Open Access

DNA promoter methylation as a diagnostic and therapeutic biomarker in gallbladder cancer

Clinical EpigeneticsThe official journal of the Clinical Epigenetics Society20124:11

https://doi.org/10.1186/1868-7083-4-11

Received: 3 April 2012

Accepted: 8 June 2012

Published: 13 July 2012

Abstract

Gallbladder cancer is an infrequent neoplasia with noticeable geographical variations in its incidence around the world. In Chile, it is the main cause of death owing to cancer in women over 40 years old, with mortality rates up to 16.5 per 100,000 cases. The prognosis is poor with few therapeutic options; in advanced cases there is only a 10% survival at 5 years.

Several studies mention the possible role of DNA methylation in gallbladder carcinogenesis. This epigenetic modification affects tumor suppressor genes involved in regulation pathways, cell cycle control, cell adhesion and extracellular matrix degradation, in a sequential and cumulative way. Determining DNA methylation patterns would allow them to be used as biomarkers for the early detection, diagnosis, prognosis and/or therapeutic selection in gallbladder cancer.

Keywords

Epigenetics Gallbladder cancer Methylation Tumor suppressor gene

Review

Gallbladder cancer

Gallbladder cancer (GBC) is the most frequent malignant tumor of the biliary tract and the fifth most common cancer of the digestive tract. The presenting symptoms are vague, so diagnosis commonly occurs at an advanced stage. This late diagnosis combined with the fact that the gallbladder lacks a serosa result in a rather dismal prognosis [13]. The highest GBC incidence rates have been reported in women from India (21.5 out of 100,000), Chile (18.1 out of 100,000), Pakistan (13.8 out of 100,000) and Ecuador (12.9 out of 100,000). High incidences have also been found in Korea and Japan and some central and eastern European countries such as Poland, the Czech Republic and Slovakia [4]. These facts suggest significant genetic-environmental influences in the development of the disease [5].

Several factors have been associated with the risk of developing GBC. Lithiasis is one of the main risk factors, presenting in 65% to 90% of cases of GBC [2, 3, 6, 7]; the risk is also associated with the number and size of the stones [8]. Likewise, and closely connected with lithiasis, chronic gallbladder inflammation might induce the continuous release of inflammatory mediators and growth factors (tumor promoters), which exert their effect on an epithelium previously damaged by carcinogenic agents [9]. Gallbladder cancer has also been associated with multiple familial polyposis (Gardner syndrome), Peutz-Jeghers syndrome, ‘porcelain’ gallbladder and anomalous pancreatobiliary ductal union [7].

Adenocarcinoma is the most frequent histological type found in GBC. It represents 80% to 95% of all tumors, and the most frequent forms are moderately or poorly differentiated [1, 2]. Two carcinogenic models of GBC sequence are recognized: the metaplasia-dysplasia-carcinoma and the adenoma-carcinoma, which have origins in two different types of epithelial lesion in the gallbladder. The metaplasia-dysplasia-carcinoma sequence, the most significant and frequent type of gallbladder carcinogenesis, is based on alterations to the epithelium of the gallbladder mucosa. The metaplasia frequently appears as an adaptive process secondary to chronic irritation or inflammation. Dysplasia appears on top of this metaplasia, which progresses to carcinoma in situ and subsequently becomes invasive (Figure 1). Severe dysplasia and carcinoma in situ have been found in more than 90% of GBC [1012]. Less frequent is the second pathway (adenoma-carcinoma sequence), which suggests a malignant transformation from an adenomatous lesion [10, 13]. The clinical and experimental evidence supports both models, and genetic-molecular studies show that the two pathways are distinct biological events [10, 12, 14].
Figure 1

Gallbladder cancer progression and its relationship to E- c adherin , CDKN2A ( cyclin-dependent kinase inhibitor 2A p16), REPRIMO (TP53 dependent G2 arrest mediator candidate) and UCHL1 (ubiquitin carboxyl-terminal esterase L1) methylation status . The metaplasia frequently appears as an adaptive process to chronic inflammation generally produced by a gallstone. Dysplasia appears on top of this metaplasia, which progresses to a carcinoma in situ and subsequently becomes invasive. The progression of gallbladder cancer is accompanied by aberrant methylation of multiple genes and global hypomethylation. The first horizontal pyramid represents the decreasing methylation level in specific genes with oncogenic properties (UCHL1) that exhibits a methylated promoter region in normal cells, which can become activated in cancer cells by the loss of its methylation. Therefore, this pyramid shows the loss of global methylation and of this specific gene as the lesion progresses. The second horizontal pyramid represent methylation gain as the lesion progress; many tumor suppressor genes are silenced by DNA methylation during carcinogenesis (E-cadherin CDKN2A REPRIMO). Modified from "Preneoplastic lesions of a gallbladder from morphological and molecular points of view" 2007 [15]. With permission from Nova Science Publishers, Inc.

Gallbladder carcinogenesis has been demonstrated to be a multifactorial process that involves genetic and ambient factors. For innovating early diagnosis, biomarkers and new therapeutic strategies, it is necessary to explore the molecular mechanisms of GBC development and progression, among them, epigenetic modifications.

Epigenetics

Epigenetics is currently understood and defined as the inheritance of gene expression patterns not determined by the nucleotide sequence [16]. Alterations in the established epigenetic patterns generally lead to changes in gene expression, which can cause transcriptional repression [17]. The classic epigenetic modifications include DNA methylation, histone modification (acetylation, methylation, phosphorylation, and so on) and chromatin remodeling. A few years ago, a new epigenetic phenomenon was discovered, RNA interference, that has been shown to be involved in post-transcriptional silencing [18].

The most frequently studied epigenetic mechanism is DNA methylation, involved in the control of various biological processes in prokaryotes and eukaryote cells. In mammalian cells, DNA methylation only takes place at position 5' of the cytosine ring in cytosine-guanine dinucleotides (CpG) through the covalent bond of a methyl group [17, 19]. Non-CpG sequences can also by methylated but with less frequency [20]. Generally, the CpG dinucleotide is poorly represented in the human genome, being approximately 1% of all nucleotide bases. The majority of these dinucleotides are dispersed throughout the genome in retrotransposon sequences and coding and non-coding gene regions. A lower percentage of CpG, little more than 15% of the total, is located in regions called CpG islets [21]. In approximately 60% of human genes, the CpG islets reside in promoters, first exons and 5′ untranslated region (5′UTRs) [22]. In normal cells, most dinucleotides located in repetitive regions of the genome (satellite DNA and endoparasitic elements) outside of CpG islets are methylated [23]. By contrast, the CpG islets are generally not methylated, except those located in the inactive chromosome X, in imprinted genes, specific germ-line genes, and in tissue-specific genes [24]. In normal tissue, methylation of some CpG islets usually increases with age, although the total genomic content of the methylcytosines decreases [25]. These same events are present in tumor cells, but are much more pronounced. The loss of methylation occurs in normally methylated CpG sites (in repetitive and/or endoparasitic sequences) and is known as overall genomic hypomethylation. The second alteration, characterized by an increase of methylation in CpG islets in normally demethylated regulatory regions, is known as aberrant hypermethylation. Many tumor suppressor genes are silenced by DNA methylation during carcinogenesis [26].

Genes that show oncogenic properties, that is, that exhibit a methylated promoter region in normal cells, can become reactivated in cancer cells by the loss of this methylation, resulting in hypomethylation [27]. In general, the chromosomal instability, loss of imprint, reactivation of transposable elements and transcriptional silencing of tumor suppressor genes or oncogene activation are of great benefit to the tumor cell [26].

Methylation studies on the gallbladder

Aberrant methylation in preneoplastic gallbladder lesions

Chronic cholecystitis is an inflammatory disease associated with the presence of gallstones, which predetermines the appearance of the first morphological changes described in the metaplasia-dysplasia-carcinoma cancer sequence. House et al.[28] evaluated the hypermethylated state of six tumor-associated genes in a normal gallbladder, chronic cholecystitis and adenocarcinomas (samples fixed in formalin and embedded in paraffin) in a series of Chilean patients. In patients with chronic cholecystitis, they reported 28% methylation in some of the genes (APC p16 and hMLH1), whereas only one case (5%) presented multigene methylation [28]. Likewise, García et al.[29] determined the gene methylation pattern in preneoplastic and neoplastic gallbladder lesions, finding that DAPK-1 DLC-1 TIMP-3 and RARβ-2 presented a progressive increase in their state of methylation from chronic cholecystitis to advanced carcinomas [29], reporting at the same time an aberrant methylation pattern of the gene for E-cadherin (CDH1) with a progressive increase in the methylation from chronic cholecystitis without metaplasia to advanced carcinoma (53% to 65.2%) [29]. Recently Shin et al.[30] reported that genes TWIST1 HOXA1 SFRP1 PENK GRIN2B CDH13 NEUROG1 TMEFF2 TIMP3 MINT2 CCND2 RASSF1A RUNX3 DLC1 CRABP1 GATA3 MT1G SEZ6L SOCS3 THBS1 and BCL2 were significantly methylated in extrahepatic cholangiocarcinoma (EHC) tissue samples, at higher levels than in cholecystitis and cholangitis tissues. This analysis was able to define a five-gene panel (CCND2 CDH13 GRIN2B RUNX3 and TWIST1) in bile fluid samples capable of detecting EHC at a sensitivity of 83%, which was far higher than that of bile cytology (46%, P < 0.05) [30].

Aberrant methylation in gallbladder cancer

The methylation information available in cancers of the biliary tract is limited compared with other neoplasms. Nevertheless, studies have established that aberrant hypermethylation is an important event in the carcinogenesis of GBC (Table 1) [3138]. Published studies have made it possible to establish that transcriptional gene silencing is due to the methylation state of its promoter regions, a mechanism that is alternative to mutation and allelic deletions. This seems to be an early, progressive and cumulative event in GBC, which increases from chronic cholecystitis without metaplasia to metaplasia. The variation of methylation frequencies in cases of different geographical origin, which suggests population differences, is worthy of note, because similar results have been observed in a study of genetic alterations (mainly mutations) [28]. For example, Takahashi et al.[32] reported in 2004 that, in Chilean patients, SHP1 (80%), 3-OST-2 (72%), CDH13 (44%), P15INK4B (44%), CDH1 (38%), RUNX3 (32%), APC (30%), RIZ1 (26%), P16INK4A (24%) and HPP1 (20%) presented a high percentage of methylation in patients with GBC (Table 1) [32]. For their part, García et al.[29] assessed the methylation state in CDH13 ( 69.6%), DAPK1 (60.9%), FHIT (56.5%) and RAR beta 2 (43.5%), genes which presented a high methylation frequency in advanced GBC in Chilean patients (Table 1). In addition, both of them found that the methylation state of DLC1 was an indicator of poor prognosis, and methylation of MGMT is correlated with better survival [29]. Other authors evaluated the methylation states of APC and FHIT and their relationship to survival, with methylation percentages of 40% and 30%, respectively. No correlation was found between survival and methylation state [39]. Epigenetic inactivation by methylation in chromosome 3p is a frequent event in patients with GBC, particularly affecting the promoter region of the tumor suppressor genes SEMA3B (3p21.3) and FHIT (3p14.2) with 92% and 66% methylation, respectively [40]. RASSF1A inhibits the expression of the RAS oncogene, acting as a tumor suppressor gene through different pathways, including apoptosis, genomic stability and cell cycle regulation [41]. Epigenetic silencing in this gene has been reported in different human tumors, such as in lung, breast, brain, prostate, pancreas and kidney cancers [41]. In the gallbladder, it was found that the methylation in exon 1 of this gene was 36.4% in carcinoma samples, 25.0% in adenoma and 8.0% in normal epithelium [42, 43]. When RASSF1A methylation was correlated with immunohistochemical expression, weak or no staining of the tumor cells was observed. The methylation frequency of this gene in cholangiocarcinoma can reach 65%, which, despite the close anatomical relationship with GBC, has different methylation patterns [44, 45]. We also observed this situation in RUNX3, with 78.3% methylation in carcinoma of the biliary duct compared with 22.2% in GBC [43].
Table 1

Summary of the methylation rate of multiple genes studied in advanced gallbladder cancer

Gene name

Full name

Function

Frequency of methylation % (n)

Origin of specimen

Method

Reference

CDH1

Cadherin 1, type 1, E-cadherin (epithelial)

Tissue invasion (cell-cell adhesion)

11 (1/9)

Japan

MSP

Tozawa et al. 2004 [43]

  

38 (19/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

65 (13/20)

Chile

MSP

Roa et al. 2006 [39]

  

60 (13/20)

Chile

MSP

Roa et al. 2008 [46]

  

65 (15/23)

Chile

MSP

García et al. 2009 [29]

  

41 (9/22)

Japan

Nested MSP

Koga et al. 2005 [47]

FHIT

Fragile histidine triad gene

Regulation of DNA replication and apoptosis

30 (6/20)

Chile

MSP

Roa et al. 2006 [39]

  

66 (33/50)

Chile

MSP

Riquelme et al. 2007 [40]

  

32 (8/25)

Chile

MSP

Roa et al. 2008 [46]

  

57 (13/23)

Chile

MSP

García et al. 2009 [29]

APC

Adenomatous polyposis coli

Cell migration, adhesion and apoptosis

26 (14/54)

Chile, USA

Nested MSP

House et al. 2003 [28]

  

30 (15/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

40 (8/20)

Chile

MSP

Roa et al. 2006 [39]

  

32 (8/25)

Chile

MSP

Roa et al. 2008 [46]

  

35 (8/23)

Chile

MSP

García et al. 2009 [29]

hMLH1

Human homologs of the MutL gene of bacteria

Mismatch repair

13 (7/54)

Chile, USA

Nested MSP

House et al. 2003 [28]

  

0 (0/9)

Japan

MSP

Tozawa et al. 2004 [43]

  

5 (1/20)

Chile

MSP

Roa et al. 2006 [39]

  

4 (2/50)

Chile

MSP

Riquelme et al. 2007 [40]

  

4 (1/25)

Chile

MSP

Roa et al. 2008 [46]

  

17 (4/23)

Chile

MSP

García et al. 2009 [29]

p16

Cyclin-dependent kinase inhibitor 2A

Cell cycle regulation

56 (30/54)

Chile, USA

Nested MSP

House et al. 2003 [28]

  

60 (3/5)

Germany

MSP

Klump et al. 2003 [48]

  

22 (2/9)

Japan

MSP

Tozawa et al. 2004 [43]

  

24 (9/38)

Chile

MSP

Roa et al. 2004 [49]

  

24 (12/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

15 (8/54)

China

MSP

Ueki et al. 2004 [31]

  

20 (4/20)

Chile

MSP

Roa et al. 2006 [39]

  

73 (37/51)

Japan

MSP

Tadokoro et al. 2007 [50]

  

20 (5/25)

Chile

MSP

Roa et al. 2008 [46]

  

26 (6/23)

Chile

MSP

García et al. 2009 [29]

p15

Cyclin-dependent kinase inhibitor 2B

Cell cycle regulation

44 (22/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

22 (5/23)

Chile

MSP

García et al. 2009 [29]

DAPK1

Death-associated protein kinase 1

Serine-threonine kinase

22 (2/9)

Japan

MSP

Tozawa et al. 2004 [43]

  

8 (4/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

61 (14/23)

Chile

MSP

García et al. 2009 [29]

DLC1

Deleted in liver cancer 1

GTPase-activating protein

39 (9/23)

Chile

MSP

García et al. 2009 [29]

RASSF1

RAS association domain family protein 1A

Signal transduction

11 (1/9)

Japan

MSP

Tozawa et al. 2004 [43]

  

0 (0/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

8 (4/50)

Chile

MSP

Riquelme et al. 2007 [40]

  

36 (8/22)

Korea

MSP

Kee et al. 2007 [42]

  

17 (4/23)

Chile

MSP

García et al. 2009 [29]

MGMT

O-6-methylguanine-DNA methyltransferase

Methyltransferase

13 (7/54)

Chile, USA

Nested MSP

House et al. 2003 [28]

  

30 (7/23)

Chile

MSP

Garcia et al. 2009 [29]

CDH13

Cadherin 13, H-cadherin (heart)

Tissue invasion (cell-cell adhesion)

44 (22/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

70 (16/23)

Chile

MSP

García et al. 2009 [29]

TIMP3

Metallopeptidase inhibitor 3

Degradation of the extracellular matrix

0 (0/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

39 (9/23)

Chile

MSP

Garcia et al. 2009 [29]

GSTP1

Glutathione S-transferase pi 1

Conjugation of hydrophobic and electrophilic compounds

13 (3/23)

Chile

MSP

Garcia et al. 2009 [29]

RARβ2

Retinoic acid receptor, beta

Encodes retinoic acid receptor beta (mediates cellular signaling)

4 (2/54)

Chile, USA

Nested MSP

House et al. 2003 [28]

  

14 (7/50)

Chile

MSP

Takahashi et al. 2004 [32]

  

44 (10/23)

Chile

MSP

Garcia et al. 2009 [29]

REPRIMO

TP53 dependent G2 arrest mediator candidate

Cell cycle regulation (p53 mediator)

62 (31/50)

Chile

MSP

Takahashi et al. 2005 [51]

SHP1

Protein tyrosine phosphatase, non-receptor type 6

Regulate cell growth, differentiation, mitotic cycle

80 (40/50)

Chile

MSP

Takahashi et al. 2004 [32]

3-OST-2

Heparan sulfate (glucosamine) 3-O-sulfotransferase 2

Osulfotransferase

72 (36/50)

Chile

MSP

Takahashi et al. 2004 [32]

RUNX3

Runt-related transcription factor 3

TGF-beta signal pathway

22 (2/9)

Japan

MSP

Tozawa et al. 2004 [43]

  

32 (16/50)

Chile

MSP

Takahashi et al. 2004 [32]

RIZ1

PR domain containing 2, with ZNF domain

Histone/protein methyltransferase

26 (13/50)

Chile

MSP

Takahashi et al. 2004 [32]

HPP1

Transmembrane protein with EGF-like and two follistatin-like domains 2

TGF-beta signal pathway

20 (10/50)

Chile

MSP

Takahashi et al. 2004 [32]

P73

Tumor protein p73

Induction of apoptosis and cell cycle regulation

28 (15/54)

Chile, USA

Nested MSP

House et al. 2003 [28]

  

14 (7/50)

Chile

MSP

Takahashi et al. 2004 [32]

SOCS-1

Suppressor of cytokine signaling 1

JAK-STAT pathway

12 (6/50)

Chile

MSP

Takahashi et al. 2004 [32]

DCR2

Tumor necrosis factor receptor superfamily, member 10d

TNF-receptor superfamily

6 (3/50)

Chile

MSP

Takahashi et al. 2004 [32]

SEMA3B

Sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B

Induction of apoptosis

92 (46/50)

Chile

MSP

Riquelme et al. 2007 [40]

DUTT1

Human homolog of Drosophila Roundabout (ROBO1)

Cell migration and metastasis

22 (11/50)

Chile

MSP

Riquelme et al. 2007 [40]

BLU

Zinc finger, MYND-type containing 10

Cell cycle regulation

26 (13/50)

Chile

MSP

Riquelme et al. 2007 [40]

UCHL1

Ubiquitin carboxyl - terminal esterase L1

Peptidase C12 family

27 (6/22)

Korea

MSP

Lee et al. 2006 [52]

p14

Ribonuclease P/MRP 14 kDa subunit

Cell cycle regulation

40 (2/5)

Germany

MSP

Klump et al. 2003 [48]

JAK-STAT: janus kinase-signal transducer and activator of transcription; MSP: methylation specific PCR; TGF: transforming growth factor; TNF: tumor necrosis factor.

Recently it has been reported that PSCA is downregulated in non-neoplastic gallbladder lesions such as cholesterolosis, cholecystolithiasis and cholecystitis (9 out of 17; 53%). However, it was disclosed that the expression was decreased in more than 90% of cancers (40 out of 44) [53]. A DNA methylation assay revealed that the methylation level of the gene enhancer region was comparatively low in the cell lines of GBC with a relatively higher PSCA expression, suggesting that the methylation level of the region is related to the level of PSCA expression [53]. However, in the four GBC samples, no correlation was detected between the PSCA expression level and the DNA methylation level of the PSCA enhancer [53]. In others tumors, such as prostate and pancreatic cancers and gliomas, PSCA was recently reported to be upregulated [54], which suggests that PSCA has a different function dependent on the type of cancer. However, its function in normal and malignant epithelial cells is unknown.

DNA promoter methylation of specific genes

Alterations in DNA methylation patterns are commonly found in all cancers, often with concomitant changes in gene expression. In GBC, molecular information is reduced; however, a high rate of methylation of some genes in GBC has been reported and associated with carcinogenesis of other tissues of the human digestive tract.

CDH1

The E-cadherin gene (CDH1), located on chromosome 16q22.1, is one of the most important tumor suppressor genes [55, 56]. CDH1 encodes for a transmembrane glycoprotein of 120 kDa that intervenes in cell adhesion mediated by calcium. It is a component of the E-cadherin/beta-catenin complex, which is important for cellular polarity, normal tissue morphology and cellular differentiation [56]. It also integrates adherens junctions (originally known as belt desmosomes) that form a continuous belt around the cell to bind the epithelial cells to each other and to maintain the integrity of the stratified epithelium [56]. CDH1 belongs to a family of genes directly related to the processes of tumor invasion and cytoskeleton destabilization. CDH1 expression, it has been reported in less differentiated tumors, that generally have an unfavorable prognosis [57, 58]. The most aggressive carcinomas generally show losses of epithelial cell cohesion, and this is often associated with a reduction in E-cadherin expression [59]. Some mutations of this gene have been detected in gastric, breast and endometrial cancer [60, 61]. The methylation rate of different tumor suppressor genes in cancers of the digestive tract (stomach, colon, pancreas and gallbladder) has been studied, and show a high methylation frequency of CDH1 (77.8%) [46]. CDH1 has been described to be hypermethylated in GBC (Table 1), with frequencies that range from 11.1% to 65.2% [29, 32, 39, 43, 46, 47]. Likewise, the methylation of this gene in advanced stage III and IV of GBC was evaluated, demonstrating approximately 60% methylation [46]. Previously, we reported that reduced expression of E-cadherin in resected gallbladder cancer tissues was significantly correlated with poor prognosis [62]. Loss of E-cadherin expression, followed by expression of the mts1 gene, may be an important event for increasing cell proliferation, motility and invasion activity in the progression of gallbladder cancer [63].

In relation to the degree of tumor differentiation, it was observed that CDH1 presented a high methylation frequency in poorly differentiated tumors and in cases with three or more positive nodes [46]. A significant decrease in CDH1 expression has been recorded as the lesion progresses, which may be due to methylation [39]. As far as patient survival is concerned, this gene does not exhibit significant differences in survival between the methylated and non-methylated cases [29, 39].

Therefore, there is a significant correlation between the methylation of CDH1 and the metastatic phenotype in GBC [32], which has already been described in previous studies on breast cancer [64].

Hypermethylation of CDH1 has been reported in two cell lines of biliary tract cancer (SNU-478 and SNU-1079), with silenced mRNA expression. After treatment with a demethylating agent (5-aza-2′-deoxycytidine), CDH1 was successfully re-expressed [65].

CDKN2A-p16

CDKN2A-p16 is a tumor suppressor gene that encodes the protein p16, which is an inhibitor of cyclin-dependent kinase, involved in cell cycle regulation at Checkpoint G1. The loss of p16 expression is usually connected to homozygote deletion, loss of heterozygosity, mutations and methylation. A lower expression of p16 has been reported to increase the activity of D-type cyclin-dependent kinase activity, which translates into aberrant phosphorylation of the retinoblastoma gene, producing uncontrolled cell proliferation [31, 46]. Loss of heterozygosity and homozygote deletion are two different pathways of p16 inactivation and have been shown to be combined with hypermethylation of the promoter in GBC [50]. In hepatocellular carcinoma and intrahepatic cholangiocarcinoma, p16 is frequently inactivated by methylation of the promoter and rarely by deletion or mutation [31]. Inactivation of p16 through methylation of the promoter region has been frequently identified in breast, prostate, head and neck, liver, lung, brain, colon and esophageal cancers and cell lines of bladder cancer [6669]. This is a tendency that is also observed in GBC with a loss of expression of up to 62.5% [48, 50]. Takahashi et al.[32] reported that a considerable number of genes (8 out of 24 genes) are frequently methylated in GBC in comparison with chronic cholecystitis, varying in methylation frequency between 4% and 80%, with p16 having the lowest rate [32].

In 2006, Roa et al. published the methylation status of five genes in advanced carcinoma of the gallbladder and their correlation with the immunohistochemical expression, demonstrating that CDH1, APC, FHIT and CDKN2A might be important in the carcinogenesis of gallbladder [39]. Hypermethylation of CDKN2A is also one of the main mechanisms that induce the loss of p16 expression [49]. Furthermore, Ueki et al. studied different alterations of p16 in 68 tumors in Chinese patients, finding that only 14.8% presented aberrant hypermethylation [31]. Other investigations have identified a methylation percentage of 72.5% at different stages of progression; nevertheless, a significant relationship to the loss of expression of this protein was not established [50]. When the methylation state of this gene was evaluated in samples from the US and Chile, methylation frequencies of 56% were recorded, with similar methylation patterns in both populations [28].

In the analysis of p16 and p14, it was noted that they presented a high methylation rate (between 40% and 60%) for carcinoma of the biliary duct, GBC and for primary sclerosing cholangitis. In normal tissue and choledocolithiasis, either no or an extremely low methylation rate was observed in the two genes [48].

The absence of alterations in p16 (methylation, mutation, loss of heterozygosity in chromosome 9p) in cases of GBC means a better overall survival rate, and it is thus considered a significant prognostic factor [31]. A similar relationship has been seen in patients with stage IA non-small cell lung cancer, where the hypermethylation of p16 was related to poorer survival [70]. This was not the case for other cancers (for example, of the biliary duct and the ampulla of vater), where the alteration had no influence on the prognosis [31].

Reprimo

This is a candidate tumor suppressor gene regulating p53, which is commonly altered in numerous human cancers. Reprimo is a highly glycosylated protein located in the cytoplasm that induces cell cycle arrest at the G2 phase, inhibiting the activity of Cdc2 and cyclin B1 [71, 72]. The transcriptional repression of Reprimo by methylation was initially confirmed together with other genes in pancreatic cancer [72]. In addition, it was found to be hypermethylated in 16 different types of tumors, with a high percentage in gastric cancer (79%), gallbladder cancer (62%), lymphoma (57%), colorectal cancer (56%), esophageal adenocarcinoma (40%), breast cancer (37%) and leukemia (31%) [51]. As a result, it has been described as a potential biomarker for the early detection of gastric cancer [73].

Hypermethylation of this gene is infrequent in normal tissue; however, methylation percentages of 32% and 27% have been described in the gastric epithelium and colorectal polyps, respectively [51]. A low methylation pattern in close to 4% of cases has been described in chronic cholecystitis samples [51].

UCHL1

UCHL1 (also known as PGP9.5) is the only gene with a potential oncogenic role that has found to be hypomethylated in the promoter region in GBC [52]. Is located on chromosome 4p14 and was identified originally as a member of a gene family whose products hydrolyze small C-terminal adducts of ubiquitin (Ub) to generate the ubiquitin monomer [74]. The product of the gene is a peptide responsible for eliminating Ub from proteins that have it, and to thereby avoid its degradation by the proteasome. Proteins degraded by this mechanism actively participate in cell cycle control, for example, p53 and a variety of cyclins [75]. Ub, a protein consisting of 76 amino acid residues, is present in all eukaryotic cells tested. It plays a role in the degradation of abnormal and short-lived proteins by the ATP- and Ub-dependent proteolytic systems. UCHL1 dysfunction in neurons is known to be involved in familial Parkinson’s disease [76]. In vivo analysis of UCHL1-deficient mice suggested that it functions as a regulator of apoptosis in neurons [77] and also in germinal cells during spermatogenesis [78].

The accumulation of Ub has been documented in several types of primary cancers [75]. During the past few years, several works have reported the link between UCHL1 expression and tumor progression, and that it may be useful as a potential marker of several human cancers, such as non-small cell lung cancer [79, 80], invasive colorectal cancer [81], pancreatic cancer [82], squamous cell esophageal carcinoma [83] and neuroblastoma [84]. In GBC, a progressive decrease in the methylation of this gene has been observed, with 84.6% in normal epithelium, 37.5% in adenoma and 27.2% in carcinoma. These results suggest that hypomethylation of the PGP9.5 promoter is a reliable marker in GBC and that DNA hypomethylation might play a significant role in the re-expression of the gene in GBC [52]. In addition, hypomethylation of UCHL1 had previously been found in its promoter region in colorectal cancer, and lymph node metastasis was significantly associated with a lower frequency of methylation [85], poorer survival and a high incidence of recurrence [86].

Discussion

DNA methylation is the epigenetic alteration most studied in the cancer cell. The number of genes with aberrant methylation in the human cancer cell is not known, but it is estimated that around 1% (or 250 genes) of the human genome can be aberrantly methylated in a tumor cell [87]. The use of methylation in the search for new biomarkers in GBC is a promising alternative since this epigenetic modification is an early, progressive and cumulative event in GBC. The methylation frequency of promoter regions of some important tumor suppressor genes, such as p16 CDH1 REPRIMO DAPK-1 and SEMA3B, is high in GBC [29, 40, 48, 50, 51, 88], and has also been well documented in other cancers.

The tumor suppressor gene p16 is frequently inactivated in a wide variety of human cancers by at least three distinct mechanisms: point mutation, small deletions of both p16 alleles, and methylation of CpG islands [89]. Other studies have found methylation of the p16 promoter in two of eight (25%) cholangiocarcinomas, and four of seven (57%) tumors analyzed by immunohistochemistry, demonstrated an absence of p16 nuclear staining in primary sclerosing cholangitis-associated cholangiocarcinoma [89]. Also, a high frequency of methylation (36 out of 72; 50%) has been reported in cases of intrahepatic and extrahepatic cholangiocarcinoma [45]. The expression of E-cadherin frequently diminishes as the tumor progresses, and abnormalities of E-cadherin expression have been associated with decreased apoptosis in GBC [88] and genomic instability during the process of neoplastic transformation [90]. In cholangiocarcinoma, mutations of CDH1 are rare events [91]. Downregulation of E-cadherin expression is more commonly mediated through DNA methylation, with frequencies between 40% and 48% [45, 92, 93], while in GBC the frequency is between 11% and 65% [29, 43]. This variation could be directly related to ethnic differences. Tadokoro et al.[50] found a frequency of 73% of methylation in p16 in samples from Japan, and Takahashi et al.[32] a frequency of 24% in samples from Chile. The age of the patients could also introduce variations in results. Methylation of RUNX3 was more frequent in elderly patients [43]; environmental factors such as tobacco smoking [94] and Helicobacter pylori infection [95] can accelerate DNA methylation. E-cadherin methylation is an early event in gastric carcinogenesis, and is initiated by H. pylori infection [95]. Another possible reason for the variation could be differences in the methodology of study (MSP). House et al.[28] and Koga et al.[47] utilized a two-step MSP method, using nested PCR to increase the sensitivity of detecting allelic hypermethylation of targeted sequences and to facilitate the examination of multiple gene loci, and so the sensitivity in their studies tended to be higher than other studies that used single-step MSP [28]. All researchers used MSP technique for detection of DNA methylation, except Ono et al.[53], who used bisulfite-pyrosequencing in GBC cell lines.

MSP in its classical format is non-quantitative and cannot distinguish between low and high levels of a methylated target sequence. By contrast, combining real-time PCR probes with MSP, as in MethyLight assay, can achieve a quantitative assessment of the level of DNA methylation of a targeted sequence [96]. The effects of bisulfite treatment on DNA are difficult to control and often result in significant DNA degradation of up to 85% to 95% of target sequences [96], which would require the use of more sensitive techniques in the detection of potential biomarkers in clinical practice.

UCHL1 is a controversial molecule from an oncologic point of view. Hypomethylation of its promoter has been identified in a subset of human cancers, including GBC, presumably due to its intrinsic oncogenic properties or as a result of transformation. However, UCHL1 has been reported to be repressed by methylation in other cancers, such as primary head and neck squamous cell carcinoma [97] and colorectal, ovarian [98] and pancreatic cancers [72]. Particularly, overexpression of UCHL1 has been found in pancreatic cancers [82] and it is associated with a poor prognosis, so the functional consequences of UCHL1 have yet to be determined.

Conclusions

Chile is considered a very high-risk area for GBC, and its mortality rate reached 16.5 out 100,000 women in 2007 [99]. It is important to mention the paucity of examinations that enable the diagnosis of this neoplasia in the early stages, with vesicular lithiasis being the most serious risk factor in the metaplasia-dysplasia-carcinoma sequence. In the event of symptoms of acute cholecystitis, the main imaging finding that justifies the indication of elective or emergency cholecystectomy is lithiasis. In many cases, the cancer diagnosis is made based on findings in the anatomopathological examination of the surgical specimen. This explains the current health care policies in force in Chile since 2006, where elective cholecystectomy tends to be performed within guaranteed timeframes in women between 35 and 49 years of age who suffer from lithiasis, in an attempt to reduce the incidence of GBC or to increase the number of cases diagnosed at an early stage. This suggests the need to look for new methodologies that can assess the risk of progression to cancer in patients with preneoplastic lesions and/or clinical-morphological risk factors already known for GBC (such as female, obesity, ethnic group, cholecystolithiasis, gallstone volume, anomalous pancreaticobiliary junction, among others) [3].

Therefore, the study of gene methylation has at least five potential clinical applications: reactivating genes inactivated by methylation using demethylating drugs; identifying tumor cells in biological samples, allowing an early diagnosis since the change in methylation frequently precedes the appearance of advanced tumors; determining the methylation of individual genes or methylation profiles for groups of specific genes; being used as response markers to chemo- or hormone therapy; and allowing the transition between neoplastic and normal tissue to be determined in the surgical section margins according to the gene methylation profile [96, 100, 101]. Each of these, either separately or together, takes on special relevance in GBC, because they represent a problem that has scarcely been resolved in the three high-priority areas of oncology research: prevention, early diagnosis, and treatment.

Finally, the reversible nature of the epigenetic changes that occur in cancer must be mentioned as these have made epigenetic therapy possible as a treatment option. This therapy is based on reversing the epigenetic modifications that occur in tumor cells and re-establishing a normal epigenome. The possibility of reversing DNA methylation and reactivating the affected genes is an attractive option for a new therapeutic target in the treatment of cancer or preneoplastic lesions. However, the main problem with demethylating drugs is their poor specificity and they therefore cannot be used in the treatment of previously selected genes [102]. Nevertheless, satisfactory results have been reported regarding the use of epigenetic therapy in patients with myelodysplastic syndrome, approved by the Food and Drug Administration in 2004. This therefore opens a new therapeutic approach in the field of oncology that must be evaluated with multicentric clinical trials.

Declarations

Acknowledgments

PL, PB, OT and JR were supported by CORFO, Proyecto Creación del centro de excelencia en estudios genéticos e inmunológicos (CEGIN) 09CN14-5960, Scientific and Technological Bioresource Nucleus (BIOREN); PL is the recipient of grants from the Comisión Nacional de Investigación Científica y Tecnológica (CONICYT) 21090324, 24110125 and 29110082; PB is the recipient of grants from the Fondo Nacional de Desarrollo Científico y Tecnológico (FONDECYT) Proyecto Postdoctorado 3120141 and Fondo de Fomento al Desarrollo Científico y Tecnológico (FONDEF) VIU110036. OT is supported by FONDECYT 11110239; JR is supported by FONDECYT 1090171.

Authors’ Affiliations

(1)
Universidad de La Frontera, School of Medicine, Department of Pathology, Molecular Pathology Laboratory, BIOREN-CEGIN
(2)
Pontificia Universidad Católica de Chile, School of Medicine, Department of Pathology
(3)
Department of Pathology, Hospital Hernán Henríquez Aravena
(4)
Department of Pathology, School of Medicine, Universidad de La Frontera

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