MicroRNAs mediated targeting on the Yin-yang dynamics of DNA methylation in disease and development

International Journal of Biochemistry and Cell Biology

Volumn 67, Issue , 2015, Pages 115-120

  Tu, Jiajie ^a,b   Liao, Jinyue ^a,b   Luk, Alfred Chun Shui ^a,b   Tang, Nelson Leung Sang ^c   Chan, Wai Yee ^a,b   Lee, Tin Lap ^a,b  

^a CHINESE UNIVERSITY OF HONG KONG   (Hong Kong)

^b SHANDONG UNIVERSITY   (China)

^c CHINESE UNIVERSITY OF HONG KONG   (Hong Kong)

Author keywords

DNA demethylation pathway; Epigenetics; Histone modification; microRNA

Indexed keywords

CYTOSINE; DNA METHYLTRANSFERASE; ENZYME; MICRORNA; MICRORNA 22; MICRORNA 26; MICRORNA 29; SMALL UNTRANSLATED RNA; TEN ELEVEN TRANSLOCATION ENZYME; UNCLASSIFIED DRUG; DNA (CYTOSINE 5) METHYLTRANSFERASE; DNA BINDING PROTEIN; ONCOPROTEIN; TET1 PROTEIN, HUMAN; THYMINE DNA GLYCOSYLASE;

ARTICLE; CATALYSIS; CELL MATURATION; CHROMATIN ASSEMBLY AND DISASSEMBLY; DEVELOPMENT; DNA METHYLATION; EPIGENETICS; GENOME; HISTONE DEMETHYLATION; HISTONE MODIFICATION; HUMAN; MALIGNANT NEOPLASTIC DISEASE; MOLECULAR BIOLOGY; NONHUMAN; PATHOLOGY; STEM CELL; YIN YANG DYNAMICS; ANIMAL; CHINESE MEDICINE; DNA REPAIR; GENETIC EPIGENESIS; GENETICS; METABOLISM; NEOPLASM; SIGNAL TRANSDUCTION;

ANIMALS; CHROMATIN ASSEMBLY AND DISASSEMBLY; CYTOSINE; DNA (CYTOSINE-5-)-METHYLTRANSFERASE; DNA METHYLATION; DNA REPAIR; DNA-BINDING PROTEINS; EPIGENESIS, GENETIC; HUMANS; MICRORNAS; NEOPLASMS; PROTO-ONCOGENE PROTEINS; SIGNAL TRANSDUCTION; THYMINE DNA GLYCOSYLASE; YIN-YANG;

EID: 84940890580     PISSN: 13572725     EISSN: 18785875     Source Type: Journal    
DOI: 10.1016/j.biocel.2015.05.002     Document Type: Review

References (45)

1. O. Abdel-Wahab, A. Mullally, C. Hedvat, G. Garcia-Manero, J. Patel, M. Wadleigh, and et al. Genetic characterization of TET1, TET2, and TET3 alterations in myeloid malignancies Blood 114 July (1) 2009 144 147
2. D.P. Bartel MicroRNAs: genomics, review biogenesis, mechanism, and function Cell 116 January (2) 2004 281 297
3. M.J. Booth, T.W.B. Ost, D. Beraldi, N.M. Bell, M.R. Branco, W. Reik, and et al. Oxidative bisulfite sequencing of 5-methylcytosine and 5-hydroxymethylcytosine Nat. Protoc. 8 September (10) 2013 1841 1851
4. M.R. Branco, G. Ficz, and W. Reik Uncovering the role of 5-hydroxymethylcytosine in the epigenome Nat. Rev. Genet. 13 November (15) 2011 7 13
5. C.-C. Chen, K.-Y. Wang, and C-K.J. Shen The mammalian de novo DNA methyltransferases DNMT3A and DNMT3B are also DNA 5-hydroxymethylcytosine dehydroxymethylases J. Biol. Chem. 287 September (40) 2012 33116 33121
6. H. Chen, H.G. Kazemier, M.L. de Groote, M.H.J. Ruiters, G.-L. Xu, and M.G. Rots Induced DNA demethylation by targeting ten-eleven translocation 2 to the human ICAM-1 promoter Nucleic Acids Res. (February) 42 3 2014 1563 1574 Oxford University Press
7. H.-H. Cheung, A.J. Davis, T.L. Lee, A.L. Pang, S. Nagrani, O.M. Rennert, and et al. Methylation of an intronic region regulates miR-199a in testicular tumor malignancy Oncogene 30 March (31) 2011 3404 3415
8. L. Cimmino, O. Abdel-Wahab, R.L. Levine, and I. Aifantis TET family proteins and their role in stem cell differentiation and transformation Cell Stem Cell 9 September (3) 2011 193 204
9. Y. Costa, J. Ding, T.W. Theunissen, F. Faiola, T.A. Hore, P.V. Shliaha, and et al. NANOG-dependent function of TET1 and TET2 in establishment of pluripotency Nature 495 February (7441) 2013 370 374
10. M. Fabbri, R. Garzon, A. Cimmino, Z. Liu, N. Zanesi, E. Callegari, and et al. MicroRNA-29 family reverts aberrant methylation in lung cancer by targeting DNA methyltransferases 3A and 3B Proc. Natl. Acad. Sci. U. S. A. (October) 104 2007 15805 15810
11. G. Ficz, M.R. Branco, S. Seisenberger, F. Santos, F. Krueger, T.A. Hore, and et al. Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation Nature 473 April (7347) 2011 398 402
12. J.M. Freudenberg, S. Ghosh, B.L. Lackford, S. Yellaboina, X. Zheng, R. Li, and et al. Acute depletion of Tet1-dependent 5-hydroxymethylcytosine levels impairs LIF/Stat3 signaling and results in loss of embryonic stem cell identity Nucleic Acids Res. 40 April (8) 2012 3364 3377
13. X. Fu, L. Jin, X. Wang, A. Luo, J. Hu, X. Zheng, and et al. MicroRNA-26a targets ten eleven translocation enzymes and is regulated during pancreatic cell differentiation Proc. Natl. Acad. Sci. U. S. A. 110 October (44) 2013 17892 17897
14. M.G. Goll, and T.H. Bestor Eukaryotic cytosine methyltransferases Annu. Rev. Biochem. 74 June (1) 2005 481 514
15. M.V. Iorio, C. Piovan, and C.M. Croce Interplay between microRNAs and the epigenetic machinery: an intricate network Biochim. Biophys. Acta (BBA) - Gene Regul. Mech. 1799 October (10-12) 2010 694 701
16. S. Ito, A.C. D'Alessio, O.V. Taranova, K. Hong, L.C. Sowers, and Y. Zhang Role of Tet proteins in 5mC to 5hmC conversion, ES-cell self-renewal and inner cell mass specification Nature 466 July (7310) 2010 1129 1133
17. M.D. Jansson, and A.H. Lund MicroRNA and cancer Mol. Oncol. 6 December (6) 2012 590 610
18. K.P. Koh, A. Yabuuchi, S. Rao, Y. Huang, K. Cunniff, J. Nardone, and et al. Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells Cell Stem Cell 8 February (2) 2011 200 213
19. R.M. Kohli, and Y. Zhang TET enzymes, TDG and the dynamics of DNA demethylation Nature 502 October (7472) 2013 472 479
20. S. Kriaucionis, and N. Heintz The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain Science 324 May (5929) 2009 929 930 American Association for the Advancement of Science
21. Y. Kudo, K. Tateishi, K. Yamamoto, S. Yamamoto, Y. Asaoka, H. Ijichi, and et al. Loss of 5-hydroxymethylcytosine is accompanied with malignant cellular transformation Cancer Sci. 103 February (4) 2012 670 676
22. C.G. Lian, Y. Xu, C. Ceol, F. Wu, A. Larson, K. Dresser, and et al. Loss of 5-hydroxymethylcytosine is an epigenetic hallmark of melanoma Cell 150 2012 1135 1146
23. Z. Li, X. Cai, C.L. Cai, J. Wang, W. Zhang, B.E. Petersen, and et al. Deletion of Tet2 in mice leads to dysregulated hematopoietic stem cells and subsequent development of myeloid malignancies Blood 118 October (17) 2011 4509 4518
24. E. Luzi, F. Marini, S.C. Sala, I. Tognarini, G. Galli, and M.L. Brandi Osteogenic differentiation of human adipose tissue-derived stem cells is modulated by the miR-26a targeting of the SMAD1 transcription factor J. Bone Miner. Res. 23 October (2) 2007 287 295
25. S. Morita, T. Horii, M. Kimura, T. Ochiya, S. Tajima, and I. Hatada miR-29 represses the activities of DNA methyltransferases and DNA demethylases Int. J. Mol. Sci. 14 July (7) 2013 14647 14658
26. F. Neri, D. Incarnato, A. Krepelova, S. Rapelli, A. Pagnani, R. Zecchina, and et al. Genome-wide analysis identifies a functional association of Tet1 and Polycomb repressive complex 2 in mouse embryonic stem cells Genome Biol. 14 August (8) 2013 R91 BioMed Central Ltd
27. N.W. Penn, R. suwalsik, C. ORiley, K. Bojanowski, and R. Yura The presence of 5-hydroxymethylcytosine in animal deoxyribonucleic acid Biochem. J. 126 1972 781 790
28. A.M. Pietersen, B. Evers, A.A. Prasad, E. Tanger, P. Cornelissen-Steijger, J. Jonkers, and et al. Bmi1 regulates stem cells and proliferation and differentiation of committed cells in mammary epithelium Curr. Biol. 18 July (14) 2008 1094 1099
29. R. Rampal, A. Alkalin, J. Madzo, A. Vasanthakumar, E. Pronier, J. Patel, and et al. DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia Cell Rep. 9 December (5) 2014 1841 1855
30. D. Sayed, and M. Abdellatif MicroRNAs in development and disease Physiol. Rev. 91 July (3) 2011 827 887
31. L. Shen, H. Wu, D. Diep, S. Yamaguchi, A.C. D'Alessio, H.-L. Fung, and et al. Genome-wide analysis reveals TET- and TDG-dependent 5-methylcytosine oxidation dynamics Cell 153 April (3) 2013 692 706
32. C.-X. Song, K.E. Szulwach, Q. Dai, Y. Fu, S.-Q. Mao, L. Lin, and et al. Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming Cell 153 April (3) 2013 678 691
33. S.J. Song, K. Ito, U. Ala, L. Kats, K. Webster, S.M. Sun, and et al. The oncogenic microRNA miR-22 targets the TET2 tumor suppressor to promote hematopoietic stem cell self-renewal and transformation Cell Stem Cell 13 July (1) 2013 87 101
34. S.J. Song, L. Poliseno, M.S. Song, U. Ala, K. Webster, C. Ng, and et al. MicroRNA-antagonism regulates breast cancer stemness and metastasis via TET-family-dependent chromatin remodeling Cell 154 July (2) 2013 311 324
35. K.E. Szulwach, X. Li, Y. Li, C.-X Song, J.W. Han, S. Kim, and et al. Integrating 5-hydroxymethylcytosine into the epigenomic landscape of human embryonic stem cells PLoS Genet. 7 June (6) 2011 e1002154
36. B. Weber, C. Stresemann, B. Brueckner, and F. Lyko Methylation of human microRNA genes in normal and neoplastic cells Cell Cycle 6 October (9) 2014 1001 1005
37. K. Williams, J. Christensen, M.T. Pedersen, J.V. Johansen, P.A.C. Cloos, J. Rappsilber, and et al. TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity Nature 473 April (7347) 2011 343 348
38. C.F. Wong, and R.L. Tellam MicroRNA-26a targets the histone methyltransferase enhancer of zeste homolog 2 during myogenesis J. Biol. Chem. 283 April (15) 2008 9836 9843
39. H. Wu, A.C. D'Alessio, S. Ito, K. Xia, Z. Wang, K. Cui, and et al. Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells Nature 473 March (7347) 2011 389 393
40. G.R. Wyatt, and S.S. Cohen The bases of the nucleic acids of some bacterial and animal viruses: the occurrence of 5-hydroxymethylcytosine Biochem. J. (April) 55 1953 774 782
41. Y. Xu, F. Wu, L. Tan, L. Kong, L. Xiong, J. Deng, and et al. Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells Mol. Cell 42 May (4) 2011 451 464
42. L.A. Yates, C.J. Norbury, and R.J.C. Gilbert The long and short of microRNA Cell 153 April (3) 2013 516 519
43. M. Yu, G.C. Hon, K.E. Szulwach, C.-X. Song, P. Jin, B. Ren, and et al. Tet-assisted bisulfite sequencing of 5-hydroxymethylcytosine Nat. Protoc. 7 November (2) 2012 2159 2170 Nature Publishing Group
44. B. Zhang, X.-X. Liu, J.-R. He, C.-X. Zhou, M. Guo, M. He, and et al. Pathologically decreased miR-26a antagonizes apoptosis and facilitates carcinogenesis by targeting MTDH and EZH2 in breast cancer Carcinogenesis 32 January (1) 2011 2 9 Oxford University Press
45. P. Zhang, B. Huang, X. Xu, and W.C. Sessa Ten-eleven translocation (Tet) and thymine DNA glycosylase (TDG), components of the demethylation pathway, are direct targets of miRNA-29a Biochem. Biophys. Res. Commun. 437 August (3) 2013 368 373