Abstract
Several lines of evidence suggest the involvement of disturbance in epigenetic processes in autoimmune disease. Most noteworthy is the global DNA hypomethylation seen in lupus. Epigenetic states in difference from genetic lesions are potentially reversible and hence candidates for pharmacological intervention. Potential targets for drug development are histone modification and DNA methylating and demethylating enzymes. The most advanced set of drugs in clinical development are histone deacetylase (HDAC) inhibitors. However, the prevalence of DNA hypomethylation in lupus suggests that we should shift our attention from HDAC inhibitors to DNA demethylation inhibitors. MBD2 was recently proposed to be involved in demethylation in T cells in lupus and is, therefore, a candidate target. Although this field is at its infancy, it carries great promise.
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References
Lu Q, Kaplan M, Ray D et al (2002) Demethylation of ITGAL (CD11a) regulatory sequences in systemic lupus erythematosus. Arthritis Rheum 46:1282–1291
Mi XB, Zeng FQ (2008) Hypomethylation of interleukin-4 and -6 promoters in T cells from systemic lupus erythematosus patients. Acta Pharmacol Sin 29:105–112
Aoki K, Sato N, Yamaguchi A, Kaminuma O, Hosozawa T, Miyatake S (2009) Regulation of DNA demethylation during maturation of CD4+ naive T cells by the conserved noncoding sequence 1. J Immunol 182:7698–7707
Richardson B (2003) DNA methylation and autoimmune disease. Clin Immunol 109:72–79
White GP, Hollams EM, Yerkovich ST et al (2006) CpG methylation patterns in the IFNgamma promoter in naive T cells: variations during Th1 and Th2 differentiation and between atopics and non-atopics. Pediatr Allergy Immunol 17:557–564
Mastronardi FG, Noor A, Wood DD, Paton T, Moscarello MA (2007) Peptidyl argininedeiminase 2 CpG island in multiple sclerosis white matter is hypomethylated. J Neurosci Res 85:2006–2016
Hu N, Qiu X, Luo Y et al (2008) Abnormal histone modification patterns in lupus CD4+ T cells. J Rheumatol 35:804–810
Szyf M (2009) Epigenetics, DNA methylation, and chromatin modifying drugs. Annu Rev Pharmacol Toxicol 49:243–263
Ateeq B, Unterberger A, Szyf M, Rabbani SA (2008) Pharmacological inhibition of DNA methylation induces proinvasive and prometastatic genes in vitro and in vivo. Neoplasia 10:266–278
Razin A (1998) CpG methylation, chromatin structure and gene silencing—a three-way connection. EMBO J 17:4905–4908
Groudine M, Eisenman R, Gelinas R, Weintraub H (1983) Developmental aspects of chromatin structure and gene expression. Prog Clin Biol Res 134:159–182
Marks PA, Sheffery M, Rifkind RA (1985) Modulation of gene expression during terminal cell differentiation. Prog Clin Biol Res 191:185–203
Ramain P, Bourouis M, Dretzen G, Richards G, Sobkowiak A, Bellard M (1986) Changes in the chromatin structure of Drosophila glue genes accompany developmental cessation of transcription in wild type and transformed strains. Cell 45:545–553
Grunstein M (1997) Histone acetylation in chromatin structure and transcription. Nature 389:349–352
Varga-Weisz PD, Becker PB (2006) Regulation of higher-order chromatin structures by nucleosome-remodelling factors. Curr Opin Genet Dev 16:151–156
Kwon SH, Workman JL (2008) The heterochromatin protein 1 (HP1) family: put away a bias toward HP1. Mol Cell 26:217–227
Bergmann A, Lane ME (2003) HIDden targets of microRNAs for growth control. Trends Biochem Sci 28:461–463
Zhang B, Pan X, Cobb GP, Anderson TA (2007) MicroRNAs as oncogenes and tumor suppressors. Dev Biol 302:1–12
Xiao C, Rajewsky K (2009) MicroRNA control in the immune system: basic principles. Cell 136:26–36
Pauley KM, Cha S, Chan EK (2009) MicroRNA in autoimmunity and autoimmune diseases. J Autoimmun 32:189–194
Zhou X, Jeker LT, Fife BT, Zhu S, Anderson MS, McManus MT, Bluestone JA (2008) Selective miRNA disruption in T reg cells leads to uncontrolled autoimmunity. J Exp Med 205:1983–1991
Lau NC, Seto AG, Kim J et al (2006) Characterization of the piRNA complex from rat testes. Science 313:363–367
Vu TH, Jirtle RL, Hoffman AR (2006) Cross-species clues of an epigenetic imprinting regulatory code for the IGF2R gene. Cytogenet Genome Res 113:202–208
Lee JT, Strauss WM, Dausman JA, Jaenisch R (1996) A 450 kb transgene displays properties of the mammalian X-inactivation center. Cell 86:83–94
Lim LP, Glasner ME, Yekta S, Burge CB, Bartel DP (2003) Vertebrate microRNA genes. Science 299:1540
Bartel DP (2004) MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116:281–297
Saito Y, Jones PA (2006) Epigenetic activation of tumor suppressor microRNAs in human cancer cells. Cell Cycle 5:2220–2222
Chuang JC, Jones PA (2007) Epigenetics and microRNAs. Pediatr Res 61:24R–29R
Verdel A, Vavasseur A, Le Gorrec M, Touat-Todeschini L (2009) Common themes in siRNA-mediated epigenetic silencing pathways. Int J Dev Biol 53:245–257
Hawkins PG, Santoso S, Adams C, Anest V, Morris KV (2009) Promoter targeted small RNAs induce long-term transcriptional gene silencing in human cells. Nucleic Acids Res 37:2984–2995
Camelo S, Iglesias AH, Hwang D et al (2005) Transcriptional therapy with the histone deacetylase inhibitor trichostatin A ameliorates experimental autoimmune encephalomyelitis. J Neuroimmunol 164:10–21
Halili MA, Andrews MR, Sweet MJ, Fairlie DP (2009) Histone deacetylase inhibitors in inflammatory disease. Curr Top Med Chem 9:309–319
Finch JT, Lutter LC, Rhodes D et al (1977) Structure of nucleosome core particles of chromatin. Nature 269:29–36
Sarma K, Reinberg D (2005) Histone variants meet their match. Nat Rev Mol Cell Biol 6:139–149
Jenuwein T (2001) Re-SET-ting heterochromatin by histone methyltransferases. Trends Cell Biol 11:266–273
Wade PA, Pruss D, Wolffe AP (1997) Histone acetylation: chromatin in action. Trends Biochem Sci 22:128–132
Shiio Y, Eisenman RN (2003) Histone sumoylation is associated with transcriptional repression. Proc Natl Acad Sci U S A 100:13225–13230
Shilatifard A (2006) Chromatin modifications by methylation and ubiquitination: implications in the regulation of gene expression. Annu Rev Biochem 2432:243–269
Wang Z, Zang C, Rosenfeld JA (2008) Combinatorial patterns of histone acetylations and methylations in the human genome. Nat Genet 40:897–903
Henikoff S, McKittrick E, Ahmad K (2004) Epigenetics, histone H3 variants, and the inheritance of chromatin states. Cold Spring Harb Symp Quant Biol 69:235–243
Kusch T, Workman JL (2007) Histone variants and complexes involved in their exchange. Subcell Biochem 41:91–109
Wolffe AP (1996) Histone deacetylase: a regulator of transcription. Science 272:371–372
Wotton D, Lo RS, Lee S, Massague J (1999) A Smad transcriptional corepressor. Cell 97:29–39
Kuo MH, Allis CD (1998) Roles of histone acetyltransferases and deacetylases in gene regulation. Bioessays 20:615–626
Lund AH, van Lohuizen M (2004) Epigenetics and cancer. Genes Dev 18:2315–2335
Perry M, Chalkley R (1982) Histone acetylation increases the solubility of chromatin and occurs sequentially over most of the chromatin. A novel model for the biological role of histone acetylation. J Biol Chem 257:7336–7347
Lee DY, Hayes JJ, Pruss D, Wolffe AP (1993) A positive role for histone acetylation in transcription factor access to nucleosomal DNA. Cell 72:73–84
Sinha I, Wiren M, Ekwall K (2006) Genome-wide patterns of histone modifications in fission yeast. Chromosome Res 14:95–105
Roh TY, Zhao K (2007) High-resolution, genome-wide mapping of chromatin modifications by GMAT. Methods Mol Biol 387:95–108
Roh TY, Zhao K (2008) High-resolution, genome-wide mapping of chromatin modifications by GMAT. Methods Mol Biol 387:95–108
Lu ZP, Ju ZL, Shi GY, Zhang JW, Sun J (2005) Histone deacetylase inhibitor trichostatin A reduces anti-DNA autoantibody production and represses IgH gene transcription. Biochem Biophys Res Commun 330:204–209
Gray SG, Dangond F (2006) Rationale for the use of histone deacetylase inhibitors as a dual therapeutic modality in multiple sclerosis. Epigenetics 1:67–75
Tao R, Hancock WW (2007) Regulating regulatory T cells to achieve transplant tolerance. Hepatobiliary Pancreat Dis Int 6:348–357
Li N, Zhao D, Kirschbaum M et al (2008) HDAC inhibitor reduces cytokine storm and facilitates induction of chimerism that reverses lupus in anti-CD3 conditioning regimen. Proc Natl Acad Sci U S A 105:4796–4801
Kuwatsuka Y, Ogawa F, Iwata Y et al (2009) Decreased levels of autoantibody against histone deacetylase 3 in patients with systemic sclerosis. Autoimmunity 42:120–125
Verdone L, Caserta M, Di Mauro E (2005) Role of histone acetylation in the control of gene expression. Biochem Cell Biol 83:344–353
Borrow J, Stanton VP Jr, Andresen JM et al (1996) The translocation t(8;16)(p11;p13) of acute myeloid leukaemia fuses a putative acetyltransferase to the CREB-binding protein. Nat Genet 14:33–41
van Attikum H, Gasser SM (2009) Crosstalk between histone modifications during the DNA damage response. Trends Cell Biol 19:207–217
Ikura T, Ogryzko VV, Grigoriev M et al (2000) Involvement of the TIP60 histone acetylase complex in DNA repair and apoptosis. Cell 102:463–473
Sun Y, Jiang X, Chen S, Fernandes N, Price BD (2005) A role for the Tip60 histone acetyltransferase in the acetylation and activation of ATM. Proc Natl Acad Sci U S A 102:13182–13187
Tang Y, Luo J, Zhang W, Gu W (2006) Tip60-dependent acetylation of p53 modulates the decision between cell-cycle arrest and apoptosis. Mol Cell 24:827–839
Fu M, Wang C, Zhang X, Pestell RG (2004) Acetylation of nuclear receptors in cellular growth and apoptosis. Biochem Pharmacol 68:1199–1208
Cornacchia E, Golbus J, Maybaum J, Strahler J, Hanash S, Richardson B (1988) Hydralazine and procainamide inhibit T cell DNA methylation and induce autoreactivity. J Immunol 140:2197–2200
Yung RL, Richardson BC (1994) Role of T cell DNA methylation in lupus syndromes. Lupus 3:487–491
Yung RL, Quddus J, Chrisp CE, Johnson KJ, Richardson BC (1995) Mechanism of drug-induced lupus. I. Cloned Th2 cells modified with DNA methylation inhibitors in vitro cause autoimmunity in vivo. J Immunol 154:3025–3035
Manzo F, Tambaro FP, Mai A, Altucci L (2009) Histone acetyltransferase inhibitors and preclinical studies. Expert Opin Ther Pat 19:761–774
Mai A, Rotili D, Tarantino D et al (2009) Identification of 4-hydroxyquinolines inhibitors of p300/CBP histone acetyltransferases. Bioorg Med Chem Lett 19:1132–1135
Balasubramanyam K, Swaminathan V, Ranganathan A, Kundu TK (2003) Small molecule modulators of histone acetyltransferase p300. J Biol Chem 278:19134–19140
Souto JA, Conte M, Alvarez R et al (2008) Synthesis of benzamides related to anacardic acid and their histone acetyltransferase (HAT) inhibitory activities. ChemMedChem 3:1435–1442
Arif M, Pradhan SK, Thanuja GR et al (2009) Mechanism of p300 specific histone acetyltransferase inhibition by small molecules. J Med Chem 52:267–277
Lee YH, Jung MG, Kang HB et al (2008) Effect of anti-histone acetyltransferase activity from Rosa rugosa Thunb. (Rosaceae) extracts on androgen receptor-mediated transcriptional regulation. J Ethnopharmacol 118:412–417
Buczek-Thomas JA, Hsia E, Rich CB, Foster JA, Nugent MA (2008) Inhibition of histone acetyltransferase by glycosaminoglycans. J Cell Biochem 105:108–120
Sun Y, Jiang X, Chen S, Price BD (2006) Inhibition of histone acetyltransferase activity by anacardic acid sensitizes tumor cells to ionizing radiation. FEBS Lett 580:4353–4356
Holbert MA, Marmorstein R (2005) Structure and activity of enzymes that remove histone modifications. Curr Opin Struct Biol 15:673–680
Glaser KB, Li J, Staver MJ, Wei RQ, Albert DH, Davidsen SK (2003) Role of class I and class II histone deacetylases in carcinoma cells using siRNA. Biochem Biophys Res Commun 310:529–536
Zimmermann S, Kiefer F, Prudenziati M (2007) Reduced body size and decreased intestinal tumor rates in HDAC2-mutant mice. Cancer Res 67:9047–9054
Weichert W, Roske A, Niesporek S et al (2008) Class I histone deacetylase expression has independent prognostic impact in human colorectal cancer: specific role of class I histone deacetylases in vitro and in vivo. Clin Cancer Res 14:1669–1677
Nakagawa M, Oda Y, Eguchi T et al (2007) Expression profile of class I histone deacetylases in human cancer tissues. Oncol Rep 18:769–774
Mottet D, Bellahcene A, Pirotte S et al (2007) Histone deacetylase 7 silencing alters endothelial cell migration, a key step in angiogenesis. Circ Res 101:1237–1246
Gan L (2007) Therapeutic potential of sirtuin-activating compounds in Alzheimer's disease. Drug News Perspect 20:233–239
Alcendor RR, Kirshenbaum LA, Imai S, Vatner SF, Sadoshima J (2004) Silent information regulator 2alpha, a longevity factor and class III histone deacetylase, is an essential endogenous apoptosis inhibitor in cardiac myocytes. Circ Res 95:971–980
Tao R, de Zoeten EF, Ozkaynak E et al (2007) Deacetylase inhibition promotes the generation and function of regulatory T cells. Nat Med 13:1299–1307
Gartenberg MR (2000) The Sir proteins of Saccharomyces cerevisiae: mediators of transcriptional silencing and much more. Curr Opin Microbiol 3:132–137
Alfred J (2000) Counting the calories to immortality. Nat Rev Genet 1:88
Kim S, Benguria A, Lai CY, Jazwinski SM (1999) Modulation of life-span by histone deacetylase genes in Saccharomyces cerevisiae. Mol Biol Cell 10:3125–3136
Peixoto P, Lansiaux A (2006) Histone-deacetylases inhibitors: from TSA to SAHA. Bull Cancer 93:27–36
Richon VM, Sandhoff TW, Rifkind RA, Marks PA (2000) Histone deacetylase inhibitor selectively induces p21WAF1 expression and gene-associated histone acetylation. Proc Natl Acad Sci U S A 97:10014–10019
Santini V, Gozzini A, Ferrari G (2007) Histone deacetylase inhibitors: molecular and biological activity as a premise to clinical application. Curr Drug Metab 8:383–393
Fournel M, Bonfils C, Hou Y et al (2008) MGCD0103, a novel isotype-selective histone deacetylase inhibitor, has broad spectrum antitumor activity in vitro and in vivo. Mol Cancer Ther 7:759–768
Xu WS, Parmigiani RB, Marks PA (2007) Histone deacetylase inhibitors: molecular mechanisms of action. Oncogene 26:5541–5552
Duvic M, Vu J (2007) Vorinostat in cutaneous T-cell lymphoma. Drugs Today (Barc) 43:585–599
Siu LL, Pili R, Duran I et al (2008) Phase I study of MGCD0103 given as a three-times-per-week oral dose in patients with advanced solid tumors. J Clin Oncol 26:1940–1947
Kell J (2007) Drug evaluation: MGCD-0103, a histone deacetylase inhibitor for the treatment of cancer. Curr Opin Investig Drugs 8:485–492
Rasheed WK, Johnstone RW, Prince HM (2007) Histone deacetylase inhibitors in cancer therapy. Expert Opin Investig Drugs 16:659–678
Shankar S, Srivastava RK (2008) Histone deacetylase inhibitors: mechanisms and clinical significance in cancer: HDAC inhibitor-induced apoptosis. Adv Exp Med Biol 615:261–298
Sambucetti LC, Fischer DD, Zabludoff S et al (1999) Histone deacetylase inhibition selectively alters the activity and expression of cell cycle proteins leading to specific chromatin acetylation and antiproliferative effects. J Biol Chem 274:34940–34947
Mishra N, Reilly CM, Brown DR, Ruiz P, Gilkeson GS (2003) Histone deacetylase inhibitors modulate renal disease in the MRL-lpr/lpr mouse. J Clin Invest 111:539–552
Seo SB, McNamara P, Heo S, Turner A, Lane WS, Chakravarti D (2001) Regulation of histone acetylation and transcription by INHAT, a human cellular complex containing the set oncoprotein. Cell 104:119–130
Hublitz P, Kunowska N, Mayer UP et al (2005) NIR is a novel INHAT repressor that modulates the transcriptional activity of p53. Genes Dev 19:2912–2924
Wiencke JK, Zheng S, Morrison Z, Yeh RF (2008) Differentially expressed genes are marked by histone 3 lysine 9 trimethylation in human cancer cells. Oncogene 27:2412–2421
Miao F, Natarajan R (2005) Mapping global histone methylation patterns in the coding regions of human genes. Mol Cell Biol 25:4650–4661
Santos-Rosa H, Schneider R, Bannister AJ et al (2002) Active genes are tri-methylated at K4 of histone H3. Nature 419:407–411
Akan P, Sahlen M, Deloukas P (2009) A histone map of human chromosome 20q13.12. PLoS ONE 4:4479
Bernstein BE, Mikkelsen TS, Xie X et al (2006) A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell 125:315–326
Zhao XD, Han X, Chew JL et al (2007) Whole-genome mapping of histone H3 Lys4 and 27 trimethylations reveals distinct genomic compartments in human embryonic stem cells. Cell Stem Cell 1:286–298
Rea S, Eisenhaber F, O'Carroll D et al (2000) Regulation of chromatin structure by site-specific histone H3 methyltransferases. Nature 406:593–599
Peters AH, Schubeler D (2005) Methylation of histones: playing memory with DNA. Curr Opin Cell Biol 17:230–238
Cheng X, Collins RE, Zhang X (2005) Structural and sequence motifs of protein (histone) methylation enzymes. Annu Rev Biophys Biomol Struct 34:267–294
Nguyen CT, Weisenberger DJ, Velicescu M et al (2002) Histone H3-lysine 9 methylation is associated with aberrant gene silencing in cancer cells and is rapidly reversed by 5-aza-2′-deoxycytidine. Cancer Res 62:6456–6461
Coombes MM, Briggs KL, Bone JR, Clayman GL, El-Naggar AK, Dent SY (2003) Resetting the histone code at CDKN2A in HNSCC by inhibition of DNA methylation. Oncogene 22:8902–8911
Meng CF, Zhu XJ, Peng G, Dai DQ (2007) Re-expression of methylation-induced tumor suppressor gene silencing is associated with the state of histone modification in gastric cancer cell lines. World J Gastroenterol 13:6166–6171
Schlesinger Y, Straussman R, Keshet I et al (2007) Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer. Nat Genet 39:232–236
Greiner D, Bonaldi T, Eskeland R, Roemer E, Imhof A (2005) Identification of a specific inhibitor of the histone methyltransferase SU(VAR)3-9. Nat Chem Biol 1:143–145
Kubicek S, O'Sullivan RJ, August EM et al (2007) Reversal of H3K9me2 by a small-molecule inhibitor for the G9a histone methyltransferase. Mol Cell 25:473–481
Zhang X, Bernatavichute YV, Cokus S, Pellegrini M, Jacobsen SE (2009) Genome-wide analysis of mono-, di- and trimethylation of histone H3 lysine 4 in Arabidopsis thaliana. Genome Biol 10:R62
Shi Y, Lan F, Matson C et al (2004) Histone demethylation mediated by the nuclear amine oxidase homolog LSD1. Cell 119:941–953
Metzger E, Wissmann M, Yin N et al (2005) LSD1 demethylates repressive histone marks to promote androgen-receptor-dependent transcription. Nature 437:436–439
Klose RJ, Yamane K, Bae Y et al (2006) The transcriptional repressor JHDM3A demethylates trimethyl histone H3 lysine 9 and lysine 36. Nature 442:312–316
Lee MG, Wynder C, Cooch N, Shiekhattar R (2005) An essential role for CoREST in nucleosomal histone 3 lysine 4 demethylation. Nature 437:432–435
Wang J, Scully K, Zhu X et al (2007) Opposing LSD1 complexes function in developmental gene activation and repression programmes. Nature 446:882–887
Tsukada Y, Fang J, Erdjument-Bromage H et al (2006) Histone demethylation by a family of JmjC domain-containing proteins. Nature 439:811–816
Huang Y, Greene E, Murray Stewart T et al (2007) Inhibition of lysine-specific demethylase 1 by polyamine analogues results in reexpression of aberrantly silenced genes. Proc Natl Acad Sci U S A 104:8023–8028
Lee MG, Wynder C, Schmidt DM, McCafferty DG, Shiekhattar R (2006) Histone H3 lysine 4 demethylation is a target of nonselective antidepressive medications. Chem Biol 13:563–567
Lee DU, Agarwal S, Rao A (2002) Th2 lineage commitment and efficient IL-4 production involves extended demethylation of the IL-4 gene. Immunity 16:649–660
Santangelo S, Cousins DJ, Winkelmann NE, Staynov DZ (2002) DNA methylation changes at human Th2 cytokine genes coincide with DNase I hypersensitive site formation during CD4(+) T cell differentiation. J Immunol 169:1893–1903
Richardson B (2007) Primer: epigenetics of autoimmunity. Nat Clin Pract Rheumatol 3:521–527
Balada E, Ordi-Ros J, Vilardell-Tarres M (2007) DNA methylation and systemic lupus erythematosus. Ann N Y Acad Sci 1108:127–136
Quddus J, Johnson KJ, Gavalchin J et al (1993) Treating activated CD4+ T cells with either of two distinct DNA methyltransferase inhibitors, 5-azacytidine or procainamide, is sufficient to cause a lupus-like disease in syngeneic mice. J Clin Invest 92:38–53
Yoshida H, Yoshida M, Merino R, Shibata T, Izui S (1990) 5-Azacytidine inhibits the lpr gene-induced lymphadenopathy and acceleration of lupus-like syndrome in MRL/MpJ-lpr/lpr mice. Eur J Immunol 20:1989–1993
Razin A, Cedar H (1977) Distribution of 5-methylcytosine in chromatin. Proc Natl Acad Sci U S A 74:2725–2728
Okano M, Xie S, Li E (1998) Cloning and characterization of a family of novel mammalian DNA (cytosine-5) methyltransferases [letter]. Nat Genet 19:219–220
Vilain A, Apiou F, Dutrillaux B, Malfoy B (1998) Assignment of candidate DNA methyltransferase gene (DNMT2) to human chromosome band 10p15.1 by in situ hybridization. Cytogenet Cell Genet 82:120
Rai K, Chidester S, Zavala CV et al (2007) Dnmt2 functions in the cytoplasm to promote liver, brain, and retina development in zebrafish. Genes Dev 21:261–266
Goll MG, Kirpekar F, Maggert KA et al (2006) Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2. Science 311:395–398
Bourc'his D, Xu GL, Lin CS, Bollman B, Bestor TH (2001) Dnmt3L and the establishment of maternal genomic imprints. Science 294:2536–2539
Razin A, Riggs AD (1980) DNA methylation and gene function. Science 210:604–610
Wu JC, Santi DV (1985) On the mechanism and inhibition of DNA cytosine methyltransferases. Prog Clin Biol Res 198:119–129
Ramchandani S, Bhattacharya SK, Cervoni N, Szyf M (1999) DNA methylation is a reversible biological signal. Proc Natl Acad Sci U S A 96:6107–6112
Levenson JM, Roth TL, Lubin FD et al (2006) Evidence that DNA (cytosine-5) methyltransferase regulates synaptic plasticity in the hippocampus. J Biol Chem 281:15763–15773
Bruniquel D, Schwartz RH (2003) Selective, stable demethylation of the interleukin-2 gene enhances transcription by an active process. Nat Immunol 4:235–240
Bostick M, Kim JK, Esteve PO, Clark A, Pradhan S, Jacobsen SE (2007) UHRF1 plays a role in maintaining DNA methylation in mammalian cells. Science 317:1760–1764
Vire E, Brenner C, Deplus R et al (2006) The Polycomb group protein EZH2 directly controls DNA methylation. Nature 439:871–874
Di Croce L, Raker VA, Corsaro M et al (2002) Methyltransferase recruitment and DNA hypermethylation of target promoters by an oncogenic transcription factor. Science 295:1079–1082
Kersh EN, Fitzpatrick DR, Murali-Krishna K et al (2006) Rapid demethylation of the IFN-{gamma} gene occurs in memory but not naive CD8 T cells. J Immunol 176:4083–4093
Gjerset RA, Martin DW Jr (1982) Presence of a DNA demethylating activity in the nucleus of murine erythroleukemic cells. J Biol Chem 257:8581–8583
Szyf M, Theberge J, Bozovic V (1995) Ras induces a general DNA demethylation activity in mouse embryonal P19 cells. J Biol Chem 270:12690–12696
Patra SK, Patra A, Zhao H, Dahiya R (2002) DNA methyltransferase and demethylase in human prostate cancer. Mol Carcinog 33:163–171
Jost JP (1993) Nuclear extracts of chicken embryos promote an active demethylation of DNA by excision repair of 5-methyldeoxycytidine. Proc Natl Acad Sci U S A 90:4684–4688
Zhu B, Zheng Y, Hess D et al (2000) 5-methylcytosine-DNA glycosylase activity is present in a cloned G/T mismatch DNA glycosylase associated with the chicken embryo DNA demethylation complex. Proc Natl Acad Sci U S A 97:5135–5139
Barreto G, Schafer A, Marhold J et al (2007) Gadd45a promotes epigenetic gene activation by repair-mediated DNA demethylation. Nature 445:671–675
Jin SG, Guo C, Pfeifer GP (2008) GADD45A does not promote DNA demethylation. PLoS Genet 4:e1000013
Metivier R, Gallais R, Tiffoche C et al (2008) Cyclical DNA methylation of a transcriptionally active promoter. Nature 452:45–50
Kangaspeska S, Stride B, Metivier R et al (2008) Transient cyclical methylation of promoter DNA. Nature 452:112–115
Rai K, Huggins IJ, James SR, Karpf AR, Jones DA, Cairns BR (2008) DNA demethylation in zebrafish involves the coupling of a deaminase, a glycosylase, and gadd45. Cell 135:1201–1212
Bhattacharya SK, Ramchandani S, Cervoni N, Szyf M (1999) A mammalian protein with specific demethylase activity for mCpG DNA [see comments]. Nature 397:579–583
Hamm S, Just G, Lacoste N, Moitessier N, Szyf M, Mamer O (2008) On the mechanism of demethylation of 5-methylcytosine in DNA. Bioorg Med Chem Lett 18:1046–1049
Kriaucionis S, Heintz N (2009) The nuclear DNA base 5-hydroxymethylcytosine is present in Purkinje neurons and the brain. Science 324:929–930
Ng HH, Zhang Y, Hendrich B et al (1999) MBD2 is a transcriptional repressor belonging to the MeCP1 histone deacetylase complex. Nat Genet 23:58–61
Hendrich B, Guy J, Ramsahoye B, Wilson VA, Bird A (2001) Closely related proteins MBD2 and MBD3 play distinctive but interacting roles in mouse development. Genes Dev 15:710–723
Sansom OJ, Berger J, Bishop SM, Hendrich B, Bird A, Clarke AR (2003) Deficiency of Mbd2 suppresses intestinal tumorigenesis. Nat Genet 34:145–147
Detich N, Theberge J, Szyf M (2002) Promoter-specific activation and demethylation by MBD2/demethylase. J Biol Chem 277:35791–35794
Detich N, Bovenzi V, Szyf M (2003) Valproate induces replication-independent active DNA demethylation. J Biol Chem 278:27586–27592
Goel A, Mathupala SP, Pedersen PL (2003) Glucose metabolism in cancer. Evidence that demethylation events play a role in activating type ii hexokinase gene expression. J Biol Chem 278:15333–15340
Slack A, Bovenzi V, Bigey P et al (2002) Antisense MBD2 gene therapy inhibits tumorigenesis. J Gene Med 4:381–389
Campbell PM, Bovenzi V, Szyf M (2003) Methylated DNA binding protein 2 antisense inhibitors suppress tumorigenesis of human cancer lines in vitro and in vivo. Carcinogenesis 25:499–507
Pakneshan P, Szyf M, Rabbani SA (2004) Methylation and inhibition of uPA expression by RAS oncogene: divergence of growth control and invasion in breast cancer cells. Carcinogenesis 26:557–564
Shukeir N, Pakneshan P, Chen G, Szyf M, Rabbani SA (2006) Alteration of the methylation status of tumor-promoting genes decreases prostate cancer cell invasiveness and tumorigenesis in vitro and in vivo. Cancer Res 66:9202–9210
Balada E, Ordi-Ros J, Serrano-Acedo S, Martinez-Lostao L, Vilardell-Tarres M (2007) Transcript overexpression of the MBD2 and MBD4 genes in CD4+ T cells from systemic lupus erythematosus patients. J Leukoc Biol 81:1609–1616
Szyf M (1994) DNA methylation properties: consequences for pharmacology. Trends Pharmacol Sci 15:233–238
Jones PA, Taylor SM (1980) Cellular differentiation, cytidine analogs and DNA methylation. Cell 20:85–93
Kuendgen A, Lubbert M (2008) Current status of epigenetic treatment in myelodysplastic syndromes. Ann Hematol 87(8):601–611
Cheng JC, Matsen CB, Gonzales FA et al (2003) Inhibition of DNA methylation and reactivation of silenced genes by zebularine. J Natl Cancer Inst 95:399–409
Miller CA, Sweatt JD (2007) Covalent modification of DNA regulates memory formation. Neuron 53:857–869
Ghoshal K, Datta J, Majumder S et al (2005) 5-Aza-deoxycytidine induces selective degradation of DNA methyltransferase 1 by a proteasomal pathway that requires the KEN box, bromo-adjacent homology domain, and nuclear localization signal. Mol Cell Biol 25:4727–4741
Juttermann R, Li E, Jaenisch R (1994) Toxicity of 5-aza-2′-deoxycytidine to mammalian cells is mediated primarily by covalent trapping of DNA methyltransferase rather than DNA demethylation. Proc Natl Acad Sci U S A 91:11797–11801
Brueckner B, Boy RG, Siedlecki P et al (2005) Epigenetic reactivation of tumor suppressor genes by a novel small-molecule inhibitor of human DNA methyltransferases. Cancer Res 65:6305–6311
Oki Y, Aoki E, Issa JP (2007) Decitabine—bedside to bench. Crit Rev Oncol Hematol 61:140–152
Weiss AJ, Metter GE, Nealon TF et al (1977) Phase II study of 5-azacytidine in solid tumors. Cancer Treat Rep 61:55–58
Szyf M (2001) The role of DNA methyltransferase 1 in growth control. Front Biosci 6:D599–D609
Scheinbart LS, Johnson MA, Gross LA, Edelstein SR, Richardson BC (1991) Procainamide inhibits DNA methyltransferase in a human T cell line. J Rheumatol 18:530–534
Castellano S, Kuck D, Sala M, Novellino E, Lyko F, Sbardella G (2008) Constrained analogues of procaine as novel small molecule inhibitors of DNA methyltransferase-1. J Med Chem 51:2321–2325
Milutinovic S, D'Alessio AC, Detich N, Szyf M (2007) Valproate induces widespread epigenetic reprogramming which involves demethylation of specific genes. Carcinogenesis 28:560–571
Szyf M (2007) The dynamic epigenome and its implications in toxicology. Toxicol Sci 100:7–23
Szyf M (2005) DNA methylation and demethylation as targets for anticancer therapy. Biochemistry (Mosc) 70:533–549
Szyf M (2008) The role of DNA hypermethylation and demethylation in cancer and cancer therapy. Curr Oncol 15:72–75
Campbell PM, Bovenzi V, Szyf M (2004) Methylated DNA-binding protein 2 antisense inhibitors suppress tumourigenesis of human cancer cell lines in vitro and in vivo. Carcinogenesis 25:499–507
Pakneshan P, Szyf M, Farias-Eisner R, Rabbani SA (2004) Reversal of the hypomethylation status of urokinase (uPA) promoter blocks breast cancer growth and metastasis. J Biol Chem 279:31735–31744
Detich N, Hamm S, Just G, Knox JD, Szyf M (2003) The methyl donor S-adenosylmethionine inhibits active demethylation of DNA: a candidate novel mechanism for the pharmacological effects of S-adenosylmethionine. J Biol Chem 278:20812–20820
Gorelik G, Richardson B (2009) Aberrant T cell ERK pathway signaling and chromatin structure in lupus. Autoimmun Rev 8:196–198
Carney MW, Edeh J, Bottiglieri T, Reynolds EM, Toone BK (1986) Affective illness and S-adenosyl methionine: a preliminary report. Clin Neuropharmacol 9:379–385
Gatto G, Caleri D, Michelacci S, Sicuteri F (1986) Analgesizing effect of a methyl donor (S-adenosylmethionine) in migraine: an open clinical trial. Int J Clin Pharmacol Res 6:15–17
Williams AL, Girard C, Jui D, Sabina A, Katz DL (2005) S-adenosylmethionine (SAMe) as treatment for depression: a systematic review. Clin Invest Med 28:132–139
Hosea Blewett HJ (2008) Exploring the mechanisms behind S-adenosylmethionine (SAMe) in the treatment of osteoarthritis. Crit Rev Food Sci Nutr 48:458–463
D'Alessio AC, Szyf M (2006) Epigenetic tete-a-tete: the bilateral relationship between chromatin modifications and DNA methylation. Biochem Cell Biol 84:463–476
Cervoni N, Szyf M (2001) Demethylase activity is directed by histone acetylation. J Biol Chem 276:40778–40787
Cervoni N, Detich N, Seo SB, Chakravarti D, Szyf M (2002) The oncoprotein Set/TAF-1beta, an inhibitor of histone acetyltransferase, inhibits active demethylation of DNA, integrating DNA methylation and transcriptional silencing. J Biol Chem 277:25026–25031
Weaver IC, Cervoni N, Champagne FA et al (2004) Epigenetic programming by maternal behavior. Nat Neurosci 7:847–854
Richardson BC (2002) Role of DNA methylation in the regulation of cell function: autoimmunity, aging and cancer. J Nutr 132:2401S–2405S
Sekigawa I, Okada M, Ogasawara H, Kaneko H, Hishikawa T, Hashimoto H (2003) DNA methylation in systemic lupus erythematosus. Lupus 12:79–85
Arnheim N, Calabrese P (2009) Understanding what determines the frequency and pattern of human germline mutations. Nat Rev Genet 10:478–488
Barros SP, Offenbacher S (2009) Epigenetics: connecting environment and genotype to phenotype and disease. J Dent Res 88:400–408
Figueiredo LM, Cross GA, Janzen CJ (2009) Epigenetic regulation in African trypanosomes: a new kid on the block. Nat Rev Microbiol 7:504–513
Hewagama A, Richardson B (2009) The genetics and epigenetics of autoimmune diseases. J Autoimmun 33:3–11
Invernizzi P (2009) Future directions in genetic for autoimmune diseases. J Autoimmun 33:1–2
Invernizzi P, Pasini S, Selmi C, Gershwin ME, Podda M (2009) Female predominance and X chromosome defects in autoimmune diseases. J Autoimmun 33:12–16
Larizza D, Calcaterra V, Martinetti M (2009) Autoimmune stigmata in Turner syndrome: when lacks an X chromosome. J Autoimmun 33:25–30
Persani L, Rossetti R, Cacciatore C, Bonomi M (2009) Primary ovarian insufficiency: X chromosome defects and autoimmunity. J Autoimmun 33:35–41
Sawalha AH, Harley JB, Scofield RH (2009) Autoimmunity and Klinefelter's syndrome: when men have two X chromosomes. J Autoimmun 33:31–34
Wells AD (2009) New insights into the molecular basis of T cell anergy: anergy factors, avoidance sensors, and epigenetic imprinting. J Immunol 182:7331–7341
Zernicka-Goetz M, Morris SA, Bruce AW (2009) Making a firm decision: multifaceted regulation of cell fate in the early mouse embryo. Nat Rev Genet 10:467–477
Acknowledgments
The studies in the MS laboratory were supported by the National Cancer Institute of Canada and the Canadian Institute of Health Research.
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Szyf, M. Epigenetic Therapeutics in Autoimmune Disease. Clinic Rev Allerg Immunol 39, 62–77 (2010). https://doi.org/10.1007/s12016-009-8172-8
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DOI: https://doi.org/10.1007/s12016-009-8172-8