The N-terminus of histone H3 is required for de novo DNA methylation in chromatin

Proceedings of the National Academy of Sciences of the United States of America

Volumn 106, Issue 52, 2009, Pages 22187-22192

  Hu, Jia Lei ^a,b   Zhou, Bo O ^a,b   Zhang, Run Rui ^a,b   Zhang, Kang Ling ^c   Zhou, Jin Qiu ^a   Xu, Guo Liang ^a  

^a Shanghai Jiao Tong University Affiliated Sixth People s Hospital   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

^c LOMA LINDA UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Dnmt3a; Dnmt3L; Dnmt3L promoter; H3K4 methylation; PHD domain; Yeast Saccharomyces cerevisiae

Indexed keywords

DNA; DNA METHYLTRANSFERASE; DNA METHYLTRANSFERASE 3A; DNA METHYLTRANSFERASE 3L; HISTONE; HISTONE H3; HISTONE H3K4; HISTONE H4; LYSINE DERIVATIVE; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ANIMAL CELL; ARTICLE; CHROMATIN; CONTROLLED STUDY; DNA METHYLATION; GENETIC ANALYSIS; HETEROCHROMATIN; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN DOMAIN; PROTEIN EXPRESSION; SACCHAROMYCES CEREVISIAE;

ANIMALS; CHROMATIN; DNA (CYTOSINE-5-)-METHYLTRANSFERASE; DNA METHYLATION; DNA, FUNGAL; HISTONES; METHYLATION; MICE; MODELS, BIOLOGICAL; RECOMBINANT PROTEINS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS;

MURINAE; SACCHAROMYCES CEREVISIAE; SACCHAROMYCETALES;

EID: 76049130688     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.0905767106     Document Type: Article

References (40)

1. Jaenisch R, Bird A (2003) Epigenetic regulation of gene expression: How the genome integrates intrinsic and environmental signals. Nat Gen 33:245-254.
2. Bestor TH (2000) The DNA methyltransferases of mammals.Hum Mol Gen 9:2395-2402.
3. Li E (2002) Chromatin modification and epigenetic reprogramming in mammalian development. Nat Rev Genet 3:662-673.
4. Tamaru H, Selker EU (2001) A histone H3 methyltransferase controls DNA methylation in Neurospora crassa. Nature 414:277-283.
5. Lehnertz B, et al. (2003) Suv39h-mediated histone H3 lysine 9methylation directs DNA methylation to major satellite repeats at pericentric heterochromatin. Curr Biol 13:1192-1200.
6. Dong KB, et al. (2008)DNAmethylation in ES cells requires the lysine methyltransferase G9a but not its catalytic activity. EMBO J 27:2691-2701.
7. Tachibana M, Matsumura Y, Fukuda M, Kimura H, Shinkai Y (2008) G9a/GLP complexes independently mediate H3K9 and DNA methylation to silence transcription. EMBO J 27:2681-2690.
8. Epsztejn-Litman S, et al. (2008) De novo DNA methylation promoted by G9a prevents reprogramming of embryonically silenced genes. Nat Struct Mol Bio 15:1176-1183.
9. Esteve PO, et al. (2006) Direct interaction between DNMT1 and G9a coordinates DNA and histone methylation during replication. Genes Dev 20:3089-3103.
10. Sharif J, et al. (2007) The SRA protein Np95 mediates epigenetic inheritance by recruiting Dnmt1 to methylated DNA. Nature 450:908-912.
11. Ooi SK, et al. (2007) DNMT3L connects unmethylated lysine 4 of histone H3 to de novo methylation of DNA. Nature 448:714-717.
12. Cheng X, Blumenthal RM (2008) Mammalian DNA methyltransferases: A structural perspective. Structure 16:341-350.
13. Mohn F, et al. (2008) Lineage-specific polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors. Mol Cell 30:755-766.
14. Meissner A, et al. (2008) Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature 454:766-770.
15. Ramsahoye BH, et al. (2000) Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a. Proc Natl Acad Sci USA 97:5237-5242.
16. Durrin LK, Mann RK, Kayne PS, Grunstein M (1991) Yeast histone H4 N-terminal sequence is required for promoter activation in vivo. Cell 65:1023-1031.
17. Kirmizis A, et al. (2007) Arginine methylation at histone H3R2 controls deposition of H3K4 trimethylation. Nature 449:928-932.
18. Dehe PM, et al. (2006) Protein interactions within the Set1 complex and their roles in the regulation of histone 3 lysine 4 methylation. J Biol Chem 281:35404-35412.
19. Santos-Rosa H, et al. (2003) Methylation of histone H3 K4 mediates association of the Isw1p ATPase with chromatin. Mol Cell 12:1325-1332.
20. Santos-Rosa H, Bannister AJ, Dehe PM, Geli V, Kouzarides T (2004) Methylation of H3 lysine 4 at euchromatin promotes Sir3p association with heterochromatin. J Biol Chem 279:47506-47512.
21. Nislow C, Ray E, Pillus L (1997) SET1, a yeast member of the trithorax family, functions in transcriptional silencing and diverse cellular processes. Mol Biol Cell 8:2421-2436.
22. Jia D, Jurkowska RZ, Zhang X, Jeltsch A, Cheng X (2007) Structure of Dnmt3a bound to Dnmt3L suggests a model for de novo DNA methylation. Nature 449:248-251.
23. Suetake I, Shinozaki F, Miyagawa J, Takeshima H, Tajima S (2004) DNMT3L stimulates the DNA methylation activity of Dnmt3a and Dnmt3b through a direct interaction. J Biol Chem 279:27816-27823.
24. Gowher H, Liebert K, Hermann A, Xu G, Jeltsch A (2005) Mechanism of stimulation of catalytic activity of Dnmt3A and Dnmt3B DNA-(cytosine-C5)- methyltransferases by Dnmt3L. J Biol Chem 280:13341-13348.
25. Chen ZX, Mann JR, Hsieh CL, Riggs AD, Chedin F (2005) Physical and functional interactions between the human DNMT3L protein and members of the de novo methyltransferase family. J Cell Biochem 95:902-917.
26. Chedin F, Lieber MR, Hsieh CL (2002) The DNA methyltransferase-like protein DNMT3L stimulates de novo methylation by Dnmt3a. Proc Natl Acad Sci USA 99:16916 -16921.
27. Jurkowska RZ, et al. (2008) Formation of nucleoprotein filaments by mammalian DNA methyltransferase Dnmt3a in complex with regulator Dnmt3L. Nucleic Acids Res 36:6656-6663.
28. Hu YG, et al. (2008) Regulation ofDNAmethylation activity through Dnmt3L promoter methylation by Dnmt3 enzymes in embryonic development. Hum Mol Gen 17:2654-2664.
29. Ge YZ, et al. (2004) Chromatin targeting of de novo DNA methyltransferases by the PWWP domain. J Biol Chem 279:25447-25454.
30. Li JY, et al. (2007) Synergistic function ofDNAmethyltransferases Dnmt3a and Dnmt3b in the methylation of Oct4 and Nanog. Mol Cell Biol 27:8748-8759.
31. Ruthenburg AJ, Allis CD, Wysocka J (2007) Methylation of lysine 4 on histone H3: Intricacy of writing and reading a single epigenetic mark. Mol Cell 25:15-30.
32. Feldman N, et al. (2006) G9a-mediated irreversible epigenetic inactivation of Oct-3/4 during early embryogenesis. Nat Cell Bio 8:188-194.
33. Bird A (2002) DNA methylation patterns and epigenetic memory. Genes Dev 16:6-21.
34. Jackson JP, LindrothAM,Cao X, Jacobsen SE (2002) Control ofCpNpGDNAmethylation by the KRYPTONITE histone H3 methyltransferase. Nature 416:556-560.
35. Ramsahoye BH (2002) Measurement of genome wide DNA methylation by reversedphase high-performance liquid chromatography. Methods 27:156-161.
36. Hecht A, GrunsteinM(1999) Mapping DNA interaction sites of chromosomal proteins using immunoprecipitation and polymerase chain reaction. Methods Enzymol 304:399-414.
37. Hata K, Okano M, Lei H, Li E (2002) Dnmt3L cooperates with the Dnmt3 family of de novo DNA methyltransferases to establish maternal imprints in mice. Development 129:1983-1993.
38. Chen T, Ueda Y, Dodge JE, Wang Z, Li E (2003) Establishment and maintenance of genomic methylation patterns in mouse embryonic stem cells by Dnmt3a and Dnmt3b. Mol Cell Bio 23:5594-5605.
39. GuP, LeMenuetD,ChungAC, Cooney AJ (2006) Differential recruitment of methylated CpG binding domains by the orphan receptor GCNF initiates the repression and silencing of Oct4 expression. Mol Cell Bio 26:9471-9483.
40. Iberg AN, et al. (2008) Arginine methylation of the histone H3 tail impedes effector binding. J Biol Chem 283:3006-3010.