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Hypermethylation status of DAPK, MGMT and RUNX3 in HPV negative oral and oropharyngeal squamous cell carcinoma

Abstract

Squamous cell carcinoma of the oral cavity and oropharynx is the sixth most common type of cancer in the world. During tumorigenesis, gene promoter hypermethylation is considered an important mechanism of transcription silencing of tumor suppressor genes, such as DAPK, MGMT and RUNX3. These genes participate in signaling pathways related to apoptosis, DNA repair and proliferation whose loss of expression is possibly associated with cancer development and progression. In order to investigate associations between hypermethylation and clinicopathological and prognostic parameters, promoter methylation was evaluated in 72 HPV negative oral and oropharyngeal tumors using methylation-specific PCR. Hypermethylation frequencies found for DAPK, MGMT and RUNX3 were 38.88%, 19.44% and 1.38% respectively. Patients with MGMT hypermethylation had a better 2-year overall survival compared to patients without methylation. Being MGMT a repair gene for alkylating agents, it could be a biomarker of treatment response for patients who are candidates for cisplatin chemotherapy, predicting drug resistance. In view of the considerable levels of hypermethylation in cancer cells and, for MGMT, its prognostic relevance, DAPK and MGMT show potential as epigenetic markers, in a way that additional studies may test its viability and efficacy in clinical management.

Keywords:
tumor suppressor genes; methylation; HPV negative tumors; squamous cell carcinoma

Introduction

Head and neck squamous cell carcinoma (HNSCC) is a heterogeneous group of epithelial tumors that describe approximately 90% of the malignant neoplasms occurring in the oral cavity, oropharynx, hypopharynx and larynx (Pai and Westra, 2009Pai SI and Westra WH (2009) Molecular pathology of head and neck cancer: implications for diagnosis, prognosis, and treatment. Annu Rev Pathol 4:49-70.; Hussein et al., 2017Hussein AA, Helder MN, Visscher JG, Leemans CR, Braakhuis BJ, Vet HCW and Forouzanfar T (2017) Global incidence of oral and oropharynx cancer in patients younger than 45 years versus older patients: a systematic review. Eur J Cancer 82:115-127.). Oral and oropharyngeal squamous cell carcinoma (OOSCC) have a global estimate of 300,373 and 142,387 new cases per year, respectively (Gupta et al., 2016Gupta B, Johnson NW and Kumar N (2016) Global epidemiology of head and neck cancers: a continuing challenge. Oncology 91:13-23.), being together the sixth most common cancer in the world (Morandi et al., 2017Morandi L, Gissi D, Tarsitano A, Asioli S, Gabusi A, Marchetti C, Montebugnoli L and Foschini MP(2017) CpG location and methylation level are crucial factors for the early detection of oral squamous cell carcinoma in brushing samples using bisulfite sequencing of a 13-gene panel. Clin Epigenetics 9:85.).

A common etiological factor in HNSCC is prolonged and excessive alcohol and tobacco consumption which establish a synergistic, dose-dependent relationship between them (Polanska et al., 2014Polanska H, Raudenska M, Gumulec J, Sztalmachova M, Adam V, Kizek R and Masarik M (2014) Clinical significance of head and neck squamous cell cancer biomarkers. Oral Oncol 50:168-177.). The infection by high-risk Human papillomavirus (HPV) has been particularly associated with oropharyngeal cancer (Lechner et al., 2013Lechner M, Fenton T, West J, Wilson G, Feber A, Henderson S, Thirlwell C, Dibra HK, Jay A, Butcher L et al. (2013) Identification and functional validation of HPV-mediated hypermethylation in head and neck squamous cell carcinoma. Genome Med 5:15.; D'Souza and Saranath, 2015D'Souza W and Saranath D (2015) Clinical implications of epigenetic regulation in oral cancer. Oral Oncol 51:1061-1068.; Sailer et al., 2017Sailer V, Holmes EE, Gevensleben H, Goltz D, Dröge F, Franzen A, Dietrich J, Kristiansen G, Bootz F, Schröck Aet al. (2017) PITX3 DNA methylation is an independent predictor of overall survival in patients with head and neck squamous cell carcinoma. Clin Epigenetics 9:12.). HPV positive and HPV negative tumors have a distinct molecular profile, even in tumors with similar clinical parameters, leading to different prognostic expectations (Colacino et al., 2013Colacino JA, Dolinoy DC, Duffy SA, Sartor MA, Chepeha DB, Bradford CR, McHugh JB, Patel DA, Virani S and Walline HM (2013) Comprehensive analysis of DNA methylation in head and neck squamous cell carcinoma indicates differences by survival and clinicopathologic characteristics. PLoS One 8:e54742.; Lechner et al., 2013Lechner M, Fenton T, West J, Wilson G, Feber A, Henderson S, Thirlwell C, Dibra HK, Jay A, Butcher L et al. (2013) Identification and functional validation of HPV-mediated hypermethylation in head and neck squamous cell carcinoma. Genome Med 5:15.; Erhart et al., 2016Erhart SM, Rivero ER, Bazzo ML and Onofre AS (2016) Comparative evaluation of the GP5 +/6 +, MY09/11 and PGMY09/11 primer sets for HPV detection by PCR in oral squamous cell carcinomas. Exp Mol Pathol 100:13-16.; Sailer et al., 2017Sailer V, Holmes EE, Gevensleben H, Goltz D, Dröge F, Franzen A, Dietrich J, Kristiansen G, Bootz F, Schröck Aet al. (2017) PITX3 DNA methylation is an independent predictor of overall survival in patients with head and neck squamous cell carcinoma. Clin Epigenetics 9:12.).

The OOSCC are very aggressive in their biologic behavior and result in a deforming and destructive disease, with frequent early lymph node metastases and potential for distant metastases over time – even after adequate local therapy (Miyazaki et al., 2006Miyazaki H, Patel V, Wang H, Edmunds RK, Gutkind JS and Yeudall WA (2006) Down-regulation of CXCL5 inhibits squamous carcinogenesis. Cancer Res 66:4279-4284.; Byakodi et al., 2012Byakodi R, Byakodi S, Hiremath S, Byakodi J, Adaki S, Marathe K and Mahind P (2012) Oral cancer in India: an epidemiologic and clinical review. J Community Health 37:316-319.). These factors cause a significant worse prognosis and higher radio and chemotherapy morbidity (Morandi et al., 2017Morandi L, Gissi D, Tarsitano A, Asioli S, Gabusi A, Marchetti C, Montebugnoli L and Foschini MP(2017) CpG location and methylation level are crucial factors for the early detection of oral squamous cell carcinoma in brushing samples using bisulfite sequencing of a 13-gene panel. Clin Epigenetics 9:85.). Mortality rates have remained unchanged (50% within five years after diagnosis) over the past 30 years (Morandi et al., 2017Morandi L, Gissi D, Tarsitano A, Asioli S, Gabusi A, Marchetti C, Montebugnoli L and Foschini MP(2017) CpG location and methylation level are crucial factors for the early detection of oral squamous cell carcinoma in brushing samples using bisulfite sequencing of a 13-gene panel. Clin Epigenetics 9:85.) and survival rate of HNSCC is lower when compared to other cancers like breast, cervix and colorectal (Jemal et al., 2008aJemal A, Siegel R, Ward E, Hao Y, Xu J, Murray T and Thun MJ (2008a) Cancer statistics, 2008. CA Cancer J Clin 58:71-96., 2008bJemal A, Thun MJ, Ries LA, Howe HL, Weir HK, Center MM, Ward E, Wu XC, Eheman C and Anderson R (2008b) Annual report to the nation on the status of cancer, 1975-2005, featuring trends in lung cancer, tobacco use, and tobacco control. J Natl Cancer Inst 100:1672-1694.). Factors that contribute for this scenario are the failure in early diagnosis (two thirds are diagnosed in III–IV stages) and the lack of molecular markers that indicate tumor behavior and allow patient stratification for more personalized therapy (Mao et al., 2004Mao L, Hong WK and Papadimitrakopoulou VA (2004) Focus on head and neck cancer. Cancer Cell 5:311-316.; Montebugnoli et al., 2014Montebugnoli L, Gissi DB, Flamminio F, Gentile L, Dallera V, Leonardi E, Beccarini T and Foschini MP (2014) Clinicopathologic parameters related to recurrence and locoregional metastasis in 180 oral squamous cell carcinomas. Int J Surg Pathol 22:55-62.; Morandi et al., 2017Morandi L, Gissi D, Tarsitano A, Asioli S, Gabusi A, Marchetti C, Montebugnoli L and Foschini MP(2017) CpG location and methylation level are crucial factors for the early detection of oral squamous cell carcinoma in brushing samples using bisulfite sequencing of a 13-gene panel. Clin Epigenetics 9:85.).

Therefore, diagnoses in early stages and rigorous follow-up care have a significant effect on survival and outcome (Shield et al., 2017Shield KD, Ferlay J, Jemal A, Sankaranarayanan R, Chaturvedi AK, Bray F and Soerjomataram I (2017) The global incidence of lip, oral cavity, and pharyngeal cancers by subsite in 2012. CA Cancer J Clin 67:51-64.). Currently, TNM staging system is the main parameter used for treatment decision and prognosis (Hermanek et al., 1997Hermanek P, Hutter RVP, Sobin LH, Wagner G and Wittekind C (1997) TNM Atlas: illustrated guide to the TNM/pTNM classification of malignant tumors. 4th edition. Springer-Verlag Berlin Heidelberg, Berlin, 343p.). However, tumors with identical staging at same anatomical site can present distinct behavior (Pai and Westra, 2009Pai SI and Westra WH (2009) Molecular pathology of head and neck cancer: implications for diagnosis, prognosis, and treatment. Annu Rev Pathol 4:49-70.). In this context, molecular markers for cancer detection and prognosis should be explored with the intent to improve screening accuracy (Pai and Westra, 2009Pai SI and Westra WH (2009) Molecular pathology of head and neck cancer: implications for diagnosis, prognosis, and treatment. Annu Rev Pathol 4:49-70.; Carvalho et al., 2011Carvalho AL, Henrique R, Jeronimo C, Nayak CS, Reddy AN, Hoque MO, Chang S, Brait M, Jiang WW, Kim MM et al. (2011) Detection of promoter hypermethylation in salivary rinses as a biomarker for head and neck squamous cell carcinoma surveillance. Clin Cancer Res 17:4782-4789.; Dahiya and Dhankhar, 2016Dahiya K and Dhankhar R (2016) Updated overview of current biomarkers in head and neck carcinoma. World J Methodol 6:77-86.).

DNA hypermethylation may be a suitable biomarker of tumor progression by allowing the prospection of malignant lesions and survival and prognostic associations (Taioli et al., 2009Taioli E, Ragin C, Wang XH, Chen J, Langevin SM, Brown AR, Gollin SM, Garte S and Sobol RW (2009) Recurrence in oral and pharyngeal cancer is associated with quantitative MGMT promoter methylation. BMC Cancer 9:354.; Koutsimpelas et al., 2012Koutsimpelas D, Pongsapich W, Heinrich U, Mann S, Mann WJ and Brieger J (2012) Promoter methylation of MGMT, MLH1 and RASSF1A tumor suppressor genes in head and neck squamous cell carcinoma: pharmacological genome demethylation reduces proliferation of head and neck squamous carcinoma cells. Oncol Rep 27:1135-1141.; Castilho et al., 2017Castilho RM, Squarize CH and Almeida LO (2017) Epigenetic modifications and head and neck cancer: implications for tumor progression and resistance to therapy. Int J Mol Sci 18:E1506.). This molecular alteration consists of transcriptional silencing of promoter regions in tumor suppressor genes (TSGs) (Carvalho et al., 2011Carvalho AL, Henrique R, Jeronimo C, Nayak CS, Reddy AN, Hoque MO, Chang S, Brait M, Jiang WW, Kim MM et al. (2011) Detection of promoter hypermethylation in salivary rinses as a biomarker for head and neck squamous cell carcinoma surveillance. Clin Cancer Res 17:4782-4789.; Castilho et al., 2017Castilho RM, Squarize CH and Almeida LO (2017) Epigenetic modifications and head and neck cancer: implications for tumor progression and resistance to therapy. Int J Mol Sci 18:E1506.).

CpG island hypermethylation in promoter region of TGSs as death-associated protein kinase (DAPK), O6-methylguanine DNA methyltransferase (MGMT) and runt-related transcription factor 3 (RUNX3) have been consistently observed in many human cancers (Kito et al., 2001Kito H, Suzuki H, Ichikawa T, Sekita N, Kamiya N, Akakura K, Igarashi T, Nakayama T, Watanabe M, Harigaya K et al. (2001) Hypermethylation of the CD44 gene is associated with progression and metastasis of human prostate cancer. Prostate 49:110-115.; Raveh and Kimchi, 2001Raveh T and Kimchi A (2001) DAP Kinase - a proapoptotic gene that functions as a tumor suppressor. Exp Cell Res 264:185-192.; Esteller and Herman, 2004Esteller M and Herman JG (2004) Generating mutations but providing chemosensitivity: the role of O6-methylguanine DNA methyltransferase in human cancer. Oncogene 23:1-8.; Subramaniam et al., 2009Subramaniam MM, Chan JY, Yeoh KG, Quek T, Ito K and Salto-Tellez M (2009) Molecular pathology of RUNX3 in human carcinogenesis. Biochim Biophys Acta 1796:315-331.; Asada et al., 2013Asada K, Watanabe N, Nakamura Y, Ohira M, Westermann F, Schwab M, Nakagawara A and Ushijima T (2013) Stronger prognostic power of the CpG island methylator phenotype than methylation of individual genes in neuroblastomas. Jpn J Clin Oncol 43:641-645.). These genes act in pathways of apoptosis, DNA repair and proliferative block, respectively, (Supic et al., 2011Supic G, Kozomara R, Jovic N, Zeljic K and Magic Z (2011) Prognostic significance of tumor-related genes hypermethylation detected in cancer-free surgical margins of oral squamous cell carcinomas. Oral Oncol 47:702-708.) and their inactivation can favor oncogenesis and progression of oral tumors (Towle and Garnis, 2012Towle R and Garnis C (2012) Methylation-mediated molecular dysregulation in clinical oral malignancy. J Oncol 2012:170172.; D'Souza and Saranath, 2015D'Souza W and Saranath D (2015) Clinical implications of epigenetic regulation in oral cancer. Oral Oncol 51:1061-1068.). In addition, all three genes were confirmed by an epigenome-wide methylation analysis using dysplastic and OSCC tissues (Towle et al., 2013Towle R, Truong D, Hogg K, Robinson WP, Poh CF and Garnis C (2013) Global analysis of DNA methylation changes during progression of oral cancer. Oral Oncol 49: 1033-1042.).

This study aimed to investigate the hypermethylation in DAPK, MGMT and RUNX3 promoter regions and their association with clinicopathological features and the prognostic overall survival and disease-free survival in HPV-negative OOSCC.

Subjects and Methods

Ethical issues

This research was approved by the research ethics committee of the Integrated Center for Health Care – CIAS/Unimed Vitória (process number 318/2011). All patients were informed about the study and signed a written informed consent.

Patients

The participants were recruited at the Head and Neck Surgery Section, Hospital Santa Rita de Cassia, located in Vitoria, Espírito Santo, Brazil, between 2011 and 2017. To prevent the existence of HPV status bias, the inclusion criteria were patients with conclusive diagnosis of OOSCC HPV DNA negative, who were not submitted to any antitumoral therapy. HPV negative status was confirmed by polymerase chain reaction (PCR) using GP5+/6+, MY09/11 and PGMY09/11 primer sets (Erhart et al., 2016Erhart SM, Rivero ER, Bazzo ML and Onofre AS (2016) Comparative evaluation of the GP5 +/6 +, MY09/11 and PGMY09/11 primer sets for HPV detection by PCR in oral squamous cell carcinomas. Exp Mol Pathol 100:13-16.). Patients diagnosed with relapsed OOSCC were excluded as well as individuals with debilitating systemic conditions that limited their participation.

Clinical and pathological data (i.e., age, sex, tumour site, TNM stage, alcohol consumption and tobacco exposure) were obtained by interview and from the medical records. The tumor clinical stage was categorized as early (0, I and II) or advanced (III and IV) according to the TNM classification system (Wittekind et al., 2014Wittekind C, Asamura H and Sobin LH (2014) TNM atlas: illustrated guide to the TNM classification of malignant tumours. 6th edition. John Wiley & Sons, West Sussex, 408 p.). Patients were considered non-smokers or non-alcoholics when they claimed never to have had the habit of alcohol or tobacco consumption. Volunteers were considered smokers or alcoholics when they smoked or had smoked on average one cigarette, cigar or pipe regularly for at least one year and ingested or had ingested alcoholic beverage (regularly/frequently) in life, respectively. Patients were followed up until 24 months or until death and outcomes were classified as alive, deceased and relapse.

DNA extraction, quantification and sodium bisulfite modification

DNA was extracted from tumor samples stored at -80 °C originated of surgical resection. The used method was adapted from the phenol chloroform protocol from Goelz et al. (1985)Goelz SE, Hamilton SR and Vogelstein B (1985) Purifications of DNA from formaldehyde fixed and paraffin embedded tissue. Biochem Biophys Res Commun 130:118-126.. DNA concentration was determined using NanoDrop 2000 (Thermo Fisher Scientific, Delaware, USA). DNA integrity was evaluated by human β-globin gene PCR. Using the methylSEQr Bisulfite Conversion kit (Applied Biosystems, Foster City, California, USA), 300 ng of DNA from each sample were subjected to bisulfite conversion.

Methylation Specific - Polymerase Chain Reaction (MS-PCR)

Each gene was tested with two different primers pairs: unmethylated (U) and methylated (M) both with previously described sequences and showed in Table 1. The primer pair U was specific for unmethylated alleles, rich in uracils, and the M primers were specific for methylated regions whose cytokines remain unchanged.

Table 1
Primer sequences, annealing temperature and size of MS-PCR amplicons used for DAPK, MGMT and RUNX3 genes.

Normal lymphocyte DNA methylated in vitro by the CpG Methyltransferase enzyme (M.SssI) (Thermo Fisher Scientific) was used as reference control of hypermethylated sequence. This sample was used as positive amplification control for M primers and negative control for U primers. DNA from normal lymphocytes was used as reference for unmethylated sequences, serving as positive control for U primers and negative control for M primers. Both controls have been modified by bisulfite as described.

The PCR reaction mixture consisted of 2 μl of modified DNA, 0.072 mM of each dinucleotide triphosphate (Invitrogen/Life Technologies, California, USA), 1X of PCR buffer (50 mM KCl, 20 mM Tris-HCl pH 8.4) of the Platinum Taq DNA Polymerase (Invitrogen), 0.54 mM of MgCl2 (Invitrogen), 0.9 U of Platinum Taq DNA Polymerase (Invitrogen) and 0.6 μM of each primer (Invitrogen).

Fragments were amplified in a Veriti 96-Well Thermal Cycler (Applied Biosystems) under the following conditions: initial denaturation at 95 °C for 2 min; 35-38 cycles consisting of denaturation at 95 °C for 30 s; annealing at a specific temperature (AT) for 30 sec and extension 72 °C for 30 s; final extension of 10 min at 72 ° C. The MS-PCR conditions are shown in Table 1. The MS-PCR products were subjected to electrophoresis on 7% polyacrylamide gel stained with silver nitrate.

Statistical analysis

Statistical analysis was performed with SPSS Statistics v20.0 (SPSS Incorporation, Chicago). The association between variables was tested by Chi-Square test or Fisher's exact test. All variables with a p-value <0.25 in association tests were subjected to multiple logistic regression analysis. The overall survival and disease-free survival were estimated and compared using the Kaplan-Meier method and log-rank tests, respectively. Multivariate Cox regression analysis was performed to verify if there was any association between the variables when evaluated together by the same model. Associations were considered significant when p < 0.05.

Results

Patients

Seventy-two patients were included in the study. The mean age was 57.25, ranging from 31 to 84 years old. Alcoholism was reported by 60.86% (42/69) and smoking was assumed by 62.31% (43/69). Those who claimed not to use any of these substances amounted to 21.73% (15/69). Most patients (69.44%; 50/72) were at advanced stages of the disease (III and IV), with tumors T3 and T4 accounting for 55.55% (40/72) of samples. One patient had distant metastasis. Follow-up data were obtained for 81.94% (59/72) of the patients. During this period, 13.56% (8/59) of the patients developed recurrence, and 35.59% (21/59) died. The clinicopathological description of patients is shown in Table 2.

Table 2
Clinicopathological features and their distribution according DAPK and MGMT hypermethylation.

Methylation profile of DAPK, MGMT and RUNX3

Hypermethylation was found in 38.88% (28/72) of the tumors for DAPK and 19.44% (14/72) for MGMT. Hypermethylation in at least one of the genes was found in 48.61% (35/72) of the cases. Simultaneous hypermethylation for DAPK and MGMT reached 9.72% (7/72). Hypermethylation at RUNX3 was observed in one sample (1.38%) which presented all genes hypermethylated.

Clinicopathological features and hypermethylation of DAPK and MGMT genes

The patients' clinicopathological description according to hypermethylation of DAPK and MGMT genes is summarized in Table 2. There were no statistically significant results in the association tests between hypermethylation results and the following clinicopathological data: age, sex, smoking and alcohol addiction anatomical site, tumor stage, tumor size, lymph node involvement and chemotherapic treatment. Variables that presented p <0.25 in association analyses were used in a multiple logistic regression analysis. As shown in Table 3, we observed that individuals with initial tumor size (Tis, T1 and T2) were 3.35 times (95% CI 1.093 – 10.329) more likely to have methylation of the DAPK gene than those who did not. The Hosmer-Lemersshow test demonstrated that the regression model was adequate (p = 0.384). None of the other independent variables analyzed were shown to predict gene methylation events. Analyses were not performed for RUNX3.

Table 3
Multiple logistic regression of clinical features and DAPK and MGMT hypermethylation.

Overall survival (OS) and Disease free survival (DFS)

In OS and DFS evaluation, the 2-year survival was analyzed according to DAPK and MGMT methylation status, clinical staging and tumor size (T) and lymph node metastasis (N).

As shown in Figure 1, patients with hypermethylation of MGMT gene had better overall survival (p=0.008) than patients without. All patients with hypermethylation of MGMT remained alive until the end of the follow-up, while approximately 50% of patients without hypermethylation remained alive until the end of the follow-up, as seen in Figure 1. Patients in early staging (0, I and II; p < 0.001) and with smaller tumors (T1 and T2; p < 0.001) had better survival. All patients in early staging remained alive until the end of the follow-up while more than 60% of patients with larger tumors died during follow-up.

Figure 1
Kaplan Meier estimates of overall survival among patients with oral and oropharyngeal squamous cell carcinoma according to MGMT hypermethylation, Tumor Stage and Tumor Size. Abbreviations: A: MGMT hypermethylation; B: Tumor Stage; C: Tumor Size; HM: Hypermethylated; N-HM: Non-Hypermethylated; IS: Initial Stage; AS - Advanced Stage

The multivariate Cox regression analysis was performed in order to confirm whether the hypermethylation of the evaluated genes and the prognostic factors (tumor size and lymph node metastasis) showed any association when evaluated together in the same model. As observed in Table 4, the multivariate regression showed that tumor size showed an association with survival (p=0.001). Therefore, we can infer that patients with advanced tumors have 13.42 times the risk of death.

Table 4
Multivariate Cox regression analysis of prognostic features and DAPK and MGMT hypermethylation.

Discussion

Hypermethylation of CpG islands in genes related to cancer has been considered an important event in OOSCC evolution. We have evaluated the methylation status of the DAPK, MGMT and RUNX3 genes in 72 OOSCC HPV negative tumors. Among these genes, hypermethylation in the MGMT gene correlates with better overall survival.

Promoter hypermethylation rates found in our study fit on intervals reported in the HNSCC literature for DAPK (12 – 71.69%) (Li et al., 2013Li C, Wang L, Su J, Zhang R, Fu L and Zhou Y (2013) mRNA expression and hypermethylation of tumor suppressor genes apoptosis protease activating factor-1 and death-associated protein kinase in oral squamous cell carcinoma. Oncol Lett 6:280-286.; Noorlag et al., 2014Noorlag R, van Kempen PM, Moelans CB, Jong R, Blok LE, Koole R, Grolman W, van Diest PJ, van Es RJ and Willems SM (2014) Promoter hypermethylation using 24-gene array in early head and neck cancer: better outcome in oral than in oropharyngeal cancer. Epigenetics 9:1220-1227.) and MGMT (18.1 – 58.67%) (Zuo et al., 2004Zuo C, Ai L, Ratliff P, Suen JY, Hanna E, Brent TP and Fan CY (2004) O6-methylguanine-DNA methyltransferase gene: epigenetic silencing and prognostic value in head and neck squamous cell carcinoma. Cancer Epidemiol Biomarkers Prev 13:967-975.; Strzelczyk et al., 2018Strzelczyk JK, Krakowczyk L and Owczarek AJ (2018) Aberrant DNA methylation of the p16, APC, MGMT, TIMP3 and CDH1 gene promoters in tumours and the surgical margins of patients with oral cavity cancer. J Cancer 9:1896-1904.), but not for RUNX3 (15 – 70%) (Gao et al., 2009Gao F, Huang C, Lin M, Wang Z, Shen J, Zhang H, Jiang L and Chen Q (2009) Frequent inactivation of RUNX3 by promoter hypermethylation and protein mislocalization in oral squamous cell carcinomas. J Cancer Res Clin Oncol 135:739-747.; Zhang et al., 2013Zhang S, Feng XL, Shi L, Gong CJ, He ZJ, Wu HJ and Ling TY (2013) Genome-wide analysis of DNA methylation in tongue squamous cell carcinoma. Oncol Rep 29:1819-1826.).

Multiple logistic regression analysis alone demonstrated a significant association between individuals with initial tumor size and methylation of the DAPK gene; MGMT hypermethylation data were not associated with clinicopathological parameters in our study. In the studies of Martone et al. (2007)Martone T, Gillio-Tos A, De Marco L, Fiano V, Maule M, Cavalot A, Garzaro M, Merletti F and Cortesina G (2007) Association between hypermethylated tumor and paired surgical margins in head and neck squamous cell carcinomas. Clin Cancer Res 13:5089-5094., Steinmann et al. (2009)Steinmann K, Sandner A, Schagdarsurengin U and Dammann RH (2009) Frequent promoter hypermethylation of tumor-related genes in head and neck squamous cell carcinoma. Oncol Rep 22:1519-1526., Rettori et al. (2013)Rettori MM, Carvalho AC, Longo AL, Oliveira CZ, Kowalski LP, Carvalho AL and Vettore AL (2013) TIMP3 and CCNA1 hypermethylation in HNSCC is associated with an increased incidence of second primary tumors. J Transl Med 11:316. and Misawa et al. (2016)Misawa K, Mochizuki D, Imai A, Endo S, Mima M, Misawa Y, Kanazawa T, Carey TE and Mineta H (2016) Prognostic value of aberrant promoter hypermethylation of tumor-related genes in early-stage head and neck cancer. Oncotarget 7:26087-26098. associations were not observed between the status of the MGMT and DAPK genes and tumoral and clinical parameters.

MGMT encodes an adduct repair enzyme of O6-methylguanine generated by the interaction of DNA with alkylating agents present, for example, in cigarette smoke (Christmann and Kaina, 2012Christmann M and Kaina B (2012) O6-methylguanine-DNA methyltransferase (MGMT): impact on cancer risk in response to tobacco smoke. Mutat Res 736:64-74.). The MGMT promoter methylation can reduce the protein expression having therefore oncogenic potential (Cai et al., 2016Cai F, Xiao X, Niu X, Shi H and Zhong Y (2016) Aberrant methylation of MGMT promoter in HNSCC: a meta-analysis. PLoS One 11:e0163534.). Although our report is not the first to point out the prognostic value of MGMT for HNSCC patients, there is no consensus among studies previously published. Taioli et al. (2009)Taioli E, Ragin C, Wang XH, Chen J, Langevin SM, Brown AR, Gollin SM, Garte S and Sobol RW (2009) Recurrence in oral and pharyngeal cancer is associated with quantitative MGMT promoter methylation. BMC Cancer 9:354. and Zuo et al. (2004)Zuo C, Ai L, Ratliff P, Suen JY, Hanna E, Brent TP and Fan CY (2004) O6-methylguanine-DNA methyltransferase gene: epigenetic silencing and prognostic value in head and neck squamous cell carcinoma. Cancer Epidemiol Biomarkers Prev 13:967-975. found an inverse relationship between hypermethylation and OS in samples of OOSCC and HNSCC, respectively. Whereas Dikshit et al. (2007)Dikshit RP, Gillio-Tos A, Brennan P, De Marco L, Fiano V, Martinez-Peñuela JM, Boffetta P and Merletti F (2007) Hypermethylation, risk factors, clinical characteristics, and survival in 235 patients with laryngeal and hypopharyngeal cancers. Cancer 110:1745-1751., studying laryngeal and hypopharyngeal tumors, and Strzelczyk et al. (2018)Strzelczyk JK, Krakowczyk L and Owczarek AJ (2018) Aberrant DNA methylation of the p16, APC, MGMT, TIMP3 and CDH1 gene promoters in tumours and the surgical margins of patients with oral cavity cancer. J Cancer 9:1896-1904., working with oral cavity cancer, found no association with survival. Despite differences in etiology and behavior, our results of improved OS associated to MGMT hypermethylation better fit in the conclusions of Chen et al. (2015)Chen SH, Kuo CC, Li CF, Cheung CH, Tsou TC, Chiang HC, Yang YN, Chang SL, Lin LC, Pan HY et al. (2015) O6-methylguanine DNA methyltransferase repairs platinum-DNA adducts following cisplatin treatment and predicts prognoses of nasopharyngeal carcinoma. Int J Cancer 137:1291-1305.. In their cohort of cisplatin-treated nasopharyngeal cancer patients, worse OS was observed for those with high MGMT expression associated with absence of hypermethylation.

Cisplatin and the others platinum-containing anti-cancer drugs are widely used in the treatment of locally advanced HNSCC tumors (Schmitz et al., 2014Schmitz S, Ang KK, Vermorken J, Haddad R, Suarez C, Wolf GT, Hamoir M and Machiels JP (2014) Targeted therapies for squamous cell carcinoma of the head and neck: current knowledge and future directions. Cancer Treat Ver 40:390-404.). It acts as an alkylating agent leading to formation of platinum-DNA adducts blocking cell cycle and resulting in cancer cell apoptosis (Dasari and Tchounwou, 2014Dasari S and Tchounwou PB (2014) Cisplatin in cancer therapy: molecular mechanisms of action. Eur J Pharmacol 740:364-378.). Although cisplatin is not an O6-alkylguanine alkylating agent, its DNA damage is actively removed by MGMT repair protein, as demonstrated by Chen et al. (2015)Chen SH, Kuo CC, Li CF, Cheung CH, Tsou TC, Chiang HC, Yang YN, Chang SL, Lin LC, Pan HY et al. (2015) O6-methylguanine DNA methyltransferase repairs platinum-DNA adducts following cisplatin treatment and predicts prognoses of nasopharyngeal carcinoma. Int J Cancer 137:1291-1305.. Thus, MGMT hypermethylation, and its consequent loss of expression, could be a prognostic biomarker for HNSCC patients candidates for cisplatin chemotherapy, predicting the chances of drug resistance. Since most patients begin treatment at later stages, the therapeutic approach may be more effective when oriented by the molecular tumor profile. It has been shown that MGMT promoter methylation is a good prognostic factor for patients with glioma treated with temozolomide, another alkylating drug (Pandith et al., 2018Pandith AA, Qasim I, Zahoor W, Shah P, Bhat AR, Sanadhya D, Shah ZA and Naikoo NA (2018) Concordant association validates MGMT methylation and protein expression as favorable prognostic factors in glioma patients on alkylating chemotherapy (Temozolomide). Sci Rep 8:6704.). In our study, however, there was no statistically significant relationship between the use of cisplatin and methylation of MGMT gene. This may be due to the small number of samples. Furthermore, the disagreement about survival results among the studies already published may be related to anatomical site differences, HPV status and patient's clinical stage.

In relation to TSG DAPK, preview studies reveal that its hypermethylation is a common phenomenon in HNSCC (Kulkarni and Saranath, 2004Kulkarni V and Saranath D (2004) Concurrent hypermethylation of multiple regulatory genes in chewing tobacco associated oral squamous cell carcinomas and adjacent normal tissues. Oral Oncol 40:145-153.; Li et al., 2013Li C, Wang L, Su J, Zhang R, Fu L and Zhou Y (2013) mRNA expression and hypermethylation of tumor suppressor genes apoptosis protease activating factor-1 and death-associated protein kinase in oral squamous cell carcinoma. Oncol Lett 6:280-286.; Misawa et al., 2016Misawa K, Mochizuki D, Imai A, Endo S, Mima M, Misawa Y, Kanazawa T, Carey TE and Mineta H (2016) Prognostic value of aberrant promoter hypermethylation of tumor-related genes in early-stage head and neck cancer. Oncotarget 7:26087-26098.). It is known that DAPK, which is a mediator of cell death of interferon-gamma (INF-γ)-induced apoptosis (Cai et al., 2017Cai F, Xiao X, Niu X and Zhong Y (2017) Association between promoter methylation of DAPK gene and HNSCC: a meta-analysis. PLoS One 12: e0173194.), is essential for activation of various cell death mechanisms, caspase dependent or not, and the p19ARF/p53 signaling pathway, a classic pathway in cell cycle control (Bialik and Kimchi, 2004Bialik S and Kimchi A (2004) DAP-kinase as a target for drug design in cancer and diseases associated with accelerated cell death. Semin Cancer Biol 14:283-294.). Since death pathways abolition is critical for tumor growth, DAPK hypermethylation may be suggestive of a higher malignant potential. This was correlated with lymph node involvement in studies of Sanchez-Cespedes et al. (2000)Sanchez-Cespedes M, Esteller M, Wu L, Nawroz-Danish H, Yoo GH, Koch WM, Jen J, Herman JG and Sidransky D (2000) Gene promoter hypermethylation in tumors and serum of head and neck cancer patients. Cancer Res 60:892-895. and Wong et al. (2011)Wong YK, Lee LT and Liu CJ (2011) Hypermethylation of MGMT and DAPK gene promoters is associated with tumorigenesis and metastasis in oral squamous cell carcinoma. J Dent Sci 6:158-164.. Considering that epigenetic regulation is an early event in oral carcinogenesis (D'Souza and Saranath, 2015D'Souza W and Saranath D (2015) Clinical implications of epigenetic regulation in oral cancer. Oral Oncol 51:1061-1068.), its detection in normal tissue adjacent to the tumor (Kulkarni and Saranath, 2004Kulkarni V and Saranath D (2004) Concurrent hypermethylation of multiple regulatory genes in chewing tobacco associated oral squamous cell carcinomas and adjacent normal tissues. Oral Oncol 40:145-153.; Wong et al., 2011Wong YK, Lee LT and Liu CJ (2011) Hypermethylation of MGMT and DAPK gene promoters is associated with tumorigenesis and metastasis in oral squamous cell carcinoma. J Dent Sci 6:158-164.), pre-cancerous lesions (Liu et al., 2012Liu Y, Zhou ZT, He QB and Jiang WW (2012) DAPK promoter hypermethylation in tissues and body fluids of oral precancer patients. Med Oncol 29:729-733.), and surgical margins (Martone et al., 2007Martone T, Gillio-Tos A, De Marco L, Fiano V, Maule M, Cavalot A, Garzaro M, Merletti F and Cortesina G (2007) Association between hypermethylated tumor and paired surgical margins in head and neck squamous cell carcinomas. Clin Cancer Res 13:5089-5094.) could contribute to the monitoring of tumor progression and clinical management in view of both over- and under treatment has an impact on patient morbidity (Shridhar et al., 2016Shridhar K, Walia GK, Aggarwal A, Gulati S, Geetha AV, Prabhakaran D, Dhillon PK and Rajaraman P (2016) DNA methylation markers for oral pre-cancer progression: a critical review. Oral Oncol 53:1-9.). In this study, the multiple regression analysis demonstrated that tumors with sizes considered initial (Tis, T1 and T2), had a greater chance of being DAPK methylated. The detection of early epigenetic events indicative of malignant potential can favor the diagnosis in early stages (0, I and II) and in the discovery of still small lesions (T1 e T2) (D'Souza and Saranath, 2015D'Souza W and Saranath D (2015) Clinical implications of epigenetic regulation in oral cancer. Oral Oncol 51:1061-1068.). As evidenced in this and other studies, it is known that these last two factors are indicative of good prognosis.

The low rate of hypermethylation found for RUNX3 in this study (1.38%) questions its importance in HNSCC genesis and development. RUNX3 is commonly presented as an effector of the transforming growth factor beta (TGF-β) pathway known for its effects of inhibiting growth and promoting apoptosis (Bae and Choi, 2004Bae SC and Choi JK (2004) Tumor suppressor activity of RUNX3. Oncogene 23:4336-4340.). Recently, studies with HNSCC have suggested an oncogenic role of RUNX3. Tsunematsu et al. (2009)Tsunematsu T, Kudo Y, Iizuka S, Ogawa I, Fujita T, Kurihara H, Abiko Y and Takata T (2009) RUNX3 has an oncogenic role in head and neck cancer. PLoS One 4:e5892. and Kudo et al. (2011)Kudo Y, Tsunematsu T and Takata T (2011) Oncogenic role of RUNX3 in head and neck cancer. J Cell Biochem 112:387-393. argue that in healthy oral mucosa this gene would be epigenetically silenced, since its expression would only be required during embryonic development. During carcinogenesis, its oncogenic action would be triggered by the demethylation of its CpG island, favoring cell growth and inhibition of apoptosis. It is possible that this gene has a dual performance in the development of the HNSCC, which could help in understanding the apparent inconsistencies between the results of this research with others in the literature. According to Lebrun (2012)Lebrun JJ (2012) The dual role of TGFβ in human cancer: from tumor suppression to cancer metastasis. ISRN Mol Biol 2012:381428., the TGF-β pathway may exhibit tumor suppressor action in the early stages and promotes invasion and metastasis in later stages. It is worth noting that even in studies in which hypermethylation was detected (Supic et al., 2011Supic G, Kozomara R, Jovic N, Zeljic K and Magic Z (2011) Prognostic significance of tumor-related genes hypermethylation detected in cancer-free surgical margins of oral squamous cell carcinomas. Oral Oncol 47:702-708.; Cordeiro-Silva et al., 2012Cordeiro-Silva MF, Stur E, Agostini LP, Podestá JR, Oliveira JC, Soares MS, Mendonça EF, Gouvea SA, Von Zeidler SV and Louro ID (2012) Promoter hypermethylation in primary squamous cell carcinoma of the oral cavity and oropharynx: a study of a Brazilian cohort. Mol Biol Rep 39:10111-10119.), a relevant portion of the samples (75% and 83%, respectively) did not present hypermethylation, suggesting that RUNX3 may be expressed.

DAPK, MGMT and RUNX3 are TSGs whose hypermethylation has been reported as an important event in HNSCC. In the present study with HPV-negative oral and oropharynx tumors, only DAPK and MGMT showed consistent evidence of their potential as epigenetic markers, with considerable levels of hypermethylation in cancer cells and, for MGMT, prognostic relevance. These results could contribute to improve strategies in early diagnosis and follow-up guided by evaluation of gene methylation patterns. However, it is important to highlight the need of further studies and clinical trials to define, for each subtype of HNSCC tumor, the actual diagnostic and predictive value of DAPK and MGMT as well as its viability and efficacy in clinical management.

Acknowledgments

This work was mainly financed by Fundação de Amparo à Pesquisa do Espírito Santo (FAPES) (053/13). This study was financed in part by the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - Brasil (CAPES) - Finance Code 001. Raquel Silva dos Reis was supported by Conselho Nacional de Desenvolvimento Científico e Tecnológico - CNPq (ref. 134008/2013-8). We are grateful to Head and Neck Surgery Group - Hospital Santa Rita de Cassia and to all the sample donors. We also thank the team from Laboratório Multiusuário de Análises Biomoleculares (LABIOM) (http://labiom.ufes.br/) for their support during DNA analyses.

Conflict of Interest

The authors declare that there is no conflict of interest that could be perceived as prejudicial to the impartiality of the reported research.

Author Contributions

RSR conducted the experiments, analyzed the data and wrote the manuscript, JAS conducted the experiments, PMA conducted the experiments, RSD analyzed the data, EVWS analyzed the data and wrote the manuscript, ES analyzed the data, LPA conducted the experiments, QSA conducted the experiments, LNRA wrote the manuscript, IBV conducted the experiments, MAL conducted the experiments, EDS conceived and the study, JRVP conceived and the study, SVvonZ conceived and the study and analyzed the data, MFC-S conceived and the study, IDL conceived and the study and analyzed the data. All authors read and approved the final version.

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  • Associate Editor: Marcia Margis-Pinheiro

Publication Dates

  • Publication in this collection
    21 Aug 2020
  • Date of issue
    2020

History

  • Received
    10 Oct 2019
  • Accepted
    03 June 2020
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