Circadian Reprogramming in the Liver Identifies Metabolic Pathways of Aging
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Asher, 2015, Time for food: the intimate interplay between nutrition, metabolism, and the circadian clock, Cell, 161, 84, 10.1016/j.cell.2015.03.015
Asher, 2008, SIRT1 regulates circadian clock gene expression through PER2 deacetylation, Cell, 134, 317, 10.1016/j.cell.2008.06.050
Belenky, 2007, NAD+ metabolism in health and disease, Trends Biochem. Sci., 32, 12, 10.1016/j.tibs.2006.11.006
Belenky, 2007, Nicotinamide riboside promotes Sir2 silencing and extends lifespan via Nrk and Urh1/Pnp1/Meu1 pathways to NAD+, Cell, 129, 473, 10.1016/j.cell.2007.03.024
Bogan, 2008, Nicotinic acid, nicotinamide, and nicotinamide riboside: a molecular evaluation of NAD+ precursor vitamins in human nutrition, Annu. Rev. Nutr., 28, 115, 10.1146/annurev.nutr.28.061807.155443
Brandhorst, 2015, A Periodic Diet that Mimics Fasting Promotes Multi-System Regeneration, Enhanced Cognitive Performance, and Healthspan, Cell Metab., 22, 86, 10.1016/j.cmet.2015.05.012
Cao, 2001, Genomic profiling of short- and long-term caloric restriction effects in the liver of aging mice, Proc. Natl. Acad. Sci. USA, 98, 10630, 10.1073/pnas.191313598
Cartee, 2016, Exercise Promotes Healthy Aging of Skeletal Muscle, Cell Metab., 23, 1034, 10.1016/j.cmet.2016.05.007
Chang, 2013, SIRT1 mediates central circadian control in the SCN by a mechanism that decays with aging, Cell, 153, 1448, 10.1016/j.cell.2013.05.027
Chen, 2005, Increase in activity during calorie restriction requires Sirt1, Science, 310, 1641, 10.1126/science.1118357
Chen, 2013, Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool, BMC Bioinformatics, 14, 128, 10.1186/1471-2105-14-128
Cohen, 2004, Calorie restriction promotes mammalian cell survival by inducing the SIRT1 deacetylase, Science, 305, 390, 10.1126/science.1099196
Damiola, 2000, Restricted feeding uncouples circadian oscillators in peripheral tissues from the central pacemaker in the suprachiasmatic nucleus, Genes Dev., 14, 2950, 10.1101/gad.183500
Eckel-Mahan, 2013, Reprogramming of the circadian clock by nutritional challenge, Cell, 155, 1464, 10.1016/j.cell.2013.11.034
Fontana, 2015, Promoting health and longevity through diet: from model organisms to humans, Cell, 161, 106, 10.1016/j.cell.2015.02.020
Gentleman, 2004, Bioconductor: open software development for computational biology and bioinformatics, Genome Biol., 5, R80, 10.1186/gb-2004-5-10-r80
Gill, 2015, Time-restricted feeding attenuates age-related cardiac decline in Drosophila, Science, 347, 1265, 10.1126/science.1256682
Gomes, 2013, Declining NAD(+) induces a pseudohypoxic state disrupting nuclear-mitochondrial communication during aging, Cell, 155, 1624, 10.1016/j.cell.2013.11.037
Grandison, 2009, Amino-acid imbalance explains extension of lifespan by dietary restriction in Drosophila, Nature, 462, 1061, 10.1038/nature08619
Hagopian, 2003, Caloric restriction increases gluconeogenic and transaminase enzyme activities in mouse liver, Exp. Gerontol., 38, 267, 10.1016/S0531-5565(02)00202-4
Hallows, 2006, Sirtuins deacetylate and activate mammalian acetyl-CoA synthetases, Proc. Natl. Acad. Sci. USA, 103, 10230, 10.1073/pnas.0604392103
Hebert, 2013, Calorie Restriction and SIRT3 Trigger Global Reprogramming of the Mitochondrial Protein Acetylome, Mol Cell, 49, 186, 10.1016/j.molcel.2012.10.024
Hirayama, 2007, CLOCK-mediated acetylation of BMAL1 controls circadian function, Nature, 450, 1086, 10.1038/nature06394
Hirschey, 2010, SIRT3 regulates mitochondrial fatty-acid oxidation by reversible enzyme deacetylation, Nature, 464, 121, 10.1038/nature08778
Horton, 2003, Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes, Proc. Natl. Acad. Sci. USA, 100, 12027, 10.1073/pnas.1534923100
Houtkooper, 2012, Sirtuins as regulators of metabolism and healthspan, Nat. Rev. Mol. Cell Biol., 13, 225, 10.1038/nrm3293
Hughes, 2010, JTK_CYCLE: an efficient nonparametric algorithm for detecting rhythmic components in genome-scale data sets, J. Biol. Rhythms, 25, 372, 10.1177/0748730410379711
Imai, 2014, NAD+ and sirtuins in aging and disease, Trends Cell Biol., 24, 464, 10.1016/j.tcb.2014.04.002
Irizarry, 2003, Exploration, normalization, and summaries of high density oligonucleotide array probe level data, Biostatistics, 4, 249, 10.1093/biostatistics/4.2.249
Katewa, 2016, Peripheral Circadian Clocks Mediate Dietary Restriction-Dependent Changes in Lifespan and Fat Metabolism in Drosophila, Cell Metab., 23, 143, 10.1016/j.cmet.2015.10.014
Kondratov, 2006, Early aging and age-related pathologies in mice deficient in BMAL1, the core componentof the circadian clock, Genes Dev., 20, 1868, 10.1101/gad.1432206
Kondratova, 2012, The circadian clock and pathology of the ageing brain, Nat. Rev. Neurosci., 13, 325, 10.1038/nrn3208
Kuleshov, 2016, Enrichr: a comprehensive gene set enrichment analysis web server 2016 update, Nucleic Acids Res., 44, 10.1093/nar/gkw377
Lee, 1999, Gene expression profile of aging and its retardation by caloric restriction, Science, 285, 1390, 10.1126/science.285.5432.1390
Lin, 2000, Requirement of NAD and SIR2 for life-span extension by calorie restriction in Saccharomyces cerevisiae, Science, 289, 2126, 10.1126/science.289.5487.2126
Lin, 2002, Calorie restriction extends Saccharomyces cerevisiae lifespan by increasing respiration, Nature, 418, 344, 10.1038/nature00829
Lin, 2004, Calorie restriction extends yeast life span by lowering the level of NADH, Genes Dev., 18, 12, 10.1101/gad.1164804
Longo, 2016, Fasting, Circadian Rhythms, and Time-Restricted Feeding in Healthy Lifespan, Cell Metab., 23, 1048, 10.1016/j.cmet.2016.06.001
Masri, 2014, Sirtuins and the circadian clock: bridging chromatin and metabolism, Sci. Signal., 7, re6, 10.1126/scisignal.2005685
Masri, 2013, Circadian acetylome reveals regulation of mitochondrial metabolic pathways, Proc. Natl. Acad. Sci. USA, 110, 3339, 10.1073/pnas.1217632110
Masri, 2014, Partitioning circadian transcription by SIRT6 leads to segregated control of cellular metabolism, Cell, 158, 659, 10.1016/j.cell.2014.06.050
Masri, 2016, Lung Adenocarcinoma Distally Rewires Hepatic Circadian Homeostasis, Cell, 165, 896, 10.1016/j.cell.2016.04.039
Mouchiroud, 2013, The NAD(+)/Sirtuin Pathway Modulates Longevity through Activation of Mitochondrial UPR and FOXO Signaling, Cell, 154, 430, 10.1016/j.cell.2013.06.016
Nakahata, 2008, The NAD+-dependent deacetylase SIRT1 modulates CLOCK-mediated chromatin remodeling and circadian control, Cell, 134, 329, 10.1016/j.cell.2008.07.002
Nakahata, 2009, Circadian control of the NAD+ salvage pathway by CLOCK-SIRT1, Science, 324, 654, 10.1126/science.1170803
Nakamura, 2011, Age-related decline in circadian output, J. Neurosci., 31, 10201, 10.1523/JNEUROSCI.0451-11.2011
Ocampo, 2016, Anti-Aging Strategies Based on Cellular Reprogramming, Trends Mol. Med., 22, 725, 10.1016/j.molmed.2016.06.005
Orozco-Solis, 2014, Circadian clock: linking epigenetics to aging, Curr. Opin. Genet. Dev., 26, 66, 10.1016/j.gde.2014.06.003
Pagani, 2011, Serum factors in older individuals change cellular clock properties, Proc. Natl. Acad. Sci. USA, 108, 7218, 10.1073/pnas.1008882108
Patel, 2012, CircadiOmics: integrating circadian genomics, transcriptomics, proteomics and metabolomics, Nat. Methods, 9, 772, 10.1038/nmeth.2111
Patel, 2016, Circadian clocks govern calorie restriction-mediated life span extension through BMAL1- and IGF-1-dependent mechanisms, FASEB J., 30, 1634, 10.1096/fj.15-282475
Patel, 2016, Calorie restriction regulates circadian clock gene expression through BMAL1 dependent and independent mechanisms, Sci. Rep., 6, 25970, 10.1038/srep25970
Peek, 2013, Circadian clock NAD+ cycle drives mitochondrial oxidative metabolism in mice, Science, 342, 1243417, 10.1126/science.1243417
Peleg, 2016, The Metabolic Impact on Histone Acetylation and Transcription in Ageing, Trends Biochem. Sci., 41, 700, 10.1016/j.tibs.2016.05.008
Pietrocola, 2015, Acetyl coenzyme A: a central metabolite and second messenger, Cell Metab., 21, 805, 10.1016/j.cmet.2015.05.014
Ramsey, 2009, Circadian clock feedback cycle through NAMPT-mediated NAD+ biosynthesis, Science, 324, 651, 10.1126/science.1171641
Reppert, 2001, Molecular analysis of mammalian circadian rhythms, Annu. Rev. Physiol., 63, 647, 10.1146/annurev.physiol.63.1.647
Rodgers, 2005, Nutrient control of glucose homeostasis through a complex of PGC-1alpha and SIRT1, Nature, 434, 113, 10.1038/nature03354
Sahar, 2014, Circadian Control of Fatty Acid Elongation by SIRT1-mediated Deacetylation of Acetyl-CoA Synthetase 1, J Biol Chem, 289, 10.1074/jbc.M113.537191
Sato, 2000, Transcriptional regulation of the ATP citrate-lyase gene by sterol regulatory element-binding proteins, J. Biol. Chem., 275, 12497, 10.1074/jbc.275.17.12497
Sellix, 2012, Aging differentially affects the re-entrainment response of central and peripheral circadian oscillators, J. Neurosci., 32, 16193, 10.1523/JNEUROSCI.3559-12.2012
Seufert, 1974, Formation of free acetate by isolated perfused livers from normal, starved and diabetic rats, Biochem. Biophys. Res. Commun., 57, 901, 10.1016/0006-291X(74)90631-7
Shimazu, 2010, SIRT3 deacetylates mitochondrial 3-hydroxy-3-methylglutaryl CoA synthase 2 and regulates ketone body production, Cell Metab., 12, 654, 10.1016/j.cmet.2010.11.003
Solanas, 2017, Adult stem cells undergo circadian reprogramming during ageing, Cell, 170, 678, 10.1016/j.cell.2017.07.035
Someya, 2010, Sirt3 mediates reduction of oxidative damage and prevention of age-related hearing loss under caloric restriction, Cell, 143, 802, 10.1016/j.cell.2010.10.002
Stein, 2014, Specific ablation of Nampt in adult neural stem cells recapitulates their functional defects during aging, EMBO J., 33, 1321
Stokkan, 2001, Entrainment of the circadian clock in the liver by feeding, Science, 291, 490, 10.1126/science.291.5503.490
Trammell, 2013, Targeted, LCMS-based Metabolomics for Quantitative Measurement of NAD(+) Metabolites, Comput. Struct. Biotechnol. J., 4, e201301012, 10.5936/csbj.201301012
Trammell, 2016, Nicotinamide riboside is uniquely and orally bioavailable in mice and humans, Nat. Commun., 7, 12948, 10.1038/ncomms12948
Ulgherait, 2016, Dietary Restriction Extends the Lifespan of Circadian Mutants tim and per, Cell Metab., 24, 763, 10.1016/j.cmet.2016.11.002
Verdin, 2015, NAD+ in aging, metabolism, and neurodegeneration, Science, 350, 1208, 10.1126/science.aac4854
Verdin, 2015, 50 years of protein acetylation: from gene regulation to epigenetics, metabolism and beyond, Nat. Rev. Mol. Cell Biol., 16, 258, 10.1038/nrm3931
Welsh, 2010, Suprachiasmatic nucleus: cell autonomy and network properties, Annu. Rev. Physiol., 72, 551, 10.1146/annurev-physiol-021909-135919
Zhang, 2016, NAD+ repletion improves mitochondrial and stem cell function and enhances life span in mice, Science, 352, 1436, 10.1126/science.aaf2693
Zwighaft, 2015, Circadian Clock Control by Polyamine Levels through a Mechanism that Declines with Age, Cell Metab., 22, 874, 10.1016/j.cmet.2015.09.011