Quantitative promoter hypermethylation analysis of cancer-related genes in salivary gland carcinomas: comparison with methylation-specific PCR technique and clinical significance

Clinical Cancer Research

Volumn 14, Issue 9, 2008, Pages 2664-2672

  Lee, Eung Seok ^a,b   Issa, Jean Pierre ^a   Roberts, Dianna B ^a   Williams, Michelle D ^a   Weber, Randal S ^a   Kies, Merrill S ^a   El Naggar, Adel K ^a  

^a UNIVERSITY OF TEXAS   (United States)

^b Korea University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

ADOLESCENT; ADULT; AGED; ARTICLE; CANCER SURVIVAL; CHILD; DNA METHYLATION; E CADHERIN GENE; FEMALE; HUMAN; HUMAN CELL; HUMAN TISSUE; INTERMETHOD COMPARISON; MAJOR CLINICAL STUDY; MALE; METHYLATION SPECIFIC POLYMERASE CHAIN REACTION; MGMT GENE; PHENOTYPE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROMOTER REGION; PYROSEQUENCING; RARBETA2 GENE; RASSF1A GENE; SALIVARY GLAND CARCINOMA; SCHOOL CHILD; TUMOR GENE; COMPARATIVE STUDY; GENETICS; METABOLISM; METHODOLOGY; MIDDLE AGED; MORTALITY; SALIVARY GLAND TUMOR; SENSITIVITY AND SPECIFICITY; STATISTICAL MODEL; TUMOR CELL LINE;

CADHERIN; DNA METHYLTRANSFERASE; MGMT PROTEIN, HUMAN; POLYDEOXYRIBONUCLEOTIDE SYNTHASE; RASSF1 PROTEIN, HUMAN; RETINOIC ACID RECEPTOR; RETINOIC ACID RECEPTOR BETA; TUMOR SUPPRESSOR PROTEIN;

ADOLESCENT; ADULT; AGED; AGED, 80 AND OVER; CADHERINS; CELL LINE, TUMOR; CHILD; DNA METHYLATION; DNA MODIFICATION METHYLASES; DNA REPAIR ENZYMES; FEMALE; GENES, NEOPLASM; HUMANS; LINEAR MODELS; MALE; MIDDLE AGED; POLYMERASE CHAIN REACTION; PROMOTER REGIONS (GENETICS); RECEPTORS, RETINOIC ACID; SALIVARY GLAND NEOPLASMS; SENSITIVITY AND SPECIFICITY; TUMOR SUPPRESSOR PROTEINS;

EID: 52049088081     PISSN: 10780432     EISSN: None     Source Type: Journal    
DOI: 10.1158/1078-0432.CCR-07-1232     Document Type: Article

References (51)

1. Seifert GSL. The World Health Organization's histological classification of salivary gland tumors: a commentary on the Second Edition. Cancer 1992;71: 379-85.
2. Batsakis JG, Regezi JA, Luna MA, EI-Naggar A. Histogenesis of salivary gland neoplasms: a postulate with prognostic implications. J Laryngol Otol 1989; 103:939-44.
3. Hoang MP, Callender DL, Sola Gallego JJ, et al. Molecular and biomarker analyses of salivary duct carcinomas: comparison with mammary duct carcinoma. Int J Oncol 2001;19:865-71.
4. Gillenwater A, Hurr K.Wolf P, Batsakis JG, Goepfert H, EI-Naggar AK. Microsatellite alterations at chromosome 8q loci in pleomorphic adenoma. Otolaryngol Head Neck Surg 1997;117:448-52.
5. EI-Naggar AK, Callender D, Coombes MM, Hurr K, Luna MA, Batsakis JG. Molecular genetic alterations in carcinoma ex-pleomorphic adenoma: a putative progression model? Genes Chromosomes Cancer 2000;27:162-8.
6. EI-Naggar AK, Hurr K, Kagan J, et al. Genotypic alterations in benign and malignant salivary gland tumors: histogenetic and clinical implications. Am J Surg Pathol 199721:691 -7.
7. Reik W, Dean W, Walter J. Epigenetic reprogramming in mammalian development. Science 2001;293: 1089-93.
8. Jones PL, Wolffe AP. Relationships between chromatin organization and DNA methylation in determining gene expression. Semin Cancer Biol 1999;9: 339-47.
9. Baylin SB, Esteller M, Rountree MR, Bachman KE, Schuebel K, Herman JG. Aberrant patterns of DNA methylation, chromatin formation and gene expression in cancer. Hum Mol Genet 2001;10:687-92.
10. Ahuja N, Issa JP. Aging, methylation and cancer. Histol Histopathol 2000;15:835-42.
11. Rosas SL, Koch W, da Costa Carvalho MG, et al. Promoter hypermethylation patterns of p16, 06- methylguanine-DNA-methyltransferase, and death-associated protein kinase in tumors and saliva of head and neck cancer patients. Cancer Res 2001;61: 939-42.
12. Dong SM, Sun Dl, Benoit NE, Kuzmin I, Lerman Ml, Sidransky D. Epigenetic inactivation of RASSF1A in head and neck cancer. Clin Cancer Res 2003,9: 3635-40.
13. Maruya S, Issa JP, Weber RS, et al. Differential methylation status of tumor-associated genes in head and neck squamous carcinoma: incidence and potential implications. Clin Cancer Res 2004;10:3825-30.
14. Zochbauer-Muller S, Lam S.Toyooka S, et al. Aberrant methylation of multiple genes in the upper aerodigestive tract epithelium of heavy smokers. Int J Cancer 2003;107:612-6.
15. Nishimine M, Nakamura M, Kishi M, et al. Alterations of p14ARF and p16INK4a genes in salivary gland carcinomas. Oncol Rep 2003;10:555-60.
16. Bender CM, Pao MM, Jones PA. Inhibition of DNA methylation by 5-aza-2'-deoxycytidine suppresses the growth of human tumor cell lines. Cancer Res 1998;58:95-101.
17. Momparler RL, Ayoub J. Potential of 5-aza-2' deoxycytidine (Decitabine) a potent inhibitor of DNA methylation for therapy of advanced non-small cell lung cancer. Lung Cancer 2001;34:S111 - 5.
18. Aparicio A, Weber JS. Review of the clinical experience with 5-azacytidine and 5-aza-2́-deoxycytidine in solid tumors. Curr Opin Investig Drugs 2002;3: 627-33.
19. Issa JP. DNA methylation as a therapeutic target in cancer. Clin Cancer Res 2007;13:1634-7.
20. Jones PA, Baylin SB. The epigenomics of cancer. Cell 2007;128:683-92.
21. Singer-Sam J, LeBon JM,Tanguay RL, Riggs AD. A quantitative Hpall-PCR assay to measure methylation of DNA from a small number of cells. Nucleic Acids Res 1990:18:687.
22. Frommer M, McDonald LE, Millar DS, et al. A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc Natl Acad Sci U S A 1992;89: 1827-31.
23. HuangTH, Perry MR, Laux DE. Methylation profiling of CpG islands in human breast cancer cells. Hum Mol Genet 1999;8:459-70.
24. Herman JG, Graff JR. Myohanen S, Nelkin BD, Baylin SB. Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands. Proc Natl Acad Sci U S A 1996;93:9821 -6.
25. An Q, Liu Y, Gao Y, et al. Detection of p16 hyper-methylation in circulating plasma DNA of non-small celllung cancer patients. Cancer Lett 2002;188:109-14.
26. Ogino S, Odze RD, Kawasaki T, et al. Correlation of pathologic features with CpG island methylator phenotype (CIMP) by quantitative DNA methylation analysis in colorectal carcinoma. Am J Surg Pathol 2006;30:1175-83.
27. Colella S, Shen L, Baggerly KA, Issa JP, Krahe R. Sensitive and quantitative universal Pyrosequencing methylation analysis of CpG sites. Biotechniques 2003;35:146-50.
28. Shaw RJ, Liloglou T, Rogers SN, et al. Promoter methylation of P16, RARβ, E-cadherin, cyclin A1 and cytoglobin in oral cancer: quantitative evaluation using pyrosequencing. Br J Cancer 2006:94:561 -8.
29. Tost J, Dunker J, Gut IG. Analysis and quantification of multiple methylation variable positions in CpG islands by Pyrosequencing. Biotechniques 2003:35: 152-6.
30. Dupont JM, Tost J, Jammes H, Gut IG. De novo quantitative bisulfite sequencing using the pyrosequencing technology. Anal Biochem 2004;333: 119-27.
31. Ronaghi M, Uhlen M, Nyren P. A sequencing method based on real-time pyrophosphate. Science 1998; 281:363-5.
32. Tost J, El Abdalaoui H, Gut IG. Serial pyrosequencing for quantitative DNA methylation analysis. Biotechniques 2006:40:721 -6.
33. Uhlmann K, Brinckmann A.Toliat MR, Ritter H, Nurnberg P. Evaluation of a potential epigenetic biomarker by quantitative methyl-single nucleotide polymorphism analysis. Electrophoresis 2002:23: 4072-9.
34. Kudo Y, Kitajima S, Ogawa I, et al. Invasion and metastasis of oral cancer cells require methylation of E-cadherin and/or degradation of membranous βVcatenin. Clin Cancer Res 2004;10:5455-63.
35. Ludlum DB. DNA alkylation by the haloethylnitrosoureas: nature of modifications produced and their enzymatic repair or removal. Mutat Res 1990:233: 117-26.
36. Shaw RJ, Akufo-Tetteh EK, Risk JM, Field JK, Liloglou T Methylation enrichment pyrosequencing: combining the specificity of MSP with validation by pyrosequencing. Nucleic Acids Res 2006;34:e78.
37. Youssef EM, Lotan D, Issa JP, et al. Hypermethylation of the retinoic acid receptor-β(2) gene in head and neck carcinogenesis. Clin Cancer Res 2004;10: 1733-42.
38. Whang YM, Choi EJ, Seo JH, Kim JS,Yoo YD, Kim YH. Hyperacetylation enhances the growth-inhibitory effect of all-trans retinoic acid by the restoration of retinoic acid receptor β expression in head and necks quamous carcinoma (HNSCC) cells. Cancer Chemother Pharmacol 2005;56:543-55.
39. Williams MD, Chakravarti N, Kies MS, et al. Implications of methylation patterns of cancer genes in salivary gland tumors. Clin Cancer Res 2006;12:7353-8.
40. Corn PG, Smith BD, Ruckdeschel ES, Douglas D, Baylin SB, Herman JG. E-cadherin expression is silenced by 5' CpG island methylation in acute leukemia. Clin Cancer Res 2000;6:4243-8.
41. Corn PG, Heath El, Heitmiller R, et al. Frequent hypermethylation of the 5' CpG island of E-cadherin in esophageal adenocarcinoma. Clin Cancer Res 2001;7:2765-9.
42. Coombes MM, Briggs KL, Bone JR, dayman GL, El-Naggar AK, Dent SY. Resetting the histone code at CDKN2A in HNSCC by inhibition of DNA methylation. Oncogene 2003;22:8902-11.
43. Dammann R.Yang G, Pfeifer GP. Hypermethylation of the cpG island of Ras association domain family 1A (RASSF1A), a putative tumor suppressor gene from the 3p 21.3 locus, occurs in a large percentage of human breast cancers. Cancer Res 2001;61:3105-9.
44. Soria JC, Rodriguez M, Liu DD, Lee JJ, Hong WK, Mao L. Aberrant promoter methylation of multiple genes in bronchial brush samples from former cigarette smokers. Cancer Res 2002;62:351 -5.
45. Uchida D, Begum NM, Almofti A, Kawamata H, Yoshida H, Sato M. Frequent downregulation of 14-3-3 o protein and hypermethylation of 14-3-3 σ gene in salivary gland adenoid cystic carcinoma. Br J Cancer 2004;91:1131 -8.
46. Lo KW, Kwong J, Hui AB, et al. High frequency of promoter hypermethylation of RASSF1A in nasopharyngeal carcinoma. Cancer Res 2001;61:3877-81.
47. Kim JS, Lee H, Kim H, et al. Promoter methylation of retinoic acid receptor (β2 and the development of second primary lung cancers in non-small-cell lung cancer. J Clin Oncol 2004;22:3443-50.
48. Shivakumar L, Minna J, Sakamaki T, Pestell R, White MA. The RASSF1A tumor suppressor blocks cell cycle progression and inhibits cyclin D1 accumulation. Mol Cell Biol 2002;22:4309-18.
49. An C, Choi IS, Yao JC, et al. Prognostic significance of CpG island methylator phenotype and microsatellite instability in gastric carcinoma. Clin Cancer Res 2005;11:656-63.
50. Xu XC, Liu X, Tahara E, Lippman SM, Lotan R. Expression and up-regulation of retinoic acid receptor-βis associated with retinoid sensitivity and colony formation in esophageal cancer cell lines. Cancer Res 1999;59:2477-83.
51. Dammann R, Li C.Yoon JH, Chin PL, Bates S, Pfeifer GP. Epigenetic inactivation of a RAS association domain family protein from the lung tumour suppressor locus 3p21.3. Nat Genet 2000;25:315-9.