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J Thorac Cardiovasc Surg 2005;130:1378
© 2005 The American Association for Thoracic Surgery
General Thoracic Surgery |
a Department of Thoracic and Cardiovascular Surgery, Seoul National University Hospital, and the Cancer Research Institute, Xenotransplantation Research Center, Seoul National University College of Medicine, Seoul, Korea
b Department of Laboratory Medicine, Hallym University College of Medicine, Anyang, Korea
c Medical Research Collaborating Center, Seoul National University Hospital, Seoul National University College of Medicine, Seoul, Korea.
Read at the Eighty-fifth Annual Meeting of The American Association for Thoracic Surgery, San Francisco, Calif, April 10-13, 2005.
Received for publication April 7, 2005; revisions received April 28, 2005; accepted for publication June 7, 2005. * Address for reprints: Young Tae Kim, MD, PhD, Thoracic and Cardiovascular Surgery, Seoul National University Hospital, 28 Yongun-Dong, Chongno-Ku, Seoul, 110-744, Republic of Korea (Email: ytkim{at}snu.ac.kr).
| Abstract |
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METHODS: We collected tissues from 72 patients with lung adenocarcinomas. The cancer and normal lung tissues were tested for DNA hypermethylation by using methylation-specific polymerase chain reaction. The genes investigated were p16INK4
(p16), retinoic acid receptor ß-promoter (RARßP2), death-associated protein kinase (DAPK), O6-methylguanine-DNA-methyltransferase (MGMT), and glutathione-S-transferase P1 (GSTP1). The status of the DNA methylation was analyzed, and we focused on long-term outcomes, as well as other clinical variables.
RESULTS: DNA hypermethylation was observed in 83% for p16, 63% for RARßP2, 32% for DAPK, 17% for MGMT, and 46% for GSTP1 from the cancer tissue. From normal lung tissue, the results of methylation were positive in 75% for p16, 24% for RARßP2, 10% for DAPK, 6% for MGMT, and 33% for GSTP1. During the mean follow-up period of 18 ± 11 months (1-40 months), 25 (35%) patients experienced recurrence, and 13 died. In multivariable analysis, old age (>60 years, P = .007), male sex (P = .004), unmethylation of DAPK from cancer tissue (P = .045), and hypermethylation of RARßP2 from normal tissue (P = .000) were risk factors for poor survival. Pathologic stage (P = .023), unmethylation of DAPK from normal tissue (P = .043), and hypermethylation of RARßP2 from normal tissue (P = .030) were risk factors for disease-free survival.
CONCLUSIONS: DNA methylation status of CpG islands seems to be a useful predictor of long-term outcome for adenocarcinoma of the lung. However, because the predictive power is still low, further studies, including those with multiple genes, are necessary to increase its usefulness in the clinical setting.
| Introduction |
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We examined whether aberrant DNA hypermethylation could be used to predict the clinical outcomes of patients with primary adenocarcinoma of the lung after surgical resection.
| Materials and Methods |
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DNA Preparation and Bisulfite Modification
Genomic DNA samples from frozen lung cancer tissue were isolated by use of the QIAmp Tissue Kit (Qiagen, Hilden, Germany), according to the manufacturer's protocol. One microgram of genomic DNA was digested with restriction enzyme (HindIII; Intron Biotechnology, Kyungki-Do, Korea), and bisulfite conversion was carried out with reagents provided in the CpGenome DNA Modification Kit (Intergen, Purchase, NY).
Methylation-specific Polymerase Chain Reaction
Polymerase chain reaction (PCR) primers that distinguish between these methylated and unmethylated DNA sequences were then used. Primer sequences of all genes for both the methylated and unmethylated forms, annealing temperatures, and the expected PCR product sizes are summarized in Table 1.
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Clinical Data
All 72 patients had follow-up visits at the clinic every 3 months. The mean follow-up period was 18 months (range, 1-40 months). On every visit, chest radiograms and sputum cytology examinations were performed, and chest computed tomographic scans were obtained on an annual basis. If there were any symptoms or observations suggesting recurrence, additional evaluations, such as bone scanning, brain magnetic resonance imaging, or positron emission tomographic/computed tomographic scanning, were performed depending on the suspected site of the recurrence.
The relationship between the clinical outcomes (overall survival and disease-free survival) and DNA hypermethylation patterns were analyzed, along with clinical variables, such as sex, age, and pathologic TNM stage.
Statistical Analysis
The frequency of methylation in the normal tissue and the cancer tissue was calculated for each considered gene and then tested by using the McNemar
2 test for paired proportion differences. Because the distribution of patients' number in TNM stage was not appropriate for analysis, we merged the category into early (
stage II) and late stage (>stage II), and an association of methylation with TNM stage was investigated by using the
2 test. Overall survival and recurrence patterns were investigated by using the Kaplan-Meier method, and the differences between groups determined on the basis of risk factors were tested by using the log-rank test. Cox regression analysis was used to explore the influence of independent prognostic factors in a multivariable model. The factors were chosen by using a stepwise forward method with criteria for variable inclusion of 0.06 and that for variable exclusion of 0.10.
| Results |
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| Discussion |
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In the present study we demonstrated that hypermethylation of RARßP2 in normal tissue (P = .000) and unmethylation of DAPK in cancer tissue (P = .045) were significant variables that affected long-term survival. The study of retinoids in lung cancer dates back to seminal observations by Wohlbach and Howe,
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who discovered that vitamin A deprivation in cattle led to an increased incidence of lung and upper aerodigestive tract cancers. A gradual loss of RARß is seen in normal tissue, damaged epithelium, areas of dysplasia, squamous cell carcinomas, and adenocarcinomas, which supports the hypothesis that the RARß gene might exert tumor-suppressive effects in lung cancer. However, there are still debates regarding the role of RARß for lung cancer development.
We had previously reported there was no significant relationship between gene methylation and long-term survival in our series of surgically resected NSCLC.
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In that cohort, however, unmethylation of DAPK and hypermethylation of RARßP2, as well as advanced T stage and preoperative chemotherapy, were significant risk factors for early recurrence in the remaining lung. Interestingly, Kim and associates
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found that hypermethylation of the RARßP2 gene has a differential effect on the development of second primary lung cancers in patients with NSCLC, depending on their smoking status. Specifically, they reported second primary lung cancer developed more frequently when RARßP2 was unmethylated than when it was hypermethylated in current smokers. In contrast, the development of second primary lung cancer in former smokers was more prevalent in patients with hypermethylated RARßP2.
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Their report suggested the possible explanation for our previous result, as well as a different effect of retinoids on survival. In this study we did not find any correlation between the RARßP2 methylation in cancer tissue and survival. Moreover, the RARßP2 methylation in cancer tissue did not show a specific pattern of recurrence in the remaining tracheobronchial tree. The explanation for these observations is not clear. It might be because we excluded squamous cell carcinoma, which has been known to be more related to smoking compared with adenocarcinoma. Our series included an unusually high number of women and nonsmokers. It has been suggested that adenocarcinoma in nonsmoking women might exhibit different biologic behavior from lung cancer in male smokers with squamous cell histology. For example, nonsmoker female adenocarcinoma has been known to have a higher rate of epidermal growth factor receptor (EGFR) mutation. Indeed, in our study samples, as many as 31 (43%) patients were found to have some form of EGFR mutation, which is a much higher rate than would be expected (unpublished data). Another reason might be because our series did not have enough cases or an appropriate follow-up period to demonstrate the development of second primary lung cancer. Although we performed DNA sequencing of bisulfite PCR product for the RARßP2 gene in 3 samples and verified correct sequences, we did not conduct tests for all 5 genes in every sample. The lack of confirmatory sequencing experiments prohibited us from being able to deny any chance of false-negative or false-positive results, which might have affected our results.
Many researchers are investigating the methylation status of normal tissue adjacent to the tumor.
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It is relevant to think that hypermethylation of normal tissue might suggest the presence of a premalignant area and might have an effect on the prognosis. In our previous report we were unable to find any significance between hypermethylation of the normal tissue and long-term survival. In the present study the hypermethylation of normal tissue RARßP2 was a clear prognostic factor for poor survival in both univariable and multivariable analyses. We analyzed our data, stratifying by smoking history. However, it did not affect the result at all. Because our institution has a strict guide for smoking cessation for patients who undergo lung resection, none of our patients smoked postoperatively, and we did not have current smokers at the time of follow-up, for whom the methylation of RARßP2 might have worked as a good prognostic factor, as Kim and associates have suggested.
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DAPK is a proapoptotic serine-threonine kinase involved in apoptosis. Recent experiments established that DAPK functions as a tumor suppressor in at least 2 different stages of tumorigenicity, namely an apoptotic checkpoint functioning early during cell transformation and a second one that occurs later in cancer development (ie, during metastasis). For lung cancer, Kim and colleagues
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reported that increased tumor size, pathologic stage, and lymph node involvement correlated with DAPK loss. However, others reported that DAPK promoter methylation was detected without any association with the stage of disease.
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Our series did not show any correlation between DAPK methylation status and stage of cancer either. Our result is interesting because unmethylation, instead of hypermethylation, of DAPK was a risk factor for poor survival. We do not have an appropriate explanation for this phenomenon. There might be another factor that causes DAPK methylation to affect survival in different ways, or it could be only a false-positive result. Because this is the first report analyzing pure adenocarcinoma of the lung for the DAPK gene, further study for this specific gene is mandatory. Another explanation can be addressed on the basis of statistical analysis method. We primarily used a conventional 5% significance level for each test. However, we might also need to consider a more conservative significance level for the univariable Cox regression analysis, considering a possible chance effect to find a significant result caused by multiple testing. If we use a 1% significance level, most of the candidate factors turn out to be nonsignificant, but hypermethylation of RARßP2 in normal tissue would still be a highly significant predictor of overall survival, whereas DAPK would not. We also note the limited size of this study and that associations identified might have occurred by chance. Therefore the findings suggested should be interpreted with caution and in a less conclusive but exploratory way. Although we were not able to demonstrate the functional mechanism, we observed that the search for the DNA methylation status of CpG islands in both cancer tissue and adjacent normal tissue showed promise as a predictor of long-term outcome for adenocarcinoma of the lung. However, because the predictive power is still low, further studies, including those with multiple genes, are necessary to increase its usefulness in the clinical setting.
| Discussion |
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Similar to other neoplasms, lung cancers exhibit a DNA methylation paradox, which is manifested as a derepression of multiple imprinted genes, upregulation of cancer-testis antigens, and a paradoxical inactivation of tumor suppressor genes. The fact that not all of the imprinted alleles or the cancer-testis antigens are upregulated and that the tumor suppressor genes are not simultaneously repressed during malignant transformation suggests that the mechanisms underlying the methylation paradox are extremely complex.
A number of tumors, including colorectal carcinomas and leukemias, exhibit a methylation profile (methylator phenotype) that seems to correlate with patient outcome. To date, a methylator phenotype has not been identified in lung cancers. Published studies from numerous laboratories, including our own, demonstrate considerable heterogeneity regarding gene-expression profiles among different patients with lung cancer.
In your study you examined the methylation status of 5 genes that are commonly methylated in human lung cancers. This work appears to extend your previous studies pertaining to methylation analysis of 4 of these genes, namely p16, RARß, DAPK, and methylguanine-methyltransferase in 61 patients with lung cancer. In that study DNA methylation was not associated with any clinicopathologic characteristics and did not appear to coincide with patient survival. In that study you demonstrated that unmethylation of DAPK in the tumor and hypermethylation of RARß in normal tissues coincided with increased risk of recurrence. In the current study involving 72 patients with adenocarcinomas, you have substantiated your previous findings. In all likelihood, the phenomenon might indicate that the inhibition of apoptotic pathways is not contingent on methylation of DAPK. Furthermore, the methylation of RARß in the normal tissues might actually be a surrogate marker of more profound epigenetic changes that are relevant in the tumor itself.
I have several questions concerning this article. The methylation analysis that you performed involved methylation-specific PCR techniques, which have been fairly well standardized; however, there are some difficulties with this technique, particularly in terms of analysis of primary tumor specimens because of the kinetics of the PCR reactions and false-positive, as well as false-negative, results. Whereas the frequency of methylation of DAPK observed in your study was consistent with that seen in reported studies, the methylation frequencies for the other 4 genes were considerably higher than typically reported in the literature. To date, there has been no significant difference in the methylation status of these genes in squamous versus adenocarcinoma histology. Could you comment or speculate as to why the frequency of methylation was so much higher in your study relative to what has been reported in the literature with patients who were also from Asia.
Dr Kim. For the first question, that is one of the problems we have with the MSP method in terms of a high possibility of having a false-positive rate. It can happen because it is a PCR that has a high false-positive rate. Also, if the bisulfite modifications happen to be insufficient, we will have a false-positive rate as well. Our previous study showed that there was a high frequency of MGMT methylation compared with that of the current study. To decrease the false-positive rate, we changed our primers and the PCR conditions. However, we discovered that our population had a relatively high frequency of methylation, especially for p16. This result might possibly be related to ethnic differences. For example, for EGFR mutation, Asian persons have been known to have a higher frequency of mutation. In conclusion, one possibility might be a false-positive result, and the other might be related to ethnic differences.
Dr Schrump. Were any of the PCR results confirmed by bisulfite sequencing, once again to get at the issue of either false-positive or false-negative results here?
Dr Kim. We have been doing the PCR sequencing, and it is consistent at least for RARß. I personally think that the more important thing is immunohistochemistry to explain the mechanism of carcinogenesis. Histone deacetylation is likely one of the mechanisms of controlling functional expression. However, methylation results do not consistently match with the immunohistochemistry in our experience.
Dr Schrump. I have 2 other brief questions. Do you have any insight regarding the K-ras mutation status of these tumors? As you know, K-ras mutations have been associated with aberrant methylation of certain genes. Also, have you observed any association between smoking exposure and particular methylation profiles?
Dr Kim. This population is made up of patients with adenocarcinoma, and more than 50% of the patients were women; women generally do not smoke in Korea. Additionally, I stratified the patients according to smoking status but could not find any difference. Regarding the K-ras mutation, I have been working on it with the same cohort of patients. We found about 20% of the patients had mutations for K-ras, but we have not matched those data with this study.
Dr Schrump. Forty-three of the 72 patients in the present study had early-stage tumors (stage I or stage II). As we look at methylator phenotypes in more advanced tumor stages, nodal status emerges as the predominant predictor of prognosis and survival. Have you had an opportunity or do you intend to return to your data to analyze specifically the early-stage tumors? Conceivably, patients with these tumors did not receive adjuvant chemotherapy or radiation that might have confounded your analysis.
Dr Kim. That finding is research I would like to continue in the future. Unfortunately, the study population is small in the present study, and stratifying a limited population for early lung cancer might not be possible. However, because we have been collecting our specimens since 1996, we might be able to perform that kind of analysis in the future.
Dr Schrump. I congratulate you on an excellent study.
| Footnotes |
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| References |
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A. G. Schwartz, G. M. Prysak, C. H. Bock, and M. L. Cote The molecular epidemiology of lung cancer Carcinogenesis, March 1, 2007; 28(3): 507 - 518. [Abstract] [Full Text] [PDF] |
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