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Epidemiology and Prevention |
The Research Institute GROW, Department of Pathology, University Maastricht, 6200 MD Maastricht, the Netherlands [M. v. E., G. M. J. M. R., A. P. d. B., A. F. P. M. d. G.]; Tumor Biology, The Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins, Baltimore, Maryland 21231 [M. v. E., S. B. B., J. G. H.]; Research Institute NUTRIM, Department of Epidemiology, University Maastricht, 6200 MD Maastricht, the Netherlands [M. P. W., M. B., P. A. v. d. B.]; and TNO Nutrition and Food Research, 3700 AJ Zeist, the Netherlands [R. A. G.]
| ABSTRACT |
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| INTRODUCTION |
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Folate, as 5-methyltetrahydrofolate, has a central role in methyl metabolism. It supplies a methyl group to convert homocysteine to methionine, which is then converted to S-adenosylmethionine, the universal methyl donor for methylation of a wide variety of biological substrates such as DNA, RNA, and proteins. Folate deficiency is reported to be associated with the occurrence of point mutations in K-ras in colorectal adenomas (13) and carcinomas (14) , single and double strand DNA breaks, chromosome breakage (15 , 16) , and global DNA hypomethylation (17) .
Although the overall level of genomic methylation is actually reduced in certain tumor types, including CRCs (18 , 19) , hypermethylation at several gene promoters has also been reported. It has been hypothesized that global hypomethylation might induce regional de novo hypermethylation (20) . On the other hand, a recent study by Bariol et al. (21) suggests that there is no relationship between global demethylation and regional hypermethylation in CRC.
To investigate whether altered DNA methylation is associated with folate and alcohol intake, we examined promoter methylation of genes that have been reported to be involved and methylated in CRC carcinogenesis, i.e., APC-1A, p14ARF, p16INK4A, hMLH1, O6-MGMT, and RASSF1A (22 , 23) . This was done using an optimized MSP method. This study was performed with 122 CRC archival specimens derived from incident cases who participate in the prospective NLCS (24) . Patients with low folate intake in addition to high alcohol intake at baseline (n = 61) were compared with patients with high folate intake in addition to low alcohol intake (n = 61) with respect to the methylation status of a series of gene promoters.
| MATERIALS AND METHODS |
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For this pilot study, 61 CRCs of patients with high methyl donor intake [high folate intake (≥215 µg/day) in addition to extremely low alcohol intake (04 g/day)] and 61 CRCs of patients with low methyl donor intake [folate intake (<215 µg/day) in addition to high alcohol intake (≥5 g/day)] were selected (for selection criteria and definitions; Table 1
). Among the selected patients were 68 males and 54 females (5876 years of age at time of diagnosis), 30 Dukes A, 39 Dukes B, 31 Dukes C, and 15 Dukes D CRCs. Dukes stage was not reported in 7 cases. The distribution of the location of the tumors was colon (n = 84), rectosigmoid (n = 14), and rectum (n = 24). The 122 patients in this study were representative for the complete group of eligible CRC patients with respect to age, gender, Dukes stage, and tumor location distribution.
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Food Frequency Questionnaire.
At the start of the NLCS in 1986, all participants completed a food frequency questionnaire on daily food consumption and potential confounders (e.g., smoking, occupation, physical activity, family history of cancer, drug use). The dietary section of the questionnaire, a 150-item semiquantitative food frequency questionnaire, concentrated on habitual consumption of food and beverages during the year preceding the start of the study. The questionnaire was validated against a 9-day dietary record. Daily mean nutrient intakes are calculated using the computerized Dutch food composition table. Folate intake was calculated from newly established liquid chromatography data for foods (27)
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Questionnaire data of all cases and the subcohort are key-entered twice and processed in a manner blinded with respect to case/subcohort status to minimize observer bias in coding and interpreting the data. Both procedures make use of a highly standardized protocol. Subjects with incomplete or inconsistent dietary data are excluded from data analysis, according to criteria described in detail elsewhere (28)
. Patients with low folate intake in addition to high alcohol intake were defined as the low methyl donor group, whereas patients with high folate intake in addition to low alcohol intake were defined as the high methyl donor group (Table 1)
. Dietary factors adjusted for in data analyses are chosen on the basis of a previous analysis on the association between folate and CRC (2)
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Promoter Methylation Analysis.
DNA methylation in the CpG islands of the APC-1A, p14ARF, p16INK4a, hMLH1, O6-MGMT, and RASSF1A gene promoters was determined by chemical modification of genomic DNA with sodium bisulfite and subsequent MSP as described in detail elsewhere (29)
. In brief, 1 µg of DNA was denatured by NaOH and modified by sodium bisulfite. DNA samples were then purified using Wizard DNA purification resin (Promega), again treated with NaOH, precipitated with ethanol, and resuspended in H2O.
To facilitate MSP analysis on DNA retrieved from formalin-fixed, paraffin-embedded tissue, DNA was first amplified with flanking PCR primers that amplify bisulfite-modified DNA but do not preferentially amplify methylated or unmethylated DNA. The resulting fragment was used as a template for the MSP reaction.
All PCRs were performed with controls for unmethylated alleles (DNA from normal lymphocytes), methylated alleles [normal lymphocyte DNA treated in vitro with SssI methyltransferase (New England Biolabs)], and a control without DNA. Primer sequences and PCR conditions are described in Table 2
. Ten µl of each MSP reaction were directly loaded onto nondenaturing 6% polyacrylamide gels, stained with ethidium bromide, and visualized under UV illumination. To study the reproducibility of the nested MSP approach, duplicate CRC specimens were analyzed. Reproducibility was 95%.
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2 test, and differences in mean levels of variables were tested using the t test. Logistic regression analyses were performed to test whether there was a difference in methyl donor intake (low versus high) between CRCs with at least one gene methylated versus no genes methylated while adjusting for potential confounders. Because nine categories of methyl-donor intake were distinguished (categories 1 through 9 in Table 1| RESULTS |
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Overall, promoter hypermethylation frequencies observed were: 39% (47 of 122) for APC-1A; 33% (40 of 120) for p14ARF; 31% (37 of 119) for p16INK4A; 29% (35 of 122) for hMLH1; 41% (50 of 121) for O6-MGMT; and 20% (24 of 122) for RASSF1A (Table 3)
. Representative examples of the MSP reactions are shown in Fig. 1
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Dukes stage and location of the tumor did not differ between the two groups of patients (Table 3)
. Age at diagnosis was higher in patients with low methyl donor intake. There were significantly more males in the low methyl donor intake group (67%) when compared with the high methyl donor intake group (44%; P = 0.011; Table 3
). Factors previously shown to be associated with folate intake, i.e., energy-, fiber-, vitamin C-, and iron intake (2)
, were all significantly lower in patients with low methyl donor intake compared with patients with adequate/high methyl donor intake (Table 3)
.
Table 4
summarizes the Dukes stage, location of the tumor, age at diagnosis and energy-, fiber-, vitamin C-, and iron intake, none of which are associated with promoter methylation. Family history of cancer frequency was higher (25%) in patients who had none of the six studied genes methylated, compared with patients with at least one gene methylated (13%), but the difference did not reach statistical significance (Table 4)
. Table 4
also shows that gender is significantly associated with promoter methylation (P = 0.046). Sixty-one percent of patients were male in the group with at least one gene methylated versus 39% in the group with no genes methylated (Table 4)
. Caution is warranted in interpretation because these results are based on a selection of extreme intakes.
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| DISCUSSION |
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For p14ARF, p16INK4A, and O6-MGMT, the overall prevalence of promoter methylation, i.e., 33, 31, and 41%, respectively, are in the range of the prevalence reported for CRC (22 , 31 , 32) . For RASSF1A, the prevalence of promoter methylation was similar to the frequency reported on a larger series of CRCs from the same cohort (23) . For APC-1A and hMLH1, the overall prevalence is higher than reported thus far (30 , 33) . This difference might be because the CRC material used in this study is obtained from patients from a different geographic area (the Netherlands) compared with the patient material used in the other studies (United States).
Although not significant, our results indicate that methyl donor deficiency is associated with overall methylation of multiple genes, an effect which is stronger than the effect on specific promoter regions itself. The association, although not statistically significant, between the nine different categories of methyl donor intake and promoter methylation of at least one gene supports this. However, these results have to be interpreted with caution because only extreme categories were used, and intermediate categories of methyl donor intake in this pilot study were omitted. In addition, stratification of patients was done primarily on folate intake and secondarily on alcohol intake. Therefore, the conclusions of this study are based primarily on folate intake. Other dietary factors of importance for methyl donor intake (e.g., vitamins B6 and B12) were not accounted for in this selection of patients.
Increasing the power of the study, including CRCs from patients with the complete spectrum of folate and alcohol intake and analysis of the effect of intake of other methyl donors such as vitamins B6 and B12, will reveal whether the observed effects of methyl donor deficiency is stable. In addition, it is necessary to study whether there is effect modification by alcohol (as suggested with overall CRC in the First National Health and Nutrition Examination Survey study; Ref. 7 ) in the complete group of CRCs derived from the NLCS. Another drawback of this study is that only case-case and not case-cohort analyses were performed. Knowledge on global hypomethylation status, which is hypothesized to occur previously to regional hypermethylation, would also be interesting to analyze with respect to promoter hypermethylation. In addition, it is possible that the observed effect of folate deficiency on promoter methylation will be stronger after stratification for functionally important SNPs in genes involved in folate metabolism. Methylenetetrahydrafolate reductase, methionine synthase, and methionine synthase reductase are interesting enzymes involved in the generation of S-adenosylmethionine, the primary methyl donor for DNA methylation reactions. All three enzymes have been reported to have common SNPs, which are associated with enhanced thermolability and decreased enzyme activity. The effect of the SNPs on colorectal and other cancer risks also seems to be dependent on methionine, folate, vitamins B6 and B12, and alcohol intake (34, 35, 36, 37, 38, 39, 40) .
In conclusion, despite its limited size, this study suggests that methyl donor intake is associated with an increased frequency of promoter hypermethylation of genes involved in CRC carcinogenesis.
| ACKNOWLEDGMENTS |
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| FOOTNOTES |
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1 Supported by the Dutch Cancer Society and the René Vogels Foundation. ![]()
2 To whom requests for reprints should be addressed, at Tumor Biology, The Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins, Room 543, 1650 Orleans Street, Baltimore, MD 21231. Phone: (410) 955-8506; Fax: (410) 614-9884; E-mail: hermanji{at}jhmi.edu ![]()
3 The abbreviations used are: CRC, colorectal cancer; APC, adenomatous polyposis coli; hMLH1, human mut-L homologue; O6-MGMT, O6-methylguanine DNA methyl transferase; NLCS, Netherlands Cohort Study on Diet and Cancer; MSP, methylation-specific PCR; OR, odds ratio; CI, confidence interval; SNP, single nucleotide polymorphism; PALGA, Pathologisch Anatomisch Landelijk Geautomatiseerd Archief. ![]()
Received 11/ 5/02. Accepted 4/14/03.
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M. Guo, M. G. House, C. Hooker, Y. Han, E. Heath, E. Gabrielson, S. C. Yang, S. B. Baylin, J. G. Herman, and M. V. Brock Promoter Hypermethylation of Resected Bronchial Margins: A Field Defect of Changes? Clin. Cancer Res., August 1, 2004; 10(15): 5131 - 5136. [Abstract] [Full Text] [PDF] |
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M. M. Huycke and H. R. Gaskins Commensal Bacteria, Redox Stress, and Colorectal Cancer: Mechanisms and Models Experimental Biology and Medicine, July 1, 2004; 229(7): 586 - 597. [Abstract] [Full Text] [PDF] |
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M. Luchtenborg, M. P. Weijenberg, G. M. J. M. Roemen, A. P. de Bruine, P. A. van den Brandt, M. H. F. M. Lentjes, M. Brink, M. van Engeland, R. A. Goldbohm, and A. F. P. M. de Goeij APC mutations in sporadic colorectal carcinomas from The Netherlands Cohort Study Carcinogenesis, July 1, 2004; 25(7): 1219 - 1226. [Abstract] [Full Text] [PDF] |
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Y.-I. Kim Folate and DNA Methylation: A Mechanistic Link between Folate Deficiency and Colorectal Cancer? Cancer Epidemiol. Biomarkers Prev., April 1, 2004; 13(4): 511 - 519. [Abstract] [Full Text] [PDF] |
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