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Endocrinology Vol. 148, No. 3 948-953
Copyright © 2007 by The Endocrine Society

Gene Methylation in Thyroid Tumorigenesis

Mingzhao Xing

Division of Endocrinology and Metabolism, The Johns Hopkins University School of Medicine, Baltimore, Maryland 21287

Address all correspondence and requests for reprints to: Michael Mingzhao Xing, M.D., Ph.D., Division of Endocrinology and Metabolism, The Johns Hopkins University School of Medicine, 1830 East Monument Street, Suite 333, Baltimore, Maryland 21287. E-mail: mxing1{at}jhmi.edu.


    Abstract
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
Aberrant gene methylation plays an important role in human tumorigenesis, including thyroid tumorigenesis. Many tumor suppressor genes are aberrantly methylated in thyroid cancer, and some even in benign thyroid tumors, suggesting a role of this epigenetic event in early thyroid tumorigenesis. Methylation of some of these genes tends to occur in certain types of thyroid cancer and is related to specific signaling pathways. For example, methylation of PTEN and RASSF1A genes occurs mostly in follicular thyroid cancer, and its tumorigenic role may be related to the phosphatidylinositol 3-kinase/Akt signaling pathway, whereas methylation of genes for tissue inhibitor of metalloproteinase-3, SLC5A8, and death-associated protein kinase occurs in papillary thyroid cancer and is related to the BRAF/MAPK kinase/MAPK pathway. Methylation of thyroid-specific genes, such as those for sodium/iodide symporter and thyroid-stimulating hormone receptor, is also common in thyroid cancer. Although its tumorigenic role is not clear, methylation, and hence silencing, of these thyroid-specific genes is a cause for the failure of clinical radioiodine treatment of thyroid cancer. Unlike gene methylation, histone modifications have been relatively poorly investigated in thyroid tumors. Future studies need to emphasize the mechanistic aspects of these two types of epigenetic alterations to uncover new molecular mechanisms in thyroid tumorigenesis and to provide novel therapeutic targets for thyroid cancer.


    Introduction
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
EPIGENETIC ALTERATIONS, changes around a gene that alter gene expression without affecting the nucleotide sequence of the gene, play a fundamental role in the regulation of human gene expression. Two epigenetic mechanisms are commonly used by cells to regulate gene expression: DNA methylation and histone modifications (1, 2). DNA methylation is an epigenetic event in which a methyl group is added to the fifth carbon position of the cytosine residue in a CpG dinucleotide. The regions rich in CpG dinucleotides are termed CpG islands and are usually located in the 5'-flanking promoter areas of genes. Gene promoter methylation, particularly near the transcription start site, occurs in close association with chromatin remodeling and is usually associated with silencing of the gene (1, 2). This methylation-induced gene silencing occurs through recruitment of DNA methyl-binding transcription repressors or through blockage of DNA binding of transcriptional factors.


    Overview of Epigenetic Regulation of Genes
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
DNA methylation is an important physiological mechanism in the regulation of gene expression, particularly during embryogenesis, and is normally present in genes on the inactive X chromosome and imprinted genes. In contrast, normally expressed genes, such as the housekeeping genes, are protected from methylation in normal cells. This protection is critical because methylation of CpG islands in the promoter is associated with loss of gene expression. Aberrant gene methylation occurs frequently in pathological conditions, particularly in cancers, leading to inappropriate silencing of genes. Such methylation in human cancers has been frequently found in tumor suppressor genes that are silenced and plays a fundamental role in human tumorigenesis. In fact, like genetic alterations, gene methylation has long been known to be a hallmark of human cancer (3, 4).

Histone modification, including acetylation and methylation, is another important epigenetic event in gene regulation. There is an intricate interplay between DNA methylation and histone modification in gene regulation during chromatin remodeling (5, 6). In eukaryotes, genetic DNA is organized into chromatin. The basic structural unit of chromatin, the nucleosome, consists of a DNA fragment (about 146 bp) wrapped around a complex of histone octamer comprised of pairs of the core histones H2A, H2B, H3, and H4. The dynamics of acetylation-deacetylation of the N termini of histone is balanced by histone acetyltransferase and histone deacetylase (HDAC). Acetylation occurs to the lysine residues, and histone deacetylation frees these positively charged residues, which facilitates the binding of histone to the negatively charged DNA and tightly compacts the chromatin. This prevents the access of transcription machinery to gene promoter and represses expression of the gene (7, 8). It has been well known that DNA methyltransferases interact with HDAC (5), and HDACs are recruited by methyl-CpG-binding proteins (9, 10, 11). Therefore, DNA methylation and histone modifications are two closely associated epigenetic events that occur in a coordinated manner in the regulation of gene expression. Not surprisingly, aberrant epigenetic alterations lead to disrupted regulation of important genes and play a critical role in the tumorigenesis of human cancers, including thyroid cancer.


    Aberrant Methylation of Tumor Suppressor Genes in Thyroid Tumors
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
Follicular epithelial cell-derived thyroid cancer can be classified histologically into papillary thyroid cancer (PTC), follicular thyroid cancer (FTC), and anaplastic thyroid cancer (ATC), which account for about 80, 15, and 2–5% of all thyroid malignancies, respectively (12). Follicular epithelial cell-derived benign thyroid neoplasms (BTN), including adenoma and hyperplasia, are more common than thyroid cancer. As in other human tumors, aberrant methylation, and hence inappropriate silencing, of tumor suppressor genes are common in thyroid tumors. Examples of these genes include PTEN (13), RASSF1A (14, 15), tissue inhibitor of metalloproteinase-3 (TIMP3), SLC5A8, death-associated protein kinase (DAPK), and retinoic acid receptor ß2 (RARß2) (16, 17). These tumor suppressor genes have well-established, tumor-suppressing function through various mechanisms. It is therefore conceivable that silencing of these genes through methylation has serious consequences and plays an important role in thyroid tumorigenesis.

Aberrant methylation of some tumor suppressor genes are seen in both thyroid cancer and BTN, albeit usually more common and extensive in the former, suggesting its role early in thyroid tumorigenesis. PTEN and RASSF1A genes represent two such examples. PTEN gene encodes a phosphatase that dephosphorylates phosphatidylinositol-3,4,5-trisphosphate and hence terminates the signaling of the phosphatidylinositol 3-kinase (PI3K)/Akt pathway (18). Germline inactivating mutations and deletions of this gene are the cause of Cowden’s syndrome, which is associated with development of BTN and FTC. This gene was recently found to be aberrantly methylated in both BTN and thyroid cancer, including PTC and FTC (13). Similarly, the RASSF1A gene, which encodes a signaling protein that may function through a pathway involving Ras, is methylated in many human tumors (19) as well as BTN and thyroid cancers, including PTC, FTC, and ATC (14, 15). Interestingly, these studies showed that, among different thyroid tumors, methylation of RASSF1A and PTEN occurred most frequently and extensively in FTC, suggesting a unique and specific role of silencing of the two genes in this cancer. Aberrant signaling of the PI3K/Akt pathway plays an important role in the tumorigenesis of thyroid cancer, particularly FTC (20, 21). Because RASSF1A signaling may involve Ras and the latter is a component of the PI3K/Akt pathway, it remains an interesting question as to whether methylation-mediated silencing of RASSF1A contributes to thyroid tumorigenesis through alteration of the PI3K/Akt pathway. Although aberrant methylation of RASSF1A occurred frequently in both BTN and FTC, a level of more than 50% of allelic methylation was seen only in the latter but not in the former, suggesting that methylation, and therefore silencing, of both RASSF1A alleles may be required for the pathogenesis and development of FTC (15). It remains to be explored whether this is a critical epigenetic event that can convert BTN to FTC. Interestingly, Ras mutations are also common in BTN and FTC, more so in the latter (22). These genetic and epigenetic data are consistent with the conventional belief that FTC can derive from BTN.

Based on recent evidence in other human cancers that epigenetic alterations may addict the tumor cell to altered signaling pathways early in tumorigenesis, it is proposed that dependence of cell proliferation and survival on these signaling pathways may lead to acquirement of genetic alterations in the same pathway, conferring the cell with selective advantages for tumor progression (23). It remains to be investigated whether this is the case with the relationship of RASSF1A methylation and Ras mutations in early thyroid tumorigenesis. A small fraction of PTC also harbored RASSF1A methylation involving both alleles and in a mutually exclusive manner with BRAF mutation, suggesting that loss of RASSF1A expression in some PTC, as in FTC, is an important event in tumorigenesis independently of BRAF/MAPK kinase (MEK)/MAPK pathway (15).

Methylation of several tumor suppressor genes may play an important role also in PTC tumorigenesis, including TIMP3, SLC5A8, and DAPK, because it is associated with poor pathological characteristics of PTC (17). TIMP3 is a tissue inhibitor of metalloproteinase, which has been demonstrated to inhibit growth, angiogenesis, invasion, and metastasis of several cancers (24, 25). This gene was found to be hypermethylated in many human cancers (26, 27, 28, 29), including thyroid cancer (16, 17). A close association of TIMP3 methylation with extrathyroidal invasion, lymph node metastasis, and multifocality of the tumor was observed in our recent study on a large series of PTC (17). This is consistent with the loss of the function of TIMP3 as an inhibitor of metalloproteinase, which promotes cancer spread by degrading interstitial matrix substance, and as an antagonist of angiogenesis by blocking vascular endothelial growth factor (VEGF) binding to VEGF receptor-2 (25). SLC5A8 is a member of the sodium solute symporter family (SLC5) and is widely expressed in human tissues, including thyroid tissue (30, 31, 32). Its tumor suppressor function, through proapoptosis, has been well documented and its gene is frequently methylated in human cancers (33, 34, 35, 36), including thyroid cancer (32, 17). Methylation of this gene was shown to be associated with extrathyroidal invasion, multifocality, and advanced tumor stages of PTC (17), strongly supporting a role of silencing of this gene in the progression of PTC. DAPK is a calcium/calmodulin-dependent serine threonine kinase that plays a tumor suppressing role through its proapoptotic function (37). This gene is frequently hypermethylated and silenced in human cancers (37), including thyroid cancer (16, 17). Methylation of this gene was associated with multifocality of PTC (17). In thyroid tumor cell lines, methylation of these tumor suppressor genes was shown to be associated with gene silencing, which could be reversed by treatment of cells with demethylating agents (17). Although further mechanistic studies are needed, demonstration of association of methylation of these tumor suppressor genes with aggressiveness of PTC provides strong evidence supporting an important role of methylation-induced silencing of these genes in PTC tumorigenesis.


    Association of BRAF Mutation with Aberrant Methylation of Tumor Suppressor Genes in Papillary Thyroid Cancer
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
The T1799A BRAF mutation occurs commonly in PTC (38). This mutation causes a V600E amino acid change in the BRAF kinase, with constitutive activation of the kinase. The BRAF mutation was able to initiate the development of PTC with aggressive behaviors in transgenic mice (39). Several clinicopathological studies also suggested an important role of the BRAF mutation in the progression of PTC by showing the correlation of this mutation with aggressive clinicopathological characteristics and recurrence of this cancer (40, 41, 42, 43, 44). The molecular mechanism involved in tumor aggressiveness of PTC harboring the BRAF mutation is not clear, however. The recent demonstration of association of BRAF mutation with aberrant methylation of several tumor suppressor genes in PTC seems to shed light on this issue. These include TIMP3, SLC5A8, DAPK, and RARß2 genes (17). Because methylation of these genes was also associated with aggressive pathological characteristics of PTC, it is conceivable that silencing of these genes is an important mechanism mediating BRAF mutation-promoted progression of PTC. Interestingly, BRAF mutation was recently shown to be associated with overexpression of VEGF (45). In addition to being a metalloproteinase inhibitor, TIMP3 is also a VEGF receptor antagonist (25). Therefore, the dual effects of mutant BRAF on methylation-induced TIMP3 silencing and VEGF overexpression may be a particularly effective mechanism for BRAF mutation-promoted PTC progression and aggressiveness, particularly in the form of extrathyroidal invasion, metastasis, and recurrence of this cancer.

Methylation of TIMP3, SLC5A8, DAPK, and RARß2 in association with BRAF mutation seemed to be selective in PTC because methylation of many other tumor suppressor genes was found to be uncommon in this cancer (17). Methylation occurred concurrently in these genes and was associated with BRAF mutation both individually and in various combinations of these genes (17). In colorectal cancer and other cancer cells, it is often observed that specific groups of CpG islands are hypermethylated with gene silencing, leading to the proposal that these cells acquired a hypermethylator phenotype (46). The types or subtypes of cancer with this gene methylation patterns are thought to be distinct and are defined as CpG island methylator phenotype (CIMP). A recent study (47) demonstrated that this CIMP is tightly associated with BRAF mutation in colorectal cancers. It would thus be interesting to use the CIMP concept to consider the subset of PTC that uniquely harbors BRAF mutation-associated cluster methylation of tumor suppressor genes. This seems to be a meaningful consideration, particularly given the common association of methylation-induced silencing of these genes with increased cancer invasion and aggressiveness that seems to define a subgroup of PTC as a unique hypermethylator phenotype. Two fundamental questions remain unanswered as to whether BRAF mutation occurs first or cluster methylation of these genes occurs first and whether there is a causal relationship between these genetic and epigenetic alterations in PTC. If BRAF mutation is the initiator of methylation of these genes, it remains to be investigated whether molecular alterations occur at the DNA methyltransferase level or at the chromatin microenvironmental level around the gene promoter that, as a consequence of aberrant BRAF/MEK/MAPK signaling, lead to hypermethylation of these genes. It also remains an interesting question why these genes are selective in methylation in association with the BRAF/MEK/MAPK pathway in PTC.


    Aberrant Methylation of Thyroid-Specific Genes in Thyroid Cancer
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
A unique physiological function of thyroid gland is its ability to uptake, concentrate, and use iodide to synthesize thyroid hormones to meet the normal metabolism of the body. This process involves several key protein molecules that are specifically expressed in follicular epithelial cells of the thyroid gland (48). Iodide is transported from the blood into thyroid cell through the sodium/iodide symporter (NIS) in the basal membrane, followed by transportation presumably through pendrin (also called SLC26A4) in the apical membrane of the cell into the follicular lumen in which, through thyroid peroxidase, iodide is oxidized and organified into thyroglobulin (Tg) on tyrosine residues for the formation of thyroid hormones. The entire process is coordinated by hormonal regulation, in which TSH, acting by binding to the TSH receptor (TSHR), plays a central role. Expression of these thyroidal iodide-metabolizing molecules is frequently lost in thyroid cancer (e.g. Refs. 49, 50, 51, 52) and aberrant localization or dysfunction of NIS may also occur, resulting in loss of the ability of cancer cells to concentrate radioiodine. Consequently, these thyroid cancer patients may fail radioiodine therapy, the mainstay of medical treatment for this cancer. This is a major cause of thyroid cancer-related morbidity and mortality (53, 54).

Although the molecular mechanism underlying silencing of thyroid-specific genes in thyroid cancer is unclear, aberrant gene methylation is conceivably an important mechanism. Many of these thyroid-specific genes are methylated in the promoter areas in thyroid tumors, including NIS (50, 55), TSHR (56), the genes for the putative thyroid follicular cell apical iodide transporters SLC26A4 (57) and SLC5A8 gene (17, 32). Methylation of thyroid-specific genes was also found in thyroid cell lines. For example, aberrant methylation and associated silencing of NIS gene was demonstrated in human thyroid tumor cell lines, which could be reversed by treatment of cells with demethylating agents (50). We reported similar findings for TSHR gene in human thyroid tumor cell lines (56). In rat thyroid cells, Tg promoter became methylated on transformation of the cell (58). Also in rat thyroid cells, TSHR promoter methylation was shown to block the binding of a transcription factor GA-binding protein with TSHR promoter with consequent silencing of the gene (59). Interestingly, several thyroid-specific genes were shown to be silenced on activation of the BRAF/MEK/MAPK pathway with induced expression of BRAF V600E in rat and human thyroid cell lines (43, 60). Suppression of MAPK pathway could restore the expression of these genes and, at least in the case of TSHR gene, demethylation of the gene associated with its expression occurred with suppression of the BRAF/MEK/MAPK pathway (60). The SLC5A8 tumor suppressor gene is also a putative iodide transporter in the apical membrane of follicular thyroid cells (30, 31). Methylation and silencing of this gene was closely associated with BRAF mutation in PTC (17, 32). Therefore, aberrant methylation and hence silencing of thyroid-specific genes are common in thyroid cancer. An important question remains unanswered as to whether silencing of these thyroid-specific genes, which are not classical tumor suppressor genes, plays some primary role in driving thyroid tumorigenesis or is simply a secondary event of aberrant activation of other signaling pathways, such as the BRAF/MEK/MAPK pathway in PTC. Silencing of thyroid-specific genes often occurs with progression and dedifferentiation of thyroid cancer. In this sense, methylation, and hence silencing, of these genes might be a driving force for thyroid cancer pathogenesis and progression, albeit through an undefined mechanism. Regardless of its biological mechanism and relevance in thyroid tumorigenesis, methylation-mediated silencing of thyroid-specific genes is clearly clinically relevant because it is a cause of the loss of radioiodine avidity and hence radioiodine treatment failure and consequent progression of thyroid cancer.


    Histone Modification of Genes in Thyroid Tumorigenesis
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
Unlike gene methylation, fewer in-depth studies have been conducted to investigate the role of histone modifications in thyroid tumorigenesis. A previous study demonstrated that HDAC inhibitors could promote apoptosis and cell cycle arrest in ATC cell lines (61). This probably involved increased P53 transcriptional activity (62, 63). Other mechanisms may include the modulation of cell cycle-related molecules, such as the p27 protein (64). Several studies showed that histone modifications, particularly acetylation/deacetylation, also played a role in the regulation of thyroid-specific genes in thyroid tumorigenesis. For example, a previous study tested the effect of the HDAC inhibitor depsipeptide on expression of NIS and Tg and showed reexpression of these genes with increased iodine uptake and histone acetylation in poorly differentiated thyroid cancer cell lines (65). Similar results of other HDAC inhibitors on iodine uptake were reported in poorly differentiated and ATC cell lines with reexpression of NIS, thyroid peroxidase, and Tg (66). A recent study demonstrated that inhibitors of HDAC could increase NIS expression in thyroid tumor cell lines with increased promoter activity of NIS through promoter acetylation in a transcription factor-independent manner (67). Although mechanistic data are lacking, the results from these studies do suggest the involvement and importance of histone modifications in gene regulation in thyroid tumorigenesis, a research area that needs to be further explored.


    Conclusions
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 
As in other human cancers, aberrant gene methylation plays an important role in thyroid tumorigenesis. The genes known to be aberrantly methylated in thyroid tumors include both tumor suppressor genes and thyroid-specific genes. Methylation of some of the tumor suppressor genes may play its tumorigenic role in association with aberration of well-known signaling pathways such as the PI3K/Akt pathway in FTC and the BRAF/MEK/MAPK pathway in PTC. Whether aberrant methylation-induced silencing of thyroid-specific genes plays a primary role in thyroid tumorigenesis is not clear, but it is an important cause of radioiodine treatment failure and hence clinical progression of thyroid cancer. Data on histone modifications in thyroid tumorigenesis are relatively limited. Future studies should emphasize mechanistic exploration on these epigenetic alterations to uncover new molecular mechanisms in thyroid tumorigenesis that may provide novel therapeutic targets for thyroid cancer.


    Footnotes
 
This work was supported by an American Cancer Society Research Scholar Grant (RSG-05-199-01-CCE) and a Flight Attendant Medical Research Institute Clinical Innovator Award (to M.M.X.).

Disclosure Summary: The author has nothing to declare.

First Published Online August 31, 2006

Abbreviations: ATC, Anaplastic thyroid cancer; BTN, benign thyroid neoplasm; CIMP, CpG island methylator phenotype; DAPK, death-associated protein kinase; FTC, follicular thyroid cancer; HDAC, histone deacetylase; MEK, MAPK kinase; NIS, sodium/iodide symporter; PI3K, phosphatidylinositol 3-kinase; PTC, papillary thyroid cancer; RARß2, retinoic acid receptor ß2; Tg, thyroglobulin; TIMP3, tissue inhibitor of metalloproteinase-3; TSHR, TSH receptor; VEGF, vascular endothelial growth factor.

Received July 20, 2006.

Accepted for publication August 24, 2006.


    References
 Top
 Abstract
 Introduction
 Overview of Epigenetic...
 Aberrant Methylation of Tumor...
 Association of BRAF Mutation...
 Aberrant Methylation of Thyroid...
 Histone Modification of Genes...
 Conclusions
 References
 

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