Associations between dietary patterns and gene expression profiles of healthy men and women: a cross-sectional study

Nutrition Journal

Marie-Claude Vohl³  Patrick Couture¹  Simone Lemieux²  Iwona Rudkowska³  Ann-Marie Paradis¹  Annie Bouchard-Mercier³ 

[1] Institute of Nutraceuticals and Functional Foods (INAF), Laval University, 2440 Hochelaga Blvd, Quebec G1V 0A6, Canada;Department of Food Science and Nutrition, Laval University, 2425 de l’Agriculture St, Quebec G1K 7P4, Canada;Laboratory of Endocrinology and Genomics, CHUQ, Laval University Hospital Research Center, 2705 Laurier Blvd, Québec, G1V 4G2, Canada

关键词: Transcriptomics;    Gene expression;    Prudent dietary pattern;    Western dietary pattern;    Dietary patterns;   

Others  :  823597
DOI  :  10.1186/1475-2891-12-24

 received in 2012-10-30, accepted in 2013-02-07,  发布年份 2013

【 摘 要 】

Background

Diet regulates gene expression profiles by several mechanisms. The objective of this study was to examine gene expression in relation with dietary patterns.

Methods

Two hundred and fifty four participants from the greater Quebec City metropolitan area were recruited. Two hundred and ten participants completed the study protocol. Dietary patterns were derived from a food frequency questionnaire (FFQ) by factor analysis. For 30 participants (in fasting state), RNA was extracted from peripheral blood mononuclear cells (PBMCs) and expression levels of 47,231 mRNA transcripts were assessed using the Illumina Human-6 v3 Expression BeadChips^®. Microarray data was pre-processed with Flexarray software and analysed with Ingenuity Pathway Analysis (IPA).

Results

Two dietary patterns were identified. The Prudent dietary pattern was characterised by high intakes of vegetables, fruits, whole grain products and low intakes of refined grain products and the Western dietary pattern, by high intakes of refined grain products, desserts, sweets and processed meats. When individuals with high scores for the Prudent dietary pattern where compared to individuals with low scores, 2,083 transcripts were differentially expressed in men, 1,136 transcripts in women and 59 transcripts were overlapping in men and women. For the Western dietary pattern, 1,021 transcripts were differentially expressed in men with high versus low scores, 1,163 transcripts in women and 23 transcripts were overlapping in men and women. IPA reveals that genes differentially expressed for both patterns were present in networks related to the immune and/or inflammatory response, cancer and cardiovascular diseases.

Conclusion

Gene expression profiles were different according to dietary patterns, which probably modulate the risk of chronic diseases.

Trial Registration

NCT:NCT01343342

【 授权许可】

   
2013 Bouchard-Mercier et al; licensee BioMed Central Ltd.

【 图 表 】

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【 参考文献 】

• [1]Sadakane A, Tsutsumi A, Gotoh T, Ishikawa S, Ojima T, Kario K, et al.: Dietary patterns and levels of blood pressure and serum lipids in a Japanese population. J Epidemiol 2008, 18:58-67.
• [2]Mikkila V, Rasanen L, Raitakari OT, Marniemi J, Pietinen P, Ronnemaa T, et al.: Major dietary patterns and cardiovascular risk factors from childhood to adulthood. The Cardiovascular Risk in Young Finns Study. Br J Nutr 2007, 98:218-225.
• [3]Meyer J, Doring A, Herder C, Roden M, Koenig W, Thorand B: Dietary patterns, subclinical inflammation, incident coronary heart disease and mortality in middle-aged men from the MONICA/KORA Augsburg cohort study. Eur J Clin Nutr 2011, 65:800-807.
• [4]Paradis AM, Godin G, Perusse L, Vohl MC: Associations between dietary patterns and obesity phenotypes. Int J Obes (Lond) 2009, 33:1419-1426.
• [5]Heidemann C, Schulze MB, Franco OH, van Dam RM, Mantzoros CS, Hu FB: Dietary patterns and risk of mortality from cardiovascular disease, cancer, and all causes in a prospective cohort of women. Circulation 2008, 118:230-237.
• [6]Sherzai A, Heim LT, Boothby C, Sherzai AD: Stroke, food groups, and dietary patterns: a systematic review. Nutr Rev 2012, 70:423-435.
• [7]Yusof AS, Isa ZM, Shah SA: Dietary patterns and risk of colorectal cancer: a systematic review of cohort studies (2000-2011). Asian Pac J Cancer Prev 2012, 13:4713-4717.
• [8]Meyerhardt JA, Niedzwiecki D, Hollis D, Saltz LB, Hu FB, Mayer RJ, et al.: Association of dietary patterns with cancer recurrence and survival in patients with stage III colon cancer. JAMA 2007, 298:754-764.
• [9]Garcia-Bailo B, Brenner DR, Nielsen D, Lee HJ, Domanski D, Kuzyk M, et al.: Dietary patterns and ethnicity are associated with distinct plasma proteomic groups. Am J Clin Nutr 2012, 95:352-361.
• [10]Hu FB: Dietary pattern analysis: a new direction in nutritional epidemiology. Curr Opin Lipidol 2002, 13:3-9.
• [11]Hu FB, Rimm E, Smith-Warner SA, Feskanich D, Stampfer MJ, Ascherio A, et al.: Reproducibility and validity of dietary patterns assessed with a food-frequency questionnaire. Am J Clin Nutr 1999, 69:243-249.
• [12]Khani BR, Ye W, Terry P, Wolk A: Reproducibility and validity of major dietary patterns among Swedish women assessed with a food-frequency questionnaire. J Nutr 2004, 134:1541-1545.
• [13]Nanri A, Shimazu T, Ishihara J, Takachi R, Mizoue T, Inoue M, et al.: Reproducibility and validity of dietary patterns assessed by a food frequency questionnaire used in the 5-year follow-up survey of the Japan Public Health Center-Based Prospective Study. J Epidemiol 2012, 22:205-215.
• [14]Ross SA: Evidence for the relationship between diet and cancer. Exp Oncol 2010, 32:137-142.
• [15]Schnabel RB, Baccarelli A, Lin H, Ellinor PT, Benjamin EJ: Next steps in cardiovascular disease genomic research–sequencing, epigenetics, and transcriptomics. Clin Chem 2012, 58:113-126.
• [16]Barnes S: Nutritional genomics, polyphenols, diets, and their impact on dietetics. J Am Diet Assoc 2008, 108:1888-1895.
• [17]Keller H, Dreyer C, Medin J, Mahfoudi A, Ozato K, Wahli W: Fatty acids and retinoids control lipid metabolism through activation of peroxisome proliferator-activated receptor-retinoid X receptor heterodimers. Proc Natl Acad Sci USA 1993, 90:2160-2164.
• [18]Ong KR, Sims AH, Harvie M, Chapman M, Dunn WB, Broadhurst D, et al.: Biomarkers of dietary energy restriction in women at increased risk of breast cancer. Cancer Prev Res (Phila) 2009, 2:720-731.
• [19]Franck N, Gummesson A, Jernas M, Glad C, Svensson PA, Guillot G, et al.: Identification of adipocyte genes regulated by caloric intake. J Clin Endocrinol Metab 2011, 96:E413-E418.
• [20]van Dijk SJ, Feskens EJ, Bos MB, Hoelen DW, Heijligenberg R, Bromhaar MG, et al.: A saturated fatty acid-rich diet induces an obesity-linked proinflammatory gene expression profile in adipose tissue of subjects at risk of metabolic syndrome. Am J Clin Nutr 2009, 90:1656-1664.
• [21]Yubero-Serrano EM, Gonzalez-Guardia L, Rangel-Zuniga O, Delgado-Lista J, Gutierrez-Mariscal FM, Perez-Martinez P, et al.: Mediterranean diet supplemented with coenzyme Q10 modifies the expression of proinflammatory and endoplasmic reticulum stress-related genes in elderly men and women. J Gerontol A Biol Sci Med Sci 2012, 67:3-10.
• [22]Rudkowska I, Paradis AM, Thifault E, Julien P, Tchernof A, Couture P, et al.: Transcriptomic and metabolomic signatures of an n-3 polyunsaturated fatty acids supplementation in a normolipidemic/normocholesterolemic Caucasian population. J Nutr Biochem 2012, 24:54-61.
• [23]Callaway CW, Chumlea WC, Bouchard C, Himes JH, Lohman TG, Martin AD, Mitchell CD, Mueller WH, Roche AF, Seefeldt VD: Standardization of Anthropometric Measurements. In The Airlie (VA) Consensus Conference. Edited by Lohman T, Roche A, Martorel R. Champaign, IR, USA: Human Kinetics Publishers; 1988:39-80.
• [24]McNamara JR, Schaefer EJ: Automated enzymatic standardized lipid analyses for plasma and lipoprotein fractions. Clin Chim Acta 1987, 166:1-8.
• [25]Burstein M, SAMAILLE J: [On a rapid determination of the cholesterol bound to the serum alpha- and beta-lipoproteins]. Clin Chim Acta 1960, 5:609.
• [26]Albers JJ, Warnick GR, Wiebe D, King P, Steiner P, Smith L, et al.: Multi-laboratory comparison of three heparin-Mn2+ precipitation procedures for estimating cholesterol in high-density lipoprotein. Clin Chem 1978, 24:853-856.
• [27]Friedewald WT, Levy RI, Fredrickson DS: Estimation of the concentration of low-density lipoprotein cholesterol in plasma, without use of the preparative ultracentrifuge. Clin Chem 1972, 18:499-502.
• [28]Pirro M, Bergeron J, Dagenais GR, Bernard PM, Cantin B, Despres JP, et al.: Age and duration of follow-up as modulators of the risk for ischemic heart disease associated with high plasma C-reactive protein levels in men. Arch Intern Med 2001, 161:2474-2480.
• [29]Laurell CB: Quantitative estimation of proteins by electrophoresis in agarose gel containing antibodies. Anal Biochem 1966, 15:45-52.
• [30]Richterich R: Dauwalder H: [Determination of plasma glucose by hexokinase-glucose-6-phosphate dehydrogenase method]. Schweiz Med Wochenschr 1971, 101:615-618.
• [31]Desbuquois B, Aurbach GD: Use of polyethylene glycol to separate free and antibody-bound peptide hormones in radioimmunoassays. J Clin Endocrinol Metab 1971, 33:732-738.
• [32]Padwal RS, Hemmelgarn BR, Khan NA, Grover S, McKay DW, Wilson T, et al.: The 2009 Canadian Hypertension Education Program recommendations for the management of hypertension: Part 1–blood pressure measurement, diagnosis and assessment of risk. Can J Cardiol 2009, 25:279-286.
• [33]Goulet J, Nadeau G, Lapointe A, Lamarche B, Lemieux S: Validity and reproducibility of an interviewer-administered food frequency questionnaire for healthy French-Canadian men and women. Nutr J 2004, 3:13. BioMed Central Full Text
• [34]Newby PK, Tucker KL: Empirically derived eating patterns using factor or cluster analysis: a review. Nutr Rev 2004, 62:177-203.
• [35]Fu WJ, Stromberg AJ, Viele K, Carroll RJ, Wu G: Statistics and bioinformatics in nutritional sciences: analysis of complex data in the era of systems biology. J Nutr Biochem 2010, 21:561-572.
• [36]Liew CC, Ma J, Tang HC, Zheng R, Dempsey AA: The peripheral blood transcriptome dynamically reflects system wide biology: a potential diagnostic tool. J Lab Clin Med 2006, 147:126-132.
• [37]Schroeder A, Mueller O, Stocker S, Salowsky R, Leiber M, Gassmann M, et al.: The RIN: an RNA integrity number for assigning integrity values to RNA measurements. BMC Mol Biol 2006, 7:3. BioMed Central Full Text
• [38]Michal B, Mathieu M, Robert N: FlexArray: A statistical data analysis software for gene expression microarrays. Montreal, Canada: Génome Québec; 2007. http://genomequebec.mcgill.ca/FlexArray webcite
• [39]Shi W, Oshlack A, Smyth GK: Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips. Nucleic Acids Res 2010, 38:e204.
• [40]Tusher VG, Tibshirani R, Chu G: Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci USA 2001, 98:5116-5121.
• [41]Bhupathiraju SN, Tucker KL: Coronary heart disease prevention: nutrients, foods, and dietary patterns. Clin Chim Acta 2011, 412:1493-1514.
• [42]Hu FB, Rimm EB, Stampfer MJ, Ascherio A, Spiegelman D, Willett WC: Prospective study of major dietary patterns and risk of coronary heart disease in men. Am J Clin Nutr 2000, 72:912-921.
• [43]Canada H: Eating well with Canada's Food Guide. Ottawa: Publications Health Canada; 2011.
• [44]Shanik MH, Xu Y, Skrha J, Dankner R, Zick Y, Roth J: Insulin resistance and hyperinsulinemia: is hyperinsulinemia the cart or the horse? Diabetes Care 2008, 31(Suppl 2):S262-S268.
• [45]American Diabetes Association: Standards of medical care in diabetes--2012 Diabetes Care 2012, 35(Suppl 1):S11-S63.
• [46]Klaus S, Keijer J: Gene expression profiling of adipose tissue: individual, depot-dependent, and sex-dependent variabilities. Nutrition 2004, 20:115-120.
• [47]Yoon M: PPARalpha in Obesity: Sex Difference and Estrogen Involvement. PPAR Res 2010., (2010)
• [48]Kawasaki M, Sekigawa I, Nozawa K, Kaneko H, Takasaki Y, Takamori K, et al.: Changes in the gene expression of peripheral blood mononuclear cells during the menstrual cycle of females is associated with a gender bias in the incidence of systemic lupus erythematosus. Clin Exp Rheumatol 2009, 27:260-266.
• [49]Tappia PS, Dent MR, Dhalla NS: Oxidative stress and redox regulation of phospholipase D in myocardial disease. Free Radic Biol Med 2006, 41:349-361.
• [50]Dhalla NS, Xu YJ, Sheu SS, Tappia PS, Panagia V: Phosphatidic acid: a potential signal transducer for cardiac hypertrophy. J Mol Cell Cardiol 1997, 29:2865-2871.
• [51]Laczmanska I, Sasiadek MM: Tyrosine phosphatases as a superfamily of tumor suppressors in colorectal cancer. Acta Biochim Pol 2011, 58:467-470.
• [52]Haidari M, Zhang W, Caivano A, Chen Z, Ganjehei L, Mortazavi A, et al.: Integrin alpha2-beta1 Mediates Tyrosine Phosphorylation of Vascular Endothelial Cadherin Induced by Invasive Breast Cancer Cells. J Biol Chem 2012, 287:23981-23992.
• [53]Lee JY, Hwang DH: The modulation of inflammatory gene expression by lipids: mediation through Toll-like receptors. Mol Cells 2006, 21:174-185.
• [54]Bouwens M, Grootte BM, Jansen J, Muller M, Afman LA: Postprandial dietary lipid-specific effects on human peripheral blood mononuclear cell gene expression profiles. Am J Clin Nutr 2010, 91:208-217.
• [55]Burger JA: Inhibiting B-cell receptor signaling pathways in chronic lymphocytic leukemia. Curr Hematol Malig Rep 2012, 7:26-33.
• [56]Kushi LH, Doyle C, McCullough M, Rock CL, Demark-Wahnefried W, Bandera EV, et al.: American Cancer Society Guidelines on nutrition and physical activity for cancer prevention: reducing the risk of cancer with healthy food choices and physical activity. CA Cancer J Clin 2012, 62:30-67.
• [57]Liu Q, Chen Y, Auger-Messier M, Molkentin JD: Interaction between NFkappaB and NFAT coordinates cardiac hypertrophy and pathological remodeling. Circ Res 2012, 110:1077-1086.
• [58]Robbs BK, Cruz AL, Werneck MB, Mognol GP, Viola JP: Dual roles for NFAT transcription factor genes as oncogenes and tumor suppressors. Mol Cell Biol 2008, 28:7168-7181.
• [59]Catoire M, Mensink M, Boekschoten MV, Hangelbroek R, Muller M, Schrauwen P, et al.: Pronounced effects of acute endurance exercise on gene expression in resting and exercising human skeletal muscle. PLoS One 2012, 7:e51066.