The NAD+-Dependent Deacetylase SIRT1 Modulates CLOCK-Mediated Chromatin Remodeling and Circadian Control

Andrews, 1991, A rapid micropreparation technique for extraction of DNA-binding proteins from limiting numbers of mammalian cells, Nucleic Acids Res., 19, 2499, 10.1093/nar/19.9.2499 Antoch, 1997, Functional identification of the mouse circadian Clock gene by transgenic BAC rescue, Cell, 89, 655, 10.1016/S0092-8674(00)80246-9 Bishop, 2007, Genetic links between diet and lifespan: shared mechanisms from yeast to humans, Nat. Rev. Genet., 8, 835, 10.1038/nrg2188 Bordone, 2005, Calorie restriction, SIRT1 and metabolism: understanding longevity, Nat. Rev. Mol. Cell Biol., 6, 298, 10.1038/nrm1616 Brunet, 2004, Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase, Science, 303, 2011, 10.1126/science.1094637 Cardone, 2005, Circadian clock control by SUMOylation of BMAL1, Science, 309, 1390, 10.1126/science.1110689 Chen, 2007, A conserved DNA damage response pathway responsible for coupling the cell division cell cycle to the circadian and metabolic cycles, Cell Cycle, 6, 2906, 10.4161/cc.6.23.5041 Cheng, 2003, Developmental defects and p53 hyperacetylation in Sir2 homolog (SIRT1)-deficient mice, Proc. Natl. Acad. Sci. USA, 100, 10794, 10.1073/pnas.1934713100 Cheung, 2000, Signaling to chromatin through histone modifications, Cell, 103, 263, 10.1016/S0092-8674(00)00118-5 Cheung, 2000, Synergistic coupling of histone H3 phosphorylation and acetylation in response to epidermal growth factor stimulation, Mol. Cell, 5, 905, 10.1016/S1097-2765(00)80256-7 Chopra, 2005, To SIR with Polycomb: linking silencing mechanisms, Bioessays, 27, 119, 10.1002/bies.20191 Collis, 2007, Emerging links between the biological clock and the DNA damage response, Chromosoma, 116, 331, 10.1007/s00412-007-0108-6 Crosio, 2000, Light induces chromatin modification in cells of the mammalian circadian clock, Nat. Neurosci., 3, 1241, 10.1038/81767 Doi, 2006, Circadian regulator CLOCK is a histone acetyltransferase, Cell, 125, 497, 10.1016/j.cell.2006.03.033 Gery, 2006, The circadian gene per1 plays an important role in cell growth and DNA damage control in human cancer cells, Mol. Cell., 22, 375, 10.1016/j.molcel.2006.03.038 Grimaldi, 2007, Chromatin remodeling and circadian control: Master regulator CLOCK is an enzyme, Cold Spring Harb. Symp. Quant. Biol., 72, 105, 10.1101/sqb.2007.72.049 Grunstein, 1997, Histone acetylation in chromatin structure and transcription, Nature, 389, 349, 10.1038/38664 Hardin, 2006, Circadian transcription: passing the HAT to CLOCK, Cell, 125, 424, 10.1016/j.cell.2006.04.010 Hirayama, 2007, CLOCK-mediated acetylation of BMAL1 controls circadian function, Nature, 450, 1086, 10.1038/nature06394 Hunt, 2007, Riding tandem: circadian clocks and the cell cycle, Cell, 129, 461, 10.1016/j.cell.2007.04.015 Imai, 2000, Transcriptional silencing and longevity protein Sir2 is an NAD-dependent histone deacetylase, Nature, 403, 795, 10.1038/35001622 Kimura, 2002, Chromosomal gradient of histone acetylation established by Sas2p and Sir2p functions as a shield against gene silencing, Nat. Genet., 32, 370, 10.1038/ng993 Kondratov, 2003, BMAL1-dependent circadian oscillation of nuclear CLOCK: posttranslational events induced by dimerization of transcriptional activators of the mammalian clock system, Genes Dev., 17, 1921, 10.1101/gad.1099503 Kondratov, 2006, Early aging and age-related patologies in mice deficient in BMAL1, the core component of the circadian clock, Genes Dev., 20, 1868, 10.1101/gad.1432206 Kouzarides, 2007, Chromatin modifications and their function, Cell, 128, 693, 10.1016/j.cell.2007.02.005 Kovacs, 2005, HDAC6 regulates Hsp90 acetylation and chaperone-dependent activation of glucocorticoid receptor, Mol. Cell, 18, 601, 10.1016/j.molcel.2005.04.021 Kurdistani, 2003, Histone acetylation and deacetylation in yeast, Nat. Rev. Mol. Cell Biol., 4, 276, 10.1038/nrm1075 Ladurner, 2006, Rheostat control of gene expression by metabolites, Mol. Cell, 24, 1, 10.1016/j.molcel.2006.09.002 Lagouge, 2006, Resveratrol improves mitochondrial function and protects against metabolic disease by activating SIRT1 and PGC-1alpha, Cell, 127, 1109, 10.1016/j.cell.2006.11.013 Landry, 2000, The silencing protein SIR2 and its homologs are NAD-dependent protein deacetylases, Proc. Natl. Acad. Sci. USA, 97, 5807, 10.1073/pnas.110148297 Lee, 2001, Posttranslational mechanisms regulate the mammalian circadian clock, Cell, 107, 855, 10.1016/S0092-8674(01)00610-9 Li, 2007, The role of chromatin during transcription, Cell, 128, 707, 10.1016/j.cell.2007.01.015 Li, 2007, SIRT1 deacetylates and positively regulates the nuclear receptor LXR, Mol. Cell, 28, 91, 10.1016/j.molcel.2007.07.032 Liu, 2007, Transcriptional coactivator PGC-1alpha integrates the mammalian clock and energy metabolism, Nature, 447, 477, 10.1038/nature05767 Lo, 2000, 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, 917, 10.1016/S1097-2765(00)80257-9 Lombard, 2005, DNA repair, genome stability, and aging, Cell, 120, 497, 10.1016/j.cell.2005.01.028 Luo, 2001, Negative control of p53 by Sir2alpha promotes cell survival under stress, Cell, 107, 137, 10.1016/S0092-8674(01)00524-4 Mal, 2001, A role for histone deacetylase HDAC1 in modulating the transcriptional activity of MyoD: inhibition of the myogenic program, EMBO J., 20, 1739, 10.1093/emboj/20.7.1739 Martinez-Balbas, 2000, Regulation of E2F1 activity by acetylation, EMBO J., 19, 662, 10.1093/emboj/19.4.662 McNamara, 2001, Regulation of CLOCK and MOP4 by nuclear hormone receptors in the vasculature: A humoral mechanism to reset a peripheral clock, Cell, 105, 877, 10.1016/S0092-8674(01)00401-9 Motta, 2004, Mammalian SIRT1 represses forkhead transcription factors, Cell, 116, 551, 10.1016/S0092-8674(04)00126-6 Nakahata, 2007, Signaling to the circadian clock: plasticity by chromatin remodeling, Curr. Opin. Cell Biol., 19, 230, 10.1016/j.ceb.2007.02.016 Nemoto, 2005, SIRT1 functionally interacts with the metabolic regulator and transcriptional coactivator PGC-1{alpha}, J. Biol. Chem., 280, 16456, 10.1074/jbc.M501485200 Nowak, 2005, Two-step cross-linking method for identification of NF-kappaB gene network by chromatin immunoprecipitation, Biotechniques, 39, 715, 10.2144/000112014 Oberdoerffer, 2007, The role of nuclear architecture in genomic instability and ageing, Nat. Rev. Mol. Cell Biol., 8, 692, 10.1038/nrm2238 Oklejewicz, 2008, Phase resetting of the mammalian circadian clock by DNA damage, Curr. Biol., 18, 286, 10.1016/j.cub.2008.01.047 Panda, 2002, Coordinated transcription of key pathways in the mouse by the circadian clock, Cell, 109, 307, 10.1016/S0092-8674(02)00722-5 Pando, 2002, Phenotypic rescue of a peripheral clock genetic defect via SCN hierarchical dominance, Cell, 110, 107, 10.1016/S0092-8674(02)00803-6 Peterson, 2004, Histones and histone modifications, Curr. Biol., 14, R546, 10.1016/j.cub.2004.07.007 Picard, 2004, Sirt1 promotes fat mobilization in white adipocytes by repressing PPAR-gamma, Nature, 429, 771, 10.1038/nature02583 Ripperger, 2006, Rhythmic CLOCK-BMAL1 binding to multiple E-box motifs drives circadian Dbp transcription and chromatin transitions, Nat. Genet., 38, 369, 10.1038/ng1738 Rodgers, 2005, Nutrient control of glucose homeostasis through a complex of PGC-1alpha and SIRT1, Nature, 434, 113, 10.1038/nature03354 Rutter, 2002, Metabolism and the control of circadian rhythms, Annu. Rev. Biochem., 71, 307, 10.1146/annurev.biochem.71.090501.142857 Saunders, 2007, Sirtuins: critical regulators at the crossroads between cancer and aging, Oncogene, 26, 5489, 10.1038/sj.onc.1210616 Sauve, 2006, The biochemistry of sirtuins, Annu. Rev. Biochem., 75, 435, 10.1146/annurev.biochem.74.082803.133500 Schibler, 2002, A web of circadian pacemakers, Cell, 111, 919, 10.1016/S0092-8674(02)01225-4 Sonoda, 2007, PGC-1 beta controls mitochondrial metabolism to modulate circadian activity, adaptive thermogenesis, and hepatic steatosis, Proc. Natl. Acad. Sci. USA, 104, 5223, 10.1073/pnas.0611623104 Storch, 2002, Extensive and divergent circadian gene expression in liver and heart, Nature, 417, 78, 10.1038/nature744 Strahl, 2000, The language of covalent histone modifications, Nature, 403, 41, 10.1038/47412 Struhl, 1998, Histone acetylation and transcriptional regulatory mechanisms, Genes Dev., 12, 599, 10.1101/gad.12.5.599 Suka, 2002, Sir2p and Sas2p opposingly regulate acetylation of yeast histone H4 lysine16 and spreading of heterochromatin, Nat. Genet., 32, 378, 10.1038/ng1017 Tissenbaum, 2001, Increased dosage of a sir-2 gene extends lifespan in Caenorhabditis elegans, Nature, 410, 227, 10.1038/35065638 Travnickova-Bendova, 2002, Bimodal regulation of mPeriod promoters by CREB-dependent signaling and CLOCK/BMAL1 activity, Proc. Natl. Acad. Sci. USA, 99, 7728, 10.1073/pnas.102075599 Turek, 2005, Obesity and metabolic syndrome in circadian Clock mutant mice, Science, 308, 1043, 10.1126/science.1108750 Ueda, 2002, A transcription factor response element for gene expression during circadian night, Nature, 418, 534, 10.1038/nature00906 Unsal-Kaçmaz, 2005, Coupling of human circadian and cell cycles by the timeless protein, Mol. Cell. Biol., 25, 3109, 10.1128/MCB.25.8.3109-3116.2005 Vaquero, 2007, SIRT1 regulates the histone methyl-transferase SUV39H1 during heterochromatin formation, Nature, 450, 440, 10.1038/nature06268 Vaziri, 2001, hSIR2(SIRT1) functions as an NAD-dependent p53 deacetylase, Cell, 107, 149, 10.1016/S0092-8674(01)00527-X Wade, 1997, Histone acetyltransferases in control, Curr. Biol., 7, R82, 10.1016/S0960-9822(06)00042-X Wijnen, 2006, Interplay of circadian clocks and metabolic rhythms, Annu. Rev. Genet., 40, 409, 10.1146/annurev.genet.40.110405.090603 Workman, 1998, Alteration of nucleosome structure as a mechanism of transcriptional regulation, Annu. Rev. Biochem., 67, 545, 10.1146/annurev.biochem.67.1.545 Yamamoto, 2004, Transcriptional oscillation of canonical clock genes in mouse peripheral tissues, BMC Mol. Biol., 5, 18, 10.1186/1471-2199-5-18 Yang, 2008, The Rpd3/Hda1 family of lysine deacetylases: from bacteria and yeast to mice and men, Nat. Rev. Mol. Cell Biol., 9, 206, 10.1038/nrm2346 Yin, 2007, Rev-erbalpha, a heme sensor that coordinates metabolic and circadian pathways, Science, 318, 1786, 10.1126/science.1150179