Differential epigenomic and transcriptomic responses in subcutaneous adipose tissue between low and high responders to caloric restriction

American Journal of Clinical Nutrition

Volumn 91, Issue 2, 2010, Pages 309-320

  Bouchard, Luigi ^a,c   Rabasa Lhoret, Rémi ^c   Faraj, May ^c   Lavoie, Marie Ève ^c   Mill, Jonathan ^d   Pérusse, Louis ^a,b   Vohl, Marie Claude ^a,b  

^a LAVAL UNIVERSITY   (Canada)

^b UNIVERSITÉ LAVAL   (Canada)

^c UNIVERSITÉ DE MONTRÉAL   (Canada)

^d KING'S COLLEGE LONDON   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ADULT; ANGIOGENESIS; ARTICLE; BODY FAT; CALORIC RESTRICTION; CHROMOSOMAL LOCALIZATION; CONTROLLED STUDY; CPG ISLAND; DIET RESTRICTION; DNA METHYLATION; EPIGENETICS; FEMALE; GENE EXPRESSION; GENE EXPRESSION PROFILING; HUMAN; HUMAN TISSUE; INSULIN RELEASE; LONG TERM DEPRESSION; MAJOR CLINICAL STUDY; OBESITY; POSTMENOPAUSE; SUBCUTANEOUS FAT; TRANSCRIPTOMICS; WEIGHT CONTROL; WEIGHT REDUCTION;

AGED; ANTHROPOMETRY; CALORIC RESTRICTION; DNA METHYLATION; EPIGENESIS, GENETIC; FEMALE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; HUMANS; MIDDLE AGED; OBESITY; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA; STATISTICS, NONPARAMETRIC; SUBCUTANEOUS FAT; TRANSCRIPTION, GENETIC;

EID: 75649087405     PISSN: 00029165     EISSN: None     Source Type: Journal    
DOI: 10.3945/ajcn.2009.28085     Document Type: Article

References (58)

1. Haslam DW, James WP. Obesity. Lancet 2005;366:1197-209.
2. Flatt JP. Dietary fat, carbohydrate balance, and weight maintenance: effects of exercise. Am J Clin Nutr 1987;45:296-306.
3. Rodgers A, Ezzati M, Vander Hoorn S, Lopez AD, Lin RB, Murray CJ. Distribution of major health risks: findings from the Global Burden of Disease study. PLoS Med 2004;1:e27.
4. National Institutes of Health. Clinical guidelines on the identification, evaluation, and treatment of overweight and obesity in adults - the evidence report. Obes Res 1998;6(suppl 2):51S-209S.
5. Katz DL, O'Connell M, Yeh MC, et al. Public health strategies for preventing and controlling overweight and obesity in school and worksite settings: a report on recommendations of the Task Force on Community Preventive Services. MMWR Recomm Rep 2005;54:1-12.
6. Klein S, Burke LE, Bray GA, et al. Clinical implications of obesity with specific focus on cardiovascular disease: a statement for professionals from the American Heart Association Council on Nutrition, Physical Activity, and Metabolism: endorsed by the American College of Cardiology Foundation. Circulation 2004;110:2952-67.
7. Hainer V, Zamrazilova H, Spalova J, et al. Role of hereditary factors in weight loss and its maintenance. Physiol Res 2008;57:S1-15.
8. Bouchard C, Tremblay A, Després JP, et al. The response to exercise with constant energy intake in identical twins. Obes Res 1994;2:400-10.
9. Hainer V, Stunkard AJ, Kunesova M, Parizkova J, Stich V, Allison DB. Intrapair resemblance in very low calorie diet-induced weight loss in female obese identical twins. Int J Obes Relat Metab Disord 2000;24:1051-7.
10. Petronis A. Human morbid genetics revisited: relevance of epigenetics. Trends Genet 2001;17:142-6.
11. Petronis A. Epigenetics and twins: three variations on the theme. Trends Genet 2006;22:347-50.
12. Henikoff S, Matzke MA. Exploring and explaining epigenetic effects. Trends Genet 1997;13:293-5.
13. Kangaspeska S, Stride B, Metivier R, et al. Transient cyclical methylation of promoter DNA. Nature 2008;452:112-5.
14. Bird A. DNA methylation patterns and epigenetic memory. Genes Dev 2002;16:6-21.
15. Ling C, Del Guerra S, Lupi R, et al. Epigenetic regulation of PPARGC1A in human type 2 diabetic islets and effect on insulin secretion. Diabetologia 2008;51:615-22.
16. Faraj M, Messier L, Bastard JP, et al. Apolipoprotein B: a predictor of inflammatory status in postmenopausal overweight and obese women. Diabetologia 2006;49:1637-46.
17. Karelis AD, Faraj M, Bastard JP, et al. The metabolically healthy but obese individual presents a favorable inflammation profile. J Clin Endocrinol Metab 2005;90:4145-50.
18. Faraj M, Beauregard G, Loizon E, et al. Insulin regulation of gene expression and concentrations of white adipose tissue-derived proteins in vivo in healthy men: relation to adiponutrin. J Endocrinol 2006;191:427-35.
19. Faraj M, Beauregard G, Tardif A, et al. Regulation of leptin, adiponectin and acylation-stimulating protein by hyperinsulinaemia and hyperglycaemia in vivo in healthy lean young men. Diabetes Metab 2008;34:334-42.
20. Meugnier E, Faraj M, Rome S, et al. Acute hyperglycemia induces a global downregulation of gene expression in adipose tissue and skeletal muscle of healthy subjects. Diabetes 2007;56:992-9.
21. St-Onge M, Mignault D, Allison DB, Rabasa-Lhoret R. Evaluation of a portable device to measure daily energy expenditure in free-living adults. Am J Clin Nutr 2007;85:742-9.
22. Heisler LE, Torti D, Boutros PC, et al. CpG Island microarray probe sequences derived from a physical library are representative of CpG Islands annotated on the human genome. Nucleic Acids Res 2005;33:2952-61.
23. Mill J, Tang T, Kaminsky Z, et al. Epigenomic profiling reveals DNA-methylation changes associated with major psychosis. Am J Hum Genet 2008;82:696-711.
24. Schumacher A, Kapranov P, Kaminsky Z, et al. Microarray-based DNA methylation profiling: technology and applications. Nucleic Acids Res 2006;34:528-42.
25. Ehrich M, Nelson MR, Stanssens P, et al. Quantitative high-throughput analysis of DNA methylation patterns by base-specific cleavage and mass spectrometry. Proc Natl Acad Sci USA 2005;102:15785-90.
26. Bolstad BM, Irizarry RA, Astrand M, Speed TP. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003;19:185-93.
27. Blazejczyk M, Miron M, Nadon R. FlexArray: a statistical data analysis software for gene expression microarrays. Montreal, Canada: Genome Quebec, 2007.
28. Livak KJ, Schmittgen TD. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method. Methods 2001;25:402-8.
29. Tusher VG, Tibshirani R, Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci USA 2001;98:5116-21.
30. Benjamini Y, Hochberg Y. Controling the false discovery rate: a pratical and powerfull approach to multiple testing. J R Stat Soc B 1995;57:289-300.
31. Tibshirani R. A simple method for assessing sample sizes in microarray experiments. BMC Bioinformatics 2006;7:106.
32. Dennis G Jr, Sherman BT, Hosack DA, et al. DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol 2003;4:3.
33. Luedi PP, Hartemink AJ, Jirtle RL. Genome-wide prediction of imprinted murine genes. Genome Res 2005;15:875-84.
34. Zhao L, Gregoire F, Sul HS. Transient induction of ENC-1, a Kelch-related actin-binding protein, is required for adipocyte differentiation. J Biol Chem 2000;275:16845-50.
35. Mutch DM, Temanni MR, Henegar C, et al. Adipose gene expression prior to weight loss can differentiate and weakly predict dietary responders. PLoS One 2007;2:e1344.
36. Driller K, Pagenstecher A, Uhl M, et al. Nuclear factor I X deficiency causes brain malformation and severe skeletal defects. Mol Cell Biol 2007;27:3855-67.
37. Xu J, Koni PA, Wang P, et al. The voltage-gated potassium channel Kv1.3 regulates energy homeostasis and body weight. Hum Mol Genet 2003;12:551-9.
38. Gierl MS, Karoulias N, Wende H, Strehle M, Birchmeier C. The zinc-finger factor Insm1 (IA-1) is essential for the development of pancreatic beta cells and intestinal endocrine cells. Genes Dev 2006;20:2465-78.
39. Taha D, Barbar M, Kanaan H, Williamson Balfe J. Neonatal diabetes mellitus, congenital hypothyroidism, hepatic fibrosis, polycystic kidneys, and congenital glaucoma: a new autosomal recessive syndrome? Am J Med Genet A 2003;122A:269-73.
40. Ahren B, Holst JJ, Efendic S. Antidiabetogenic action of cholecystokinin-8 in type 2 diabetes. J Clin Endocrinol Metab 2000;85:1043-8.
41. Smith AC, Choufani S, Ferreira JC, Weksberg R. Growth regulation, imprinted genes, and chromosome 11p15.5. Pediatr Res 2007;61:43R-7R.
42. Waterland RA, Lin JR, Smith CA, Jirtle RL. Post-weaning diet affects genomic imprinting at the insulin-like growth factor 2 (Igf2) locus. Hum Mol Genet 2006;15:705-16.
43. Heijmans BT, Tobi EW, Stein AD, et al. Persistent epigenetic differences associated with prenatal exposure to famine in humans. Proc Natl Acad Sci USA 2008;105:17046-9.
44. Hesler CB, Swenson TL, Tall AR. Purification and characterization of a human plasma cholesteryl ester transfer protein. J Biol Chem 1987;262:2275-82.
45. Hesler CB, Tall AR, Swenson TL, Weech PK, Marcel YL, Milne RW. Monoclonal antibodies to the Mr 74,000 cholesteryl ester transfer protein neutralize all of the cholesteryl ester and triglyceride transfer activities in human plasma. J Biol Chem 1988;263:5020-3.
46. Morton RE, Zilversmit DB. Purification and characterization of lipid transfer protein(s) from human lipoprotein-deficient plasma. J Lipid Res 1982;23:1058-67.
47. Izem L, Morton RE. Possible role for intracellular cholesteryl ester transfer protein in adipocyte lipid metabolism and storage. J Biol Chem 2007;282:21856-65.
48. Zhou H, Li Z, Hojjati MR, et al. Adipose tissue-specific CETP expression in mice: impact on plasma lipoprotein metabolism. J Lipid Res 2006;47:2011-9.
49. Lottenberg AM, Nunes VS, Nakandakare ER, et al. The human cholesteryl ester transfer protein I405V polymorphism is associated with plasma cholesterol concentration and its reduction by dietary phytosterol esters. J Nutr 2003;133:1800-5.
50. Sandhofer A, Tatarczyk T, Laimer M, et al. The Taq1B-variant in the cholesteryl ester-transfer protein gene and the risk of metabolic syndrome. Obesity (Silver Spring) 2008;16:919-22.
51. Ruaño G, Windemuth A, Kocherla M, et al. Physiogenomic analysis of weight loss induced by dietary carbohydrate restriction. Nutr Metab (Lond) 2006;3:20.
52. Costa C, Incio J, Soares R. Angiogenesis and chronic inflammation: cause or consequence? Angiogenesis 2007;10:149-66.
53. Rupnick MA, Panigrahy D, Zhang CY, et al. Adipose tissue mass can be regulated through the vasculature. Proc Natl Acad Sci USA 2002;99:10730-5.
54. Vigot R. [Cerebellar long-term depression: a mechanism for learning and memory.] Med Sci (Paris) 2003;19:437-41 (in French).
55. Lebrun B, Bariohay B, Moyse E, Jean A. Brain-derived neurotrophic factor (BDNF) and food intake regulation: a minireview. Auton Neurosci 2006;126-127:30-8.
56. Eckhardt F, Lewin J, Cortese R, et al. DNA methylation profiling of human chromosomes 6, 20 and 22. Nat Genet 2006;38:1378-85.
57. Irizarry RA, Ladd-Acosta C, Carvalho B, et al. Comprehensive high-throughput arrays for relative methylation (CHARM). Genome Res 2008;18:780-90.
58. Tobi EW, Lumey LH, Talens RP, et al. DNA methylation differences after exposure to prenatal famine are common and timing- and sexspecific. Hum Mol Genet 2009;18:4046-53.