2,309
Views
23
CrossRef citations to date
0
Altmetric
Research Paper

Potential epigenetic biomarkers of obesity-related insulin resistance in human whole-blood

, , , , , , , , & show all
Pages 254-263 | Received 13 Sep 2016, Accepted 08 Jan 2017, Published online: 17 Mar 2017

References

  • Kyrou I, Randeva HS, Weickert MO. Clinical Problems Caused by Obesity. In: De Groot LJ, Chrousos G, Dungan K, Feingold KR, Grossman A, Hershman JM, Koch C, Korbonits M, McLachlan R, New M, et al., eds. Endotext, South Dartmouth (MA), 2000; PMID:25905207
  • Tateya S, Kim F, Tamori Y. Recent advances in obesity-induced inflammation and insulin resistance. Front Endocrinol 2013; 4:93; PMID:23964268; http://dx.doi.org/10.3389/fendo.2013.00093
  • Coletta DK, Mandarino LJ. Mitochondrial dysfunction and insulin resistance from the outside in: extracellular matrix, the cytoskeleton, and mitochondria. Am J Physiol Endocrinol Metab 2011; 301:E749–55; PMID:21862724; http://dx.doi.org/10.1152/ajpendo.00363.2011
  • Verdile G, Keane KN, Cruzat VF, Medic S, Sabale M, Rowles J, Wijesekara N, Martins RN, Fraser PE, Newsholme P. Inflammation and oxidative stress: the molecular connectivity between insulin resistance, obesity, and Alzheimer's disease. Mediators Inflamm 2015; 2015:105828; PMID:26693205; http://dx.doi.org/10.1155/2015/105828
  • Olefsky JM, Glass CK. Macrophages, inflammation, and insulin resistance. Annu Rev Physiol 2010; 72:219–46; PMID:20148674; http://dx.doi.org/10.1146/annurev-physiol-021909-135846
  • Tilg H, Moschen AR. Adipocytokines: mediators linking adipose tissue, inflammation and immunity. Nat Rev Immunol 2006; 6:772–83; PMID:16998510; http://dx.doi.org/10.1038/nri1937
  • Shoelson SE, Herrero L, Naaz A. Obesity, inflammation, and insulin resistance. Gastroenterology 2007; 132:2169–80; PMID:17498510; http://dx.doi.org/10.1053/j.gastro.2007.03.059
  • Dayeh T, Tuomi T, Almgren P, Perfilyev A, Jansson PA, de Mello VD, Pihlajamaki J, Vaag A, Groop L, Nilsson E, et al. DNA methylation of loci within ABCG1 and PHOSPHO1 in blood DNA is associated with future type 2 diabetes risk. Epigenetics 2016; 11:482–8; PMID:27148772; http://dx.doi.org/10.1080/15592294.2016.1178418
  • Mikeska T, Craig JM. DNA methylation biomarkers: cancer and beyond. Genes 2014; 5:821–64; PMID:25229548; http://dx.doi.org/10.3390/genes5030821
  • Singh S, Dhingra S, Ramdath DD, Vasdev S, Gill V, Singal PK. Risk factors preceding type 2 diabetes and cardiomyopathy. J Cardiovasc Transl Res 2010; 3:580–96; PMID:20593256; http://dx.doi.org/10.1007/s12265-010-9197-3
  • Niswender K. Diabetes and obesity: therapeutic targeting and risk reduction - a complex interplay. Diabetes Obes Metab 2010; 12:267–87; http://dx.doi.org/10.1111/j.1463-1326.2009.01175.x
  • O'Connell TM, Markunas CA. DNA methylation and MicroRNA-based biomarkers for risk of type 2 diabetes. Curr Diabetes Revi 2016; 12:20–9; PMID:25981498; http://dx.doi.org/10.2174/1573399811666150515125557
  • Tangen SE, Tsinajinnie D, Nunez M, Shaibi GQ, Mandarino LJ, Coletta DK. Whole blood gene expression profiles in insulin resistant Latinos with the metabolic syndrome. PloS One 2013; 8:e84002; PMID:24358323; http://dx.doi.org/10.1371/journal.pone.0084002
  • Kim JY, Campbell LE, Shaibi GQ, Coletta DK. Gene expression profiling and association of circulating lactoferrin level with obesity-related phenotypes in Latino youth. Pediatr Obes 2015; 10:338–44; PMID:25394788; http://dx.doi.org/10.1111/ijpo.269
  • Egger G, Liang G, Aparicio A, Jones PA. Epigenetics in human disease and prospects for epigenetic therapy. Nature 2004; 429:457–63; PMID:15164071; http://dx.doi.org/10.1038/nature02625
  • Ling C, Groop L. Epigenetics: a molecular link between environmental factors and type 2 diabetes. Diabetes 2009; 58:2718–25; PMID:19940235; http://dx.doi.org/10.2337/db09-1003
  • Yu B, Russanova VR, Gravina S, Hartley S, Mullikin JC, Ignezweski A, Graham J, Segars JH, DeCherney AH, Howard BH. DNA methylome and transcriptome sequencing in human ovarian granulosa cells links age-related changes in gene expression to gene body methylation and 3′-end GC density. Oncotarget 2015; 6:3627–43; PMID:25682867; http://dx.doi.org/10.18632/oncotarget.2875
  • Maussion G, Yang J, Suderman M, Diallo A, Nagy C, Arnovitz M, Mechawar N, Turecki G. Functional DNA methylation in a transcript specific 3′UTR region of TrkB associates with suicide. Epigenetics 2014; 9:1061–70; PMID:24802768; http://dx.doi.org/10.4161/epi.29068
  • Eckhardt F, Lewin J, Cortese R, Rakyan VK, Attwood J, Burger M, Burton J, Cox TV, Davies R, Down TA, et al. DNA methylation profiling of human chromosomes 6, 20 and 22. Nat Genet 2006; 38:1378–85; PMID:17072317; http://dx.doi.org/10.1038/ng1909
  • Aslibekyan S, Demerath EW, Mendelson M, Zhi D, Guan W, Liang L, Sha J, Pankow JS, Liu C, Irvin MR, et al. Epigenome-wide study identifies novel methylation loci associated with body mass index and waist circumference. Obesity 2015; 23:1493–501; PMID:26110892; http://dx.doi.org/10.1002/oby.21111
  • Toperoff G, Aran D, Kark JD, Rosenberg M, Dubnikov T, Nissan B, Wainstein J, Friedlander Y, Levy-Lahad E, Glaser B, et al. Genome-wide survey reveals predisposing diabetes type 2-related DNA methylation variations in human peripheral blood. Hum Mol Genet 2012; 21:371–83; PMID:21994764; http://dx.doi.org/10.1093/hmg/ddr472
  • Dick KJ, Nelson CP, Tsaprouni L, Sandling JK, Aissi D, Wahl S, Meduri E, Morange PE, Gagnon F, Grallert H, et al. DNA methylation and body-mass index: a genome-wide analysis. Lancet 2014; 383:1990–8; PMID:24630777; http://dx.doi.org/10.1016/S0140-6736(13)62674-4
  • Nilsson EK, Ernst B, Voisin S, Almen MS, Benedict C, Mwinyi J, Fredriksson R, Schultes B, Schioth HB. Roux-en Y gastric bypass surgery induces genome-wide promoter-specific changes in DNA methylation in whole blood of obese patients. PloS One 2015; 10:e0115186; PMID:25710379; http://dx.doi.org/10.1371/journal.pone.0115186
  • Abdul-Ghani MA, DeFronzo RA. Pathogenesis of insulin resistance in skeletal muscle. J Biomed Biotechnol 2010; 2010:476279; PMID:20445742; http://dx.doi.org/10.1155/2010/476279
  • Day SE, Coletta RL, Kim JY, Campbell LE, Benjamin TR, Roust LR, De Filippis EA, Dinu V, Shaibi GQ, Mandarino LJ, et al. Next-generation sequencing methylation profiling of subjects with obesity identifies novel gene changes. Clin Epigenet 2016; 8:77; PMID:27437034; http://dx.doi.org/10.1186/s13148-016-0246-x
  • Messeguer X, Escudero R, Farre D, Nunez O, Martinez J, Alba MM. PROMO: detection of known transcription regulatory elements using species-tailored searches. Bioinformatics 2002; 18:333–4; PMID:11847087; http://dx.doi.org/10.1093/bioinformatics/18.2.333
  • Deaton AM, Bird A. CpG islands and the regulation of transcription. Gen Dev 2011; 25:1010–22; PMID:21576262; http://dx.doi.org/10.1101/gad.2037511
  • Wang X, Zhu H, Snieder H, Su S, Munn D, Harshfield G, Maria BL, Dong Y, Treiber F, Gutin B, et al. Obesity related methylation changes in DNA of peripheral blood leukocytes. BMC Med 2010; 8:87; PMID:21176133; http://dx.doi.org/10.1186/1741-7015-8-87
  • Ronn T, Volkov P, Gillberg L, Kokosar M, Perfilyev A, Jacobsen AL, Jorgensen SW, Brons C, Jansson PA, Eriksson KF, et al. 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 2015; 24:3792–813; PMID:25861810; http://dx.doi.org/10.1093/hmg/ddv124
  • Gillberg L, Ling C. The potential use of DNA methylation biomarkers to identify risk and progression of type 2 diabetes. Front Endocrinol 2015; 6:43; PMID:25870586; http://dx.doi.org/10.3389/fendo.2015.00043
  • DeFronzo RA, Tobin JD, Andres R. Glucose clamp technique: a method for quantifying insulin secretion and resistance. Am J Physiol 1979; 237:E214–23; PMID:382871
  • Desmoulin SK, Hou Z, Gangjee A, Matherly LH. The human proton-coupled folate transporter: Biology and therapeutic applications to cancer. Cancer Biol Ther 2012; 13:1355–73; PMID:22954694; http://dx.doi.org/10.4161/cbt.22020
  • Yajnik CS, Deshmukh US. Maternal nutrition, intrauterine programming and consequential risks in the offspring. Rev Endocr Metab Dis 2008; 9:203–11; PMID:18661241; http://dx.doi.org/10.1007/s11154-008-9087-z
  • Rupasree Y, Naushad SM, Rajasekhar L, Kutala VK. Epigenetic modulation of RFC1, MHC2TA and HLA-DR in systemic lupus erythematosus: association with serological markers and six functional polymorphisms of one-carbon metabolic pathway. Gene 2014; 536:45–52; PMID:24333266; http://dx.doi.org/10.1016/j.gene.2013.11.094
  • Migliorini P, Baldini C, Rocchi V, Bombardieri S. Anti-Sm and anti-RNP antibodies. Autoimmunity 2005; 38:47–54; PMID:15804705; http://dx.doi.org/10.1080/08916930400022715
  • Podolska MJ, Biermann MH, Maueroder C, Hahn J, Herrmann M. Inflammatory etiopathogenesis of systemic lupus erythematosus: an update. J Inflammat Res 2015; 8:161–71; PMID:26316795; http://dx.doi.org/10.2147/JIR.S70325
  • Agha-Hosseini F, Moosavi MS, Hajifaraj Tabrizi M. Comparison of oral lichen planus and systemic lupus erythematosus in interleukins level. Arch Iranian Med 2015; 18:703–12; PMID:26443253; http://dx.doi.org/0151810/AIM.0011
  • He Z, Lu H, Luo H, Gao F, Wang T, Gao Y, Fang Q, Wang J. The promoter methylomes of monochorionic twin placentas reveal intrauterine growth restriction-specific variations in the methylation patterns. Sci Rep 2016; 6:20181; PMID:26830322; http://dx.doi.org/10.1038/srep20181
  • Chernausek SD. Update: consequences of abnormal fetal growth. J Clin Endocrinol Metab 2012; 97:689–95; PMID:22238390; http://dx.doi.org/10.1210/jc.2011-2741
  • Cossrow N, Falkner B. Race/ethnic issues in obesity and obesity-related comorbidities. J Clin Endocrinol Metab 2004; 89:2590–4; PMID:15181028; http://dx.doi.org/10.1210/jc.2004-0339
  • Pasquale EB. Eph-ephrin bidirectional signaling in physiology and disease. Cell 2008; 133:38–52; PMID:18394988; http://dx.doi.org/10.1016/j.cell.2008.03.011
  • Hwang H, Bowen BP, Lefort N, Flynn CR, De Filippis EA, Roberts C, Smoke CC, Meyer C, Hojlund K, Yi Z, et al. Proteomics analysis of human skeletal muscle reveals novel abnormalities in obesity and type 2 diabetes. Diabetes 2010; 59:33–42; PMID:19833877; http://dx.doi.org/10.2337/db09-0214
  • Halfter W, Dong S, Schurer B, Cole GJ. Collagen XVIII is a basement membrane heparan sulfate proteoglycan. J Biol Chem 1998; 273:25404–12; PMID:9738008; http://dx.doi.org/10.1074/jbc.273.39.25404
  • Richardson DK, Kashyap S, Bajaj M, Cusi K, Mandarino SJ, Finlayson J, DeFronzo RA, Jenkinson CP, Mandarino LJ. Lipid infusion decreases the expression of nuclear encoded mitochondrial genes and increases the expression of extracellular matrix genes in human skeletal muscle. J Biol Chem 2005; 280:10290–7; PMID:15598661; http://dx.doi.org/10.1074/jbc.M408985200
  • Berria R, Wang L, Richardson DK, Finlayson J, Belfort R, Pratipanawatr T, De Filippis EA, Kashyap S, Mandarino LJ. Increased collagen content in insulin-resistant skeletal muscle. Am J Physiol Endocrinol Metab 2006; 290:E560–5; PMID:16249255; http://dx.doi.org/10.1152/ajpendo.00202.2005
  • Kang L, Ayala JE, Lee-Young RS, Zhang Z, James FD, Neufer PD, Pozzi A, Zutter MM, Wasserman DH. Diet-induced muscle insulin resistance is associated with extracellular matrix remodeling and interaction with integrin alpha2beta1 in mice. Diabetes 2011; 60:416–26; PMID:21270253; http://dx.doi.org/10.2337/db10-1116
  • Houseman EA, Kim S, Kelsey KT, Wiencke JK. DNA methylation in whole blood: uses and challenges. Curr Environ Health Rep 2015; 2:145–54; PMID:26231364; http://dx.doi.org/10.1007/s40572-015-0050-3
  • Attwood JT, Yung RL, Richardson BC. DNA methylation and the regulation of gene transcription. Cell Mol Life Sci 2002; 59:241–57; PMID:11915942; http://dx.doi.org/10.1007/s00018-002-8420-z
  • Sun Z, Baheti S, Middha S, Kanwar R, Zhang Y, Li X, Beutler AS, Klee E, Asmann YW, Thompson EA, et al. SAAP-RRBS: streamlined analysis and annotation pipeline for reduced representation bisulfite sequencing. Bioinformatics 2012; 28:2180–1; PMID:22689387; http://dx.doi.org/10.1093/bioinformatics/bts337
  • Park Y, Figueroa ME, Rozek LS, Sartor MA. MethylSig: a whole genome DNA methylation analysis pipeline. Bioinformatics 2014; 30:2414–22; PMID:24836530; http://dx.doi.org/10.1093/bioinformatics/btu339
  • Wu H, Xu T, Feng H, Chen L, Li B, Yao B, Qin Z, Jin P, Conneely KN. Detection of differentially methylated regions from whole-genome bisulfite sequencing data without replicates. Nucleic Acids Res 2015; 43:e141; PMID:26184873; http://dx.doi.org/10.1093/nar/gkv715

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.