Tobacco smoking and methylation of genes related to lung cancer development

Oncotarget

Volumn 7, Issue 37, 2016, Pages 59017-59028

  Gao, Xu ^a   Zhang, Yan ^a   Breitling, Lutz Philipp ^a,b   Brenner, Hermann ^a  

^a GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

^b UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

DNA methylation; Lung cancer; Tobacco smoking; Whole blood sample

Indexed keywords

CYTOSINE; DNA; GUANINE; PHOSPHATE; TRANSCRIPTION FACTOR GATA 3; KLF6 PROTEIN, HUMAN; KRUPPEL LIKE FACTOR 6;

ACTA2 GENE; ADULT; ARTICLE; CANCER MORTALITY; CANCER RISK; CANCER SUSCEPTIBILITY; CAUSE OF DEATH; CD4+ T LYMPHOCYTE; CD8+ T LYMPHOCYTE; CHRNA5 GENE; CONTROLLED STUDY; DISEASE COURSE; DNA METHYLATION; EPIGENETICS; FEMALE; GATA3 GENE; GENE; GENE LOCUS; GENETIC ASSOCIATION; GENETIC SUSCEPTIBILITY; GENETIC VARIABILITY; HUMAN; KLF6 GENE; LUNG CANCER; MAJOR CLINICAL STUDY; MALE; MSH5 GENE; NATURAL KILLER CELL; SINGLE NUCLEOTIDE POLYMORPHISM; SMOKING; STK32A GENE; TERT GENE; VTI1A GENE; AGED; ANIMAL; CARCINOGENESIS; GENETICS; GENOME-WIDE ASSOCIATION STUDY; LUNG TUMOR; MIDDLE AGED;

AGED; ANIMALS; CARCINOGENESIS; DNA METHYLATION; FEMALE; GENOME-WIDE ASSOCIATION STUDY; HUMANS; KRUPPEL-LIKE FACTOR 6; LUNG NEOPLASMS; MALE; MIDDLE AGED; TOBACCO SMOKING;

EID: 84991363502     PISSN: None     EISSN: 19492553     Source Type: Journal    
DOI: 10.18632/oncotarget.10007     Document Type: Article

References (48)

1. Jemal A, Bray F, Center MM, Ferlay J, Ward E and Forman D. Global cancer statistics. CA Cancer J Clin. 2011; 61:69-90
2. Yang IA, Holloway JW and Fong KM. Genetic susceptibility to lung cancer and co-morbidities. Journal of thoracic disease. 2013; 5 Suppl 5:S454-462
3. Cornfield J, Haenszel W, Hammond EC, Lilienfeld AM, Shimkin MB and Wynder EL. Smoking and lung cancer: recent evidence and a discussion of some questions. International journal of epidemiology. 2009; 38:1175-1191
4. Selamat SA, Chung BS, Girard L, Zhang W, Zhang Y, Campan M, Siegmund KD, Koss MN, Hagen JA, Lam WL, Lam S, Gazdar AF and Laird-Offringa IA. Genomescale analysis of DNA methylation in lung adenocarcinoma and integration with mRNA expression. Genome research. 2012; 22:1197-1211
5. Lee KW and Pausova Z. Cigarette smoking and DNA methylation. Frontiers in genetics. 2013; 4:132
6. Gao X, Jia M, Zhang Y, Breitling LP and Brenner H. DNA methylation changes of whole blood cells in response to active smoking exposure in adults: a systematic review of DNA methylation studies. Clinical epigenetics. 2015; 7:113
7. Philibert RA, Beach SR and Brody GH. The DNA methylation signature of smoking: an archetype for the identification of biomarkers for behavioral illness. Nebraska Symposium on Motivation Nebraska Symposium on Motivation. 2014; 61:109-127
8. Zeilinger S, Kuhnel B, Klopp N, Baurecht H, Kleinschmidt A, Gieger C, Weidinger S, Lattka E, Adamski J, Peters A, Strauch K, Waldenberger M and Illig T. Tobacco smoking leads to extensive genome-wide changes in DNA methylation. PloS one. 2013; 8:e63812
9. Steenaard RV, Ligthart S, Stolk L, Peters MJ, van Meurs JB, Uitterlinden AG, Hofman A, Franco OH and Dehghan A. Tobacco smoking is associated with methylation of genes related to coronary artery disease. Clinical epigenetics. 2015; 7:54
10. Ligthart S, Steenaard RV, Peters MJ, van Meurs JB, Sijbrands EJ, Uitterlinden AG, Bonder MJ, consortium B, Hofman A, Franco OH and Dehghan A. Tobacco smoking is associated with DNA methylation of diabetes susceptibility genes. Diabetologia. 2016; 59:998-1006
11. Guida F, Sandanger TM, Castagne R, Campanella G, Polidoro S, Palli D, Krogh V, Tumino R, Sacerdote C, Panico S, Severi G, Kyrtopoulos SA, Georgiadis P, Vermeulen RC, Lund E, Vineis P, et al. Dynamics of smoking-induced genome-wide methylation changes with time since smoking cessation. Human molecular genetics. 2015; 24:2349-2359
12. Harlid S, Xu Z, Panduri V, Sandler DP and Taylor JA. CpG sites associated with cigarette smoking: analysis of epigenome-wide data from the sister study. Environmental health perspectives. 2014; 122:673-678
13. Breitling LP, Yang R, Korn B, Burwinkel B and Brenner H. Tobacco-smoking-related differential DNA methylation: 27K discovery and replication. American journal of human genetics. 2011; 88:450-457
14. Zhang Y, Yang R, Burwinkel B, Breitling LP and Brenner H. F2RL3 methylation as a biomarker of current and lifetime smoking exposures. Environmental health perspectives. 2014; 122:131-137
15. Tsaprouni LG, Yang TP, Bell J, Dick KJ, Kanoni S, Nisbet J, Vinuela A, Grundberg E, Nelson CP, Meduri E, Buil A, Cambien F, Hengstenberg C, Erdmann J, Schunkert H, Goodall AH, et al. Cigarette smoking reduces DNA methylation levels at multiple genomic loci but the effect is partially reversible upon cessation. Epigenetics. 2014; 9:1382-1396
16. Lan Q, Hsiung CA, Matsuo K, Hong YC, Seow A, Wang Z, Hosgood HD, 3rd, Chen K, Wang JC, Chatterjee N, Hu W, Wong MP, Zheng W, Caporaso N, Park JY, Chen CJ, et al. Genome-wide association analysis identifies new lung cancer susceptibility loci in never-smoking women in Asia. Nature genetics. 2012; 44:1330-1335
17. Su WM, Chen ZH, Zhang XC, Su J, Xie Z, Yan HH, Yang JJ, Chen HJ, Zhou Q, Zhong WZ, Guo WB, Chen SL and Wu YL. Single nucleotide polymorphisms in VTI1A gene contribute to the susceptibility of Chinese population to non-small cell lung cancer. The International journal of biological markers. 2015; 30:e286-293
18. Dong J, Hu Z, Wu C, Guo H, Zhou B, Lv J, Lu D, Chen K, Shi Y, Chu M, Wang C, Zhang R, Dai J, Jiang Y, Cao S, Qin Z, et al. Association analyses identify multiple new lung cancer susceptibility loci and their interactions with smoking in the Chinese population. Nature genetics. 2012; 44:895-899
19. Dai X, Deng S, Wang T, Qiu G, Li J, Yang B, Feng W, He X, Deng Q, Ye J, Zhang W, He M, Zhang X, Guo H and Wu T. Associations between 25 lung cancer risk-related SNPs and polycyclic aromatic hydrocarbon-induced genetic damage in coke oven workers. Cancer epidemiology, biomarkers & prevention. 2014; 23:986-996
20. Amos CI, Wu X, Broderick P, Gorlov IP, Gu J, Eisen T, Dong Q, Zhang Q, Gu X, Vijayakrishnan J, Sullivan K, Matakidou A, Wang Y, Mills G, Doheny K, Tsai YY, et al. Genome-wide association scan of tag SNPs identifies a susceptibility locus for lung cancer at 15q25.1. Nature genetics. 2008; 40:616-622
21. Brennan P, Hainaut P and Boffetta P. Genetics of lungcancer susceptibility. Lancet Oncology. 2011; 12:399-408
22. Rafnar T, Sulem P, Stacey SN, Geller F, Gudmundsson J, Sigurdsson A, Jakobsdottir M, Helgadottir H, Thorlacius S, Aben KK, Blondal T, Thorgeirsson TE, Thorleifsson G, Kristjansson K, Thorisdottir K, Ragnarsson R, et al. Sequence variants at the TERT-CLPTM1L locus associate with many cancer types. Nature genetics. 2009; 41:221-227
23. Spinola M, Leoni VP, Galvan A, Korsching E, Conti B, Pastorino U, Ravagnani F, Columbano A, Skaug V, Haugen A and Dragani TA. Genome-wide single nucleotide polymorphism analysis of lung cancer risk detects the KLF6 gene. Cancer letters. 2007; 251:311-316
24. Wang Y, Broderick P, Webb E, Wu X, Vijayakrishnan J, Matakidou A, Qureshi M, Dong Q, Gu X, Chen WV, Spitz MR, Eisen T, Amos CI and Houlston RS. Common 5p15.33 and 6p21.33 variants influence lung cancer risk. Nature genetics. 2008; 40:1407-1409
25. Broderick P, Wang Y, Vijayakrishnan J, Matakidou A, Spitz MR, Eisen T, Amos CI and Houlston RS. Deciphering the impact of common genetic variation on lung cancer risk: a genome-wide association study. Cancer research. 2009; 69:6633-6641
26. Teschendorff AE, Yang Z, Wong A, Pipinikas CP, Jiao Y, Jones A, Anjum S, Hardy R, Salvesen HB, Thirlwell C, Janes SM, Kuh D and Widschwendter M. Correlation of Smoking-Associated DNA Methylation Changes in Buccal Cells With DNA Methylation Changes in Epithelial Cancer. JAMA Oncol. 2015; 1:476-485
27. Houseman EA, Accomando WP, Koestler DC, Christensen BC, Marsit CJ, Nelson HH, Wiencke JK and Kelsey KT. DNA methylation arrays as surrogate measures of cell mixture distribution. BMC bioinformatics. 2012; 13:86
28. Tsou JA, Hagen JA, Carpenter CL and Laird-Offringa IA. DNA methylation analysis: a powerful new tool for lung cancer diagnosis. Oncogene. 2002; 21:5450-5461
29. Manser R, Lethaby A, Irving LB, Stone C, Byrnes G, Abramson MJ and Campbell D. Screening for lung cancer. The Cochrane database of systematic reviews. 2013; 6:CD001991
30. Croswell JM, Baker SG, Marcus PM, Clapp JD and Kramer BS. Cumulative Incidence of False-Positive Test Results in Lung Cancer Screening A Randomized Trial. Ann Intern Med. 2010; 152:505-U553
31. Zhang Y, Schöttker B, Ordonez-Mena J, Holleczek B, Yang R, Burwinkel B, Butterbach K and Brenner H. F2RL3 methylation, lung cancer incidence and mortality. International journal of cancer. 2015; 137:1739-1748
32. Schöttker B, Haug U, Schomburg L, Kohrle J, Perna L, Muller H, Holleczek B and Brenner H. Strong associations of 25-hydroxyvitamin D concentrations with all-cause, cardiovascular, cancer, and respiratory disease mortality in a large cohort study. The American journal of clinical nutrition. 2013; 97:782-793
33. Miller SA, Dykes DD and Polesky HF. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic acids research. 1988; 16:1215
34. Florath I, Butterbach K, Heiss J, Bewerunge-Hudler M, Zhang Y, Schöttker B and Brenner H. Type 2 diabetes and leucocyte DNA methylation: an epigenome-wide association study in over 1, 500 older adults. Diabetologia. 2015; 59:130-138
35. Okazaki I, Ishikawa S and Sohara Y. Genes associated with succeptibility to lung adenocarcinoma among never smokers suggest the mechanism of disease. Anticancer research. 2014; 34:5229-5240
36. Yokota J, Shiraishi K and Kohno T. Genetic basis for susceptibility to lung cancer: Recent progress and future directions. Advances in cancer research. 2010; 109:51-72
37. Shiraishi K, Kunitoh H, Daigo Y, Takahashi A, Goto K, Sakamoto H, Ohnami S, Shimada Y, Ashikawa K, Saito A, Watanabe S, Tsuta K, Kamatani N, Yoshida T, Nakamura Y, Yokota J, et al. A genome-wide association study identifies two new susceptibility loci for lung adenocarcinoma in the Japanese population. Nature genetics. 2012; 44:900-903
38. Hu Z, Wu C, Shi Y, Guo H, Zhao X, Yin Z, Yang L, Dai J, Hu L, Tan W, Li Z, Deng Q, Wang J, Wu W, Jin G, Jiang Y, et al. A genome-wide association study identifies two new lung cancer susceptibility loci at 13q12.12 and 22q12.2 in Han Chinese. Nature genetics. 2011; 43:792-796
39. Wang C, Xu Z, Jin G, Hu Z, Dai J, Ma H, Jiang Y, Hu L, Chu M, Cao S and Shen H. Genome-wide analysis of runs of homozygosity identifies new susceptibility regions of lung cancer in Han Chinese. Journal of biomedical research. 2013; 27:208-214
40. Westra HJ, Peters MJ, Esko T, Yaghootkar H, Schurmann C, Kettunen J, Christiansen MW, Fairfax BP, Schramm K, Powell JE, Zhernakova A, Zhernakova DV, Veldink JH, Van den Berg LH, Karjalainen J, Withoff S, et al. Systematic identification of trans eQTLs as putative drivers of known disease associations. Nature genetics. 2013; 45:1238-1243
41. Zhi D, Aslibekyan S, Irvin MR, Claas SA, Borecki IB, Ordovas JM, Absher DM and Arnett DK. SNPs located at CpG sites modulate genome-epigenome interaction. Epigenetics. 2013; 8:802-806
42. Chen YA, Lemire M, Choufani S, Butcher DT, Grafodatskaya D, Zanke BW, Gallinger S, Hudson TJ and Weksberg R. Discovery of cross-reactive probes and polymorphic CpGs in the Illumina Infinium HumanMethylation450 microarray. Epigenetics. 2013; 8:203-209
43. Shen-Orr SS, Tibshirani R, Khatri P, Bodian DL, Staedtler F, Perry NM, Hastie T, Sarwal MM, Davis MM and Butte AJ. Cell type-specific gene expression differences in complex tissues. Nat Methods. 2010; 7:287-289
44. Philibert RA, Plume JM, Gibbons FX, Brody GH and Beach SR. The impact of recent alcohol use on genome wide DNA methylation signatures. Frontiers in genetics. 2012; 3:54
45. Jones MJ, Goodman SJ and Kobor MS. DNA methylation and healthy human aging. Aging cell. 2015; 14:924-932
46. Dick KJ, Nelson CP, Tsaprouni L, Sandling JK, Aissi D, Wahl S, Meduri E, Morange PE, Gagnon F, Grallert H, Waldenberger M, Peters A, Erdmann J, Hengstenberg C, Cambien F, Goodall AH, et al. DNA methylation and body-mass index: a genome-wide analysis. Lancet. 2014; 383:1990-1998
47. Zhang FF, Cardarelli R, Carroll J, Zhang S, Fulda KG, Gonzalez K, Vishwanatha JK, Morabia A and Santella RM. Physical activity and global genomic DNA methylation in a cancer-free population. Epigenetics. 2011; 6:293-299
48. Benjamini Y and Hochberg Y. Controlling the False Discovery Rate-a Practical and Powerful Approach to Multiple Testing. J Roy Stat Soc B Met. 1995; 57:289-300