/s0108767300022546
Law JA, Jacobsen SE (2010) Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat Rev Genet 11:204–220. https://doi.org/10.1038/nrg2719
doi: 10.1038/nrg2719 pubmed: 20142834 pmcid: 3034103
Lenhart JS, Pillon MC, Guarné A, Biteen JS, Simmons LA (2016) Mismatch repair in Gram-positive bacteria. Res Microbiol 167:4–12. https://doi.org/10.1016/j.resmic.2015.08.006
doi: 10.1016/j.resmic.2015.08.006 pubmed: 26343983
Lewis SH, Ross L, Bain SA, Pahita E, Smith SA, Cordaux R et al (2020) Widespread conservation and lineage-specific diversification of genome-wide DNA methylation patterns across arthropods. PLoS Genet 16(6). https://doi.org/10.1371/journal.pgen.1008864
Lindahl T (1996) The Croonian Lecture, 1996: endogenous damage to DNA. Philos Trans R Soc Lond Ser B Biol Sci 351(1347):1529–1538. https://doi.org/10.1098/rstb.1996.0139
doi: 10.1098/rstb.1996.0139
Lister R, O’Malley RC, Tonti-Filippini J, Gregory BD, Berry CC, Millar AH, Ecker JR (2008) Highly integrated single-base resolution maps of the epigenome in arabidopsis. Cell 133(3):523–536. https://doi.org/10.1016/j.cell.2008.03.029
doi: 10.1016/j.cell.2008.03.029 pubmed: 18423832 pmcid: 2723732
Lister R, Pelizzola M, Dowen RH, Hawkins RD, Hon G, Tonti-Filippini J et al (2009) Human DNA methylomes at base resolution show widespread epigenomic differences. Nature 462(7271):315–322. https://doi.org/10.1038/nature08514
doi: 10.1038/nature08514 pubmed: 19829295 pmcid: 2857523
Luo C, Hajkova P, Ecker JR (2018) Dynamic DNA methylation: in the right place at the right time. Science 361:1336–1340. https://doi.org/10.1126/science.aat6806
doi: 10.1126/science.aat6806 pubmed: 30262495 pmcid: 6197482
Maiti A, Noon MS, MacKerell AD, Pozharski E, Drohat AC (2012) Lesion processing by a repair enzyme is severely curtailed by residues needed to prevent aberrant activity on undamaged DNA. Proc Natl Acad Sci U S A 109(21):8091–8096. https://doi.org/10.1073/pnas.1201010109
doi: 10.1073/pnas.1201010109 pubmed: 22573813 pmcid: 3361372
Marinus MG (2010) DNA methylation and mutator genes in Escherichia coli K-12. Mutat Res Rev Mutat Res 705(2):71–76. https://doi.org/10.1016/j.mrrev.2010.05.001
doi: 10.1016/j.mrrev.2010.05.001
Mehta A, Haber JE (2014) Sources of DNA double-strand breaks and models of recombinational DNA repair. Cold Spring Harb Perspect Biol 6(9). https://doi.org/10.1101/cshperspect.a016428
Mondo SJ, Dannebaum RO, Kuo RC, Louie KB, Bewick AJ, LaButti K et al (2017) Widespread adenine N6-methylation of active genes in fungi. Nat Genet 49(6):964–968. https://doi.org/10.1038/ng.3859
doi: 10.1038/ng.3859 pubmed: 28481340
Naish M, Alonge M, Wlodzimierz P, Tock AJ, Abramson BW, Schmücker A et al (2021) The genetic and epigenetic landscape of the Arabidopsis centromeres. Science 374(6569). https://doi.org/10.1126/science.abi7489
Nashun B, Hill PWS, Hajkova P (2015) Reprogramming of cell fate: epigenetic memory and the erasure of memories past. EMBO J 34(10):1296–1308. https://doi.org/10.15252/embj.201490649
doi: 10.15252/embj.201490649 pubmed: 25820261 pmcid: 4491992
O’Brown ZK, Boulias K, Wang J, Wang SY, O’Brown NM, Hao Z et al (2019) Sources of artifact in measurements of 6mA and 4mC abundance in eukaryotic genomic DNA. BMC Genomics 20(1). https://doi.org/10.1186/s12864-019-5754-6
Ortega-Galisteo AP, Morales-Ruiz T, Ariza RR, Roldán-Arjona T (2008) Arabidopsis DEMETER-LIKE proteins DML2 and DML3 are required for appropriate distribution of DNA methylation marks. Plant Mol Biol 67(6):671–681. https://doi.org/10.1007/s11103-008-9346-0
doi: 10.1007/s11103-008-9346-0 pubmed: 18493721
Ougland R, Rognes T, Klungland A, Larsen E (2015) Non-homologous functions of the AlkB homologs. J Mol Cell Biol 7:494–504. https://doi.org/10.1093/jmcb/mjv029
doi: 10.1093/jmcb/mjv029 pubmed: 26003568
Pazhayam NM, Turcotte CA, Sekelsky J (2021) Meiotic crossover patterning. Front Cell Dev Biol 9. https://doi.org/10.3389/fcell.2021.681123
Penterman J, Zilberman D, Jin HH, Ballinger T, Henikoff S, Fischer RL (2007) DNA demethylation in the Arabidopsis genome. Proc Natl Acad Sci U S A 104(16):6752–6757. https://doi.org/10.1073/pnas.0701861104
doi: 10.1073/pnas.0701861104 pubmed: 17409185 pmcid: 1847597
Pidugu LS, Flowers JW, Coey CT, Pozharski E, Greenberg MM, Drohat AC (2016) Structural basis for excision of 5-formylcytosine by thymine DNA glycosylase. Biochemistry 55(45):6205–6208. https://doi.org/10.1021/acs.biochem.6b00982
doi: 10.1021/acs.biochem.6b00982 pubmed: 27805810
Pidugu LS, Dai Q, Malik SS, Pozharski E, Drohat AC (2019) Excision of 5-carboxylcytosine by thymine DNA glycosylase. J Am Chem Soc 141(47):18851–18861. https://doi.org/10.1021/jacs.9b10376
doi: 10.1021/jacs.9b10376 pubmed: 31693361 pmcid: 6881531
Pluciennik A, Burdett V, Lukianova O, O’Donnell M, Modrich P (2009) Involvement of the β clamp in methyl-directed mismatch repair in vitro. J Biol Chem 284(47):32782–32791. https://doi.org/10.1074/jbc.M109.054528
doi: 10.1074/jbc.M109.054528 pubmed: 19783657 pmcid: 2781695
Pluciennik A, Dzantiev L, Iyer RR, Constantin N, Kadyrov FA, Modrich P (2010) PCNA function in the activation and strand direction of MutLα endonuclease in mismatch repair. Proc Natl Acad Sci U S A. https://doi.org/10.1073/pnas.1010662107
Ponger L, Li W-H (2005) Evolutionary diversification of DNA methyltransferases in eukaryotic genomes. Mol Biol Evol 22(4):1119–1128. https://doi.org/10.1093/molbev/msi098
doi: 10.1093/molbev/msi098 pubmed: 15689527
Pukkila PJ, Peterson J, Herman G, Modrich P, Meselson M (1983) Effects of high levels of DNA adenine methylation on methyl-directed mismatch repair in Escherichia coli. Genetics 104(4):571–582. https://doi.org/10.1093/genetics/104.4.571
doi: 10.1093/genetics/104.4.571 pubmed: 6225697 pmcid: 1202127
Putnam CD (2016) Evolution of the methyl directed mismatch repair system in Escherichia coli. DNA Repair 38:32–41. https://doi.org/10.1016/j.dnarep.2015.11.016
doi: 10.1016/j.dnarep.2015.11.016 pubmed: 26698649
Putnam CD (2021) Strand discrimination in DNA mismatch repair. DNA Repair 105. https://doi.org/10.1016/j.dnarep.2021.103161
Rahbari R, Wuster A, Lindsay SJ, Hardwick RJ, Alexandrov LB, Al Turki S et al (2016) Timing, rates and spectra of human germline mutation. Nat Genet 48(2):126–133. https://doi.org/10.1038/ng.3469
doi: 10.1038/ng.3469 pubmed: 26656846
Robertson AB, Klungland A, Rognes T, Leiros I (2009) Base excision repair: the long and short of it. Cell Mol Life Sci 66:981–993. https://doi.org/10.1007/s00018-009-8736-z
doi: 10.1007/s00018-009-8736-z pubmed: 19153658
Roldán-Arjona T, Ariza RR, Córdoba-Cañero D (2019) DNA base excision repair in plants: an unfolding story with familiar and novel characters. Front Plant Sci 10. https://doi.org/10.3389/fpls.2019.01055
Rošić S, Amouroux R, Requena CE, Gomes A, Emperle M, Beltran T et al (2018) Evolutionary analysis indicates that DNA alkylation damage is a byproduct of cytosine DNA methyltransferase activity. Nat Genet 50(3):452–459. https://doi.org/10.1038/s41588-018-0061-8
doi: 10.1038/s41588-018-0061-8 pubmed: 29459678 pmcid: 5865749
Scully R, Panday A, Elango R, Willis NA (2019) DNA double-strand break repair-pathway choice in somatic mammalian cells. Nat Rev Mol Cell Biol 20:698–714. https://doi.org/10.1038/s41580-019-0152-0
doi: 10.1038/s41580-019-0152-0 pubmed: 31263220 pmcid: 7315405
Sedgwick B (2004) Repairing DNA-methylation damage. Nat Rev Mol Cell Biol 5:148–157. https://doi.org/10.1038/nrm1312
doi: 10.1038/nrm1312 pubmed: 15040447
Seong HJ, Han SW, Sul WJ (2021) Prokaryotic DNA methylation and its functional roles. J Microbiol 59:242–248. https://doi.org/10.1007/s12275-021-0674-y
doi: 10.1007/s12275-021-0674-y pubmed: 33624263
Shen JC, Rideout WM, Jones PA (1994) The rate of hydrolytic deamination of 5-methylcytosine in double-stranded DNA. Nucleic Acids Res 22(6):972–976. https://doi.org/10.1093/nar/22.6.972
doi: 10.1093/nar/22.6.972 pubmed: 8152929 pmcid: 307917
Sjolund AB, Senejani AG, Sweasy JB (2013) MBD4 and TDG: multifaceted DNA glycosylases with ever expanding biological roles. Mutat Res 743–744:12–25. https://doi.org/10.1016/j.mrfmmm.2012.11.001
doi: 10.1016/j.mrfmmm.2012.11.001 pubmed: 23195996
Suzuki MM, Bird A (2008) DNA methylation landscapes: provocative insights from epigenomics. Nat Rev Genet 9(6):465–476. https://doi.org/10.1038/nrg2341
doi: 10.1038/nrg2341 pubmed: 18463664
Tang K, Lang Z, Zhang H, Zhu JK (2016) The DNA demethylase ROS1 targets genomic regions with distinct chromatin modifications. Nat Plants 2. https://doi.org/10.1038/nplants.2016.169
Tarantino ME, Dow BJ, Drohat AC, Delaney S (2018) Nucleosomes and the three glycosylases: high, medium, and low levels of excision by the uracil DNA glycosylase superfamily. DNA Repair 72:56–63. https://doi.org/10.1016/j.dnarep.2018.09.008
doi: 10.1016/j.dnarep.2018.09.008 pubmed: 30268365 pmcid: 6420825
Tomkova M, Schuster-Böckler B (2018) DNA modifications: naturally more error prone? Trends Genet 34:627–638. https://doi.org/10.1016/j.tig.2018.04.005
doi: 10.1016/j.tig.2018.04.005 pubmed: 29853204
Tomkova M, McClellan M, Kriaucionis S, Schuster-Böckler B (2018) DNA replication and associated repair pathways are involved in the mutagenesis of methylated cytosine. DNA Repair 62:1–7. https://doi.org/10.1016/j.dnarep.2017.11.005
doi: 10.1016/j.dnarep.2017.11.005 pubmed: 29223032
van Wyk S, Wingfield BD, De Vos L, van der Merwe NA, Steenkamp ET (2021) Genome-wide analyses of repeat-induced point mutations in the Ascomycota. Front Microbiol 11. https://doi.org/10.3389/fmicb.2020.622368
Visnes T, Doseth B, Pettersen HS, Hagen L, Sousa MML, Akbari M et al (2009) uracil in DNA and its processing by different DNA glycosylases. Philos Trans R Soc Lond B Biol Sci 364(1517):563–568. https://doi.org/10.1098/rstb.2008.0186
doi: 10.1098/rstb.2008.0186 pubmed: 19008197
Walker J, Zhang J, Liu Y, Vickers M, Dolan L, Nakajima K, Feng X (2021) Extensive N4 cytosine methylation is essential for Marchantia sperm function. BioRxiv. Retrieved from https://www.biorxiv.org/content/10.1101/2021.02.12.428880v1
Wallberg A, Glémin S, Webster MT (2015) Extreme recombination frequencies shape genome variation and evolution in the honeybee, Apis mellifera. PLoS Genet 11(4). https://doi.org/10.1371/journal.pgen.1005189
Welsh KM, Lu AL, Clark S, Modrich P (1987) Isolation and characterization of the Escherichia coli mutH gene product. J Biol Chem 262(32):15624–15629. https://doi.org/10.1016/s0021-9258(18)47772-1
doi: 10.1016/s0021-9258(18)47772-1 pubmed: 2824465
Yelina NE, Choi K, Chelysheva L, Macaulay M, de Snoo B, Wijnker E et al (2012) Epigenetic remodeling of meiotic crossover frequency in Arabidopsis thaliana DNA methyltransferase mutants. PLoS Genet 8(8). https://doi.org/10.1371/journal.pgen.1002844
Yelina NE, Lambing C, Hardcastle TJ, Zhao X, Santos B, Henderson IR (2015) DNA methylation epigenetically silences crossover hot spots and controls chromosomal domains of meiotic recombination in Arabidopsis. Genes Dev 29(20):2183–2202. https://doi.org/10.1101/gad.270876.115
doi: 10.1101/gad.270876.115 pubmed: 26494791 pmcid: 4617981
Zamudio N, Barau J, Teissandier A, Walter M, Borsos M, Servant N, Bourc’his D (2015) DNA methylation restrains transposons from adopting a chromatin signature permissive for meiotic recombination. Genes Dev 29(12):1256–1270. https://doi.org/10.1101/gad.257840.114
doi: 10.1101/gad.257840.114 pubmed: 26109049 pmcid: 4495397
Zemach A, McDaniel IE, Silva P, Zilberman D (2010) Genome-wide evolutionary analysis of eukaryotic DNA methylation. Science 328(5980):916–919. https://doi.org/10.1126/science.1186366
doi: 10.1126/science.1186366 pubmed: 20395474
Zhang H, Lang Z, Zhu JK (2018) Dynamics and function of DNA methylation in plants. Nat Rev Mol Cell Biol 19:489–506. https://doi.org/10.1038/s41580-018-0016-z
doi: 10.1038/s41580-018-0016-z pubmed: 29784956

Auteurs

Peter Sarkies (P)

Department of Biochemistry, University of Oxford, London, UK. Peter.sarkies@bioch.ox.ac.uk.

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