Polycomb group protein-mediated repression of transcription

Trends in Biochemical Sciences

Volumn 35, Issue 6, 2010, Pages 323-332

  Morey, Lluís ^a,b   Helin, Kristian ^a,b  

^a UNIVERSITY OF COPENHAGEN   (Denmark)

^b Centre for Epigenetics   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; EMBRYONIC ECTODERM DEVELOPMENT PROTEIN; HISTONE; HISTONE DEACETYLASE 1; HISTONE DEACETYLASE 2; HISTONE H2A; HISTONE H3; HISTONE METHYLTRANSFERASE; HOMEODOMAIN PROTEIN; POLYCOMB GROUP PROTEIN; POLYCOMB REPRESSIVE COMPLEX 1; POLYCOMB REPRESSIVE COMPLEX 2; RING FINGER PROTEIN; TRANSCRIPTION FACTOR EZH2; UBIQUITIN PROTEIN LIGASE E3; UNCLASSIFIED DRUG; UNTRANSLATED RNA;

CELL DIFFERENTIATION; CELL FATE; CELL PROLIFERATION; DEACETYLATION; DEMETHYLATION; DNA METHYLATION; DROSOPHILA MELANOGASTER; EMBRYO DEVELOPMENT; ENZYME ACTIVITY; ENZYME REGULATION; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN FUNCTION; PROTEIN METHYLATION; PROTEIN PROCESSING; PROTEIN TRANSPORT; REVIEW; SIGNAL TRANSDUCTION; TISSUE DIFFERENTIATION; TRANSCRIPTION REGULATION;

ANIMALS; HISTONES; HUMANS; REPRESSOR PROTEINS; RESPONSE ELEMENTS; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

EID: 77954758157     PISSN: 09680004     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tibs.2010.02.009     Document Type: Review

References (87)

1. Kennison J.A. The Polycomb and trithorax group proteins of Drosophila: trans-regulators of homeotic gene function. Annu. Rev. Genet. 1995, 29:289-303.
2. Oktaba K., et al. Dynamic regulation by polycomb group protein complexes controls pattern formation and the cell cycle in Drosophila. Dev. Cell 2008, 15:877-889.
3. Leung C., et al. Bmi1 is essential for cerebellar development and is overexpressed in human medulloblastomas. Nature 2004, 428:337-341.
4. Lessard J., Sauvageau G. Bmi-1 determines the proliferative capacity of normal and leukaemic stem cells. Nature 2003, 423:255-260.
5. Sparmann A., van Lohuizen M. Polycomb silencers control cell fate, development and cancer. Nat. Rev. Cancer 2006, 6:846-856.
6. Bracken A.P., et al. The Polycomb group proteins bind throughout the INK4A-ARF locus and are disassociated in senescent cells. Genes Dev. 2007, 21:525-530.
7. Wang J., et al. Imprinted X inactivation maintained by a mouse Polycomb group gene. Nat. Genet. 2001, 28:371-375.
8. de Napoles M., et al. Polycomb group proteins Ring1A/B link ubiquitylation of histone H2A to heritable gene silencing and X inactivation. Dev. Cell 2004, 7:663-676.
9. Pasini D., et al. The polycomb group protein Suz12 is required for embryonic stem cell differentiation. Mol. Cell Biol. 2007, 27:3769-3779.
10. O'Carroll D., et al. The polycomb-group gene Ezh2 is required for early mouse development. Mol. Cell Biol. 2001, 21:4330-4336.
11. Pasini D., et al. Suz12 is essential for mouse development and for EZH2 histone methyltransferase activity. EMBO J. 2004, 23:4061-4071.
12. Faust C., et al. The eed mutation disrupts anterior mesoderm production in mice. Development 1995, 121:273-285.
13. Voncken J.W., et al. Rnf2 (Ring1b) deficiency causes gastrulation arrest and cell cycle inhibition. Proc. Natl. Acad. Sci. U. S. A. 2003, 100:2468-2473.
14. Cao R., et al. Role of histone H3 lysine 27 methylation in Polycomb-group silencing. Science 2002, 298:1039-1043.
15. Kuzmichev A., et al. Histone methyltransferase activity associated with a human multiprotein complex containing the Enhancer of Zeste protein. Genes Dev. 2002, 16:2893-2905.
16. Tie F., et al. The Drosophila Polycomb Group proteins ESC and E(Z) are present in a complex containing the histone-binding protein p55 and the histone deacetylase RPD3. Development 2001, 128:275-286.
17. Francis N.J., et al. Chromatin compaction by a polycomb group protein complex. Science 2004, 306:1574-1577.
18. Zhou W., et al. Histone H2A monoubiquitination represses transcription by inhibiting RNA polymerase II transcriptional elongation. Mol. Cell 2008, 29:69-80.
19. Simon J.A., Kingston R.E. Mechanisms of polycomb gene silencing: knowns and unknowns. Nat. Rev. Mol. Cell Biol. 2009, 10:697-708.
20. Cao R., et al. Role of Bmi-1 and Ring1A in H2A ubiquitylation and Hox gene silencing. Mol. Cell 2005, 20:845-854.
21. Buchwald G., et al. Structure and E3-ligase activity of the Ring-Ring complex of polycomb proteins Bmi1 and Ring1b. EMBO J. 2006, 25:2465-2474.
22. Kagey M.H., et al. The polycomb protein Pc2 is a SUMO E3. Cell 2003, 113:127-137.
23. Li B., et al. Polycomb protein Cbx4 promotes SUMO modification of de novo DNA methyltransferase Dnmt3a. Biochem. J. 2007, 405:369-378.
24. Roscic A., et al. Phosphorylation-dependent control of Pc2 SUMO E3 ligase activity by its substrate protein HIPK2. Mol. Cell 2006, 24:77-89.
25. Kabil O., et al. Human cystathionine beta-synthase is a target for sumoylation. Biochemistry 2006, 45:13528-13536.
26. Long J., et al. Pc2-mediated sumoylation of Smad-interacting protein 1 attenuates transcriptional repression of E-cadherin. J. Biol. Chem. 2005, 280:35477-35489.
27. Ringrose L., Paro R. Polycomb/Trithorax response elements and epigenetic memory of cell identity. Development 2007, 134:223-232.
28. Muller J., Kassis J.A. Polycomb response elements and targeting of Polycomb group proteins in. Drosophila. Curr. Opin. Genet. Dev. 2006, 16:476-484.
29. Sing A., et al. A vertebrate Polycomb response element governs segmentation of the posterior hindbrain. Cell 2009, 138:885-897.
30. Caretti G., et al. The Polycomb Ezh2 methyltransferase regulates muscle gene expression and skeletal muscle differentiation. Genes Dev. 2004, 18:2627-2638.
31. Woo, C.J. et al. A region of the human HOXD cluster that confers polycomb-group responsiveness. Cell 140, 99-110.
32. Henikoff S. Nucleosome destabilization in the epigenetic regulation of gene expression. Nat. Rev. Genet. 2008, 9:15-26.
33. Zilberman D., et al. Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks. Nature 2008, 456:125-129.
34. Creyghton M.P., et al. H2AZ is enriched at polycomb complex target genes in ES cells and is necessary for lineage commitment. Cell 2008, 135:649-661.
35. Rinn J.L., et al. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 2007, 129:1311-1323.
36. Zhao J., et al. Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome. Science 2008, 322:750-756.
37. Schoeftner S., et al. Recruitment of PRC1 function at the initiation of X inactivation independent of PRC2 and silencing. EMBO J. 2006, 25:3110-3122.
38. Pandey R.R., et al. Kcnq1ot1 antisense noncoding RNA mediates lineage-specific transcriptional silencing through chromatin-level regulation. Mol. Cell 2008, 32:232-246.
39. Guttman M., et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 2009, 458:223-227.
40. Khalil A.M., et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:11667-11672.
41. Ng D., et al. Oculofaciocardiodental and Lenz microphthalmia syndromes result from distinct classes of mutations in BCOR. Nat. Genet. 2004, 36:411-416.
42. Dent A.L., et al. Control of inflammation, cytokine expression, and germinal center formation by BCL-6. Science 1997, 276:589-592.
43. Ye B.H., et al. Alterations of a zinc finger-encoding gene, BCL-6, in diffuse large-cell lymphoma. Science 1993, 262:747-750.
44. Fan Z., et al. BCOR regulates mesenchymal stem cell function by epigenetic mechanisms. Nat. Cell Biol. 2009, 11:1002-1009.
45. Gearhart M.D., et al. Polycomb group and SCF ubiquitin ligases are found in a novel BCOR complex that is recruited to BCL6 targets. Mol. Cell Biol. 2006, 26:6880-6889.
46. Nekrasov M., et al. Pcl-PRC2 is needed to generate high levels of H3-K27 trimethylation at Polycomb target genes. EMBO J. 2007, 26:4078-4088.
47. Sarma K., et al. Ezh2 requires PHF1 to efficiently catalyze H3 lysine 27 trimethylation in vivo. Mol. Cell Biol. 2008, 28:2718-2731.
48. Cao R., et al. Role of hPHF1 in H3K27 methylation and Hox gene silencing. Mol. Cell Biol. 2008, 28:1862-1872.
49. Morey L., et al. MBD3, a component of the NuRD complex, facilitates chromatin alteration and deposition of epigenetic marks. Mol. Cell Biol. 2008, 28:5912-5923.
50. Villa R., et al. Role of the polycomb repressive complex 2 in acute promyelocytic leukemia. Cancer Cell 2007, 11:513-525.
51. Boukarabila H., et al. The PRC1 Polycomb group complex interacts with PLZF/RARA to mediate leukemic transformation. Genes Dev. 2009, 23:1195-1206.
52. Herranz N., et al. Polycomb complex 2 is required for E-cadherin repression by the Snail1 transcription factor. Mol. Cell Biol. 2008, 28:4772-4781.
53. Peng J.C., et al. Jarid2/Jumonji coordinates control of PRC2 enzymatic activity and target gene occupancy in pluripotent cells. Cell 2009, 139:1290-1302.
54. Shen X., et al. Jumonji modulates polycomb activity and self-renewal versus differentiation of stem cells. Cell 2009, 139:1303-1314.
55. Pasini D., et al. JARID2 regulates binding of the Polycomb repressive complex 2 to target genes in ES cells. Nature 2010, 464:306-310.
56. Li G., et al. Jarid2 and PRC2, partners in regulating gene expression. Genes Dev. 2010, 24:368-380.
57. Ku M., et al. Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains. PLoS Genet 2008, 4:e1000242.
58. Jiang J., Hui C.C. Hedgehog signaling in development and cancer. Dev. Cell 2008, 15:801-812.
59. Martinez A.M., et al. Polyhomeotic has a tumor suppressor activity mediated by repression of Notch signaling. Nat. Genet. 2009, 41:1076-1082.
60. Classen A.K., et al. A tumor suppressor activity of Drosophila Polycomb genes mediated by JAK-STAT signaling. Nat. Genet. 2009, 41:1150-1155.
61. Cha T.L., et al. Akt-mediated phosphorylation of EZH2 suppresses methylation of lysine 27 in histone H3. Science 2005, 310:306-310.
62. Ben-Saadon R., et al. The polycomb protein Ring1B generates self atypical mixed ubiquitin chains required for its in vitro histone H2A ligase activity. Mol. Cell 2006, 24:701-711.
63. Tibbles L.A., Woodgett J.R. The stress-activated protein kinase pathways. Cell Mol. Life Sci. 1999, 55:1230-1254.
64. Voncken J.W., et al. MAPKAP kinase 3pK phosphorylates and regulates chromatin association of the polycomb group protein Bmi1. J. Biol. Chem. 2005, 280:5178-5187.
65. Voncken J.W., et al. Chromatin-association of the Polycomb group protein BMI1 is cell cycle-regulated and correlates with its phosphorylation status. J. Cell Sci. 1999, 112(pt 24):4627-4639.
66. Sinclair D.A., et al. Drosophila O-GlcNAc transferase (OGT) is encoded by the Polycomb group (PcG) gene, super sex combs (sxc). Proc. Natl. Acad. Sci. U. S. A. 2009, 106:13427-13432.
67. Gambetta M.C., et al. Essential role of the glycosyltransferase sxc/Ogt in polycomb repression. Science 2009, 325:93-96.
68. Vire E., et al. The Polycomb group protein EZH2 directly controls DNA methylation. Nature 2006, 439:871-874.
69. Schlesinger Y., et al. Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer. Nat. Genet. 2007, 39:232-236.
70. Fouse S.D., et al. Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation. Cell Stem. Cell 2008, 2:160-169.
71. Christensen J., et al. RBP2 belongs to a family of demethylases, specific for tri-and dimethylated lysine 4 on histone 3. Cell 2007, 128:1063-1076.
72. Klose R.J., et al. The retinoblastoma binding protein RBP2 is an H3K4 demethylase. Cell 2007, 128:889-900.
73. Lee M.G., et al. Physical and functional association of a trimethyl H3K4 demethylase and Ring6a/MBLR, a polycomb-like protein. Cell 2007, 128:877-887.
74. Pasini D., et al. Coordinated regulation of transcriptional repression by the RBP2 H3K4 demethylase and Polycomb-Repressive Complex 2. Genes Dev. 2008, 22:1345-1355.
75. Yamane K., et al. PLU-1 is an H3K4 demethylase involved in transcriptional repression and breast cancer cell proliferation. Mol. Cell 2007, 25:801-812.
76. Banck M.S., et al. The ZNF217 oncogene is a candidate organizer of repressive histone modifiers. Epigenetics 2009, 4:100-106.
77. Iwase S., et al. The X-linked mental retardation gene SMCX/JARID1C defines a family of histone H3 lysine 4 demethylases. Cell 2007, 128:1077-1088.
78. Tahiliani M., et al. The histone H3K4 demethylase SMCX links REST target genes to X-linked mental retardation. Nature 2007, 447:601-605.
79. Costanzi C., Pehrson J.R. Histone macroH2A1 is concentrated in the inactive X chromosome of female mammals. Nature 1998, 393:599-601.
80. Hernandez-Munoz I., et al. Stable X chromosome inactivation involves the PRC1 Polycomb complex and requires histone MACROH2A1 and the CULLIN3/SPOP ubiquitin E3 ligase. Proc. Natl. Acad. Sci. U. S. A. 2005, 102:7635-7640.
81. Buschbeck M., et al. The histone variant macroH2A is an epigenetic regulator of key developmental genes. Nat. Struct. Mol. Biol. 2009, 16:1074-1079.
82. Czermin B., et al. Drosophila enhancer of Zeste/ESC complexes have a histone H3 methyltransferase activity that marks chromosomal Polycomb sites. Cell 2002, 111:185-196.
83. Bernstein E., et al. Mouse polycomb proteins bind differentially to methylated histone H3 and RNA and are enriched in facultative heterochromatin. Mol. Cell Biol. 2006, 26:2560-2569.
84. Kim C.A., et al. Structural organization of a Sex-comb-on-midleg/polyhomeotic copolymer. J. Biol. Chem. 2005, 280:27769-27775.
85. Wang H., et al. Role of histone H2A ubiquitination in Polycomb silencing. Nature 2004, 431:873-878.
86. Elderkin S., et al. A phosphorylated form of Mel-18 targets the Ring1B histone H2A ubiquitin ligase to chromatin. Mol. Cell 2007, 28:107-120.
87. Riising E.M., et al. The polycomb repressive complex 2 is a potential target of SUMO modifications. PLoS One 2008, 3:e2704.