A methylation-specific and SYBR-green-based quantitative polymerase chain reaction technique for O6-methylguanine DNA methyltransferase promoter methylation analysis

Analytical Biochemistry

Volumn 377, Issue 1, 2008, Pages 62-71

  Hattermann, Kirsten ^a   Mehdorn, H Maximilian ^b   Mentlein, Rolf ^a   Schultka, Susann ^b   Held Feindt, Janka ^b  

^a UNIVERSITY OF KIEL   (Germany)

^b UNIVERSITY HOSPITAL SCHLESWIG HOLSTEIN   (Germany)

Author keywords

Glioblastoma; Hypermethylation; MGMT; Promoter; Real time PCR

Indexed keywords

ALKYLATION; CELL CULTURE; CLINICAL RESEARCH; DIAGNOSIS; DNA; ENZYME ACTIVITY; METHYLATION; MOLECULAR BIOLOGY;

GLIOBLASTOMAS; HYPERMETHYLATION; MGMT; PROMOTER; REAL-TIME PCR;

POLYMERASE CHAIN REACTION;

ALKYLATING AGENT; MESSENGER RNA; METHYLATED DNA PROTEIN CYSTEINE METHYLTRANSFERASE;

ADULT; AGED; ARTICLE; CANCER CELL CULTURE; CANCER PATIENT; CHEMOSENSITIVITY; CONTROLLED STUDY; DNA METHYLATION; ENZYME ACTIVITY; FEMALE; GENE; GENE EXPRESSION; GLIOBLASTOMA; HUMAN; HUMAN CELL; HUMAN TISSUE; MALE; MGMT GENE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROMOTER REGION; QUANTITATIVE ANALYSIS; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; VALIDATION PROCESS;

EID: 42649109339     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2008.03.014     Document Type: Article

References (48)

1. M. Cross T.M. Dexter Growth factors in development, transformation, and tumourigenesis Cell 64 1991 271 280
2. J.F. Costello M.C. Fruhwald D.J. Smiraglia L.J. Rush G.P. Robertson X. Gao F.A. Wright J.D. Feramisco P. Peltomaki J.C. Lang D.E. Schuller L. Yu C.D. Bloomfield M.A. Caligiuri A. Yates R. Nishikawa H. Su Huang N.J. Petrelli X. Zhang M.S. O´Dorisio W.A. Held W.K. Cavenee C. Plass Aberrant CpG-island methylation has non-random and tumour-type specific patterns Nat. Genet. 24 2000 132 138
3. P.A. Jones P.W. Laird Cancer epigenetics comes of age Nat. Genet. 21 1999 163 167
4. S.K. Myohanen S.B. Baylin J.G. Herman Hypermethylation can selectively silence individual p16ink4A alleles in neoplasia Cancer Res. 58 1998 591 593
5. J.G. Herman A. Umar K. Polyak J.R. Graff N. Ahuja J.P. Issa S. Markowitz J.K. Willson S.R. Hamilton K.W. Kinzler M.F. Kane R.D. Kolodner B. Vogelstein T.A. Kunkel S.B. Baylin Incidence and functional consequences of hMLH1 promoter hypermethylation in colorectal carcinoma Proc. Natl. Acad. Sci. USA 95 1998 6870 6875
6. M. Esteller S.R. Hamilton P.C. Burger S.B. Baylin J.G. Herman Inactivation of the DNA repair gene O6-methylguanne-DNA methyltransferase by promoter hypermethylation is a common event in primary human neoplasia Cancer Res. 59 1999 793 797
7. 6-alkylguanine-DNA alkyltransferase regulation and importance in response to alkylating carcinogenic and therapeutic agents Cancer Res. 50 1990 6119 6129
8. 6 -methylguanine DNA methyltransferase in human cancer Oncogene 23 2004 1 8
9. M.R. Middleton G.P. Margison Improvement of chemotherapy efficacy by inactivation of a DNA-repair pathway Lancet Oncol. 4 2003 37 44
10. M. Esteller J. Garcia-Foncillas E. Andiou S.N. Goodman O.F. Hidalgo V. Vanaclocha S.B. Baylin J.G. Herman Inactivation of the DNA-repair gene MGMT and the clinical response of glioma alkylating agents N. Engl. J. Med. 343 2000 1350 1354 Erratum N. Engl. J. Med. 343 (2000) 1740
11. J.P. Fruehauf H. Brem S. Brem A. Sloan G. Barger W. Huang R. Parker In vitro drug response and molecular markers associated with drug resistance in malignant gliomas Clin. Cancer Res. 12 2006 4523 4532
12. M.E. Hegi A.-C. Diserens T. Gorlia M.-F. Hamou N. de Tribolet M. Weller J.M. Kros J.A. Hainfellner W. Mason L. Mariani J.E.C. Bromberg P. Hau R.O. Mirimanoff J.G. Cairncross R.C. Janzer R. Stupp MGMT gene silencing and benefit from temozolomide in glioblastoma N. Engl. J. Med. 352 2005 997 1003
13. M.E. Hegi A.-C. Diserens S. Godard P.-Y. Dietrich L. Regli S. Ostermann P. Otten G. Van Melle N. de Tribolet R. Stupp Clinical trial substantiates the predictive value of O-6-methylguanine DNA methyltransferase promoter treated with temozolamide Clin. Cancer Res. 10 2004 1871 1874
14. W.P. Mason J.G. Cairncross Drug insight: temozolomide as a treatment for malignant glioma– impact of a recent trial Nat. Clin. Pract. Neurol. 1 2005 88 95
15. M.F. Paz R. Yaya-Tur I. Rojas-Marcor G. Reynes M. Pollan L. Aguirre-Cruz J.L. Garcia-Lopez J. Piqer M.-J. Safont C. Balana M. Sanchez-Cespedes M. Garcia-Villanueva L. Arribas M. Esteller CpG island hypermethylation of the DNA repair enzyme methyltransferase predicts response to temozolomide in primary gliomas Clin. Cancer Res. 10 2004 4933 4938
16. R. Stupp P.Y. Dietrich S. Ostermann Kraljevic A. Pica I. Maillard P. Maeder R. Meuli R. Janzer G. Pizzolato R. Miralbell F. Porchet L. Regli N. de Tribolet R.O. Mirimanoff S. Leyvraz Promising survival for patients with newly diagnosed glioblastoma multiforme treated with concomitant radiation plus temozolomide followed by adjuvant temozolomide J. Clin. Oncol. 20 2002 1375 1382
17. J.G. Herman J.R. Graff S. Myöhänen B.D. Nelkin S.B. Baylin Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands Proc. Natl. Acad. Sci. USA 93 1996 9821 9826
18. W.A. Palmisano K.K. Divine G. Saccomanno F.D. Gilliland S.B. Baylin J.G. Herman S.A. Belinsky Predicting lung cancer by detecting aberrant promoter methylation in sputum Cancer Res. 60 2000 5954 5958
19. A. Olek J. Oswald J. Walter A modified and improved method for bisulfite based cytosine methylation analysis Nucleic Acids Res. 24 1996 5064 5066
20. M.O. Hoque S. Begum O. Topaloglu A. Chatterjee E. Rosenbaum W.V. Criekinge W.H. Westra M. Schoenberg M. Zahurak S.N. Goodman D. Sidransky Quantification of promoter methylation of multiple genes in urine DNA and bladder cancer detection J. Natl. Cancer Inst. 98 2006 996 1004
21. S. Ogino T. Kawasaki M. Brahmandam M. Cantor G.J. Kirkner D. Spiegelman G.M. Makrigiorgos D.J. Weisenberger P.W. Laird M. Loda C.S. Fuchs Precision and performance characteristics of bisulfite conversion and real-time PCR (MethyLight) for quantitative DNA methylation analysis J. Mol. Diagn. 8 2006 209 217
22. M. Widschwendter K.D. Siegmund H.M. Müller H. Fiegl C. Marth E. Müller-Holzner P.A. Jones P.W. Laird Association of breast cancer DNA methylation profiles with hormone receptor status and response to tamoxifen Cancer Res. 64 2004 3807 3813
23. J. Feindt I. Becker U. Blömer H.-H. Hugo H.M. Mehdorn B. Krisch R. Mentlein Expression of somatostatin receptor subtypes in cultured astrocytes and gliomas J. Neurochem. 65 1995 1997 2005
24. A.M. Stark B. Anuszkiewicz R. Mentlein T. Yoneda H.M. Mehdorn J. Held-Feindt Differential expression of matrix metalloproteinases in brain- and bone-seeking clones of metastatic MDA-MB-231 breast cancer cells J. Neuro-Oncol. 81 2007 39 48
25. C.A. Eads K.D. Danenberg K. Kawakami L.B. Saltz C. Blake D. Shibata P.V. Danenberg P.W. Laird MethyLight: a high-troughput assay to measure DNA methylation Nucleic Acids Res. 28 2000 e32 1-8
26. J. Held-Feindt L. Dörner G. Sahan H.M. Mehdorn R. Mentlein Cannabinoid receptors in human astroglial tumours J. Neurochem. 98 2006 886 893
27. D. Krex, B. Klink, C. Hartman, A. von Deimling, T. Pietsch, M. Simon, M. Sabel, J.P. Steinbach, O. Heese, G. Reifenberger, M. Weller, G. Schackert for the German Glioma Network, Long term survival with glioblastoma multiforme, Brain (2007) DOI 10.1093/brain/awm204.
28. S. Colella L. Shen K.A. Baggerly J.P. Issna R. Krahe Sensitive and quantitative universal pyrosequencing methylation analysis of CpG sites Biotechniques 35 2003 146 150
29. S.E. Cottrell J. Distler N.S. Goodman S.H. Mooney A. Kluth A. Olek I. Schwope R. Tetzner H. Ziebarth K. Berlin A real-time assay for DNA-methylation using methylation-specific blockers Nucleic Acids Res. 32 2004 e10 1-8
30. D. Deng G. Deng M.F. Smith J. Zhou H. Xin S.M. Powell Y. Lu Simultaneous detection of CpG methylation and single nucleotide polymorphism by denaturing high performance liquid chromatography Nucleic Acids Res. 30 2002 e13 1-6
31. C.A. Eads K.D. Danenberg K. Kawakami L.B. Saltz P.V. Danenberg P.W. Laird CpG island hypermethylation in human colorectal tumours is not associated with DNA methyltransferase overexpression Cancer Res. 59 1999 2302 2306
32. C.A. Eads R.V. Lord S.K. Kurumboor K. Wickramasinghe M.L. Skinner T.I. Long J.H. Peters T.R. DeMeester K.D. Danenberg P.V. Danenberg P.W. Laird K.A. Skinner Fields of aberrant CpG island hypermethylation in Barrett´s esophagus and associated adenocarcinoma Cancer Res. 60 2000 5021 5026
33. M. Gonzalgo P.A. Jones Quantitative methylation analysis using methylation-sensitive single-nucleotide primer extension (MsSNuPE) Methods 27 2002 128 133
34. J.W.M. Jeuken S.J.B. Cornelissen M. Vriezen M.M.G. Dekkers A. Errami A. Sijben S.H.E. Boots-Sprenger P. Wesseling MS-MLPA: an attractive alternative laboratory assay for robust, reliable, and semiquantitative detection of MGMT promoter hypermethylation in gliomas Lab. Invest. 87 2007 1055 1065
35. M.M. Matin A. Baumer D.P. Hornby An analytical method for the detection of methylation differences at specific chromosomal loci using primer extension and ion pair reverse phase HPLC Human Mutat. 20 2002 305 311
36. K. Rand W. Qu T. Ho S.J. Clak P. Molloy Conversion-specific detection of DNA methylation using real-time polymerase chain reaction (ConLight-MSP) to avoid false positives Methods 27 2002 114 120
37. P. Schatz D. Dietrich M. Schuster Rapid analysis of CpG methylation patterns using RNase T1 cleavage and MALDI-TOF Nucleic Acids Res. 32 2004 e167 1-7
38. S.D. Steigerwald G.P. Pfeifer A.D. Riggs Ligation-mediated PCR improves the sensitivity of methylation by restriction enzymes and detection of specific DNA strand breaks Nucleic Acids Res. 18 1990 1435 1439
39. H. Thomassin C. Kress T. Grange MethylQuant: a sensitive method for quantifiying methylation of specific cytosines within the genome Nucleic Acids Res. 32 2004 e168 1-9
40. J. Tost J. Dunker I.G. Gut Analysis and quantification of multiple methylation variable positions in CpG islands by pyrosequencing Biotechniques 35 2003 152 156
41. Z. Xiong P.W. Laird COBRA: a sensitive and quantitative DNA methylation assay Nucleic Acids Res. 25 1997 2532 2534
42. M. Zeschnigk S. Böhringer E.A. Price Z. Onadim L. Maßhöfer D.R. Lohmann A novel real-time PCR assay for quantitative analysis of methylated alleles (QAMA): analysis of the retinoblastoma locus Nucleic Acids Res. 32 2004 e125 1-5
43. K. Uhlmann A. Brinckmann M.R. Toliat H. Ritter P. Nurnberg Evaluation of potential epigenetic biomarker by quantitative methyl-single nucleotide polymorphism analysis Electrophoresis 23 2002 4072 4079
44. P.J. Bastian J. Ellinger N. Wernert L.C. Heukamp S.C. Müller A. von Ruecker Diagnostic and prognostic information in prostate cancer with the help of a small set of hypermethylated gene loci Clin. Cancer Res. 11 2005 4097 4106
45. O.L. Chinot M. Barrie S. Fuentes N. Eudes S. Lancelot P. Metellus X. Muracciole D. Braguer L. Ouafik P.M. Martin H. Dufour D. Figarella-Branger Correlation between O6-methylguanine-DNA methyltransferase and survival in inoperable newly diagnosed glioblastoma patients treated with neoadjuvant temozolamide J. Clin. Oncol. 25 2007 1470 1475
46. E.M. Grasbon-Frodl F.W. Kreth M. Ruiter M. Schnell K. Bise J. Felsburg G. Reifenberger J.-C. Tonn H.A. Kretschmar Intratumoral homogeneity of MGMT promoter hypermethylation as demonstrated in serial stereotactic specimens from anaplastic astrocytomas and glioblastomas Int. J. Cancer 121 2007 2458 2464
47. N.J. Curtin L.Z. Wang A. Yiakouvaki S. Kyle C.A. Arris S. Canan-Koch S.E. Webber B.W. Durkacz H.A. Calvert Z. Hostomsky D.R. Newell Novel poly(ADP-ribose) polymerase-1 inhibitor, AG14361, restores sensitivity to temozolamide in mismatch repair-deficient cells Clin. Cancer Res. 10 2004 881 889
48. R.N. Trivedi K.H. Almeida J.L. Fornsaglio S. Schamus R.W. Sobol The role of base excision repair in the sensitivity and resistance to temozolamide-mediated cell death Cancer Res. 65 2005 6394 6400