Type 2 diabetes and leucocyte DNA methylation: an epigenome-wide association study in over 1,500 older adults

Diabetologia

Volumn 59, Issue 1, 2016, Pages 130-138

  Florath, Ines ^a   Butterbach, Katja ^a   Heiss, Jonathan ^a   Bewerunge Hudler, Melanie ^a   Zhang, Yan ^a   Schöttker, Ben ^a   Brenner, Hermann ^a  

^a GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

Author keywords

450k array; DNA methylation; Epigenome wide; Illumina Infinium HumanMethylation450 BeadChip; Peripheral blood; Type 2 diabetes

Indexed keywords

DNA; GLUCOSE; HEMOGLOBIN A1C; 3' UNTRANSLATED REGION; CARRIER PROTEIN; GLUCOSE BLOOD LEVEL; TXNIP PROTEIN, HUMAN;

3' UNTRANSLATED REGION; ADULT; AGE; AGED; ARTICLE; BODY MASS; CELL COMPOSITION; COHORT ANALYSIS; CPG ISLAND; CROSS-SECTIONAL STUDY; DIABETIC PATIENT; DNA METHYLATION; FEMALE; GENETIC ASSOCIATION; GLUCOSE BLOOD LEVEL; HUMAN; LEUKOCYTE; MAJOR CLINICAL STUDY; MALE; NON INSULIN DEPENDENT DIABETES MELLITUS; PRIORITY JOURNAL; PROSPECTIVE STUDY; SEX; SMOKING; ANALYSIS; CYTOLOGY; GENETIC EPIGENESIS; GENETIC PREDISPOSITION; GENETICS; GENOME-WIDE ASSOCIATION STUDY; METABOLISM; MIDDLE AGED; QUESTIONNAIRE;

3' UNTRANSLATED REGIONS; AGED; BLOOD GLUCOSE; BODY MASS INDEX; CARRIER PROTEINS; COHORT STUDIES; CPG ISLANDS; CROSS-SECTIONAL STUDIES; DIABETES MELLITUS, TYPE 2; DNA METHYLATION; EPIGENESIS, GENETIC; FEMALE; GENETIC PREDISPOSITION TO DISEASE; GENOME-WIDE ASSOCIATION STUDY; HUMANS; LEUKOCYTES; MALE; MIDDLE AGED; SMOKING; SURVEYS AND QUESTIONNAIRES;

EID: 84949323281     PISSN: 0012186X     EISSN: 14320428     Source Type: Journal    
DOI: 10.1007/s00125-015-3773-7     Document Type: Article

References (41)

1. Reddy MA, Zhang E, Natarajan R (2015) Epigenetic mechanisms in diabetic complications and metabolic memory. Diabetologia 58:443–455
2. Bell JT, Tsai P-C, Yang T-P et al (2012) Epigenome-wide scans identify differentially methylated regions for age and age-related phenotypes in a healthy aging population. PLoS Genet 8, e1002629
3. Xu Z, Taylor JA (2014) Genome-wide age-related DNA methylation changes in blood and other tissues relate to histone modification, expression and cancer. Carcinogenesis 35:356–364
4. Roessler J, Ammerpohl O, Gutwein J et al (2014) The CpG island methylator phenotype in breast cancer is associated with the lobular subtype. Epigenomics 27:1–13
5. Gillberg L, Ling C (2015) The potential use of DNA methylation biomarkers to identify risk and progression of type 2 diabetes. Front Endocrinol (Lausanne) 30:43
6. Dayeh T, Volkov P, Salö S et al (2014) Genome-wide DNA methylation analysis of human pancreatic islets from type 2 diabetic and non-diabetic donors identifies candidate genes that influence insulin secretion. PLoS Genet 10, e1004160
7. Hidalgo B, Irvin MR, Sha J et al (2014) Epigenome-wide association study of fasting measures of glucose, insulin, and HOMA-IR in the Genetics of Lipid Lowering Drugs and Diet Network Study. Diabetes 63:801–807
8. Nilsson E, Jansson PA, Perfilyev A et al (2014) Altered DNA methylation and differential expression of genes influencing metabolism and inflammation in adipose tissue from subjects with type 2 diabetes. Diabetes 63:2962–2976
9. Rönn T, Volkov P, Gillberg L et al (2015) Impact of age, BMI and HbA1c levels on the genome-wide DNA methylation and mRNA expression patterns in human adipose tissue and identification of epigenetic biomarkers in blood. Hum Mol Genet 24:3792–3813
10. Raum E, Rothenbacher D, Löw M et al (2007) Changes of cardiovascular risk factors and their implications in subsequent birth cohorts of older adults in Germany: a life course approach. Eur J Cardiovasc Prev Rehabil 14:809–814
11. Miller SA, Dykes DD, Polesky HF (1988) A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res 16:1215
12. Bibikova M, Barnes B, Tsan C et al (2011) High density DNA methylation array with single CpG site resolution. Genomics 98:288–295
13. Florath I, Butterbach K, Müller H et al (2014) Cross-sectional and longitudinal changes in DNA methylation with age: an epigenome-wide analysis revealing over 60 novel age-associated CpG sites. Hum Mol Genet 25:51–56
14. Wu MC, Joubert BR, Kuan P-F et al (2014) A systematic assessment of normalization approaches for the Infinium 450K methylation platform. Epigenetics 9:318–329
15. American Diabetes Association (2010) Diagnosis and classification of diabetes mellitus. Diabetes Care 33(Suppl 1):S62–S69
16. Standards of medical care in diabetes-2012. Diabetes Care 35(Suppl 1):S11–S63
17. Harrell FE Jr (2001) Regression modeling strategies: with applications to linear models, logistic regression, and survival analysis (Springer Series in Statistics). Springer, New York
18. Desquilbet L, Mariotti F (2010) Dose–response analyses using restricted cubic spline functions in public health research. Stat Med 29:1037–1057
19. Reinius LE, Acevedo N, Joerink M et al (2012) Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility. PLoS One 7, e41361
20. Houseman EA, Accomando WP, Koestler DC et al (2012) DNA methylation arrays as surrogate measures of cell mixture distribution. BMC Bioinformatics 13:86
21. Koestler DC, Christensen B, Karagas MR et al (2013) Blood-based profiles of DNA methylation predict the underlying distribution of cell types: a validation analysis. Epigenetics 8:816–826
22. Jaffe AE, Irizarry RA (2014) Accounting for cellular heterogeneity is critical in epigenome-wide association studies. Genome Biol 15:R31
23. Accomando WP, Wiencke JK, Houseman EA et al (2014) Quantitative reconstruction of leukocyte subsets using DNA methylation. Genome Biol 15:R50
24. Storey JD (2002) A direct approach to false discovery rates. J R Stat Soc Ser B 64:479–498
25. Storey JD, Taylor JE, Siegmund D (2004) Strong control, conservative point estimation, and simultaneous conservative consistency of false discovery rates: a unified approach. J R Stat Soc Ser B 66:187–205
26. Chen J, Jing G, Xu G, Shalev A (2014) Thioredoxin-interacting protein stimulates its own expression via a positive feedback loop. Mol Endocrinol 28:674–680
27. Jo SH, Kim MY, Park JM, Kim TH, Ahn YH (2013) Txnip contributes to impaired glucose tolerance by upregulating the expression of genes involved in hepatic gluconeogenesis in mice. Diabetologia 56:2723–2732
28. Yoshihara E, Fujimoto S, Inagaki N et al (2010) Disruption of TBP-2 ameliorates insulin sensitivity and secretion without affecting obesity. Nat Commun 23:127
29. Koenen TB, Stienstra R, van Tits LJ et al (2011) Hyperglycemia activates caspase-1 and TXNIP-mediated IL-1ß transcription in human adipose tissue. Diabetes 60:517–524
30. Parikh H, Carlsson E, Chutkow WA et al (2007) TXNIP regulates peripheral glucose metabolism in humans. PLoS Med 4, e158
31. Misquitta CM, Iyer VR, Werstiuk ES, Grover AK (2001) The role of 3′-untranslated region (3′-UTR) mediated mRNA stability in cardiovascular pathophysiology. Mol Cell Biochem 224:53–67
32. Merritt C, Rasoloson D, Ko D, Seydoux G (2008) 3′ UTRs are the primary regulators of gene expression in the C. elegans germline. Curr Biol 18:1476–1482
33. Price ME, Cotton AM, Lam LL et al (2013) Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array. Epigenetics Chromatin 6:4
34. Kulkarni H, Kos MZ, Neary J et al (2015) Novel epigenetic determinants of type 2 diabetes in Mexican-American families. Hum Mol Genet 24:5330–5344
35. Chambers JC, Loh M, Lehne B et al (2015) Epigenome-wide association of DNA methylation markers in peripheral blood from Indian Asians and Europeans with incident type 2 diabetes: a nested case-control study. Lancet Diabetes Endocrinol 3:526–534
36. Petersen K-A, Zeilinger S, Kastenmuller G et al (2014) Epigenetics meets metabolomics: an epigenome-wide association study with blood serum metabolic traits. Hum Mol Gen 23:534–545
37. Nitert MD, Dayeh T, Volkov P et al (2012) Impact of an exercise intervention on DNA methylation in skeletal muscle from first-degree relatives of patients with type 2 diabetes. Diabetes 61:3322–3332
38. Barres R, Osler ME, Yan J et al (2009) Non-CpG methylation of the PGC-1a promoter through DNMT3B controls mitochondrial density. Cell Metab 10:189–198
39. Dick KJ, Nelson CP, Tsaprouni L et al (2014) DNA methylation and body-mass index: a genome-wide analysis. Lancet 383:1990–1998
40. Breitling LP, Yang R, Korn B, Burwinkel B, Brenner H (2011) Tobacco-smoking-related differential DNA methylation: 27K discovery and replication. Am J Hum Genet 88:450–457
41. Shenker NS, Polidoro S, van Veldhoven K et al (2013) Epigenome-wide association study in the European Prospective Investigation into Cancer and Nutrition (EPIC-Turin) identifies novel genetic loci associated with smoking. Hum Mol Genet 22:843–851