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RNA m6A meets transposable elements and chromatin

  • Chenxi He ,
  • Fei Lan
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  • Shanghai Key Laboratory of Medical Epigenetics, International Laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institutes of Biomedical Sciences, Fudan University, and Key Laboratory of Carcinogenesis and Cancer Invasion, Ministry of Education, Liver Cancer Institute, Zhongshan Hospital, Fudan University, Shanghai, China

Accepted date: 03 Jun 2021

Published date: 15 Dec 2021

Copyright

2021 The Author(s)

Cite this article

Chenxi He , Fei Lan . RNA m6A meets transposable elements and chromatin[J]. Protein & Cell, 2021 , 12(12) : 906 -910 . DOI: 10.1007/s13238-021-00859-2

1
Balacco DL, Soller M(2019) The m(6)A Writer: rise of a machine for growing tasks. Biochemistry 58:363–378

DOI

2
Barbieri I, Tzelepis K, Pandolfini L, Shi J, Millan-Zambrano G, Robson SC, Aspris D, Migliori V, Bannister AJ, Han N(2017) Promoter-bound METTL3 maintains myeloid leukaemia by m(6) dependent translation control. Nature 552:126–131

DOI

3
Bulut-Karslioglu A, De La Rosa-Velazquez IA, Ramirez F, Barenboim M, Onishi-Seebacher M, Arand J, Galan C, Winter GE, Engist B, Gerle B(2014) Suv39h-dependent H3K9me3 marks intact retrotransposons and silences LINE elements in mouse embryonic stem cells. Mol Cell 55:277–290

DOI

4
Chelmicki T, Roger E, Teissandier A, Dura M, Bonneville L, Rucli S, Dossin F, Fouassier C, Lameiras S, Bourc’his D(2021) m(6)A RNA methylation regulates the fate of endogenous retroviruses. Nature 591:312–316

DOI

5
Chen C, Liu W, Guo J, Liu Y, Liu X, Liu J, Dou X, Le R, Huang Y, Li C(2021) Nuclear m6A reader YTHDC1 regulates the scaffold function of LINE1 RNA in mouse ESCs and early embryos. Protein Cell. https://doi.org/10.1101/2021.01.10.426065

DOI

6
Chuong EB, Elde NC, Feschotte C(2017) Regulatory activities of transposable elements: from conflicts to benefits. Nat Rev Genet 18:71–86

DOI

7
Dominissini D, Moshitch-Moshkovitz S, Schwartz S, Salmon-Divon M, Ungar L, Osenberg S, Cesarkas K, Jacob-Hirsch J, Amariglio N, Kupiec M(2012) Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature 485:201–206

DOI

8
Epstein P, Reddy R, Henning D, Busch H(1980) The nucleotide sequence of nuclear U6 (4.7 S) RNA. J Biol Chem 255:8901–8906

DOI

9
Geula S, Moshitch-Moshkovitz S, Dominissini D, Mansour AA, Kol N, Salmon-Divon M, Hershkovitz V, Peer E, Mor N, Manor YS(2015) Stem cells. m6A mRNA methylation facilitates resolution of naive pluripotency toward differentiation. Science 347:1002–1006

DOI

10
Huang H, Weng H, Zhou K, Wu T, Zhao BS, Sun M, Chen Z, Deng X, Xiao G, Auer F(2019) Histone H3 trimethylation at lysine 36 guides m(6)A RNA modification co-transcriptionally. Nature 567:414–419

DOI

11
Hwang SY, Jung H, Mun S, Lee S, Park K, Baek SC, Moon HC, Kim H, Kim B, Choi Y(2021) L1 retrotransposons exploit RNA m (6)A modification as an evolutionary driving force. Nat Commun 12:880

DOI

12
Johnson WE(2019) Origins and evolutionary consequences of ancient endogenous retroviruses. Nat Rev Microbiol 17:355–370

DOI

13
Kasowitz SD, Ma J, Anderson SJ, Leu NA, Xu Y, Gregory BD, Schultz RM, Wang PJ(2018) Nuclear m6A reader YTHDC1 regulates alternative polyadenylation and splicing during mouse oocyte development. PLoS Genet 14:e1007412

DOI

14
Knuckles P, Carl SH, Musheev M, Niehrs C, Wenger A, Buhler M(2017) RNA fate determination through cotranscriptional adenosine methylation and microprocessor binding. Nat Struct Mol Biol 24:561–569

DOI

15
Li X, Fu XD(2019) Chromatin-associated RNAs as facilitators of functional genomic interactions. Nat Rev Genet 20:503–519

DOI

16
Li Y, Xia L, Tan K, Ye X, Zuo Z, Li M, Xiao R, Wang Z, Liu X, Deng M(2020) N(6)-Methyladenosine co-transcriptionally directs the demethylation of histone H3K9me2. Nat Genet 52:870–877

DOI

17
Liu J, Dou X, Chen C, Chen C, Liu C, Xu MM, Zhao S, Shen B, Gao Y, Han D(2020) N (6)-methyladenosine of chromosomeassociated regulatory RNA regulates chromatin state and transcription. Science 367:580–586

DOI

18
Liu J, Gao M, He J, Wu K, Lin S, Jin L, Chen Y, Liu H, Shi J, Wang X(2021) The RNA m(6)A reader YTHDC1 silences retrotransposons and guards ES cell identity. Nature 591:322–326

DOI

19
Maden BE (1986) Identification of the locations of the methyl groups in 18 S ribosomal RNA from Xenopus laevis and man. J Mol Biol 189:681–699

DOI

20
Matsui T, Leung D, Miyashita H, Maksakova IA, Miyachi H, Kimura H, Tachibana M, Lorincz MC, Shinkai Y(2010) Proviral silencing in embryonic stem cells requires the histone methyltransferase ESET. Nature 464:927–931

DOI

21
Mendel M, Delaney K, Pandey RR, Chen KM, Wenda JM, Vagbo CB, Steiner FA, Homolka D, Pillai RS(2021) Splice site m(6)A methylation prevents binding of U2AF35 to inhibit RNA splicing. Cell 184:3125

DOI

22
Patil DP, Chen CK, Pickering BF, Chow A, Jackson C, Guttman M, Jaffrey SR(2016) m(6)A RNA methylation promotes XISTmediated transcriptional repression. Nature 537:369–373

DOI

23
Pendleton KE, Chen B, Liu K, Hunter OV, Xie Y, Tu BP, Conrad NK(2017) The U6 snRNA m(6)A methyltransferase METTL16 regulates SAM synthetase intron retention. Cell 169:824–835

DOI

24
Percharde M, Lin CJ, Yin Y, Guan J, Peixoto GA, Bulut-Karslioglu A, Biechele S, Huang B, Shen X, Ramalho-Santos M(2018) A LINE1-nucleolin partnership regulates early development and ESC identity. Cell 174:391–405

DOI

25
Shi H, Wei J, He C(2019) Where, When, and How: contextdependent functions of RNA methylation writers, readers, and erasers. Mol Cell 74:640–650

DOI

26
Slobodin B, Han R, Calderone V, Vrielink J, Loayza-Puch F, Elkon R, Agami R(2017) Transcription impacts the efficiency of mRNA translation via co-transcriptional n6-adenosine methylation. Cell 169:326–337

DOI

27
Wang C, Zhu Y, Bao H, Jiang Y, Xu C, Wu J, Shi Y(2016) A novel RNA-binding mode of the YTH domain reveals the mechanism for recognition of determinant of selective removal by Mmi1. Nucleic Acids Res 44:969–982

DOI

28
Wicker T, Sabot F, Hua-Van A, Bennetzen JL, Capy P, Chalhoub B, Flavell A, Leroy P, Morgante M, Panaud O(2007) A unified classification system for eukaryotic transposable elements. Nat Rev Genet 8:973–982

DOI

29
Xiao R, Chen JY, Liang Z, Luo D, Chen G, Lu ZJ, Chen Y, Zhou B, Li H, Du X(2019) Pervasive chromatin-RNA binding protein interactions enable RNA-based regulation of transcription. Cell 178:107–121

DOI

30
Xu W, Li J, He C, Wen J, Ma H, Rong B, Diao J, Wang L, Wang J, Wu F(2021) METTL3 regulates heterochromatin in mouse embryonic stem cells. Nature 591:317–321

DOI

31
Zofall M, Yamanaka S, Reyes-Turcu FE, Zhang K, Rubin C, Grewal SI(2012) RNA elimination machinery targeting meiotic mRNAs promotes facultative heterochromatin formation. Science 335:96–100

DOI

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