Literature DB >> 28555658

TET-mediated active DNA demethylation: mechanism, function and beyond.

Xiaoji Wu1,2,3,4,5, Yi Zhang1,2,3,4.   

Abstract

In mammals, DNA methylation in the form of 5-methylcytosine (5mC) can be actively reversed to unmodified cytosine (C) through TET dioxygenase-mediated oxidation of 5mC to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-carboxylcytosine (5caC), followed by replication-dependent dilution or thymine DNA glycosylase (TDG)-dependent base excision repair. In the past few years, biochemical and structural studies have revealed mechanistic insights into how TET and TDG mediate active DNA demethylation. Additionally, many regulatory mechanisms of this process have been identified. Technological advances in mapping and tracing the oxidized forms of 5mC allow further dissection of their functions. Furthermore, the biological functions of active DNA demethylation in various biological contexts have also been revealed. In this Review, we summarize the recent advances and highlight key unanswered questions.

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Year:  2017        PMID: 28555658     DOI: 10.1038/nrg.2017.33

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


  265 in total

1.  Embryonic lethal phenotype reveals a function of TDG in maintaining epigenetic stability.

Authors:  Daniel Cortázar; Christophe Kunz; Jim Selfridge; Teresa Lettieri; Yusuke Saito; Eilidh MacDougall; Annika Wirz; David Schuermann; Angelika L Jacobs; Fredy Siegrist; Roland Steinacher; Josef Jiricny; Adrian Bird; Primo Schär
Journal:  Nature       Date:  2011-01-30       Impact factor: 49.962

2.  DNA Demethylation Dynamics in the Human Prenatal Germline.

Authors:  Sofia Gkountela; Kelvin X Zhang; Tiasha A Shafiq; Wen-Wei Liao; Joseph Hargan-Calvopiña; Pao-Yang Chen; Amander T Clark
Journal:  Cell       Date:  2015-05-21       Impact factor: 41.582

3.  MicroRNA-15b promotes neurogenesis and inhibits neural progenitor proliferation by directly repressing TET3 during early neocortical development.

Authors:  Xiaohui Lv; Huihui Jiang; Yanli Liu; Xuepei Lei; Jianwei Jiao
Journal:  EMBO Rep       Date:  2014-10-24       Impact factor: 8.807

4.  Differential regulation of the ten-eleven translocation (TET) family of dioxygenases by O-linked β-N-acetylglucosamine transferase (OGT).

Authors:  Qiao Zhang; Xiaoguang Liu; Wenqi Gao; Pishun Li; Jingli Hou; Jiwen Li; Jiemin Wong
Journal:  J Biol Chem       Date:  2014-01-06       Impact factor: 5.157

5.  DAZL regulates Tet1 translation in murine embryonic stem cells.

Authors:  Maaike Welling; Hsu-Hsin Chen; Javier Muñoz; Michael U Musheev; Lennart Kester; Jan Philipp Junker; Nikolai Mischerikow; Mandana Arbab; Ewart Kuijk; Lev Silberstein; Peter V Kharchenko; Mieke Geens; Christof Niehrs; Hilde van de Velde; Alexander van Oudenaarden; Albert J R Heck; Niels Geijsen
Journal:  EMBO Rep       Date:  2015-06-15       Impact factor: 8.807

6.  Early-stage epigenetic modification during somatic cell reprogramming by Parp1 and Tet2.

Authors:  Claudia A Doege; Keiichi Inoue; Toru Yamashita; David B Rhee; Skylar Travis; Ryousuke Fujita; Paolo Guarnieri; Govind Bhagat; William B Vanti; Alan Shih; Ross L Levine; Sara Nik; Emily I Chen; Asa Abeliovich
Journal:  Nature       Date:  2012-08-30       Impact factor: 49.962

7.  Control of Foxp3 stability through modulation of TET activity.

Authors:  Xiaojing Yue; Sara Trifari; Tarmo Äijö; Ageliki Tsagaratou; William A Pastor; Jorge A Zepeda-Martínez; Chan-Wang J Lio; Xiang Li; Yun Huang; Pandurangan Vijayanand; Harri Lähdesmäki; Anjana Rao
Journal:  J Exp Med       Date:  2016-02-22       Impact factor: 14.307

8.  Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase.

Authors:  Eun-Ang Raiber; Dario Beraldi; Gabriella Ficz; Heather E Burgess; Miguel R Branco; Pierre Murat; David Oxley; Michael J Booth; Wolf Reik; Shankar Balasubramanian
Journal:  Genome Biol       Date:  2012-08-17       Impact factor: 13.583

9.  Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells.

Authors:  Kathryn Blaschke; Kevin T Ebata; Mohammad M Karimi; Jorge A Zepeda-Martínez; Preeti Goyal; Sahasransu Mahapatra; Angela Tam; Diana J Laird; Martin Hirst; Anjana Rao; Matthew C Lorincz; Miguel Ramalho-Santos
Journal:  Nature       Date:  2013-06-30       Impact factor: 49.962

10.  Role of Tet proteins in enhancer activity and telomere elongation.

Authors:  Falong Lu; Yuting Liu; Lan Jiang; Shinpei Yamaguchi; Yi Zhang
Journal:  Genes Dev       Date:  2014-09-15       Impact factor: 11.361

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  382 in total

Review 1.  DNA methylation correlates of PTSD: Recent findings and technical challenges.

Authors:  Filomene G Morrison; Mark W Miller; Mark W Logue; Michele Assef; Erika J Wolf
Journal:  Prog Neuropsychopharmacol Biol Psychiatry       Date:  2018-11-30       Impact factor: 5.067

Review 2.  Transcriptional and Epigenomic Regulation of Adipogenesis.

Authors:  Ji-Eun Lee; Hannah Schmidt; Binbin Lai; Kai Ge
Journal:  Mol Cell Biol       Date:  2019-05-14       Impact factor: 4.272

3.  Neurog3-Independent Methylation Is the Earliest Detectable Mark Distinguishing Pancreatic Progenitor Identity.

Authors:  Jing Liu; Amrita Banerjee; Charles A Herring; Jonathan Attalla; Ruiying Hu; Yanwen Xu; Qiujia Shao; Alan J Simmons; Prasanna K Dadi; Sui Wang; David A Jacobson; Bindong Liu; Emily Hodges; Ken S Lau; Guoqiang Gu
Journal:  Dev Cell       Date:  2019-01-07       Impact factor: 12.270

Review 4.  Somatic Cell Nuclear Transfer Reprogramming: Mechanisms and Applications.

Authors:  Shogo Matoba; Yi Zhang
Journal:  Cell Stem Cell       Date:  2018-07-19       Impact factor: 24.633

5.  TET family dioxygenases and the TET activator vitamin C in immune responses and cancer.

Authors:  Xiaojing Yue; Anjana Rao
Journal:  Blood       Date:  2020-09-17       Impact factor: 22.113

6.  D-2-Hydroxyglutarate Is Necessary and Sufficient for Isocitrate Dehydrogenase 1 Mutant-Induced MIR148A Promoter Methylation.

Authors:  Tie Li; Christopher D Cox; Byram H Ozer; Nhung T Nguyen; HuyTram N Nguyen; Thomas J Lai; Sichen Li; Fei Liu; Harley I Kornblum; Linda M Liau; Phioanh L Nghiemphu; Timothy F Cloughesy; Albert Lai
Journal:  Mol Cancer Res       Date:  2018-03-15       Impact factor: 5.852

7.  Paradoxical association of TET loss of function with genome-wide DNA hypomethylation.

Authors:  Isaac F López-Moyado; Ageliki Tsagaratou; Hiroshi Yuita; Hyungseok Seo; Benjamin Delatte; Sven Heinz; Christopher Benner; Anjana Rao
Journal:  Proc Natl Acad Sci U S A       Date:  2019-08-01       Impact factor: 11.205

8.  DNA methylation dynamics underlie metamorphic gene regulation programs in Xenopus tadpole brain.

Authors:  Yasuhiro Kyono; Samhitha Raj; Christopher J Sifuentes; Nicolas Buisine; Laurent Sachs; Robert J Denver
Journal:  Dev Biol       Date:  2020-03-31       Impact factor: 3.582

9.  Role of DNA De Novo (De)Methylation in the Kidney in Salt-Induced Hypertension.

Authors:  Pengyuan Liu; Yong Liu; Han Liu; Xiaoqing Pan; Yingchuan Li; Kristie Usa; Manoj K Mishra; Jing Nie; Mingyu Liang
Journal:  Hypertension       Date:  2018-11       Impact factor: 10.190

10.  De Novo DNA (de)Methylation in the Kidney.

Authors:  Jia L Zhuo; Xiao C Li
Journal:  Hypertension       Date:  2018-11       Impact factor: 10.190

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