Structure and Function of Mammalian DNA Methyltransferases
Dr. Renata Zofia Jurkowska
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249
Search for more papers by this authorDr. Tomasz Piotr Jurkowski
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249
Search for more papers by this authorCorresponding Author
Prof. Dr. Albert Jeltsch
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249Search for more papers by this authorDr. Renata Zofia Jurkowska
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249
Search for more papers by this authorDr. Tomasz Piotr Jurkowski
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249
Search for more papers by this authorCorresponding Author
Prof. Dr. Albert Jeltsch
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249
Biochemistry Laboratory, School of Engineering and Science, Jacobs University, Bremen, Campus Ring 1, 28759 Bremen (Germany), Fax: (+49) 421-200-3249Search for more papers by this authorGraphical Abstract
New model of genomic DNA methylation: The introduction of 5-methylcytosine (see picture) into DNA is an essential epigenetic signal involved in development and disease. We review the structures and functions of the mammalian DNA methyltransferases Dnmt1, Dnmt3a and Dnmt3b, including novel mechanisms involved in their targeting and regulation.
Abstract
DNA methylation plays an important role in epigenetic signalling, having an impact on gene regulation, chromatin structure, development and disease. Here, we review the structures and functions of the mammalian DNA methyltransferases Dnmt1, Dnmt3a and Dnmt3b, including their domain structures, catalytic mechanisms, localisation, regulation, post-translational modifications and interaction with chromatin and other proteins, summarising data obtained in genetic, cell biology and enzymatic studies. We focus on the question of how the molecular and enzymatic properties of these enzymes are connected to the dynamics of DNA methylation patterns and to the roles the enzymes play in the processes of de novo and maintenance DNA methylation. Recent enzymatic and genome-wide methylome data have led to a new model of genomic DNA methylation patterns based on the preservation of average levels of DNA methylation in certain regions, rather than the methylation states of individual CG sites.
References
- 1C. D. Allis, T. Jenuwein, D. Reinberg, Epigenetics, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N. Y., 2007.
- 2J. D. Watson, T. A. Baker, S. P. Bell, A. Gann, M. Levine, R. Losick, Molecular Biology of the Gene, Cold Spring Harbor Laboratory Press, 2008.
- 3R. D. Hotchkiss, J. Biol. Chem. 1948, 175, 315–332.
- 4T. B. Miranda, P. A. Jones, J. Cell. Physiol. 2007, 213, 384–390.
- 5L. Lande-Diner, J. Zhang, I. Ben-Porath, N. Amariglio, I. Keshet, M. Hecht, V. Azuara, A. G. Fisher, G. Rechavi, H. Cedar, J. Biol. Chem. 2007, 282, 12194–12200.
- 6K. Delaval, R. Feil, Curr. Opin. Genet. Dev. 2004, 14, 188–195.
- 7T. A. Hore, R. W. Rapkins, J. A. Graves, Trends Genet. 2007, 23, 440–448.
- 8K. Sha, Annu. Rev. Genomics Hum. Genet. 2008, 9, 197–216.
- 9E. Heard, Curr. Opin. Cell Biol. 2004, 16, 247–255.
- 10S. C. Chang, T. Tucker, N. P. Thorogood, C. J. Brown, Front. Biosci. 2006, 11, 852–866.
- 11Z. C. Yen, I. M. Meyer, S. Karalic, C. J. Brown, Genomics 2007, 90, 453–463.
- 12T. Straub, P. B. Becker, Nat. Rev. 2007, 8, 47–57.
- 13G. Howard, R. Eiges, F. Gaudet, R. Jaenisch, A. Eden, Oncogene 2008, 27, 404–408.
- 14J. A. Yoder, N. S. Soman, G. L. Verdine, T. H. Bestor, J. Mol. Biol. 1997, 270, 385–395.
- 15D. R. Fitzpatrick, C. B. Wilson, Clin. Immunol. 2003, 109, 37–45.
- 16X. Yang, S. L. Smith, X. C. Tian, H. A. Lewin, J. P. Renard, T. Wakayama, Nat. Genet. 2007, 39, 295–302.
- 17W. Reik, Nature 2007, 447, 425–432.
- 18M. Hemberger, W. Dean, W. Reik, Nat. Rev. Mol. Cell Biol. 2009, 10, 526–537.
- 19J. D. Sweatt, Biol. Psychiatry 2009, 65, 191–197.
- 20M. M. McCarthy, A. P. Auger, T. L. Bale, G. J. De Vries, G. A. Dunn, N. G. Forger, E. K. Murray, B. M. Nugent, J. M. Schwarz, M. E. Wilson, J. Neurosci. 2009, 29, 12815–12823.
- 21Y. Zhang, R. Jurkowska, S. Soeroes, A. Rajavelu, A. Dhayalan, I. Bock, P. Rathert, O. Brandt, R. Reinhardt, W. Fischle, A. Jeltsch, Nucleic Acids Res. 2010.
- 22K. D. Robertson, Nat. Rev. 2005, 6, 597–610.
- 23A. P. Feinberg, Nature 2007, 447, 433–440.
- 24P. A. Jones, S. B. Baylin, Cell 2007, 128, 683–692.
- 25A. P. Feinberg, B. Tycko, Nat. Rev. Cancer 2004, 4, 143–153.
- 26P. A. Jones, S. B. Baylin, Nat. Rev. 2002, 3, 415–428.
- 27X. Cheng, R. M. Blumenthal, Structure 2008, 16, 341–350.
- 28T. Kouzarides, Cell 2007, 128, 693–705.
- 29H. Cedar, Y. Bergman, Nat. Rev. 2009, 10, 295–304.
- 30R. Lister, M. Pelizzola, R. H. Dowen, R. D. Hawkins, G. Hon, J. Tonti-Filippini, J. R. Nery, L. Lee, Z. Ye, Q. M. Ngo, L. Edsall, J. Antosiewicz-Bourget, R. Stewart, V. Ruotti, A. H. Millar, J. A. Thomson, B. Ren, J. R. Ecker, Nature 2009, 462, 315–322.
- 31L. Laurent, E. Wong, G. Li, T. Huynh, A. Tsirigos, C. T. Ong, H. M. Low, K. W. Kin Sung, I. Rigoutsos, J. Loring, C. L. Wei, Genome Res. 2010, 20, 320–331.
- 32S. Maegawa, G. Hinkal, H. S. Kim, L. Shen, L. Zhang, J. Zhang, N. Zhang, S. Liang, L. A. Donehower, J. P. Issa, Genome Res. 2010, 20, 332–340.
- 33S. Kriaucionis, N. Heintz, Science 2009, 324, 929–930.
- 34M. Tahiliani, K. P. Koh, Y. Shen, W. A. Pastor, H. Bandukwala, Y. Brudno, S. Agarwal, L. M. Iyer, D. R. Liu, L. Aravind, A. Rao, Science 2009, 324, 930–935.
- 35G. P. Pfeifer, M. Tang, M. F. Denissenko, Curr. Top. Microbiol. Immunol. 2000, 249, 1–19.
- 36J. C. Shen, W. M. Rideout, 3rd, P. A. Jones, Nucleic Acids Res. 1994, 22, 972–976.
- 37D. Takai, P. A. Jones, Mol. Biol. Evol. 2004, 21, 463–467.
- 38S. Saxonov, P. Berg, D. L. Brutlag, Proc. Natl. Acad. Sci. USA 2006, 103, 1412–1417.
- 39M. Weber, I. Hellmann, M. B. Stadler, L. Ramos, S. Paabo, M. Rebhan, D. Schubeler, Nat. Genet. 2007, 39, 457–466.
- 40L. Shen, Y. Kondo, Y. Guo, J. Zhang, L. Zhang, S. Ahmed, J. Shu, X. Chen, R. A. Waterland, J. P. Issa, PLoS Genet. 2007, 3, 2023–2036.
- 41E. Schilling, M. Rehli, Genomics 2007, 90, 314–323.
- 42F. Song, J. F. Smith, M. T. Kimura, A. D. Morrow, T. Matsuyama, H. Nagase, W. A. Held, Proc. Natl. Acad. Sci. USA 2005, 102, 3336–3341.
- 43A. Meissner, T. S. Mikkelsen, H. Gu, M. Wernig, J. Hanna, A. Sivachenko, X. Zhang, B. E. Bernstein, C. Nusbaum, D. B. Jaffe, A. Gnirke, R. Jaenisch, E. S. Lander, Nature 2008, 454, 766–770.
- 44Y. Zhang, C. Rohde, S. Tierling, T. P. Jurkowski, C. Bock, D. Santacruz, S. Ragozin, R. Reinhardt, M. Groth, J. Walter, A. Jeltsch, PLoS Genet. 2009, 5, e 1000438.
- 45R. Straussman, D. Nejman, D. Roberts, I. Steinfeld, B. Blum, N. Benvenisty, I. Simon, Z. Yakhini, H. Cedar, Nat. Struct. Mol. Biol. 2009, 16, 564–571.
- 46E. Hodges, A. D. Smith, J. Kendall, Z. Xuan, K. Ravi, M. Rooks, M. Q. Zhang, K. Ye, A. Bhattacharjee, L. Brizuela, W. R. McCombie, M. Wigler, G. J. Hannon, J. B. Hicks, Genome Res. 2009, 19, 1593–1605.
- 47A. D. Riggs, Cytogenet. Cell Genet. 1975, 14, 9–25.
- 48R. Holliday, J. E. Pugh, Science 1975, 187, 226–232.
- 49X. Cheng, Annu. Rev. Biophys. Biomol. Struct. 1995, 24, 293–318.
- 50A. Jeltsch, ChemBioChem 2002, 3, 274–293.
- 51T. Bestor, A. Laudano, R. Mattaliano, V. Ingram, J. Mol. Biol. 1988, 203, 971–983.
- 52M. Fatemi, A. Hermann, S. Pradhan, A. Jeltsch, J. Mol. Biol. 2001, 309, 1189–1199.
- 53R. Goyal, R. Reinhardt, A. Jeltsch, Nucleic Acids Res. 2006, 34, 1182–1188.
- 54H. Leonhardt, A. W. Page, H. U. Weier, T. H. Bestor, Cell 1992, 71, 865–873.
- 55E. Li, T. H. Bestor, R. Jaenisch, Cell 1992, 69, 915–926.
- 56E. Li, C. Beard, R. Jaenisch, Nature 1993, 366, 362–365.
- 57C. Y. Howell, T. H. Bestor, F. Ding, K. E. Latham, C. Mertineit, J. M. Trasler, J. R. Chaillet, Cell 2001, 104, 829–838.
- 58C. Beard, E. Li, R. Jaenisch, Genes Dev. 1995, 9, 2325–2334.
- 59T. Sado, M. H. Fenner, S. S. Tan, P. Tam, T. Shioda, E. Li, Dev. Biol. 2000, 225, 294–303.
- 60B. Panning, R. Jaenisch, Genes Dev. 1996, 10, 1991–2002.
- 61R. Z. Chen, U. Pettersson, C. Beard, L. Jackson-Grusby, R. Jaenisch, Nature 1998, 395, 89–93.
- 62T. Chen, S. Hevi, F. Gay, N. Tsujimoto, T. He, B. Zhang, Y. Ueda, E. Li, Nat. Genet. 2007, 39, 391–396.
- 63L. Jackson-Grusby, C. Beard, R. Possemato, M. Tudor, D. Fambrough, G. Csankovszki, J. Dausman, P. Lee, C. Wilson, E. Lander, R. Jaenisch, Nat. Genet. 2001, 27, 31–39.
- 64S. Takashima, M. Takehashi, J. Lee, S. Chuma, M. Okano, K. Hata, I. Suetake, N. Nakatsuji, H. Miyoshi, S. Tajima, Y. Tanaka, S. Toyokuni, H. Sasaki, M. Kanatsu-Shinohara, T. Shinohara, Biol. Reprod. 2009, 81, 155–164.
- 65F. Gaudet, J. G. Hodgson, A. Eden, L. Jackson-Grusby, J. Dausman, J. W. Gray, H. Leonhardt, R. Jaenisch, Science 2003, 300, 489–492.
- 66A. Eden, F. Gaudet, A. Waghmare, R. Jaenisch, Science 2003, 300, 455.
- 67M. R. Rountree, K. E. Bachman, S. B. Baylin, Nat. Genet. 2000, 25, 269–277.
- 68F. Ding, J. R. Chaillet, Proc. Natl. Acad. Sci. USA 2002, 99, 14861–14866.
- 69F. D. Araujo, S. Croteau, A. D. Slack, S. Milutinovic, P. Bigey, G. B. Price, M. Zannis-Hadjopoulos, M. Szyf, J. Biol. Chem. 2001, 276, 6930–6936.
- 70L. S. Chuang, H. I. Ian, T. W. Koh, H. H. Ng, G. Xu, B. F. Li, Science 1997, 277, 1996–2000.
- 71M. C. Cardoso, H. Leonhardt, J. Cell Biol. 1999, 147, 25–32.
- 72H. P. Easwaran, L. Schermelleh, H. Leonhardt, M. C. Cardoso, EMBO Rep. 2004, 5, 1181–1186.
- 73K. Fellinger, U. Rothbauer, M. Felle, G. Langst, H. Leonhardt, J. Cell. Biochem. 2009, 106, 521–528.
- 74S. H. Cross, R. R. Meehan, X. Nan, A. Bird, Nat. Genet. 1997, 16, 256–259.
- 75J. H. Lee, K. S. Voo, D. G. Skalnik, J. Biol. Chem. 2001, 276, 44669–44676.
- 76J. H. Lee, D. G. Skalnik, J. Biol. Chem. 2005, 280, 41725–41731.
- 77Y. Tsukada, J. Fang, H. Erdjument-Bromage, M. E. Warren, C. H. Borchers, P. Tempst, Y. Zhang, Nature 2006, 439, 811–816.
- 78H. F. Jorgensen, I. Ben-Porath, A. P. Bird, Mol. Cell. Biol. 2004, 24, 3387–3395.
- 79M. Birke, S. Schreiner, M. P. Garcia-Cuellar, K. Mahr, F. Titgemeyer, R. K. Slany, Nucleic Acids Res. 2002, 30, 958–965.
- 80M. D. Allen, C. G. Grummitt, C. Hilcenko, S. Y. Min, L. M. Tonkin, C. M. Johnson, S. M. Freund, M. Bycroft, A. J. Warren, Embo J. 2006, 25, 4503–4512.
- 81M. Pradhan, P. O. Esteve, H. G. Chin, M. Samaranayke, G. D. Kim, S. Pradhan, Biochemistry 2008, 47, 10000–10009.
- 82N. C. Lau, A. G. Seto, J. Kim, S. Kuramochi-Miyagawa, T. Nakano, D. P. Bartel, R. E. Kingston, Science 2006, 313, 363–367.
- 83C. Zimmermann, E. Guhl, A. Graessmann, Biol. Chem. 1997, 378, 393–405.
- 84J. B. Margot, A. E. Ehrenhofer-Murray, H. Leonhardt, BMC Mol. Biol. 2003, 4, 7.
- 85K. D. Robertson, E. Uzvolgyi, G. Liang, C. Talmadge, J. Sumegi, F. A. Gonzales, P. A. Jones, Nucleic Acids Res. 1999, 27, 2291–2298.
- 86P. J. Lee, L. L. Washer, D. J. Law, C. R. Boland, I. L. Horon, A. P. Feinberg, Proc. Natl. Acad. Sci. USA 1996, 93, 10366–10370.
- 87F. Kimura, H. H. Seifert, A. R. Florl, S. Santourlidis, C. Steinhoff, S. Swiatkowski, C. Mahotka, C. D. Gerharz, W. A. Schulz, Int. J. Cancer 2003, 104, 568–578.
- 88P. Bigey, S. Ramchandani, J. Theberge, F. D. Araujo, M. Szyf, Gene 2000, 242, 407–418.
- 89J. K. Jung, P. Arora, J. S. Pagano, K. L. Jang, Cancer Res. 2007, 67, 5771–5778.
- 90J. Torrisani, A. Unterberger, S. R. Tendulkar, K. Shikimi, M. Szyf, Mol. Cell. Biol. 2007, 27, 395–410.
- 91P. O. Esteve, H. G. Chin, J. Benner, G. R. Feehery, M. Samaranayake, G. A. Horwitz, S. E. Jacobsen, S. Pradhan, Proc. Natl. Acad. Sci. USA 2009, 106, 5076–5081.
- 92R. T. O’Keefe, S. C. Henderson, D. L. Spector, J. Cell Biol. 1992, 116, 1095–1110.
- 93Y. Liu, E. J. Oakeley, L. Sun, J. P. Jost, Nucleic Acids Res. 1998, 26, 1038–1045.
- 94C. Mertineit, J. A. Yoder, T. Taketo, D. W. Laird, J. M. Trasler, T. H. Bestor, Development 1998, 125, 889–897.
- 95L. L. Carlson, A. W. Page, T. H. Bestor, Genes Dev. 1992, 6, 2536–2541.
- 96S. Ratnam, C. Mertineit, F. Ding, C. Y. Howell, H. J. Clarke, T. H. Bestor, J. R. Chaillet, J. M. Trasler, Dev. Biol. 2002, 245, 304–314.
- 97Y. Kurihara, Y. Kawamura, Y. Uchijima, T. Amamo, H. Kobayashi, T. Asano, H. Kurihara, Dev. Biol. 2008, 313, 335–346.
- 98R. Hirasawa, H. Chiba, M. Kaneda, S. Tajima, E. Li, R. Jaenisch, H. Sasaki, Genes Dev. 2008, 22, 1607–1616.
- 99A. Jeltsch, Epigenetics 2006, 1, 63–66.
- 100A. Hermann, R. Goyal, A. Jeltsch, J. Biol. Chem. 2004, 279, 48350–48359.
- 101G. Vilkaitis, I. Suetake, S. Klimasauskas, S. Tajima, J. Biol. Chem. 2005, 280, 64–72.
- 102F. A. Feltus, E. K. Lee, J. F. Costello, C. Plass, P. M. Vertino, Proc. Natl. Acad. Sci. USA 2003, 100, 12253–12258.
- 103K. W. Jair, K. E. Bachman, H. Suzuki, A. H. Ting, I. Rhee, R. W. Yen, S. B. Baylin, K. E. Schuebel, Cancer Res. 2006, 66, 682–692.
- 104M. Fatemi, A. Hermann, H. Gowher, A. Jeltsch, Eur. J. Biochem. 2002, 269, 4981–4984.
- 105J. K. Christman, G. Sheikhnejad, C. J. Marasco, J. R. Sufrin, Proc. Natl. Acad. Sci. USA 1995, 92, 7347–7351.
- 106A. Bacolla, S. Pradhan, R. J. Roberts, R. D. Wells, J. Biol. Chem. 1999, 274, 33011–33019.
- 107S. Pradhan, P. O. Esteve, Biochemistry 2003, 42, 5321–5332.
- 108Z. M. Svedruzic, N. O. Reich, Biochemistry 2005, 44, 9472–9485.
- 109J. Flynn, J. Y. Fang, J. A. Mikovits, N. O. Reich, J. Biol. Chem. 2003, 278, 8238–8243.
- 110A. Bacolla, S. Pradhan, J. E. Larson, R. J. Roberts, R. D. Wells, J. Biol. Chem. 2001, 276, 18605–18613.
- 111F. Eckhardt, J. Lewin, R. Cortese, V. K. Rakyan, J. Attwood, M. Burger, J. Burton, T. V. Cox, R. Davies, T. A. Down, C. Haefliger, R. Horton, K. Howe, D. K. Jackson, J. Kunde, C. Koenig, J. Liddle, D. Niblett, T. Otto, R. Pettett, S. Seemann, C. Thompson, T. West, J. Rogers, A. Olek, K. Berlin, S. Beck, Nat. Genet. 2006, 38, 1378–1385.
- 112J. B. Margot, A. M. Aguirre-Arteta, B. V. Di Giacco, S. Pradhan, R. J. Roberts, M. C. Cardoso, H. Leonhardt, J. Mol. Biol. 2000, 297, 293–300.
- 113R. Goyal, P. Rathert, H. Laser, H. Gowher, A. Jeltsch, Epigenetics 2007, 2, 155–160.
- 114F. Fuks, W. A. Burgers, A. Brehm, L. Hughes-Davies, T. Kouzarides, Nat. Genet. 2000, 24, 88–91.
- 115K. D. Robertson, S. Ait-Si-Ali, T. Yokochi, P. A. Wade, P. L. Jones, A. P. Wolffe, Nat. Genet. 2000, 25, 338–342.
- 116G. D. Kim, J. Ni, N. Kelesoglu, R. J. Roberts, S. Pradhan, Embo J. 2002, 21, 4183–4195.
- 117F. Fuks, P. J. Hurd, R. Deplus, T. Kouzarides, Nucleic Acids Res. 2003, 31, 2305–2312.
- 118P. O. Esteve, H. G. Chin, A. Smallwood, G. R. Feehery, O. Gangisetty, A. R. Karpf, M. F. Carey, S. Pradhan, Genes Dev. 2006, 20, 3089–3103.
- 119E. Vire, C. Brenner, R. Deplus, L. Blanchon, M. Fraga, C. Didelot, L. Morey, A. Van Eynde, D. Bernard, J. M. Vanderwinden, M. Bollen, M. Esteller, L. Di Croce, Y. de Launoit, F. Fuks, Nature 2006, 439, 871–874.
- 120H. Kimura, K. Shiota, J. Biol. Chem. 2003, 278, 4806–4812.
- 121M. Bostick, J. K. Kim, P. O. Esteve, A. Clark, S. Pradhan, S. E. Jacobsen, Science 2007, 317, 1760–1764.
- 122J. Sharif, M. Muto, S. Takebayashi, I. Suetake, A. Iwamatsu, T. A. Endo, J. Shinga, Y. Mizutani-Koseki, T. Toyoda, K. Okamura, S. Tajima, K. Mitsuya, M. Okano, H. Koseki, Nature 2007, 450, 908–912.
- 123O. Mortusewicz, L. Schermelleh, J. Walter, M. C. Cardoso, H. Leonhardt, Proc. Natl. Acad. Sci. USA 2005, 102, 8905–8909.
- 124G. Egger, S. Jeong, S. G. Escobar, C. C. Cortez, T. W. Li, Y. Saito, C. B. Yoo, P. A. Jones, G. Liang, Proc. Natl. Acad. Sci. USA 2006, 103, 14080–14085.
- 125G. V. Avvakumov, J. R. Walker, S. Xue, Y. Li, S. Duan, C. Bronner, C. H. Arrowsmith, S. Dhe-Paganon, Nature 2008, 455, 822–825.
- 126H. Hashimoto, J. R. Horton, X. Zhang, M. Bostick, S. E. Jacobsen, X. Cheng, Nature 2008, 455, 826–829.
- 127K. Arita, M. Ariyoshi, H. Tochio, Y. Nakamura, M. Shirakawa, Nature 2008, 455, 818–821.
- 128J. F. Glickman, J. Flynn, N. O. Reich, Biochem. Biophys. Res. Commun. 1997, 230, 280–284.
- 129S. A. Beausoleil, M. Jedrychowski, D. Schwartz, J. E. Elias, J. Villen, J. Li, M. A. Cohn, L. C. Cantley, S. P. Gygi, Proc. Natl. Acad. Sci. USA 2004, 101, 12130–12135.
- 130J. V. Olsen, B. Blagoev, F. Gnad, B. Macek, C. Kumar, P. Mortensen, M. Mann, Cell 2006, 127, 635–648.
- 131B. Lee, M. T. Müller, Biochem. J. 2009, 421, 449–461.
- 132J. Wang, S. Hevi, J. K. Kurash, H. Lei, F. Gay, J. Bajko, H. Su, W. Sun, H. Chang, G. Xu, F. Gaudet, E. Li, T. Chen, Nat. Genet. 2009, 41, 125–129.
- 133M. Okano, S. Xie, E. Li, Nat. Genet. 1998, 19, 219–220.
- 134H. Gowher, A. Jeltsch, J. Mol. Biol. 2001, 309, 1201–1208.
- 135G. Liang, M. F. Chan, Y. Tomigahara, Y. C. Tsai, F. A. Gonzales, E. Li, P. W. Laird, P. A. Jones, Mol. Cell. Biol. 2002, 22, 480–491.
- 136T. Chen, Y. Ueda, J. E. Dodge, Z. Wang, E. Li, Mol. Cell. Biol. 2003, 23, 5594–5605.
- 137S. Jeong, G. Liang, S. Sharma, J. C. Lin, S. H. Choi, H. Han, C. B. Yoo, G. Egger, A. S. Yang, P. A. Jones, Mol. cell. biol. 2009, 29, 5366–5376.
- 138M. Okano, D. W. Bell, D. A. Haber, E. Li, Cell 1999, 99, 247–257.
- 139R. S. Hansen, C. Wijmenga, P. Luo, A. M. Stanek, T. K. Canfield, C. M. Weemaes, S. M. Gartler, Proc. Natl. Acad. Sci. USA 1999, 96, 14412–14417.
- 140G. L. Xu, T. H. Bestor, D. Bourc′his, C. L. Hsieh, N. Tommerup, M. Bugge, M. Hulten, X. Qu, J. J. Russo, E. Viegas-Pequignot, Nature 1999, 402, 187–191.
- 141K. Hata, M. Okano, H. Lei, E. Li, Development 2002, 129, 1983–1993.
- 142D. Bourc′his, T. H. Bestor, Nature 2004, 431, 96–99.
- 143K. E. Webster, M. K. O’Bryan, S. Fletcher, P. E. Crewther, U. Aapola, J. Craig, D. K. Harrison, H. Aung, N. Phutikanit, R. Lyle, S. J. Meachem, S. E. Antonarakis, D. M. de Kretser, M. P. Hedger, P. Peterson, B. J. Carroll, H. S. Scott, Proc. Natl. Acad. Sci. USA 2005, 102, 4068–4073.
- 144D. Bourc′his, G. L. Xu, C. S. Lin, B. Bollman, T. H. Bestor, Science 2001, 294, 2536–2539.
- 145M. Kaneda, M. Okano, K. Hata, T. Sado, N. Tsujimoto, E. Li, H. Sasaki, Nature 2004, 429, 900–903.
- 146J. E. Dodge, M. Okano, F. Dick, N. Tsujimoto, T. Chen, S. Wang, Y. Ueda, N. Dyson, E. Li, J. Biol. Chem. 2005, 280, 17986–17991.
- 147T. Chen, Y. Ueda, S. Xie, E. Li, J. Biol. Chem. 2002, 277, 38746–38754.
- 148D. J. Weisenberger, M. Velicescu, J. C. Cheng, F. A. Gonzales, G. Liang, P. A. Jones, Mol. Cancer Res. 2004, 2, 62–72.
- 149K. E. Bachman, M. R. Rountree, S. B. Baylin, J. Biol. Chem. 2001, 276, 32282–32287.
- 150T. Chen, N. Tsujimoto, E. Li, Mol. Cell. Biol. 2004, 24, 9048–9058.
- 151Y. Z. Ge, M. T. Pu, H. Gowher, H. P. Wu, J. P. Ding, A. Jeltsch, G. L. Xu, J. Biol. Chem. 2004, 279, 25447–25454.
- 152K. Nimura, C. Ishida, H. Koriyama, K. Hata, S. Yamanaka, E. Li, K. Ura, Y. Kaneda, Genes Cells 2006, 11, 1225–1237.
- 153M. Suzuki, T. Yamada, F. Kihara-Negishi, T. Sakurai, E. Hara, D. G. Tenen, N. Hozumi, T. Oikawa, Oncogene 2006, 25, 2477–2488.
- 154C. Brenner, R. Deplus, C. Didelot, A. Loriot, E. Vire, C. De Smet, A. Gutierrez, D. Danovi, D. Bernard, T. Boon, P. G. Pelicci, B. Amati, T. Kouzarides, Y. de Launoit, L. Di Croce, F. Fuks, Embo J. 2005, 24, 336–346.
- 155F. Fuks, W. A. Burgers, N. Godin, M. Kasai, T. Kouzarides, Embo J. 2001, 20, 2536–2544.
- 156H. Li, T. Rauch, Z. X. Chen, P. E. Szabo, A. D. Riggs, G. P. Pfeifer, J. Biol. Chem. 2006, 281, 19489–19500.
- 157J. Datta, S. Majumder, S. Bai, K. Ghoshal, H. Kutay, D. S. Smith, J. W. Crabb, S. T. Jacob, Cancer Res. 2005, 65, 10891–10900.
- 158S. K. Ooi, C. Qiu, E. Bernstein, K. Li, D. Jia, Z. Yang, H. Erdjument-Bromage, P. Tempst, S. P. Lin, C. D. Allis, X. Cheng, T. H. Bestor, Nature 2007, 448, 714–717.
- 159J. Otani, T. Nankumo, K. Arita, S. Inamoto, M. Ariyoshi, M. Shirakawa, EMBO Rep. 2009, 10, 1235–1241.
- 160S. D. Taverna, H. Li, A. J. Ruthenburg, C. D. Allis, D. J. Patel, Nat. Struct. Mol. Biol. 2007, 14, 1025–1040.
- 161C. Qiu, K. Sawada, X. Zhang, X. Cheng, Nat. Struct. Biol. 2002, 9, 217–224.
- 162H. Gowher, A. Jeltsch, J. Biol. Chem. 2002, 277, 20409–20414.
- 163H. Gowher, K. Liebert, A. Hermann, G. Xu, A. Jeltsch, J. Biol. Chem. 2005, 280, 13341–13348.
- 164M. S. Kareta, Z. M. Botello, J. J. Ennis, C. Chou, F. Chedin, J. Biol. Chem. 2006, 281, 25893–25902.
- 165F. Chedin, M. R. Lieber, C. L. Hsieh, Proc. Natl. Acad. Sci. USA 2002, 99, 16916–16921.
- 166Z. X. Chen, J. R. Mann, C. L. Hsieh, A. D. Riggs, F. Chedin, J. Cell. Biochem. 2005, 95, 902–917.
- 167I. Suetake, F. Shinozaki, J. Miyagawa, H. Takeshima, S. Tajima, J. Biol. Chem. 2004, 279, 27816–27823.
- 168D. Jia, R. Z. Jurkowska, X. Zhang, A. Jeltsch, X. Cheng, Nature 2007, 449, 248–251.
- 169R. Z. Jurkowska, N. Anspach, C. Urbanke, D. Jia, R. Reinhardt, W. Nellen, X. Cheng, A. Jeltsch, Nucleic Acids Res. 2008, 36, 6656–6663.
- 170B. H. Ramsahoye, D. Biniszkiewicz, F. Lyko, V. Clark, A. P. Bird, R. Jaenisch, Proc. Natl. Acad. Sci. USA 2000, 97, 5237–5242.
- 171I. G. Lin, L. Han, A. Taghva, L. E. O’Brien, C. L. Hsieh, Mol. cell. biol. 2002, 22, 704–723.
- 172V. Handa, A. Jeltsch, J. Mol. Biol. 2005, 348, 1103–1112.
- 173S. Xie, Z. Wang, M. Okano, M. Nogami, Y. Li, W. W. He, K. Okumura, E. Li, Gene 1999, 236, 87–95.
- 174A. Aoki, I. Suetake, J. Miyagawa, T. Fujio, T. Chijiwa, H. Sasaki, S. Tajima, Nucleic Acids Res. 2001, 29, 3506–3512.
- 175C. R. Vakoc, M. M. Sachdeva, H. Wang, G. A. Blobel, Mol. cell. biol. 2006, 26, 9185–9195.
- 176K. R. Ostler, E. M. Davis, S. L. Payne, B. B. Gosalia, J. Exposito-Cespedes, M. M. Le Beau, L. A. Godley, Oncogene 2007, 26, 5553–5563.
- 177Y. Saito, Y. Kanai, M. Sakamoto, H. Saito, H. Ishii, S. Hirohashi, Proc. Natl. Acad. Sci. USA 2002, 99, 10060–10065.
- 178Y. Ling, U. T. Sankpal, A. K. Robertson, J. G. McNally, T. Karpova, K. D. Robertson, Nucleic Acids Res. 2004, 32, 598–610.
- 179B. Li, J. Zhou, P. Liu, J. Hu, H. Jin, Y. Shimono, M. Takahashi, G. Xu, Biochem. J. 2007, 405, 369–378.
- 180E. S. Kang, C. W. Park, J. H. Chung, Biochem. Biophys. Res. Commun. 2001, 289, 862–868.
- 181H. D. Morgan, F. Santos, K. Green, W. Dean, W. Reik, Hum. Mol. Genet. 2005, 14, R 47–58.
- 182W. Reik, W. Dean, J. Walter, Science 2001, 293, 1089–1093.
- 183H. Sasaki, Y. Matsui, Nat. Rev. 2008, 9, 129–140.
- 184D. J. Lees-Murdock, C. P. Walsh, Adv. Exp. Med. Biol. 2008, 626, 1–15.
- 185C. Popp, W. Dean, S. Feng, S. J. Cokus, S. Andrews, M. Pellegrini, S. E. Jacobsen, W. Reik, Nature 2010, 463, 1101–1105.
- 186S. J. Cokus, S. Feng, X. Zhang, Z. Chen, B. Merriman, C. D. Haudenschild, S. Pradhan, S. F. Nelson, M. Pellegrini, S. E. Jacobsen, Nature 2008, 452, 215–219.
- 187A. Dhayalan, A. Rajavelu, P. Rathert, R. Tamas, R. Z. Jurkowska, S. Ragozin, A. Jeltsch, J. Biol. Chem. 2010, in press.
- 188A. Barski, S. Cuddapah, K. Cui, T. Y. Roh, D. E. Schones, Z. Wang, G. Wei, I. Chepelev, K. Zhao, Cell 2007, 129, 823–837.
- 189E. Larschan, A. A. Alekseyenko, A. A. Gortchakov, S. Peng, B. Li, P. Yang, J. L. Workman, P. J. Park, M. I. Kuroda, Mol. Cell 2007, 28, 121–133.
- 190J. W. Edmunds, L. C. Mahadevan, A. L. Clayton, Embo J. 2008, 27, 406–420.
- 191M. P. Ball, J. B. Li, Y. Gao, J. H. Lee, E. M. LeProust, I. H. Park, B. Xie, G. Q. Daley, G. M. Church, Nat. Biotechnol. 2009, 27, 361–368.
- 192P. Kolasinska-Zwierz, T. Down, I. Latorre, T. Liu, X. S. Liu, J. Ahringer, Nat. Genet. 2009, 41, 376–381.
- 193Y. A. Wang, Y. Kamarova, K. C. Shen, Z. Jiang, M. J. Hahn, Y. Wang, S. C. Brooks, Cancer Biol. Ther. 2005, 4, 1138–1143.
- 194L. Di Croce, V. A. Raker, M. Corsaro, F. Fazi, M. Fanelli, M. Faretta, F. Fuks, F. Lo Coco, T. Kouzarides, C. Nervi, S. Minucci, P. G. Pelicci, Science 2002, 295, 1079–1082.
- 195M. Shamay, A. Krithivas, J. Zhang, S. D. Hayward, Proc. Natl. Acad. Sci. USA 2006, 103, 14554–14559.
- 196N. Feldman, A. Gerson, J. Fang, E. Li, Y. Zhang, Y. Shinkai, H. Cedar, Y. Bergman, Nat. Cell Biol. 2006, 8, 188–194.
- 197S. Epsztejn-Litman, N. Feldman, M. Abu-Remaileh, Y. Shufaro, A. Gerson, J. Ueda, R. Deplus, F. Fuks, Y. Shinkai, H. Cedar, Y. Bergman, Nat. struct. mol. biol. 2008, 15, 1176–1183.
- 198H. Takeshima, I. Suetake, S. Tajima, J. Mol. Biol. 2008, 383, 810–821.
- 199H. Zhu, T. M. Geiman, S. Xi, Q. Jiang, A. Schmidtmann, T. Chen, E. Li, K. Muegge, Embo J. 2006, 25, 335–345.
- 200K. Dennis, T. Fan, T. Geiman, Q. Yan, K. Muegge, Genes Dev. 2001, 15, 2940–2944.
- 201T. Fan, Q. Yan, J. Huang, S. Austin, E. Cho, D. Ferris, K. Muegge, Cancer Res. 2003, 63, 4677–4683.
- 202Q. Yan, J. Huang, T. Fan, H. Zhu, K. Muegge, Embo J. 2003, 22, 5154–5162.
- 203R. De La Fuente, C. Baumann, T. Fan, A. Schmidtmann, I. Dobrinski, K. Muegge, Nat. Cell Biol. 2006, 8, 1448–1454.
- 204A. Jeltsch, Nat. struct. mol. biol. 2008, 15, 1003–1004.
- 205L. Schermelleh, A. Haemmer, F. Spada, N. Rosing, D. Meilinger, U. Rothbauer, M. C. Cardoso, H. Leonhardt, Nucleic Acids Res. 2007, 35, 4301–4312.
- 206M. Achour, X. Jacq, P. Ronde, M. Alhosin, C. Charlot, T. Chataigneau, M. Jeanblanc, M. Macaluso, A. Giordano, A. D. Hughes, V. B. Schini-Kerth, C. Bronner, Oncogene 2008, 27, 2187–2197.
- 207P. A. Jones, G. Liang, Nat. Rev. 2009, 10, 805–811.
- 208I. Rhee, K. W. Jair, R. W. Yen, C. Lengauer, J. G. Herman, K. W. Kinzler, B. Vogelstein, S. B. Baylin, K. E. Schuebel, Nature 2000, 404, 1003–1007.
- 209I. Rhee, K. E. Bachman, B. H. Park, K. W. Jair, R. W. Yen, K. E. Schuebel, H. Cui, A. P. Feinberg, C. Lengauer, K. W. Kinzler, S. B. Baylin, B. Vogelstein, Nature 2002, 416, 552–556.
- 210C. D. Laird, N. D. Pleasant, A. D. Clark, J. L. Sneeden, K. M. Hassan, N. C. Manley, J. C. Vary, Jr., T. Morgan, R. S. Hansen, R. Stoger, Proc. Natl. Acad. Sci. USA 2004, 101, 204–209.
- 211A. F. Burden, N. C. Manley, A. D. Clark, S. M. Gartler, C. D. Laird, R. S. Hansen, J. Biol. Chem. 2005, 280, 14413–14419.
- 212A. D. Riggs, Z. Xiong, Proc. Natl. Acad. Sci. USA 2004, 101, 4–5.
- 213D. P. Genereux, B. E. Miner, C. T. Bergstrom, C. D. Laird, Proc. Natl. Acad. Sci. USA 2005, 102, 5802–5807.
- 214D. Meilinger, K. Fellinger, S. Bultmann, U. Rothbauer, I. M. Bonapace, W. E. F. Klinkert, F. Spada, H. Leonhardt, EMBO Rep. 2009, 10, 1259–1264.