Epithelial–mesenchymal transition (EMT) is a crucial mechanism for the acquisition of migratory and invasive capabilities by epithelial cancer cells. By conducting quantitative proteomics in experimental models of human prostate cancer (PCa) metastasis, we observed strikingly decreased expression of EPLIN (epithelial protein lost in neoplasm; or LIM domain and actin binding 1, LIMA-1) upon EMT. Biochemical and functional analyses demonstrated that EPLIN is a negative regulator of EMT and invasiveness in PCa cells. EPLIN depletion resulted in the disassembly of adherens junctions, structurally distinct actin remodeling and activation of β-catenin signaling. Microarray expression analysis identified a subset of putative EPLIN target genes associated with EMT, invasion and metastasis. By immunohistochemistry, EPLIN downregulation was also demonstrated in lymph node metastases of human solid tumors including PCa, breast cancer, colorectal cancer and squamous cell carcinoma of the head and neck. This study reveals a novel molecular mechanism for converting cancer cells into a highly invasive and malignant form, and has important implications in prognosis and treating metastasis at early stages.
Acquisition of migratory and invasive capabilities by cancer cells at the primary site is the first step in tumor metastasis (Fidler, 2003). This process resembles epithelial–mesenchymal transition (EMT), a highly conserved cellular program in embryonic development. During EMT, epithelial cells lose polarity and gain motility through downregulation of epithelial markers, disruption of the cadherin/catenin adhesion complex and re-expression of mesenchymal molecules, which are necessary for invasion and metastasis. Although demonstrating this potentially rapid and transient process in vivo has been difficult, and data linking this process to tumor progression are limited and controversial, mounting experimental and clinical evidence, however, supports a crucial role for EMT in cancer metastasis. A number of EMT-related factors and pathways, such as Snail, wnt/β-catenin and hedgehog signaling have been shown to be shared by embryonic development and tumor progression. The EMT concept, therefore, provides valuable insight into molecular and cellular mechanisms controlling metastasis (Thiery et al., 2009).
Metastatic cancer cells are characterized by high motility and invasiveness (Yamazaki et al., 2005). Efficient migration and invasion require cancer cells to establish and maintain defined morphological features, often with lost cell polarity. Although stabilization of the actin cytoskeleton is important to the maintenance of an epithelial phenotype, dynamic remodeling of the actin network is crucial for invasive cancer cells to leave the primary tumor, invade through the basement membrane and extravasate to establish metastases at distant organs. However, cell signaling pathways involved in the regulation of cell-cell adhesion and the actin cytoskeleton network in metastatic cancer cells have not been fully elucidated (Machesky and Tang, 2009).
EPLIN (epithelial protein lost in neoplasm; or LIM domain and actin binding 1, LIMA-1) was initially identified as an actin-binding protein that was preferentially expressed in human epithelia but frequently lost in cancerous cells (Maul and Chang, 1999; Song et al., 2002). Two EPLIN isoforms, the 600-residue EPLIN-α and 759-residue EPLIN-β, differ only at the 5′-end, where an alternative RNA-processing event extends the reading frame of EPLIN-β by an additional 160 amino acids (Maul and Chang, 1999; Chen et al., 2000). EPLIN contains a centrally located LIM domain that may allow EPLIN to dimerize with itself or associate with other proteins. Both the N- and C-termini of EPLIN bind actin to promote the parallel formation of filamentous actin polymer (F-actin) structures by crosslinking and bundling actin filaments. EPLIN also inhibits the Arp2/3-mediated nucleation of actin filaments and suppresses F-actin depolymerization (Maul et al., 2003). A recent study demonstrated EPLIN as a key molecule linking the cadherin–catenin complex to F-actin (Abe and Takeichi, 2008), which may simultaneously stabilize the adhesion belt formed by the adherens junctions and a bundle of cortical actin filaments near the apical surface of epithelial cells (Pokutta and Weis, 2007). The direct interaction between EPLIN and α-catenin via both the N- and C-terminal regions is indispensable for the formation of apical actin belt. These observations indicate that EPLIN may be critical to the maintenance of epithelial phenotypes. Nevertheless, investigation into the role of EPLIN in tumor progression remains rudimentary. A recent report inversely correlated EPLIN expression with the aggressiveness and clinical outcome of breast cancer (Jiang et al., 2008).
By conducting quantitative proteomics using an experimental model of human prostate cancer (PCa) metastasis, we observed strikingly decreased EPLIN expression upon EMT. Biochemical and functional analyses indicated that EPLIN is a negative regulator of EMT and invasiveness in PCa cells. Importantly, EPLIN downregulation correlated with lymph node metastases in PCa and other solid tumors. These studies reveal a novel role of EPLIN in the regulation of EMT and tumor metastasis.
Quantitative proteomic analysis of protein expression profile in a prostate cancer EMT model
Previously we reported the androgen refractory cancer of the prostate (ARCaP) cell lineage as an experimental model that resembles the classical descriptions of EMT and closely mimics the clinical pathophysiology of PCa metastasis (Xu et al., 2006; Zhau et al., 2008). The more epithelial ARCaPE and more mesenchymal ARCaPM cells are lineage-related, defined as genetically identical, but behaviorally and phenotypically different. ARCaPE cells display typical cobblestone morphology and have a relatively low bone metastatic propensity (12.5%) after intracardiac injection in immunocompromised mice, whereas ARCaPM cells have spindle-shaped fibroblastic morphology associated with increased expression of vimentin and reduced expression of epithelial markers. Importantly, the switch in morphology and gene expression in ARCaPM cells is associated with high metastatic propensity to skeleton (100%) and soft tissues (33% to adrenal gland). We and others reported that EMT in ARCaPE cells can be induced by soluble growth factors in vitro or by direct interaction with mouse skeleton in situ (Graham et al., 2008; Zhau et al., 2008).
To gain an unbiased insight into the molecular mechanisms underlying PCa EMT, we used an internally standardized gel-free quantitative proteomic technique, cleavable isotope-coded affinity tag (cICAT) analysis using stable isotope tags (12C and 13C), in combination with two-dimensional liquid chromatography-tandem mass spectrometry (Khwaja et al., 2006, 2007), to compare protein expression patterns in the total lysates of ARCaPE and ARCaPM cells. We identified 343 unique proteins as expressed in both ARCaPE and ARCaPM cells when a ProtScore threshold of 1.3 was used (corresponding to >95% protein confidence) (Table 1a). Among them, 76 proteins showed differential expression between the cell lines that was considered statistically significant with a P-value <0.05: a total of 31 proteins were found to be increased (⩾1.20-fold) and 45 proteins were found to be downregulated (⩽0.85-fold) in ARCaPM cells (Table 1b). These proteins had diverse molecular functions, including cell structure and motility, cell communication, DNA binding and gene expression, metabolism and signal transduction (Supplementary Figure S1). In agreement with our previous reports (Xu et al., 2006; Zhau et al., 2008), proteomics validated increased expression of mesenchymal marker (vimentin) and decreased expression of epithelial markers (cytokeratin-8 and -18) in ARCaPM cells.
EPLIN downregulation is associated with EMT in the experimental models of prostate cancer
Intriguingly, a striking downregulation of EPLIN-β (by 4.5-fold, Table 1b) was observed in ARCaPM cells. Western blotting (Figure 1a, left panel) and immunocytochemical (Figure 1a, right panel, top) analyses confirmed that both EPLIN-β and -α isoforms were abundantly expressed in ARCaPE cells and reduced significantly in ARCaPM cells. Consistently, immunohistochemical (IHC) analysis showed that EPLIN was substantially expressed in ARCaPE tumor subcutaneously inoculated in athymic nude mice, but significantly reduced in ARCaPM tumor (Figure 1a, right panel, bottom). These data indicated that EPLIN downregulation correlated with increased in vivo metastatic potential in the ARCaP EMT model. Supporting this notion, a similar association between EPLIN expression and invasive phenotypes was observed in other experimental models of PCa and squamous cell carcinoma of the head and neck (SCCHN) (Supplementary Figure S2). It was interesting to note that the two EPLIN isoforms were differentially expressed in a cell context-dependent manner: EPLIN-α is prevalently presented in SCCHN cells (Supplementary Figure S2B), whereas EPLIN-β is the major isoform in LNCaP, C4-2 and MCF-7 cells (Supplementary Figures S3A and B). In comparison, EPLIN-α and -β appeared to be equally expressed by ARCaP and PC3 cells (Figure 1a, Supplementary Figure S3A).
EPLIN depletion promotes EMT and induces the remodeling of the actin cytoskeleton
To investigate the role of EPLIN in the regulation of EMT, ARCaPE cells were transiently transfected with an EPLIN small-interfering RNA (siRNA) that effectively inhibited expression of both EPLIN-β and -α isoforms (Figure 1b, left panel). ARCaPE cells expressing control siRNA showed a cobblestone-like morphology similar to parent ARCaPE cells, with tight cell-cell contacts in monolayer cultures. EPLIN depletion in ARCaPE cells led to loss of cell-cell contacts and the emergence of spindle-shaped and mesenchymal-like morphology (Figure 1b, right panel), indicating the occurrence of EMT in these cells.
Previous studies have demonstrated an important function of EPLIN in stabilizing the actin cytoskeleton (Song et al., 2002; Maul et al., 2003). To investigate whether EPLIN depletion in PCa cells was associated with the reorganization of the actin cytoskeleton, immunofluorescent confocal microscopy was performed (Figure 1c, Supplementary Figure S4). In ARCaPE cells expressing control siRNA, EPLIN largely colocalized with actin stress fibers as revealed by phalloidin staining. EPLIN was also associated with circumferential fibers that were characterized by a circular arrangement along the adhesion belt and bundles of actin filaments linked to the plasma membrane. EPLIN siRNA transfection reduced EPLIN that colocalized with the circumferential fibers and induced actin remodeling, which was manifested as the disassembly of cellular stress fibers, a concomitant gain of actin foci and formation of prominent membrane ruffles. These data indicated that upon EPLIN depletion, PCa cells may undergo active reorganization of the actin cytoskeleton, which could contribute to increased migratory and invasive capabilities (Yilmaz and Christofori, 2010).
EPLIN depletion enhances in vitro migration and invasion
We further investigated whether the morphological change of ARCaPE cells was associated with invasive behavior in vitro. Indeed, EPLIN depletion significantly increased the migratory capability of ARCaPE cells in a wound-healing assay (Figure 1d, upper panel). The infiltration of ARCaPE cells through Matrigel in a modified Boyden chamber was also remarkably increased (by ∼twofold) following EPLIN siRNA transfection (Figure 1d, bottom panel). Such effects of EPLIN siRNA transfection were also observed in other PCa (LNCaP, PC3) and human breast cancer (MCF-7) cells (Supplementary Figures S3B–E). These data suggest that EPLIN downregulation could significantly enhance the in vitro invasive capabilities in epithelial cancer cells.
EPLIN depletion suppresses E-cadherin, activates β-catenin signaling and enhances chemoresistance
We established eight ARCaPE sublines that, respectively, expressed four different 29-mer EPLIN short-hairpin RNAs (shRNAs) (Supplementary Table S5). These sublines showed similar morphological, biochemical and behavior characteristics. One of such ARCaPE sublines (ARCaPE-shRNA clone #102) expressing a shRNA sequence of 5′-TAATAGACGGCAATGGACCTCACTATCAT-3′ was used as the representative. Consistently, ARCaPE-shRNA cells showed a typical mesenchymal morphology compared with epithelial-like control cells (ARCaPE-pRS), indicating the occurrence of EMT upon EPLIN depletion (Figure 2a). Biochemical analyses found that EPLIN inhibition led to decreased E-cadherin, increased vimentin, nuclear translocation of β-catenin and activation of T-cell factor reporter (Figure 2b). Confocal microscopy further demonstrated that shRNA expression resulted in downregulation of E-cadherin on plasma membrane, disassembly of adherens junctions and structurally distinct actin remodeling in PCa cells (Figure 2c). Interestingly, it appeared that EPLIN depletion slightly inhibited proliferation of ARCaPE cells (Figure 2d), which was associated with an arrested cell cycle progression at the G0/G1 and G2 phases (Figure 2e). On the other hand, however, EPLIN depletion significantly enhanced cell resistance to the treatment of docetaxel and doxorubicin (by ∼eightfold and ∼4.4-fold, respectively) (Figure 2f). These results indicated an important role of EPLIN in the regulation of EMT, actin dynamics, proliferation and survival in PCa cells.
EPLIN affects a subset of genes involved in EMT and invasion
To identify genes that are potentially affected by EPLIN, we analyzed the transcriptome of ARCaPE-shRNA cells and control cells. Microarray analysis found that there were 1,026 genes significantly upregulated and 828 genes significantly downregulated in ARCaPE-shRNA cells (Figure 3a), which could be categorized into different function clusters (Supplementary Tables S1 and S2), including those involved in the regulation of EMT, Wnt/β-catenin signaling, actin cytoskeleton, invasion and metastasis, adhesion and extracellular matrix remodeling and growth factor signaling (Figure 3b; Supplementary Tables S3 and S4). Several approaches were used to validate the differential expression of selected putative EPLIN target genes. Reverse transcription-PCR assays (Figure 3c, left panel) demonstrated increased expression of versican, matrix metalloproteinase-7, Bcl-2A, fibroblast growth factor 5, and downregulation of inhibitor of differentiation 2, myosin light chain kinase and insulin-like growth factor-binding protein-3 in ARCaPE-shRNA cells. Western blot analyses (Figure 3c, right panel) confirmed downregulation of insulin-like growth factor-binding protein-3 at protein level, and showed that EPLIN depletion increased expression of cAMP-responsive element-binding protein and myeloid cell leukemia-1 whose upregulation has been associated with clinical PCa metastasis (Wu et al., 2007; Zhang et al., 2010). EPLIN depletion significantly increased expression of zinc-finger E-box-binding homeobox 1, a potent EMT activator that transcriptionally suppresses E-cadherin expression (Wellner et al., 2009), whereas it inhibited Krueppel-like factor 5, a zinc-finger transcription factor implicated in PCa progression (Dong and Chen, 2009). Consistently, increased presence of zinc-finger E-box-binding homeobox 1 and reduced expression of Krueppel-like factor 5 in the nucleus of ARCaPE-shRNA cells were observed. Expression of Slug and Twist, two master regulators of EMT, was not affected by EPLIN depletion in PCa cells. Zymogram assay (Figure 3d) showed that expression of activated MMP-27 was significantly increased upon EPLIN silencing. EPLIN depletion also resulted in a remarkable increase (∼5.6-fold) in the proportion of ARCaPE cells carrying the CD44high/CD24negative marker profile associated with cancer stem cell sub-population (Klarmann et al., 2009) (Figure 3e). Interestingly, EPLIN shRNA suppressed expression of several microRNAs, including miR-205 and two miR-200 family members (miR-200b and miR-429) (Figure 3f), whose downregulation is thought to be the essential feature of EMT and acquisition of cancer stem cell properties (Lang et al., 2009). These data indicate that EPLIN downregulation may coordinately activate multiple pro-EMT programs in PCa cells.
EPLIN downregulation is associated with lymph node metastasis in prostate cancer, breast cancer, colon cancer and SCCHN
We searched two global cancer transcriptome databases, that is, the Gene Expression Omnibus and ONCOMINE, for the expression pattern of EPLIN in a number of epithelial cancers. Analyses on four independent sets of microarray data on clinical PCa (Lapointe et al., 2004; Yu et al., 2004; Varambally et al., 2005; Chandran et al., 2007) revealed that EPLIN transcripts were expressed at a similar level in primary tumors and normal prostatic tissues, but were remarkably reduced in metastatic tumors (Figure 4a). We examined the IHC staining of EPLIN in matched pairs of PCa tissue specimens from primary PCa and lymph node metastases. As shown in Figure 4b, EPLIN expression was significantly reduced in lymph node metastases.
Analyses of the ONCOMINE database found that metastatic colon cancer expresses significantly lower levels of EPLIN transcripts compared with primary tumors (Figure 5a). We examined IHC expression of EPLIN in a human colorectal cancer tissue microarray consisting of matched pairs of primary tumors and lymph node metastases. Figure 5b shows that EPLIN expression was significantly decreased in lymph node metastatic tumors. Similarly, EPLIN immunointensity was markedly reduced in breast cancer lymph node metastases compared with their matched primary tumors (Figure 5c). We finally evaluated IHC expression of EPLIN in 10 pairs of tissue specimens from primary and lymph node metastatic SCCHN. EPLIN expression was also decreased in lymph node metastases (Figure 5d). Collectively, these observations suggested that EPLIN downregulation might be an indicator of clinical metastasis in PCa and several other epithelial cancers.
In this study, a quantitative proteomics characterized a remarkable downregulation of EPLIN upon EMT in an experimental model of PCa metastasis. Biochemical and functional evidence revealed that EPLIN is a negative regulator of EMT and invasiveness in PCa cells. EPLIN downregulation was found to significantly disrupt epithelial structures, induce actin cytoskeleton remodeling, affect specific gene expression profiles and activate a pro-EMT program. Importantly, using human tumor specimens as the ‘gold standard’, an inverse correlation between EPLIN expression and clinical lymph node metastasis was observed in a variety of solid tumors. These studies elucidate a causal role of EPLIN in EMT and support its new function as a tumor metastasis suppressor (Figure 6).
Emerging proteomic techniques offer robust and unbiased approaches for molecular profiling of the complex metastatic process, including EMT, at the protein level (Varambally et al., 2005). However, to date only a limited number of proteomic studies were reported in EMT models of human cancer (Mathias and Simpson, 2009). In this report, we utilized a quantitative proteomic approach, that is, cICAT in combination with two-dimensional liquid chromatography-tandem mass spectrometry, to characterize protein profile in a novel model for PCa EMT and metastasis. A panel of 76 proteins were found to be significantly altered in the epithelial-like and low-invasive ARCaPE cells and the mesenchymal-like and highly metastatic ARCaPM cells. Of those, several have been identified to be associated with EMT and metastasis in previous proteomic studies, including increased expression of vimentin, tropomyosin and heat-shock protein β-1, and reduced expression of cytokeratin-8, -18 and 14-3-3ɛ (Willipinski-Stapelfeldt et al., 2005; Keshamouni et al., 2006, 2009; Wei et al., 2008; Larriba et al., 2010). We also observed a concurrent upregulation of S100A10 and its annexin A2 ligand in ARCaPM cells, which is interesting as activation of the S100A10/Annexin A2 signaling has been associated with plasminogen activation and increased tumor invasion and metastasis (Kwon et al., 2005; O’Connell et al., 2010). These results validated the application of quantitative proteomics in identifying key factors implicated in EMT and the acquisition of invasiveness in PCa cells.
At the cellular levels, EMT is characterized by the disappearance of the apical-basal polarity in epithelial cells. Remodeling of the actin cytoskeleton is a prerequisite for the acquisition of migratory and invasive capabilities during this process (Yamazaki et al., 2005; Machesky and Tang, 2009; Yilmaz and Christofori, 2009). Our proteomic analysis identified a functional group of proteins that have been implicated in the regulation of actin dynamics and cellular structure (Supplementary Figure S1), which includes six proteins upregulated (vimentin, keratin II, tropomysin, profilin 1, heat-shock protein β-1 and actin-α) and eight proteins downregulated (LIMA1 or EPLIN, S100A4, echinoderm microtubule associated protein like 5, lamin A/C, matrin-3, tubulin-β2C, cytokeratin-18 and -8) in ARCaPM cells. Among them, EPLIN has been demonstrated as an indispensable component of the core cell polarity complexes, linking the cadherin–catenin complex to the actin cytoskeleton and actively stabilizing the actin bundles (Song et al., 2002; Maul et al., 2003; Abe and Takeichi, 2008). Mechanistic studies in non-cancerous (such as NIH3T3) and cancerous (such as MCF-7) cells indicated that both EPLIN isoforms are capable of suppressing F-actin depolymerization and enhancing the bundling of actin filaments through an Arp2/3-mediated mechanism. Downregulation of EPLIN, therefore, may result in cytoskeletal reorganization due to a loss of stability of mature actin filament structure and facilitated turnover of filaments in epithelial cancer cells. Indeed, as revealed by confocal microscopy, EPLIN depletion in ARCaPE cells significantly reduced cellular actin stress fibers and promoted the formation of more dynamic actin filament structures such as membrane ruffling, which may contribute to increased motility of PCa cells. Furthermore, we showed that EPLIN depletion in PCa cells could directly facilitate disassembly of the apical adherens junctions-actin machinery and redistribution of the components of the cadherin–catenin complex, thereby substantially perturbing actin dynamics. These structural alterations may promote transition to mesenchymal morphology and enhance the plasticity and migratory capabilities of epithelial cancer cells (Yamazaki et al., 2005) (Figure 6).
Accumulating evidence support that actin and actin-associated proteins are indispensable components of the regulatory machinery of eukaryotic gene transcription, for example, involving in the modulation of RNA polymerase II-dependent transcription and facilitating RNA polymerase I transcription and possibly downstream events during ribosomal RNA biogenesis (Schneider and Grosschedl, 2007; Percipalle et al., 2009). EPLIN dysregulation may have a remarkable influence on the dynamics of cytoskeleton and its interplay with nuclear architecture, thereby regulating global gene expression. In fact, it has been shown that EPLIN is required for the local accumulation of key cytokinesis proteins at the cleavage furrow during ingression, which is critical to cytokinesis and genomic stability. EPLIN depletion in Hela cells results in cytokinesis failure and formation of multinucleation and aneuploidy (Chircop et al., 2009). In this study, we identified approximately 1800 genes that were significantly affected by EPLIN depletion in PCa cells. Among them, some have been implicated in the regulation of EMT and tumor metastasis, for instance, zinc-finger E-box-binding homeobox 1 (Schmalhofer et al., 2009; Wellner et al., 2009), insulin-like growth factor-binding protein-3 (Renehan et al., 2004), versican (Sakko et al., 2003; Sung et al., 2008) and MMPs (Katiyar, 2006). Notably, EPLIN depletion in several PCa and breast cancer cells resulted in downregulation of E-cadherin (Figure 2b, Supplementary Figure S3B), a hallmark of EMT and acquired invasiveness in most solid tumors. These interesting findings suggest that EPLIN dysregulation could profoundly affect gene expression at transcriptional levels, which may be an underlying mechanism for EPLIN regulation of EMT.
Loss of expression or function of tumor metastasis suppressors is requisite for the development of local invasion and distant metastases (Smith and Theodorescu, 2009). Previous studies have described several potential metastasis suppressor genes in PCa (Wong et al., 2007; Thiolloy and Rinker-Schaeffer, 2010). EPLIN was initially identified as an epithelial protein that is abundantly expressed in normal epithelia but significantly downregulated at mRNA level in a limited number of cancerous cells (Maul and Chang, 1999). This expression profile suggested that EPLIN might function as a suppressor of tumorigenesis in epithelial cancers. Nevertheless, the role and clinical significance of EPLIN during tumor progression remains largely unknown. Our data presented here demonstrated that EPLIN protein is substantially expressed by most low-invasive epithelial cancer cells examined, but significantly decreased in those with high invasive capabilities (Figure 1a and Supplementary Figure S2), implying the involvement of EPLIN in tumor invasion and metastasis. Biochemical and functional analyses further uncovered the function of EPLIN in the maintenance of epithelial phenotypes in low-invasive PCa cells, and a causal role of EPLIN downregulation in promoting EMT and conferring invasiveness, including enhanced migratory and invasive behaviors and resistance to chemotherapy agents. Interestingly, EPLIN depletion resulted in delayed cell cycles and suppressed in vitro proliferation, an effect that has been observed when overexpressing certain pro-metastasis genes (such as Snail, Slug) in PCa cells (Emadi Baygi et al., 2010; Liu et al., 2010; McKeithen et al., 2010), suggesting a complicated role of EPLIN in the regulation of PCa cell proliferation and differentiation.
To explore the clinical significance of EPLIN in human cancers, we analyzed the expression profile of EPLIN, based on published microarray data. In both PCa and colorectal cancer specimens, EPLIN transcripts were found to be reduced in primary tumors and further decreased in metastatic disease. These observations argue against a simple role of EPLIN as a tumor suppressor, and suggest a new function of EPLIN in late stages of tumor progression in addition to tumorigenesis (Maul and Chang, 1999; Jiang et al., 2008). Indeed, EPLIN protein could be detected at relatively high levels in primary PCa, breast cancer, colorectal cancer and SCCHN, but was significantly reduced in their matched lymph node metastases. Although the numbers of tissue specimens included in this study are limited because of the extreme difficulty of obtaining paired tumor samples from primary and metastatic human cancers, our data clearly demonstrate that EPLIN downregulation could be an indicator of tumor metastasis in a variety of epithelial cancers.
Materials and methods
Quantitative proteomic analysis was performed at the Emory University Microchemical and Proteomics Facility. Total proteins from ARCaPE and ARCaPM cells were prepared in the absence of proteinase inhibitors by trichloroacetic acid precipitation and resuspended in denaturing buffer. cICAT analysis, in combination with liquid two-dimensional liquid chromatography-tandem mass spectrometry, was performed as described previously (Khwaja et al., 2006, 2007). Briefly, the ARCaPE and ARCaPM samples were separately labeled with light and heavy reagent, mixed in equal total protein ratio and digested overnight with trypsin. The peptides were then desalted using a strong cation-exchange cartridge, and the cICAT-modified, cysteine-containing peptides were enriched/purified using a monomeric avidin column (Applied Biosystems, Carlsbad, CA, USA). The biotin tag was cleaved-off by treatment with trifluoroacetic acid, and the sample was dried and reconstituted in 10% formic acid. A portion of the sample was analyzed using an Ultimate 3000 nanoHPLC system (Dionex, Sunnyvale, CA, USA) using a Vydac C18 silica column interfaced to a QSTAR XL mass spectrometer (Applied Biosystems). The MS/MS data from each salt cut were combined and processed by ProteinPilot software (Applied Biosystems) for protein identification and quantification. Only proteins with a ProtScore >1.0 (confidence interval >85%) were considered. Proteins were considered differentially expressed if multiple peptides generated concordant cICAT ratios in both analyses. Proteins were grouped into functional categories using the UniProt Knowledgebase.
A reference standard RNA for use in two-color oligo arrays was prepared as described previously (Arnold et al., 2009). Total RNA from triplicate preparations of control and knockdown samples, as well as reference total RNA samples were amplified and hybridized to Agilent 44K whole human genome expression oligonucleotide microarray slides (Agilent Technologies, Inc, Santa Clara, CA, USA) as previously described (Koreckij et al., 2009). Spots of poor quality or average intensity levels <300 were removed from further analysis. The Statistical Analysis of Microarray program (Tusher et al., 2001) was used to analyze expression differences between control and knockdown groups using unpaired, two-sample t-tests.
Human PCa tissue specimens were obtained from the Emory University Hospital Department of Pathology. Human SCCHN tissue specimens were obtained from the Pathology Core of the Emory University Head and Neck Cancer Specialized Programs of Research Excellence. Human colorectal cancer and breast cancer tissue microarrays were purchased from the US BioMax, Inc., (Rockville, MD, USA). IHC staining of EPLIN was performed as described previously (Wu et al., 2007), using a rabbit anti-EPLIN antibody (NB100-2305, Novus Biologicals, LLC, Littleton, CO, USA) at a dilution of 1:50.
Significance levels for comparisons of protein expression in tumor tissue specimens were calculated by using the two-sample t-test. Treatment effects were evaluated using a two-sided Student's t-test. All data represent three or more experiments. Errors are shown as s.e. values of averaged results, and values of P⩽0.05 were taken as a significant difference between means.
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We thank Dr Jin-Tang Dong for critical reading of the manuscript, and Dr Anthea Hammond for editorial assistance. This work was supported by the Department of Defense PC060566, American Cancer Society RSG-10-140-01, Georgia Cancer Coalition Cancer Research Award, Kennedy Seed Grant, Emory University Research Committee Award, Winship MPB Seed Grant (DW), National Cancer Institute grants P01 CA98912, R01 CA122602 and Department of Defense PC060866 (LWKC), Georgia Cancer Coalition Distinguished Scholar Grant (OK) and National Cancer Institute grant 1R43CA141870 (YAW).
The authors declare no conflict of interest.
Supplementary Information accompanies the paper on the Oncogene website
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Zhang, S., Wang, X., Osunkoya, A. et al. EPLIN downregulation promotes epithelial–mesenchymal transition in prostate cancer cells and correlates with clinical lymph node metastasis. Oncogene 30, 4941–4952 (2011). https://doi.org/10.1038/onc.2011.199
- epithelial–mesenchymal transition
- prostate cancer
- lymph node metastasis
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