Literature DB >> 33024290

Active turnover of DNA methylation during cell fate decisions.

Aled Parry1, Steffen Rulands2,3, Wolf Reik4.   

Abstract

DNA methylation is a key layer of epigenetic regulation. The deposition of methylation marks relies on the catalytic activity of DNA methyltransferases (DNMTs), and their active removal relies on the activity of ten-eleven translocation (TET) enzymes. Paradoxically, in important biological contexts these antagonistic factors are co-expressed and target overlapping genomic regions. The ensuing cyclic biochemistry of cytosine modifications gives rise to a continuous, out-of-thermal equilibrium transition through different methylation states. But what is the purpose of this intriguing turnover of DNA methylation? Recent evidence demonstrates that methylation turnover is enriched at gene distal regulatory elements, including enhancers, and can give rise to large-scale oscillatory dynamics. We discuss this phenomenon and propose that DNA methylation turnover might facilitate key lineage decisions.

Entities:  

Year:  2020        PMID: 33024290     DOI: 10.1038/s41576-020-00287-8

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  92 in total

1.  Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA.

Authors:  Yu-Fei He; Bin-Zhong Li; Zheng Li; Peng Liu; Yang Wang; Qingyu Tang; Jianping Ding; Yingying Jia; Zhangcheng Chen; Lin Li; Yan Sun; Xiuxue Li; Qing Dai; Chun-Xiao Song; Kangling Zhang; Chuan He; Guo-Liang Xu
Journal:  Science       Date:  2011-08-04       Impact factor: 47.728

Review 2.  CpG islands and the regulation of transcription.

Authors:  Aimée M Deaton; Adrian Bird
Journal:  Genes Dev       Date:  2011-05-15       Impact factor: 11.361

Review 3.  DNA methylation in mammals.

Authors:  En Li; Yi Zhang
Journal:  Cold Spring Harb Perspect Biol       Date:  2014-05-01       Impact factor: 10.005

Review 4.  The diverse roles of DNA methylation in mammalian development and disease.

Authors:  Maxim V C Greenberg; Deborah Bourc'his
Journal:  Nat Rev Mol Cell Biol       Date:  2019-08-09       Impact factor: 94.444

5.  Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1.

Authors:  Mamta Tahiliani; Kian Peng Koh; Yinghua Shen; William A Pastor; Hozefa Bandukwala; Yevgeny Brudno; Suneet Agarwal; Lakshminarayan M Iyer; David R Liu; L Aravind; Anjana Rao
Journal:  Science       Date:  2009-04-16       Impact factor: 47.728

6.  Single-cell DNA methylome sequencing and bioinformatic inference of epigenomic cell-state dynamics.

Authors:  Matthias Farlik; Nathan C Sheffield; Angelo Nuzzo; Paul Datlinger; Andreas Schönegger; Johanna Klughammer; Christoph Bock
Journal:  Cell Rep       Date:  2015-02-26       Impact factor: 9.423

7.  Charting a dynamic DNA methylation landscape of the human genome.

Authors:  Michael J Ziller; Hongcang Gu; Fabian Müller; Julie Donaghey; Linus T-Y Tsai; Oliver Kohlbacher; Philip L De Jager; Evan D Rosen; David A Bennett; Bradley E Bernstein; Andreas Gnirke; Alexander Meissner
Journal:  Nature       Date:  2013-08-07       Impact factor: 49.962

8.  Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity.

Authors:  Sébastien A Smallwood; Heather J Lee; Christof Angermueller; Felix Krueger; Heba Saadeh; Julian Peat; Simon R Andrews; Oliver Stegle; Wolf Reik; Gavin Kelsey
Journal:  Nat Methods       Date:  2014-07-20       Impact factor: 28.547

9.  Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification.

Authors:  Shinsuke Ito; Ana C D'Alessio; Olena V Taranova; Kwonho Hong; Lawrence C Sowers; Yi Zhang
Journal:  Nature       Date:  2010-08-26       Impact factor: 49.962

10.  Multi-omics profiling of mouse gastrulation at single-cell resolution.

Authors:  Ricard Argelaguet; Stephen J Clark; Hisham Mohammed; L Carine Stapel; Christel Krueger; Chantriolnt-Andreas Kapourani; Ivan Imaz-Rosshandler; Tim Lohoff; Yunlong Xiang; Courtney W Hanna; Sebastien Smallwood; Ximena Ibarra-Soria; Florian Buettner; Guido Sanguinetti; Wei Xie; Felix Krueger; Berthold Göttgens; Peter J Rugg-Gunn; Gavin Kelsey; Wendy Dean; Jennifer Nichols; Oliver Stegle; John C Marioni; Wolf Reik
Journal:  Nature       Date:  2019-12-11       Impact factor: 49.962

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  34 in total

Review 1.  Origins of human disease: the chrono-epigenetic perspective.

Authors:  Edward Saehong Oh; Art Petronis
Journal:  Nat Rev Genet       Date:  2021-04-26       Impact factor: 53.242

2.  Genetic variation influencing DNA methylation provides insights into molecular mechanisms regulating genomic function.

Authors:  Johann S Hawe; Rory Wilson; Katharina T Schmid; Li Zhou; Lakshmi Narayanan Lakshmanan; Benjamin C Lehne; Brigitte Kühnel; William R Scott; Matthias Wielscher; Yik Weng Yew; Clemens Baumbach; Dominic P Lee; Eirini Marouli; Manon Bernard; Liliane Pfeiffer; Pamela R Matías-García; Matias I Autio; Stephane Bourgeois; Christian Herder; Ville Karhunen; Thomas Meitinger; Holger Prokisch; Wolfgang Rathmann; Michael Roden; Sylvain Sebert; Jean Shin; Konstantin Strauch; Weihua Zhang; Wilson L W Tan; Stefanie M Hauck; Juliane Merl-Pham; Harald Grallert; Eudes G V Barbosa; Thomas Illig; Annette Peters; Tomas Paus; Zdenka Pausova; Panos Deloukas; Roger S Y Foo; Marjo-Riitta Jarvelin; Jaspal S Kooner; Marie Loh; Matthias Heinig; Christian Gieger; Melanie Waldenberger; John C Chambers
Journal:  Nat Genet       Date:  2022-01-03       Impact factor: 38.330

Review 3.  Micro but mighty-Micronutrients in the epigenetic regulation of adaptive immune responses.

Authors:  Heng-Yi Chen; Michael Hsu; Chan-Wang Jerry Lio
Journal:  Immunol Rev       Date:  2021-11-24       Impact factor: 12.988

4.  Nicotine dose-dependent epigenomic-wide DNA methylation changes in the mice with long-term electronic cigarette exposure.

Authors:  Gang Peng; Yibo Xi; Chiara Bellini; Kien Pham; Zhen W Zhuang; Qin Yan; Man Jia; Guilin Wang; Lingeng Lu; Moon-Shong Tang; Hongyu Zhao; He Wang
Journal:  Am J Cancer Res       Date:  2022-08-15       Impact factor: 5.942

5.  A combination of transcriptome and methylation analyses reveals the role of lncRNA HOTAIRM1 in the proliferation and metastasis of breast cancer.

Authors:  Gui-E Lai; Jian Zhou; Cui-Liu Huang; Cun-Jun Mai; Yi-Mei Lai; Zhi-Qin Lin; Tao Peng; Yuan Luo; Feng-En Liu
Journal:  Gland Surg       Date:  2022-05

Review 6.  Regulation, functions and transmission of bivalent chromatin during mammalian development.

Authors:  Trisha A Macrae; Julie Fothergill-Robinson; Miguel Ramalho-Santos
Journal:  Nat Rev Mol Cell Biol       Date:  2022-08-26       Impact factor: 113.915

7.  Ischemic Postconditioning Protects against Aged Myocardial Ischemia/Reperfusion Injury by Transcriptional and Epigenetic Regulation of miR-181a-2-3p.

Authors:  Guizhong Li; Ning Ding; Jiantuan Xiong; Shengchao Ma; Lin Xie; Lingbo Xu; Hui Zhang; Anning Yang; Yong Yang; Yideng Jiang; Huiping Zhang
Journal:  Oxid Med Cell Longev       Date:  2022-05-24       Impact factor: 7.310

8.  Acute lymphoblastic leukemia displays a distinct highly methylated genome.

Authors:  Sara Hetzel; Alexandra L Mattei; Helene Kretzmer; Chunxu Qu; Xiang Chen; Yiping Fan; Gang Wu; Kathryn G Roberts; Selina Luger; Mark Litzow; Jacob Rowe; Elisabeth Paietta; Wendy Stock; Elaine R Mardis; Richard K Wilson; James R Downing; Charles G Mullighan; Alexander Meissner
Journal:  Nat Cancer       Date:  2022-05-19

Review 9.  Deciphering the multifaceted roles of TET proteins in T-cell lineage specification and malignant transformation.

Authors:  Ageliki Tsagaratou
Journal:  Immunol Rev       Date:  2021-01-07       Impact factor: 12.988

Review 10.  DNA Methylation of the Angiotensinogen Gene, AGT, and the Aldosterone Synthase Gene, CYP11B2 in Cardiovascular Diseases.

Authors:  Yoshimichi Takeda; Masashi Demura; Takashi Yoneda; Yoshiyu Takeda
Journal:  Int J Mol Sci       Date:  2021-04-27       Impact factor: 5.923

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