Abstract
Breast tumors expressing estrogen receptor alpha (ER) respond well to therapeutic strategies using SERMs (selective estrogen receptor modulators) such as tamoxifen. However, about thirty percent of invasive breast cancers are hormone independent because they lack ER expression due to hypermethylation of ER promoter. Treatment of ER–negative breast cancer cells with demethylating agents and histone deacetylase inhibitors leads to expression of ER mRNA and functional protein. Additionally, growth factor signaling pathways have also been implicated in ER silencing in ER-negative tumor phenotype. Recently, important role of components of ubiquitin-proteasome pathway has been shown in mediating downregulation of ER. In this article, we will review various mechanisms underlying the silencing of ER in ER negative tumor phenotype and discuss diverse strategies to combat it. Ongoing studies may provide the mechanistic insight to design therapeutic strategies directed towards epigenetic and non-epigenetic mechanisms in the prevention or treatment of ER-negative breast cancer.
Keywords: Breast cancer, Estrogen receptor, Endocrine therapy, Epigenetics, Coregulators
Introduction and Background
Breast cancer is one of the leading cause of cancer and the second leading cause of cancer related mortality in women in the United States. According to the American Cancer Society's most recent estimates for breast cancer in the United States, about 207,090 new cases of invasive breast cancer and about 54,010 new cases of carcinoma in situ (CIS) will be diagnosed in 2010. The lifetime risk of developing invasive breast cancer for a women living in the USA today is approximately a little less than 1 in 8 (12%). Mortality related to breast cancer has been declining since 1990 but still remains at a staggering high level with approximately 1 in 35 (3%) women dying of breast cancer. About 39,840 women will die from breast cancer in 2010.
Breast cancer is a heterogeneous disease consisting of multiple molecular subtypes. Molecular profiling of these subtypes has put forth many prognostic markers that can be used to guide clinical practice for personalized therapy. Despite all the genomic advances, only a few predictive markers are routinely used in the clinic. The presence of estrogen receptor (ER), progesterone receptor (PR) and overexpression of human epidermal growth factor receptor -2/Her-2 play an important role during therapeutic intervention as well as predicting response to therapy. Hormone receptor positive tumors typically present a better prognosis because of their ability to respond to endocrine interventions. Approximately 15– 20% breast tumors exhibit Her2 gene amplification leading to Her2 protein overexpression. Her2 positive tumors are typically associated with a higher rate of relapse and mortality but respond to trastuzumab which significanly improves disease free survival and overall survival (1–4). Tumors lacking ER, PR and Her2 overexpression present yet another biologically and genetically diverse group called triple negative (TN) breast cancer. TN tumors tend to have a poor prognosis partly because of their aggressive phenotype and also because of lack of any targeted therapy unlike their hormone receptor positive and Her2 positive counterparts. Extensive gene expression profiling h a s l e d t o further molecular classification of breast cancer subtypes. The basal like breast cancer shows five distinct gene signatures. Luminal A and luminal B are ER positive while Her2 enriched, basal-like and normal-like are ER negative subtypes (5–7). These subtypes have been used to predict clinical outcomes like relapse free survival and overall survival. Luminal A subtype show a better clinical prognosis than basal-like and Her2 positive, both of which are associated with poorer prognosis (5). Basal-like breast cancer more often occurs in younger, premenopausal women and affects women of African American ethnicity at a disproportionately higher level (8, 9).
While the quest for novel therapeutic options for all molecular subtypes of breast cancer is ongoing, endocrine therapies, first used more than 100 years ago, are the most effective treatment for ER positive tumors. All endocrine therapies are designed to block ER function; selective ER modulators such as tamoxifen bind ER to partially block its transactivation function while selective ER downregulators such as fulvestrant bind ER to completely block its function and inducing degradation. In addition, ovarian ablation, luteinizing hormone-releasing hormone agonists and aromatase inhibitors diminish the levels of estrogen hence inhibiting ligand-dependent ER activation. These endocrine approaches are not only effective in early stage disease; they also benefit advanced metastatic disease. Despite great benefits in a considerable proportion of patients, de novo and acquired resistance remain major problems. Understanding ER biology provides new insight into the molecular mechanisms underlying the development of de novo and acquired resistance as well as new clinically relevant strategies to combat it.
In this article we will review the emerging studies of ER function and epigenetic silencing that reveal the roles of a wide spectrum of chromatin modulators, methyl binding proteins and corepressor complexes as well as components of growth factor signaling. An understanding of the molecular factors that modulate ER can be used for its reactivation and therapeutic targeting using various strategies.
Estrogen Receptor Function: Molecular Mechanism
There are two ERs, ERα and ERβ, encoded by independent genes (10, 11). Both ERα and ERβ belong to a nuclear hormone receptor (NR) superfamily and share similar although not identical modular structures characteristics of the NR superfamily including six functional domains (Figure 1) (12). DNA binding domain (DBD) is the most conserved domain with 97% homology followed by the ligand binding domain (LBD). LBD also contains a dimerization surface and a ligand-dependent activation function-2 (AF-2). Agonist bound receptor adopts a conformation in which alpha helices (3, 5, 12) in the ligand binding domain form a hydrophobic cleft (AF-2) providing a binding surface for NR boxes (LXXLL motifs) in coactivators. Antagonists, like tamoxifen have a bulky side chain that sterically modulates the conformation of the hydrophobic cleft (AF-2) with helix 12 binding to the AF-2 cleft with its own intrinsic NR box, occluding the binding of coactivators. Antagonist-mediated inhibition of receptor is not only a passive process resulting from repositioning of helix 12 thereby blocking the coactivator binding (13), but also involves the active recruitment of corepressors to form repressive receptor complex at target genes. Activation function -1 (AF-1) is located at the N-terminus A/B domain of the receptor and its hormone-independent function is regulated by phosphorylation induced by growth factors. The two activating domains act synergistically to achieve maximal transcriptional activity, although some gene promoters have been shown to be activated independently by AF-1 or AF-2 based on the cellular and promoter context (14).
Typically, unstimulated estrogen receptor associates with chaperone proteins and resides in the cytoplasm. During ligand-dependent activation, hormone binding to ER activates it through phosphorylation, alters its conformation and dissociates chaperone proteins such as heat-shock protein 90. Alternatively, growth factor signaling networks can induce ER activation via phosphorylation in the absence of ligand (15). This process is termed as ligand-independent activation. Activated ER then dimerizes and binds to estrogen receptor response elements (ERE) in the promoter region of estrogen-responsive genes. Promoter-bound ER induces transactivation function via recruiting various histone acetyltransferase (HAT) activity containing coactivators such as SRC-1, SRC-2, AIB-1. HAT activity containing coactivators induce histone acetylation in a concerted action, leading to open chromatin configuration and recruitment of basal transcription machinery (Figure 2) (16, 17). Some of these coactivator proteins are integral to ER function (18). For example, SRC-3 is overexpressed in 65 % of breast tumors and gene amplified in 5% as compared to normal ductal epithelium (19, 20). Reducing the levels of SRC-3 not only significantly inhibit ER mediated gene activation but also tumor growth in experimental models (21). ER can also mediate repression of certain genes by inducing the binding of histone deacetylase (HDAC) activity containing corepressor complexes which induce histone deacetylation leading to close chromatin conformation. Binding of tamoxifen in the LBD induces a conformation change in AF-2 that poses a steric hindrance to coactivator binding while encouraging binding of corepressors. Tamoxifen-bound ER recruits corepressor complexes and participates in active repression (22). On the other hand, high levels of coactivator proteins may also contribute to endocrine resistance by enhancing estrogen agonist activity of SERMs such as tamoxifen (23, 24). Coregulatory proteins impart more complexity to genomic function of ER. The above described mechanism is referred as the classical genomic activity of ER and is directly related to its ability to regulate the expression of estrogen responsive genes containing an ERE in their promoters. However, different mechanisms of action of ER have been demonstrated.
In a nonclassical transcriptional regulation mode, ER has been shown to regulate gene expression by interacting with other transcription factors such as the Fos-Jun complex at alternative regulatory DNA sequences such as AP-1, SP-1 and other non-ERE sites (Figure 2). Thus, ER itself functions as a coregulatory protein for the DNA bound transcription factor complex and may also recruit additional coactivators (25–28). ER participates in the regulation of many important genes, such as, cyclin D1, myc, BCl2 and IGF1R via non-classical genomic action. Non-classical genomic action of ER may play an important role not only in breast cancer cell proliferation and survival but also in the development of resistance to endocrine therapy.
Apart from its role as a transcription factor for estrogen-responsive genes and a coactivator for other transcription complexes, ER also functions at the plasma membrane level to elicit rapid action on cells (29). This rapid nongenomic ER activity has been observed in response to estrogen as well as SERMs such as tamoxifen. Presence of full length ER and an alternatively spliced truncated form of ER at the plasma membrane has been observed in some studies (30–33). While the precise cellular localization of these nongenomic ERs and the underlying mechanisms are still not clear, it has been shown that nongenomic action of ER also involves activation of other growth factor receptors, cellular tyrosine kinases (34, 35), mitogen-activated protein kinases (MAPKs) (36), phosphatidylinositol 3 kinase (37), and Akt signaling pathway (Figure 3). Membrane ER directly interacts with the insulin-like growth factor 1 receptor, the p85 regulatory subunit of PI3K, Src and Shc to activate Akt and MAPK pathways (34–37) . These kinases not only induce cell survival and cell proliferation but also phosphorylate ER and its coregulators to influence genomic action of ER. Other proteins such as MNAR/PELP1 (modulators of nongenomic activity of the estrogen receptor) and MTA1 (metastasis associated gene family) also participates in nongenomic activity of ER by facilitating interactions with other membrane components (Figure 3) (38–40). Estrogen receptor, via its nongenomic activity, plays an important role in breast tumors with highly active growth factor signaling pathways such as Her2 amplification. Estrogen activates growth factor signaling via non genomic actions of ER and the growth factor signaling activates ER, hence forming a vicious cycle. Because of multiple mode of actions (classical genomic, non-classical genomic and nongenomic), estrogen receptor has become important for breast tumor progression and have important therapeutic implications.
Estrogen Receptor Silencing: Role of Epigenetics
Aberrant cytosine methylation of promoter regions of numerous cancer-related and tumor suppressor genes is one of the mechanism leading to gene silencing. It is known that 3–5% of the cytosine residues in mammalian genomic DNA occur as 5-methylcytosines (41). A major number (approximately 70–80%) of 5-methylcytosines residues are found within CpG dinucleotides which accumulate to form CpG islands (42). CpG islands normally remain unmethylated but may reversibly regulate gene expression. Cytosine methylation and transcription levels are inversely related for a large number of genes. Two major epigenetic modifications are DNA methylation and histone acetylation that act in concert to regulate gene silencing.
ER promoter is hypermethylated and ER mRNA is absent in some ER-negative breast cancer cells. Treatment of ER negative breast cancer cells with DNA methyltransferase (DNMT) and/or histone deacetylase (HDAC) inhibitors leads to the reactivation of expression of ER mRNA and functional protein, underscoring the importance of DNMTs and HDACs in maintaining the repressive environment at target genes like ER (43, 44). Hypermethylation of CpG island may inhibit transcription by interfering with the recruitment and function of basal transcription factors or transcriptional coactivators. Also, hypermethylation of CpG dinucleotides near the transcriptional regulatory region may initiate the recruitment of the methyl-CpG binding domain (MBD) family proteins that mediate silencing of genes via facilitation of a repressive chromatin environment (45). Five methyl-CpG binding proteins including MeCP2, MBD1, MBD2, MBD3 and MBD4 have been identified (46–50). It has been shown that MeCP2, MBD1, MBD2 and MBD3 can all recruit HDAC-containing repressor complex but with distinctive functional features (48, 51–53). MBD1, MBD2 and MBD4 have been reported to bind specifically to a variety of DNA sequences containing methyl CpG whereas MBD3 does not directly bind DNA either in vitro or in vivo (53–55).
Many tissue-specific or ubiquitous DNMTs that initiate methylation at position 5 of cytosines of CpG dinucleotides have been identified (56). DNMT1, the chief enzyme responsible for maintenance of mammalian DNA methylation during DNA replication using hemimethylated DNA, can also bind HDAC2 and DMAP1 (DNMT associated protein) to mediate transcriptional repression (57). The de novo methylases, DNMT3a and DNMT3b (58, 59), can act as transcriptional repressors by using their ATRX domain to recruit HDAC1 (60, 61). Heterochromatic structure characterized by differential modifications of histones is another facet of the complex machinery influencing repression. Amino terminal tails of the core histones undergo modifications such as acetylation at lysine, methylation at lysine or arginine and phosphorylation at serine to evolve a histone code for transcriptional activation and repression (62, 63). These posttranslational modifications modulate the chromatin structure by altering the electrostatic interactions between histone proteins and DNA and modifying the recruitment of various non-histone proteins such as coactivators and corepressors to chromatin.
CpG methylation of the ER promoter results in transcriptional silencing (64) and inhibition of HDAC and/or DNMT activity reactivates ER (43, 44). These findings support a model in which methyl-CpG binding proteins, DNMTs, and HDACs might be involved in transcriptional control of ER. It has been shown that the unmethylated active ER promoter in ER-positive MCF-7 cells is enriched for H3 and H4 acetylation and H3-K4 methylation and shows little binding of any methyl binding protein or DNMT. In ER-negative MDA-MB-231 cells, the ER promoter is silenced by DNA hypermethylation, histone hypoacetylation, H3-K9 methylation and the recruitment of MeCP2, MBD1, MBD2, DNMT1, DNMT3b and HDAC1 proteins (Figure 4). HDAC inhibitor, TSA, causes histone hyperacetylation and a low level of ER mRNA reexpression in ER negative breast cancer cells as methyl binding proteins (DNMT1, DNMT3b, MeCP2, MBD1 and MBD2) remain bound to the methylated ER promoter. DNMT inhibitor, 5-aza-dC, also induces ER mRNA expression as it facilitates promoter demethylation and partial dissociation of MeCP2, MBD1, MBD2, DNMT1, DNMT3b, and DNMT1. ER negative breast cancer cells also display a relative depletion of acetylated H3 and H4 and methylated K9 H3. Thus, both HDAC and DNMT inhibitors lead to reexpression of ER but strikingly different protein complexes are associated with the ER promoter in each case. The combination facilitates the release of a repressor complex containing various MBD proteins (MeCP2, MBD1 and MBD2), DNMTs (DNMT1 and DNMT3b) and HDAC1 from the ER promoter. Release of corepressor complex leads to concomitant enrichment of acetyl-H4, acetyl-H3, and K4-dimethylated H3 and diminished methylation at K9-H3 (65) (Figure 5). Thus the epigenetically reactivated ER promoter in ER negative breast cancer cells treated with both drugs acquires a chromatin profile similar to that of the innately active ER promoter in ER positive cells.
Estrogen Receptor Reactivation: Therapeutic targeting
The effects of endocrine therapy are primarily mediated through the estrogen receptor therefore ER expression is a strong predictor of response to SERM treatment. Indeed, lack of ER expression is the dominant mechanism of de novo resistance to SERMs such as tamoxifen (66–68). Also, during breast cancer progression, many initially ER positive tumors lose ER expression and attain hormone unresponsiveness (69, 70). ER negative tumors are more aggressive and considering the ability of these tumors to metastasize and their heterogeneity, new therapies or strategies for sensitization of ER negative tumors to endocrine treatment are required.
A number of enzymatic inhibitors targeting HDACs have been developed with good in vivo bioavailability and intracellular capability to inhibit HDAC. Preclinical studies and initial clinical trials indicate that HDAC inhibitors from different structural classes are very well tolerated and exhibit clinical activity against a variety of human cancers (71, 72). The hydroxamatetrichostatin A has been shown to have an in vivo antitumor activity with daily parenteral dosing associated with little systemic toxicity (73). The greatest potential of HDAC inhibitors lies in their ability to modulate the activity of other therapeutic agents. Demethylating agents such as 5-aza-dC are particularly interesting candidates owing to the interaction of DNA methylation with histone deacetylation in gene silencing of tumor suppressor genes. Combined treatment of TSA or depsipeptide with 5-aza-dC has been shown to synergistically reactivate silenced tumor suppressor genes in human cancer cells, including MLH1, TIMP3, CDKN2B, CDKN2A, gelsolin and maspin (74, 75). ER negative breast cancer cells can be sensitized to anti-tumor effects of tamoxifen by combined treatment with 5-aza-dC/TSA, underscoring the importance of drugs having the potential to derepress the expression of epigenetically silenced key genes in cancer therapeutics. Reactivation of ER directs tamoxifen-dependent repression of endogenous ER target genes indicating that 5-Aza-dC/TSA reactivated ER is able to interact with both agonists and antagonists to modulate transcription.
The molecular basis of repression of ER responsive genes by tamoxifen bound reactivated ER in ER-negative breast cancer cells can be comprehended by deciphering the nature of corepressor complex involved in these antagonistic actions. Tamoxifen-bound reactivated ER show the formation of a distinct complex containing HDAC3, NCoR and TBL1 on promoter regions of ER responsive genes (Figure 6). HDAC3 has been shown as the major HDAC associated with NCoR/SMRT complexes and NCoR interacts directly with HDAC3 through a deacetylase-activating domain (DAD) activating HDAC3 activity (76, 77). TBL1 then recognizes and binds the resultant deacetylated histone tails further stabilizing the binding of this multiprotein complex le ading to repression . TBL1 and TBLR1 are not required for HDAC3 activity or initial binding of the NCoR/SMRT complex to nuclear receptors, but they can interact with core histones to stabilize the binding. This is similar to the role of RbAp46 and RbAp48 in NuRD complex. While RbAp48 binds to H2A, H3 and H4, TBL1 bind preferentially to H2B and H4. Binding of NuRD complex to the ER responsive promoters has also been observed in ER-negative breast cancer cells reexpressing functional estrogen receptor in response to tamoxifen.
Combinatorial utilization of multiple corepressor complexes may be required to achieve physiologic levels of repression on some promoters whereas on other promoters different complexes might get recruited independent of each other. NCoR directly interacts with nuclear receptors via its NR box-related conserved bipartite NR interaction domain (NRID) containing L/IXXI/VI sequence (77), anchoring NCoR/HDAC3 multiprotein complex. NCoR can also interact with components of both the SAP (Sin-associated protein) and the NuRD complexes (78), suggesting that NCoR and NuRD complexes may be co-recruited to ER or other nuclear receptor gene targets. NCoR/HDAC3 and NuRD complex bind to ER responsive promoters containing either classical or non-classical EREs in a mutually exclusive manner in ChIP/Re-ChIP experiments. Mutually exclusive binding of both NCoR and NuRD corepressor complexes rules out the possibility of NCoR mediated recruitment of NuRD complex, at least in the case of tamoxifen-bound reactivated ER. Since human NuRD complex is a multi-subunit protein complex, it is possible that it gets recruited using one of its own subunits as the anchoring protein. Biochemical and immunofluorescence studies have shown that MTA1 interacts directly with the estrogen receptor (53). However whether MTA1 targets the NuRD complex to ER-responsive promoter has not been elucidated. Other candidate subunits of the NuRD complex are methyl binding proteins such as MBD2 and MBD3. While human MBD3 does not recognize methylated DNA (54), MBD2 might direct the recruitment of NuRD complex to methylated loci at target gene promoters (79). It has been suggested that a DNA methylation mediated mechanism is unlikely as NuRD complex components bind at the EBAG9 promoter within 40 minutes of tamoxifen treatment. In addition, NuRD complex purified with HDAC1 contains MBD2 (80), whereas a similar immunoaffinity purification of HDAC2 generated a NuRD complex with no detectable MBD2 (80). The recruitment of HDAC2 but not HDAC1 containing NuRD complex at the ER-responsive promoters suggests that MBD2 is not involved in tamoxifen mediated repression by reactivated ER. An ordered recruitment of NCoR complex followed by NuRD complex at distinct ER target promoters in ER-negative breast cancer cells via tamoxifen-bound reexpressed ER has also been shown. Sequential recruitment of various cofactors has been reported for regulation of various mammalian genes (81, 82). Given the ordered recruitment of corepressor complexes, a multistep model of tamoxifen- mediated repression by reactivated ER has been suggested. NCoR complex can directly interact with tamoxifen-bound reactivated ER resulting in deacetylation of local histones through recruitment of HDAC activity (76, 77). One possibility is that removal of the acetyl groups from K9 and K14 of histone H3 (83) creates an environment that promotes the binding of Suv39H1/Clr4. The methylation of H3-K9 by Suv39H1/Clr4 after histone deacetylases remove the acetyl groups from K9 and K14 of histone H3 (83) then serves as a binding site for the chromodomain of HP1/Swi6 (84, 85). NuRD complex contains Mi2/CHD family proteins which have a chromodomain (86) and biochemical analysis have shown that the NuRD complex associates with histone H3 when lysine 9 is methylated (87). This model is in accordance with the histone code hypothesis as the pattern of histone tail modifications serves as a recognition code for the recruitment of cofactors resulting in modulation of chromatin structure and function.
Additionally, DNMT inhibitor, Aza has been used in combination with scriptaid, a HDAC inhibitor, leading to reactivation of ER (88). Combination of DNMT and HDAC inhibitors can restore response to endocrine therapy in ER negative tumors in a xenograft model in nude mice (89). ER can also be reexpressed using clinically relevant HDAC inhibitor LBH589 without demethylation of the CpG island within the ER promoter (90). Similar to Aza-TSA combination treatment, LBH589 treatment also results in release of DNMT1 and HDAC1. Additional studies using suberoylanilidehydroxamic acid (SAHA) have shown reexpression of ER as well as an inhibition of EGFR expression via disruption of the EGFR mRNA stability. EGFR inhibition further decreases EGF-initiated pathways including PAK1, p38MAPK and Akt (91). Collectively, these studies show clinical relevance of HDAC and DNMT inhibitors.
Additional approaches for Estrogen Receptor Reactivation and Therapeutic Targeting
Silencing of estrogen receptor because of promoter methylation occurs in approximately 25% of ER negative tumors. This suggests the existence of additional pathways that may contribute to ER silencing. Overexpression of EGFR has been inversely correlated with ER expression (92). Stable transfection of growth factor signaling components like EGFR, Her2, Ras, Raf and MEK1 results in both estrogen independent growth and down-regulation of ER expression in ER positive cells (93–99). MAPK has emerged as a pivotal component of these upstream growth factor pathway as cells stably expressing EGFR (97), Her2 (95), Raf (93) and MEK1 (100), exhibit MAPK hyperactivation. Hyperactivation of MAPK results in the down-regulation of ER expression and inhibition of this hyperactive MAPK results in restoration of functional ER protein (100). Molecular profiling of hyperactive MAPK cells show down-regulation of ER as well as a large number of ER responsive genes (101). MAPK inhibition restores ER expression in both ex vivo tissues and primary cultures from breast tumors as well as restores response to endocrine treatment (102). Hence, some ER negative tumors exhibiting hyperactive MAPK may benefit from a combined MAPK inhibition and hormonal therapy. Ubiquitylation and proteolysis have recently been shown as another possible mechanism leading to ER down-regulation. In genomic action of ER, estrogen binding to ER rapidly stimulates ER ubiquitylation and proteolysis (103, 104). E6-AP acts as a coactivator and ubiquitin ligase for ER and is a component of ubiquitin-proteasome pathway. E6-AP expression has recently been shown to have an inverse correlation with ER expression in breast cancer. E6-AP is upregulated in ER negative breast cancer. It is possible that E6-AP may induce down-regulation of ER. Some ER negative tumors do express ER mRNA indicating the role of proteasomal degradation of ER. Recently, crosstalk between Src and ER has been shown to increase ER degradation. Transfection of Src in ER positive breast cancer cells leads to decreased levels of ER which can be prevented by a Src inhibitor (105). Hence a subset of ER negative tumors expressing activated Src may benefit from Src inhibition.
Endocrine therapy targeting ER has proven its efficacy with the development of anti-estrogens and aromatase inhibitors. Sensitizing hormone-resistant ER-negative breast cancer cells to endocrine therapy by combined treatment with DNA methyltransferase inhibitors and histone deacetylase inhibitors or MAPK inhibitors and Src inhibitors, provide new treatment options for patients with de novo resistance. In addition, the elucidation of the specific corepressor complexes and components of important upstream regulators as well as proteasome-ubiquitin pathway involved in the ER mediated repression of endogenous ER-responsive genes might help in designing more combined therapies using other therapeutic agents and innovative drug delivery strategies.
Acknowledgments
This work was supported by the USPHS grants DK077137 and DK089130 (to NKS), CA131294 and CA155686(to DS).
Footnotes
Conflicts of Interest
No potential conflicts of interest to disclose.
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