The spatial association of gene expression evolves from synchrony to asynchrony and stochasticity with age

PLoS ONE

Volumn 6, Issue 9, 2011, Pages

  Wang, Qi ^a,b   Huang, Jianhua ^a   Zhang, Xinmin ^a   Wu, Bin ^a   Liu, Xiaoyu ^c   Shen, Ziyin ^a  

^a FUDAN UNIVERSITY   (China)

^b National Engineering Center for Biochip   (China)

^c TENTH PEOPLE S HOSPITAL OF TONGJI UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

RESVERATROL; STILBENE DERIVATIVE; TRANSCRIPTOME;

AGING; ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; BIOACCUMULATION; CALORIC RESTRICTION; CONTROLLED STUDY; DNA DAMAGE; DNA DEGRADATION; DNA MODIFICATION; DNA REPAIR; DROSOPHILA MELANOGASTER; FEMALE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE PROBE; GENETIC ASSOCIATION; LIFESPAN; MALE; MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; MOUSE; NONHUMAN; PROCESS DEVELOPMENT; PROTEIN DEFECT; PROTEIN DEGRADATION; RAT; RISK FACTOR; SEX DIFFERENCE; SPECIES COMPARISON; STATISTICAL ANALYSIS; TISSUE SPECIFICITY; ANIMAL; DRUG EFFECT; GENETICS; PHYSIOLOGY; STATISTICS; TIME;

ANIMALIA; MUS; RATTUS;

AGING; ANIMALS; CALORIC RESTRICTION; FEMALE; MALE; MICE; RATS; STILBENES; STOCHASTIC PROCESSES; TIME FACTORS; TRANSCRIPTOME;

EID: 80052413197     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0024076     Document Type: Article

References (39)

1. Wick G, Jansen-Dürr P, Berger P, Blasko I, Grubeck-Loebenstein B, (2000) Diseases of aging. Vaccine 18: 1567-83.
2. Kenyon C, (2005) The plasticity of aging: insights from long-lived mutants. Cell 120: 449-460.
3. Shimokawa I, Chiba T, Yamaza H, Komatsu T, (2008) Longevity genes: insights from calorie restriction and genetic longevity models. Mol Cells 26: 427-435.
4. Hekimi S, Guarente L, (2003) Genetics and the specificity of the aging process. Science 299: 1351-1354.
5. McCarroll SA, Murphy CT, Zou S, Pletcher SD, Chin CS, et al. (2004) Comparing genomic expression patterns across species identifies shared transcriptional profile in aging. Nat Genet 36: 197-204.
6. Rodwell GE, Sonu R, Zahn JM, Lund J, Wilhelmy J, et al. (2004) A Transcriptional Profile of Aging in the Human Kidney. PLoS Biol 2: e427.
7. Schumacher B, van der Pluijm I, Moorhouse MJ, Kosteas T, Robinson AR, et al. (2008) Delayed and accelerated aging share common longevity assurance mechanisms. PLoS Genet 4: e1000161.
8. Zahn JM, Sonu R, Vogel H, Crane E, Mazan-Mamczarz K, et al. (2006) Transcriptional profiling of aging in human muscle reveals a common aging signature. PLoS Genet 2: e115.
9. de Magalhaes JP, Curado J, Church GM, (2009) Meta-analysis of age-related gene expression profiles identifies common signatures of aging. Bioinformatics 25: 875-881.
10. Finch CE, Tanzi RE, (1997) Genetics of aging. Science 278: 407-411.
11. Lu T, Pan Y, Kao SY, Li C, Kohane I, et al. (2004) Gene regulation and DNA damage in the ageing human brain. Nature 429: 883-891.
12. Herndon LA, Schmeissner PJ, Dudaronek JM, Brown PA, Listner KM, et al. (2002) Stochastic and genetic factors influence tissue-specific decline in ageing C. elegans. Nature 419: 808-814.
13. Zhan M, Yamaza H, Sun Y, Sinclair J, Li H, et al. (2007) Temporal and spatial transcriptional profiles of aging in Drosophila melanogaster. Genome Res 17: 1236-1243.
14. Zahn JM, Poosala S, Owen AB, Ingram DK, Lustig A, et al. (2007) AGEMAP: a gene expression database for aging in mice. PLoS Genet 3: e201.
15. Heilbronn LK, de Jonge L, Frisard MI, DeLany JP, Larson-Meyer DE, et al. (2006) Effect of 6-month calorie restriction on biomarkers of longevity, metabolic adaptation, and oxidative stress in overweight individuals: a randomized controlled trial. JAMA 295: 1539-1548.
16. Barger JL, Walford RL, Weindruch R, (2003) The retardation of aging by caloric restriction: its significance in the transgenic era. Exp Gerontol 38: 1343-1351.
17. Fontana L, Partridge L, Longo VD, (2010) Extending healthy life span-from yeast to humans. Science 328: 321-326.
18. Ingram DK, Anson RM, de Cabo R, Mamczarz J, Zhu M, et al. (2004) Development of calorie restriction mimetics as a prolongevity strategy. Ann N Y Acad Sci 1019: 412-423.
19. Howitz KT, Bitterman KJ, Cohen HY, Lamming DW, Lavu S, et al. (2003) Small molecule activators of sirtuins extend Saccharomyces cerevisiae lifespan. Nature 425: 191-196.
20. Wood JG, Rogina B, Lavu S, Howitz K, Helfand SL, et al. (2004) Sirtuin activators mimic caloric restriction and delay ageing in metazoans. Nature 430: 686-689.
21. Viswanathan M, Kim SK, Berdichevsky A, Guarente L, (2005) A role for SIR-2.1 regulation of ER stress response genes in determining C. elegans life span. Cell 9: 605-615.
22. Valenzano DR, Terzibasi E, Genade T, Cattaneo A, Domenici L, et al. (2006) Resveratrol prolongs lifespan and retards the onset of age-related markers in a short-lived vertebrate. Curr Biol 16: 296-300.
23. Bass TM, Weinkove D, Houthoofd K, Gems D, Partridge L, (2007) Effects of resveratrol on lifespan in Drosophila melanogaster and Caenorhabditis elegans. Mech Ageing Dev 128: 546-552.
24. Baur JA, Pearson KJ, Price NL, Jamieson HA, Lerin C, et al. (2006) Resveratrol improves health and survival of mice on a high-calorie diet. Nature 444: 337-342.
25. Pearson KJ, Baur JA, Lewis KN, Peshkin L, Price NL, et al. (2008) Resveratrol Delays Age-Related Deterioration and Mimics Transcriptional Aspects of Dietary Restriction without Extending Life Span. Cell Metab 8: 157-168.
26. Huang DW, Sherman BT, Lempicki RA, (2009) Systematic and integrative analysis of large gene lists using DAVID Bioinformatics Resources. Nature Protoc 4: 44-57.
27. Huang DW, Sherman BT, Lempicki RA, (2009) Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res 37: 1-13.
28. Bahar R, Hartmann CH, Rodriguez KA, Denny AD, Busuttil RA, et al. (2006) Increased cell-to-cell variation in gene expression in ageing mouse heart. Nature 441: 1011-1014.
29. Newlands S, Levitt LK, Robinson CS, Karpf AB, Hodgson VR, et al. (1998) Transcription occurs in pulses in muscle fibers. Genes Dev 12: 2748-2758.
30. Rea SL, Wu D, Cypser JR, Vaupel JW, Johnson TE, (2005) A stress-sensitive reporter predicts longevity in isogenic populations of Caenorhabditis elegans. Nat Genet 37: 894-898.
31. Johnson TE, (1990) Increased life-span of age-1 mutants in Caenorhabditis elegans and lower Gompertz rate of aging. Science 249: 908-912.
32. Gärtner K, (1990) A third component causing random variability beside environment and genotype. A reason for the limited success of a 30 year long effort to standardize laboratory animals? Lab Anim 24: 71-77.
33. Partridge L, Gems D, Withers DJ, (2005) Sex and death: what is the connection? Cell 120: 461-472.
34. Tower J, Arbeitman M, (2009) The genetics of gender and life span. J Biol 8: 38.
35. Berchtold NC, Cribbs DH, Coleman PD, Rogers J, Head E, et al. (2008) Gene expression changes in the course of normal brain aging are sexually dimorphic. Proc Natl Acad Sci 105: 15605-15610.
36. Kirkwood TB, (2005) Understanding the odd science of aging. Cell 120: 437-447.
37. Hoeijmakers JH, (2009) DNA damage, aging, and cancer. N Engl J Med 361: 1475-1485.
38. Campisi J, (2005) Senescent cells, tumor suppression, and organismal aging: good citizens, bad neighbors. Cell 120: 513-522.
39. Golden TR, Melov S, (2004) Microarray analysis of gene expression with age in individual nematodes. Aging Cell 3: 111-124.