Epigenetic clock analyses of cellular senescence and ageing

Oncotarget

Volumn 7, Issue 8, 2016, Pages 8524-8531

  Lowe, Donna ^a   Horvath, Steve ^b   Raj, Kenneth ^a  

^a PUBLIC HEALTH ENGLAND   (United Kingdom)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Ageing; DNA damage; DNA methylation; Gerotarget; Radiation; Senescence

Indexed keywords

BETA GALACTOSIDASE; TELOMERASE REVERSE TRANSCRIPTASE; TELOMERASE; TERT PROTEIN, HUMAN;

ARTICLE; CELL AGING; CELL DIVISION; CELL ONCOGENE; CELL PROLIFERATION; CELLULAR SENESCENE; CONTROLLED STUDY; DNA DAMAGE; DNA METHYLATION; EPIGENETICS; GENE OVEREXPRESSION; GENETIC ANALYSIS; HUMAN; HUMAN CELL; HUMAN CELL CULTURE; MOLECULAR CLOCK; ONCOGENE INDUCED SENESCENE; PRIMARY CELL; REPLICATIVE SENESCENCE; SENESCENCE; TELOMERE HOMEOSTASIS; AGING; CELL CULTURE; CORONARY BLOOD VESSEL; CYTOLOGY; GENETICS; METABOLISM; PHYSIOLOGY; VASCULAR ENDOTHELIUM;

AGING; CELL AGING; CELLS, CULTURED; CORONARY VESSELS; DNA METHYLATION; ENDOTHELIUM, VASCULAR; EPIGENOMICS; HUMANS; TELOMERASE;

EID: 84961653801     PISSN: None     EISSN: 19492553     Source Type: Journal    
DOI: 10.18632/oncotarget.7383     Document Type: Article

References (44)

1. Signer RA and Morrison SJ. Mechanisms that regulate stem cell aging and life span. Cell stem cell. 2013; 12:152-165
2. Martin-Ruiz CM, Gussekloo J, van Heemst D, von Zglinicki T and Westendorp RG. Telomere length in white blood cells is not associated with morbidity or mortality in the oldest old: a population-based study. Aging cell. 2005; 4:287-290
3. Bischoff C, Petersen HC, Graakjaer J, Andersen-Ranberg K, Vaupel JW, Bohr VA, Kolvraa S and Christensen K. No association between telomere length and survival among the elderly and oldest old. Epidemiology (Cambridge, Mass). 2006; 17:190-194
4. Mather KA, Jorm AF, Parslow RA and Christensen H. Is telomere length a biomarker of aging? A review. The journals of gerontology Series A, Biological sciences and medical sciences. 2011; 66:202-213
5. Dimri GP, Lee X, Basile G, Acosta M, Scott G, Roskelley C, Medrano EE, Linskens M, Rubelj I, Pereira-Smith O and et al. A biomarker that identifies senescent human cells in culture and in aging skin in vivo. Proceedings of the National Academy of Sciences of the United States of America. 1995; 92:9363-9367
6. Ressler S, Bartkova J, Niederegger H, Bartek J, Scharffetter-Kochanek K, Jansen-Durr P and Wlaschek M. p16INK4A is a robust in vivo biomarker of cellular aging in human skin. Aging cell. 2006; 5:379-389
7. Jeyapalan JC, Ferreira M, Sedivy JM and Herbig U. Accumulation of senescent cells in mitotic tissue of aging primates. Mechanisms of ageing and development. 2007; 128:36-44
8. Coppe JP, Desprez PY, Krtolica A and Campisi J. The senescence-associated secretory phenotype: the dark side of tumor suppression. Annual review of pathology. 2010; 5:99-118
9. Freund A, Orjalo AV, Desprez PY and Campisi J. Inflammatory networks during cellular senescence: causes and consequences. Trends in molecular medicine. 2010; 16:238-246
10. Chung HY, Cesari M, Anton S, Marzetti E, Giovannini S, Seo AY, Carter C, Yu BP and Leeuwenburgh C. Molecular inflammation: underpinnings of aging and age-related diseases. Ageing research reviews. 2009; 8:18-30
11. Campisi J, Andersen JK, Kapahi P and Melov S. Cellular senescence: a link between cancer and age-related degenerative disease? Seminars in cancer biology. 2011; 21:354-359
12. Sikora E, Bielak-Zmijewska A and Mosieniak G. Cellular senescence in ageing, age-related disease and longevity. Current vascular pharmacology. 2014; 12:698-706
13. Kuilman T and Peeper DS. Senescence-messaging secretome: SMS-ing cellular stress. Nature reviews Cancer. 2009; 9:81-94
14. Baker DJ, Wijshake T, Tchkonia T, LeBrasseur NK, Childs BG, van de Sluis B, Kirkland JL and van Deursen JM. Clearance of p16Ink4a-positive senescent cells delays ageing-associated disorders. Nature. 2011; 479:232-236
15. Campisi J. The biology of replicative senescence. European journal of cancer (Oxford, England: 1990). 1997; 33:703-709
16. Braig M, Lee S, Loddenkemper C, Rudolph C, Peters AH, Schlegelberger B, Stein H, Dorken B, Jenuwein T and Schmitt CA. Oncogene-induced senescence as an initial barrier in lymphoma development. Nature. 2005; 436:660-665
17. Collado M, Gil J, Efeyan A, Guerra C, Schuhmacher AJ, Barradas M, Benguria A, Zaballos A, Flores JM, Barbacid M, Beach D and Serrano M. Tumour biology: senescence in premalignant tumours. Nature. 2005; 436:642
18. Michaloglou C, Vredeveld LC, Soengas MS, Denoyelle C, Kuilman T, van der Horst CM, Majoor DM, Shay JW, Mooi WJ and Peeper DS. BRAFE600-associated senescence-like cell cycle arrest of human naevi. Nature. 2005; 436:720-724
19. Chen Q, Fischer A, Reagan JD, Yan LJ and Ames BN. Oxidative DNA damage and senescence of human diploid fibroblast cells. Proceedings of the National Academy of Sciences of the United States of America. 1995; 92:4337-4341
20. Vaziri H and Benchimol S. From telomere loss to p53 induction and activation of a DNA-damage pathway at senescence: the telomere loss/DNA damage model of cell aging. Experimental gerontology. 1996; 31:295-301
21. Di Micco R, Fumagalli M, Cicalese A, Piccinin S, Gasparini P, Luise C, Schurra C, Garre M, Nuciforo PG, Bensimon A, Maestro R, Pelicci PG and d'Adda di Fagagna F. Oncogeneinduced senescence is a DNA damage response triggered by DNA hyper-replication. Nature. 2006; 444:638-642
22. Bartkova J, Rezaei N, Liontos M, Karakaidos P, Kletsas D, Issaeva N, Vassiliou LV, Kolettas E, Niforou K, Zoumpourlis VC, Takaoka M, Nakagawa H, Tort F, et al. Oncogene-induced senescence is part of the tumorigenesis barrier imposed by DNA damage checkpoints. Nature. 2006; 444:633-637
23. Alisch RS, Barwick BG, Chopra P, Myrick LK, Satten GA, Conneely KN and Warren ST. Age-associated DNA methylation in pediatric populations. Genome research. 2012; 22:623-632
24. Bollati V, Schwartz J, Wright R, Litonjua A, Tarantini L, Suh H, Sparrow D, Vokonas P and Baccarelli A. Decline in genomic DNA methylation through aging in a cohort of elderly subjects. Mechanisms of ageing and development. 2009; 130:234-239
25. Christensen BC, Houseman EA, Marsit CJ, Zheng S, Wrensch MR, Wiemels JL, Nelson HH, Karagas MR, Padbury JF, Bueno R, Sugarbaker DJ, Yeh RF, Wiencke JK, et al. Aging and environmental exposures alter tissuespecific DNA methylation dependent upon CpG island context. PLoS genetics. 2009; 5:e1000602
26. Day K, Waite LL, Thalacker-Mercer A, West A, Bamman MM, Brooks JD, Myers RM and Absher D. Differential DNA methylation with age displays both common and dynamic features across human tissues that are influenced by CpG landscape. Genome biology. 2013; 14:R102
27. Horvath S, Zhang Y, Langfelder P, Kahn RS, Boks MP, van Eijk K, van den Berg LH and Ophoff RA. Aging effects on DNA methylation modules in human brain and blood tissue. Genome biology. 2012; 13:R97
28. Johansson A, Enroth S and Gyllensten U. Continuous Aging of the Human DNA Methylome Throughout the Human Lifespan. PloS one. 2013; 8:e67378
29. Rakyan VK, Down TA, Maslau S, Andrew T, Yang TP, Beyan H, Whittaker P, McCann OT, Finer S, Valdes AM, Leslie RD, Deloukas P and Spector TD. Human agingassociated DNA hypermethylation occurs preferentially at bivalent chromatin domains. Genome research. 2010; 20:434-439
30. Teschendorff AE, West J and Beck S. Age-associated epigenetic drift: implications, and a case of epigenetic thrift? Human molecular genetics. 2013; 22:R7-r15
31. Rando TA and Chang HY. Aging, rejuvenation, and epigenetic reprogramming: resetting the aging clock. Cell. 2012; 148:46-57
32. Maegawa S, Hinkal G, Kim HS, Shen L, Zhang L, Zhang J, Zhang N, Liang S, Donehower LA and Issa JP. Widespread and tissue specific age-related DNA methylation changes in mice. Genome research. 2010; 20:332-340
33. Hannum G, Guinney J, Zhao L, Zhang L, Hughes G, Sadda S, Klotzle B, Bibikova M, Fan JB, Gao Y, Deconde R, Chen M, Rajapakse I, et al. Genome-wide methylation profiles reveal quantitative views of human aging rates. Molecular cell. 2013; 49:359-367
34. Horvath S. DNA methylation age of human tissues and cell types. Genome biology. 2013; 14:R115
35. Weidner CI, Lin Q, Koch CM, Eisele L, Beier F, Ziegler P, Bauerschlag DO, Jockel KH, Erbel R, Muhleisen TW, Zenke M, Brummendorf TH and Wagner W. Aging of blood can be tracked by DNA methylation changes at just three CpG sites. Genome biology. 2014; 15:R24
36. Gibbs WW. Biomarkers and ageing: The clock-watcher. Nature. 2014; 508:168-170
37. Marioni RE, Shah S, McRae AF, Chen BH, Colicino E, Harris SE, Gibson J, Henders AK, Redmond P, Cox SR, Pattie A, Corley J, Murphy L, et al. DNA methylation age of blood predicts all-cause mortality in later life. Genome biology. 2015; 16:25
38. Marioni RE, Shah S, McRae AF, Ritchie SJ, Muniz-Terrera G, Harris SE, Gibson J, Redmond P, Cox SR, Pattie A, Corley J, Taylor A, Murphy L, et al. The epigenetic clock is correlated with physical and cognitive fitness in the Lothian Birth Cohort 1936. International journal of epidemiology. 2015
39. Horvath S, Erhart W, Brosch M, Ammerpohl O, von Schonfels W, Ahrens M, Heits N, Bell JT, Tsai PC, Spector TD, Deloukas P, Siebert R, Sipos B, et al. Obesity accelerates epigenetic aging of human liver. Proceedings of the National Academy of Sciences of the United States of America. 2014; 111:15538-15543
40. Horvath S, Garagnani P, Bacalini MG, Pirazzini C, Salvioli S, Gentilini D, Di Blasio AM, Giuliani C, Tung S, Vinters HV and Franceschi C. Accelerated epigenetic aging in Down syndrome. Aging cell. 2015; 14:491-495
41. Horvath S and Levine AJ. HIV-1 Infection Accelerates Age According to the Epigenetic Clock. The Journal of infectious diseases. 2015
42. Lowe D and Raj K. Premature aging induced by radiation exhibits pro-atherosclerotic effects mediated by epigenetic activation of CD44 expression. Aging cell. 2014; 13:900-910
43. Antwih DA, Gabbara KM, Lancaster WD, Ruden DM and Zielske SP. Radiation-induced epigenetic DNA methylation modification of radiation-response pathways. Epigenetics. 2013; 8:839-848
44. Koch CM, Reck K, Shao K, Lin Q, Joussen S, Ziegler P, Walenda G, Drescher W, Opalka B, May T, Brummendorf T, Zenke M, Saric T, et al. Pluripotent stem cells escape from senescence-associated DNA methylation changes. Genome research. 2013; 23:248-259