Chromatin remodeling, metabolism and circadian clocks: The interplay of CLOCK and SIRT1

International Journal of Biochemistry and Cell Biology

Volumn 41, Issue 1, 2009, Pages 81-86

  Grimaldi, Benedetto ^a   Nakahata, Yasukazu ^a   Kaluzova, Milota ^a   Masubuchi, Satoru ^a   Sassone Corsi, Paolo ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Chromatin remodeling; Circadian clocks; Metabolism; SIRT1

Indexed keywords

HISTONE DEACETYLASE; HISTONE H3; NICOTINAMIDE ADENINE DINUCLEOTIDE; PROTEIN BMAL1; SIRTUIN 1; TRANSCRIPTION FACTOR CLOCK;

ACETYLATION; CELL METABOLISM; CHROMATIN ASSEMBLY AND DISASSEMBLY; CIRCADIAN RHYTHM; DIMERIZATION; ENZYME ACTIVITY; GENE EXPRESSION; METABOLISM; NONHUMAN; PROTEIN FUNCTION; REVIEW;

ACETYLATION; ANIMALS; CHROMATIN ASSEMBLY AND DISASSEMBLY; CIRCADIAN RHYTHM; HUMANS; METABOLIC NETWORKS AND PATHWAYS; MODELS, BIOLOGICAL; SIRTUINS; TRANS-ACTIVATORS;

MAMMALIA;

EID: 56149107350     PISSN: 13572725     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biocel.2008.08.035     Document Type: Review

References (90)

1. Akhtar R.A., Reddy A.B., Maywood E.S., Clayton J.D., King V.M., Smith A.G., et al. Circadian cycling of the mouse liver transcriptome, as revealed by cDNA microarray, is driven by the suprachiasmatic nucleus. Curr Biol 12 (2002) 540-550
2. Allada R., White N.E., So W.V., Hall J.C., and Rosbash M. A mutant Drosophila homolog of mammalian Clock disrupts circadian rhythms and transcription of period and timeless. Cell 93 (1998) 791-804
3. Antoch M.P., Song E.J., Chang A.M., Vitaterna M.H., Zhao Y., Wilsbacher L.D., et al. Functional identification of the mouse circadian Clock gene by transgenic BAC rescue. Cell 89 (1997) 655-667
4. Asher G., Gatfield D., Stratman M., Reinke H., Kreppel F., Mostoslavsky R., et al. SIRT1 regulates circadian clock gene expression through PER2 deacetylation. Cell 134 (2008) 317-328
5. Bell-Pedersen D., Cassone V.M., Earnest D.J., Golden S.S., Hardin P.E., Thomas T.L., et al. Circadian rhythms from multiple oscillators: lessons from diverse organisms. Nat Rev Genet 6 (2005) 544-556
6. Bishop N.A., and Guarente L. Genetic links between diet and lifespan: shared mechanisms from yeast to humans. Nat Rev Genet 8 (2007) 835-844
7. Blander G., and Guarente L. The Sir2 family of protein deacetylases. Annu Rev Biochem 73 (2004) 417-435
8. Bordone L., and Guarente L. Calorie restriction, SIRT1 and metabolism: understanding longevity. Nat Rev Mol Cell Biol 6 (2005) 298-305
9. Borrelli E, Nestler EJ, Allis CD, Sassone-Corsi P. Decoding the epigenetic language of neuronal plasticity. Neuron; in press.
10. Brunet A., Sweeney L.B., Sturgill J.F., Chua K.F., Greer P.L., Lin Y., et al. Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase. Science 303 (2004) 2011-2015
11. Cermakian N., and Sassone-Corsi P. Multilevel regulation of the circadian clock. Nat Rev Mol Cell Biol 1 (2000) 59-67
12. Chen H., Lin R.J., Schiltz R.L., Chakravarti D., Nash A., Nagy L., et al. Nuclear receptor coactivator ACTR is a novel histone acetyltransferase and forms a multimeric activation complex with P/CAF and CBP/p300. Cell 90 (1997) 569-580
13. Cheung P., Tanner K.G., Cheung W.L., Sassone-Corsi P., Denu J.M., and Allis C.D. Synergistic coupling of histone H3 phosphorylation and acetylation in response to epidermal growth factor stimulation. Mol Cell 5 (2000) 905-915
14. Chopra V.S., and Mishra R.K. To SIR with Polycomb: linking silencing mechanisms. Bioessays 27 (2005) 119-121
15. Clayton A.L., Rose S., Barratt M.J., and Mahadevan L.C. Phosphoacetylation of histone H3 on c-fos- and c-jun-associated nucleosomes upon gene activation. Embo J 19 (2000) 3714-3726
16. Crosio C., Cermakian N., Allis C.D., and Sassone-Corsi P. Light induces chromatin modification in cells of the mammalian circadian clock. Nat Neurosci 3 (2000) 1241-1247
17. Curtis A.M., Seo S.B., Westgate E.J., Rudic R.D., Smyth E.M., Chakravarti D., et al. Histone acetyltransferase-dependent chromatin remodeling and the vascular clock. J Biol Chem 279 (2004) 7091-7097
18. Darlington T.K., Wager-Smith K., Ceriani M.F., Staknis D., Gekakis N., Steeves T.D., et al. Closing the circadian loop: CLOCK-induced transcription of its own inhibitors per and tim. Science 280 (1998) 1599-1603
19. Di Padova M., Caretti G., Zhao P., Hoffman E.P., and Sartorelli V. MyoD acetylation influences temporal patterns of skeletal muscle gene expression. J Biol Chem 282 (2007) 37650-37659
20. Doi M., Hirayama J., and Sassone-Corsi P. Circadian regulator CLOCK is a histone acetyltransferase. Cell 125 (2006) 497-508
21. Duffield G.E., Best J.D., Meurers B.H., Bittner A., Loros J.J., and Dunlap J.C. Circadian programs of transcriptional activation, signaling, and protein turnover revealed by microarray analysis of mammalian cells. Curr Biol 12 (2002) 551-557
22. Dunlap J.C. Molecular bases for circadian clocks. Cell 96 (1999) 271-290
23. Etchegaray J.P., Lee C., Wade P.A., and Reppert S.M. Rhythmic histone acetylation underlies transcription in the mammalian circadian clock. Nature 421 (2003) 177-182
24. Etchegaray J.P., Yang X., DeBruyne J.P., Peters A.H., Weaver D.R., Jenuwein T., et al. The polycomb group protein EZH2 is required for mammalian circadian clock function. J Biol Chem 281 (2006) 21209-21215
25. Filetici P., Ornaghi P., and Ballario P. The bromodomain: a chromatin browser?. Front Biosci 6 (2001) D866-876
26. Fischle W., Wang Y., and Allis C.D. Binary switches and modification cassettes in histone biology and beyond. Nature 425 (2003) 475-479
27. Fu L., and Lee C.C. The circadian clock: pacemaker and tumour suppressor. Nat Rev Cancer 3 (2003) 350-361
28. Gekakis N., Staknis D., Nguyen H.B., Davis F.C., Wilsbacher L.D., King D.P., et al. Role of the CLOCK protein in the mammalian circadian mechanism. Science 280 (1998) 1564-1569
29. Giebultowicz J.M. Peripheral clocks and their role in circadian timing: insights from insects. Philos Trans R Soc Lond B Biol Sci 356 (2001) 1791-1799
30. Glozak M.A., Sengupta N., Zhang X., and Seto E. Acetylation and deacetylation of non-histone proteins. Gene 363 (2005) 15-23
31. Griffin Jr. E.A., Staknis D., and Weitz C.J. Light-independent role of CRY1 and CRY2 in the mammalian circadian clock. Science 286 (1999) 768-771
32. Grimaldi B., Nakahata Y., Sahar S., Kaluzova M., Gauthier D., Pham K., et al. Chromatin remodeling and circadian control: master regulator CLOCK is an enzyme. Cold Spring Harb Symp Quant Biol 72 (2007) 105-112
33. Grunstein M. Histone acetylation in chromatin structure and transcription. Nature 389 (1997) 349-352
34. Guarente L., and Picard F. Calorie restriction-the SIR2 connection. Cell 120 (2005) 473-482
35. Haigis M.C., and Guarente L.P. Mammalian sirtuins-emerging roles in physiology, aging, and calorie restriction. Genes Dev 20 (2006) 2913-2921
36. Hirayama J., and Sassone-Corsi P. Structural and functional features of transcription factors controlling the circadian clock. Curr Opin Genet Dev 15 (2005) 548-556
37. Hirayama J., Sahar S., Grimaldi B., Tamaru T., Takamatsu K., Nakahata Y., et al. CLOCK-mediated acetylation of BMAL1 controls circadian function. Nature 450 (2007) 1086-1090
38. Hunt T., and Sassone-Corsi P. Riding tandem: circadian clocks and the cell cycle. Cell 129 (2007) 461-464
39. Imai S., Armstrong C.M., Kaeberlein M., and Guarente L. Transcriptional silencing and longevity protein Sir2 is an NAD-dependent histone deacetylase. Nature 403 (2000) 795-800
40. Jenuwein T., and Allis C.D. Translating the histone code. Science 293 (2001) 1074-1080
41. Jin X., Shearman L.P., Weaver D.R., Zylka M.J., de Vries G.J., and Reppert S.M. A molecular mechanism regulating rhythmic output from the suprachiasmatic circadian clock. Cell 96 (1999) 57-68
42. King D.P., and Takahashi J.S. Molecular genetics of circadian rhythms in mammals. Annu Rev Neurosci 23 (2000) 713-742
43. Knights C.D., Catania J., Di Giovanni S., Muratoglu S., Perez R., Swartzbeck A., et al. Distinct p53 acetylation cassettes differentially influence gene-expression patterns and cell fate. J Cell Biol 173 (2006) 533-544
44. Kovacs J.J., Murphy P.J., Gaillard S., Zhao X., Wu J.T., Nicchitta C.V., et al. HDAC6 regulates Hsp90 acetylation and chaperone-dependent activation of glucocorticoid receptor. Mol Cell 18 (2005) 601-607
45. Kramer A., Yang F.C., Kraves S., and Weitz C.J. A screen for secreted factors of the suprachiasmatic nucleus. Methods Enzymol 393 (2005) 645-663
46. Kramer A., Yang F.C., Snodgrass P., Li X., Scammell T.E., Davis F.C., et al. Regulation of daily locomotor activity and sleep by hypothalamic EGF receptor signaling. Science 294 (2001) 2511-2515
47. Kume K., Zylka M.J., Sriram S., Shearman L.P., Weaver D.R., Jin X., et al. mCRY1 and mCRY2 are essential components of the negative limb of the circadian clock feedback loop. Cell 98 (1999) 193-205
48. Kuo M.H., and Allis C.D. Roles of histone acetyltransferases and deacetylases in gene regulation. Bioessays 20 (1998) 615-626
49. Lagouge M., Argmann C., Gerhart-Hines Z., Meziane H., Lerin C., Daussin F., et al. Resveratrol improves mitochondrial function and protects against metabolic disease by activating SIRT1 and PGC-1alpha. Cell 127 (2006) 1109-1122
50. Le Minh N., Damiola F., Tronche F., Schutz G., and Schibler U. Glucocorticoid hormones inhibit food-induced phase-shifting of peripheral circadian oscillators. Embo J 20 (2001) 7128-7136
51. Li X., Zhang S., Blander G., Tse J.G., Krieger M., and Guarente L. SIRT1 deacetylates and positively regulates the nuclear receptor LXR. Mol Cell 28 (2007) 91-106
52. Lo W.S., Trievel R.C., Rojas J.R., Duggan L., Hsu J.Y., Allis C.D., et al. Phosphorylation of serine 10 in histone H3 is functionally linked in vitro and in vivo to Gcn5-mediated acetylation at lysine 14. Mol Cell 5 (2000) 917-926
53. Luo J., Nikolaev A.Y., Imai S., Chen D., Su F., Shiloh A., et al. Negative control of p53 by Sir2alpha promotes cell survival under stress. Cell 107 (2001) 137-148
54. Mal A., Sturniolo M., Schiltz R.L., Ghosh M.K., and Harter M.L. A role for histone deacetylase HDAC1 in modulating the transcriptional activity of MyoD: inhibition of the myogenic program. Embo J 20 (2001) 1739-1753
55. Martinez-Balbas M.A., Bauer U.M., Nielsen S.J., Brehm A., and Kouzarides T. Regulation of E2F1 activity by acetylation. Embo J 19 (2000) 662-671
56. Merienne K., Pannetier S., Harel-Bellan A., and Sassone-Corsi P. Mitogen-regulated RSK2-CBP interaction controls their kinase and acetylase activities. Mol Cell Biol 21 (2001) 7089-7096
57. Motta M.C., Divecha N., Lemieux M., Kamel C., Chen D., Gu W., et al. Mammalian SIRT1 represses forkhead transcription factors. Cell 116 (2004) 551-563
58. Nakahata Y., Grimaldi B., Sahar S., Hirayama J., and Sassone-Corsi P. Signaling to the circadian clock: plasticity by chromatin remodeling. Curr Opin Cell Biol 19 (2007) 230-237
59. +-dependent deacetylase SIRT1 modulates CLOCK-mediated chromatin remodeling and circadian control. Cell 134 (2008) 329-340
60. Naruse Y., Oh-hashi K., Iijima N., Naruse M., Yoshioka H., and Tanaka M. Circadian and light-induced transcription of clock gene Per1 depends on histone acetylation and deacetylation. Mol Cell Biol 24 (2004) 6278-6287
61. Nemoto S., Fergusson M.M., and Finkel T. SIRT1 functionally interacts with the metabolic regulator and transcriptional coactivator PGC-1{alpha}. J Biol Chem 280 (2005) 16456-16460
62. Nguyen D.X., Baglia L.A., Huang S.M., Baker C.M., and McCance D.J. Acetylation regulates the differentiation-specific functions of the retinoblastoma protein. Embo J 23 (2004) 1609-1618
63. Oberdoerffer P., and Sinclair D.A. The role of nuclear architecture in genomic instability and ageing. Nat Rev Mol Cell Biol 8 (2007) 692-702
64. Panda S., Antoch M.P., Miller B.H., Su A.I., Schook A.B., Straume M., et al. Coordinated transcription of key pathways in the mouse by the circadian clock. Cell 109 (2002) 307-320
65. Patel J.H., Du Y., Ard P.G., Phillips C., Carella B., Chen C.J., et al. The c-MYC oncoprotein is a substrate of the acetyltransferases hGCN5/PCAF and TIP60. Mol Cell Biol 24 (2004) 10826-10834
66. Picard F., Kurtev M., Chung N., Topark-Ngarm A., Senawong T., Machado De Oliveira R., et al. Sirt1 promotes fat mobilization in white adipocytes by repressing PPAR-gamma. Nature 429 (2004) 771-776
67. Preitner N., Brown S., Ripperger J., Le-Minh N., Damiola F., and Schibler U. Orphan nuclear receptors, molecular clockwork, and the entrainment of peripheral oscillators. Novartis Fdn Symp 253 (2003) 89-99 [discussion 99-109]
68. Reppert S.M., and Weaver D.R. Coordination of circadian timing in mammals. Nature 418 (2002) 935-941
69. Ripperger J.A., and Schibler U. Rhythmic CLOCK-BMAL1 binding to multiple E-box motifs drives circadian Dbp transcription and chromatin transitions. Nat Genet 38 (2006) 369-374
70. Rodgers J.T., Lerin C., Haas W., Gygi S.P., Spiegelman B.M., and Puigserver P. Nutrient control of glucose homeostasis through a complex of PGC-1alpha and SIRT1. Nature 434 (2005) 113-118
71. Rutter J., Reick M., and McKnight S.L. Metabolism and the control of circadian rhythms. Annu Rev Biochem 71 (2002) 307-331
72. Sahar S., and Sassone-Corsi P. Circadian clock and breast cancer: a molecular link. Cell Cycle 6 (2007) 1329-1331
73. Sato T.K., Yamada R.G., Ukai H., Baggs J.E., Miraglia L.J., Kobayashi T.J., et al. Feedback repression is required for mammalian circadian clock function. Nat Genet 38 (2006) 312-319
74. Sauve A.A., Wolberger C., Schramm V.L., and Boeke J.D. The biochemistry of sirtuins. Annu Rev Biochem 75 (2006) 435-465
75. Schibler U., and Sassone-Corsi P. A web of circadian pacemakers. Cell 111 (2002) 919-922
76. Sharma M., Zarnegar M., Li X., Lim B., and Sun Z. Androgen receptor interacts with a novel MYST protein, HBO1. J Biol Chem 275 (2000) 35200-35208
77. Shearman L.P., Sriram S., Weaver D.R., Maywood E.S., Chaves I., Zheng B., et al. Interacting molecular loops in the mammalian circadian clock. Science 288 (2000) 1013-1019
78. Sterner D.E., and Berger S.L. Acetylation of histones and transcription-related factors. Microbiol Mol Biol Rev 64 (2000) 435-459
79. Struhl K. Histone acetylation and transcriptional regulatory mechanisms. Genes Dev 12 (1998) 599-606
80. Tissenbaum H.A., and Guarente L. Increased dosage of a sir-2 gene extends lifespan in Caenorhabditis elegans. Nature 410 (2001) 227-230
81. Vaziri H., Dessain S.K., Ng Eaton E., Imai S.I., Frye R.A., Pandita T.K., et al. hSIR2(SIRT1) functions as an NAD-dependent p53 deacetylase. Cell 107 (2001) 149-159
82. Vitaterna M.H., King D.P., Chang A.M., Kornhauser J.M., Lowrey P.L., McDonald J.D., et al. Mutagenesis and mapping of a mouse gene, Clock, essential for circadian behavior. Science 264 (1994) 719-725
83. Wade P.A., and Wolffe A.P. Histone acetyltransferases in control. Curr Biol 7 (1997) R82-R84
84. Whitmore D., Cermakian N., Crosio C., Foulkes N.S., Pando M.P., Travnickova Z., et al. A clockwork organ. Biol Chem 381 (2000) 793-800
85. Workman J.L., and Kingston R.E. Alteration of nucleosome structure as a mechanism of transcriptional regulation. Annu Rev Biochem 67 (1998) 545-579
86. Yan Y., Barlev N.A., Haley R.H., Berger S.L., and Marmorstein R. Crystal structure of yeast Esa1 suggests a unified mechanism for catalysis and substrate binding by histone acetyltransferases. Mol Cell 6 (2000) 1195-1205
87. Yang X., Downes M., Yu R.T., Bookout A.L., He W., Straume M., et al. Nuclear receptor expression links the circadian clock to metabolism. Cell 126 (2006) 801-810
88. Yang X.J. Lysine acetylation and the bromodomain: a new partnership for signaling. Bioessays 26 (2004) 1076-1087
89. Yang X.J., and Seto E. The Rpd3/Hda1 family of lysine deacetylases: from bacteria and yeast to mice and men. Nat Rev Mol Cell Biol 9 (2008) 206-218
90. Young M.W., and Kay S.A. Time zones: a comparative genetics of circadian clocks. Nat Rev Genet 2 (2001) 702-715