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Research Article

Overexpression of piRNA Pathway Genes in Epithelial Ovarian Cancer

  • Shu Ly Lim,

    Affiliation: Robinson Research Institute, School of Molecular and Biomedical Sciences, University of Adelaide, Adelaide, SA, Australia

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  • Carmela Ricciardelli,

    Affiliation: Discipline of Obstetrics and Gynaecology, Robinson Research Institute, University of Adelaide, Adelaide, SA, Australia

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  • Martin K. Oehler,

    Affiliation: Discipline of Obstetrics and Gynaecology, Robinson Research Institute, University of Adelaide, Adelaide, SA, Australia

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  • Izza M. D. De Arao Tan,

    Affiliation: Discipline of Obstetrics and Gynaecology, Robinson Research Institute, University of Adelaide, Adelaide, SA, Australia

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  • Darryl Russell,

    Affiliation: Discipline of Obstetrics and Gynaecology, Robinson Research Institute, University of Adelaide, Adelaide, SA, Australia

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  • Frank Grützner mail

    frank.grutzner@adelaide.edu.au

    Affiliation: Robinson Research Institute, School of Molecular and Biomedical Sciences, University of Adelaide, Adelaide, SA, Australia

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  • Published: June 16, 2014
  • DOI: 10.1371/journal.pone.0099687

Abstract

The importance of the Piwi-interacting RNA (piRNA) pathway for germ cell maintenance, genome integrity, DNA methylation and retrotransposon control raises possible roles of this pathway in cancer. Indeed aberrant expression of human PIWI orthologs and Maelstrom has been observed in various cancers. In this study we explored the expression and function of piRNA pathway genes in human ovarian cancer, based on our recent work, which showed widespread expression of piRNA pathway genes in the mammalian. Our work shows that PIWIL1 and MAEL expression is significantly increased in malignant EOC (n = 25) compared to benign tumor tissues (n = 19) and normal ovarian tissue (n = 8). The expression of PIWIL3 is lower in malignant and benign tissues when compared to normal ovary. Sequencing of PIWIL1 transcript revealed that in many tumors deletion of exon 17 leads to the introduction of a premature stop codon in the PIWI domain, likely due to a splicing error. In situ hybridization on tumor sections revealed that L1, PIWIL1, 2 and MAEL are specifically expressed in epithelial cells (cancerous cells) of EOC. Furthermore, PIWIL2 and MAEL are co-expressed in the stromal cells adjacent to tumor cells. Since PIWIL1 and MAEL are up regulated in malignant EOC and expressed in the epithelial cells, we investigated if these two genes affect invasiveness of ovarian cancer cell lines that do not normally express these genes. PIWIL1 and MAEL were transiently over expressed in the ovarian cancer cell line SKOV3, followed by real-time measurements of cell invasiveness. Surprisingly both PIWIL1 and MAEL over expression decreased the invasiveness of SKOV3 cells. Our findings support a growing body of evidence that shows that genes in this pathway are upregulated in cancer. In ovarian cancer we show for the first time that Piwil1 transcript may often be abnormal result in non functional product. In contrast to what has been observed in other cell types, we found that PIWIL1 and MAEL have a repressive effect on cell invasiveness.

Introduction

Ovarian cancer is the most lethal gynaecological cancer, and the fifth leading cause of cancer-related death among women in the Western World [1]. The five-year relative survival rate for women with ovarian cancer is only around 40% [1]. Ovarian cancers are heterogeneous tumors which exhibit distinct morphological characteristics, genetic mutations and origins. There are three major types of ovarian cancer - epithelial, germ cell and sex cord stromal tumors. Ovarian germ cell tumors and sex cord stromal tumors comprise 10% of ovarian cancers, and are derived from primitive ovarian germ cells or mesenchymal cells in the sex-cord derived tissue of the ovary, respectively [2]. EOCs account for more than 90% of ovarian malignancies. Based on histology EOCs are classified into four main subtypes (serous, mucinous, endometroid and clear cell carcinomas) with over 70% of the cases diagnosed as serous carcinomas (SCs) [3].

Alterations of the epigenetic landscape such as global DNA hypomethylation and gene specific DNA hypermethylation are frequently reported in cancer cells [4]. Global DNA hypomethylation largely affects the intergenic and intronic regions of the genome, especially repeat sequences and transposable elements (TEs), which account for about 55% of the human genome [5], including 17% L1 repeats [6]. In somatic cells, DNA methylation of TEs is crucial to prevent their expression which can jeopardise integrity of the genome. During germ cell development, there is a transient period of global DNA hypomethylation which results in temporary activation of TEs [7].

The piRNA pathway is evolutionarily highly conserved in metazoa and consists of 21–26 nt piRNAs which bind PIWI proteins to mediate posttranslational control of TE expression and play a role in epigenetic changes (such as DNA methylation) via interaction with other proteins (such as MAEL or HP1) [8], [9]. In mammals there are several Piwi like (Piwil) genes (three in mice, four in humans). Expression of Piwil genes and piRNA pathway associated genes has been demonstrated at various stages of germ cell development in particular in testis. Piwil1 (Miwi) has previously been identified as a gene exclusively expressed in mouse testis and essential for spermatogenesis [10]. More recently expression of Piwil1 has also been demonstrated in mouse and human ovary [11]. Mutation of Piwil2, Piwil4 and Mael in mouse leads to similar phenotypes including elimination of TE DNA methylation and male sterility [8]. There is now growing evidence of piRNA activity also in the mammalian ovary, however knock out experiments of piRNA pathway gene in mice so far has only led to male sterility [12][14].

There is mounting evidence of piRNA pathway activity in various cancers. Expression of PIWIL1 and PIWIL2 has been found in a wide range of human cancers such as stomach, breast, gastrointestinal tract and endometrium [15][18] and recently also in ovarian carcinoma [19]. Increased expression of PIWIL1 is associated with enhanced tumor growth [20] increased tumor grades [21], poor diagnostic outcomes [22] and mortality [23]. PIWIL2 is widely expressed in early-stage breast and cervical cancers and pre-cancerous stem cells involved in tumorigenesis [18]. The expression pattern of PIWIL3 and 4 has only been studied in colon cancers [24]. Maelstrom (MAEL) is a known testis cancer gene [25].

Our finding of expression in ovarian somatic cells [11] together with decreased DNA methylation at L1 promoter region associated with the progression of cervical and uterus cancers [26] and poor prognosis in ovarian carcinomas [27] led us to investigate whether piRNA pathway genes could play a role in EOCs. In this study, we investigated the expression of PIWIL14 and MAEL in 25 EOC, 19 benign tumor samples, and 8 normal ovarian tissues. We found significantly elevated expression of PIWIL1 and MAEL in EOC compared to benign and normal ovarian tissues. However, PIWIL1 transcripts in EOC may not be functional due to deletions identified in the PIWI domain of this transcript. Furthermore, overexpression of PIWIL1 and MAEL suggests a role of these genes in reducing ovarian cancer cells invasiveness in vitro.

Materials and Methods

Tissues

Total RNAs from human testis and pre-menopause ovarian tissues were purchased from Stratagene (USA). Malignant, benign and normal ovarian tissues (Table 1 and Table S3) were collected with informed written consent of the patient and approval by the Ethics Committee of the Royal Adelaide Hospital, Adelaide, South Australia.

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Table 1. Age and cancer stage of EOC, benign tumors and normal ovaries.

doi:10.1371/journal.pone.0099687.t001

Cell lines

Human ovarian cancer cell lines SKOV3 and OVCAR3 were purchased from American Type Culture Collection (ATCC, USA) while OVCAR5 was obtained from Dr. Thomas Hamilton (Fox Chase Cancer Center, Philadelphia, PA) Johnson et al Cancer Res 57: 850–856 1997. Cell lines were maintained in RPMI 1640 medium supplemented with L-glutamine (2 mM), Penicillin-streptomycin (100 U/ml, 100µg/ml) (Sigma). SKOV3 and OVCAR3 cells were supplemented with 5% FBS (Invitrogen) whilst OVCAR5 cells were supplemented with 10% FBS and 7.5 µg/ml insulin. All cell lines were maintained at 37°C in a humid chamber with 5% CO2.

RNA isolation and cDNA synthesis

RNA was isolated from tissues and cell lines using TRIzol reagent (Invitrogen) following the manufacturer's instructions. RNA was resuspended in nuclease free water, and stored at -80°C. RNA was treated with DNase I (New England Biolabs) before reverse transcription. 1µg of RNA was used to obtain cDNA using the Super Script III First-strand Synthesis System (Invitrogen) following the manufacturer’s protocol. Briefly, RNA was incubated with 1µl of 50 µM oligo(dT)20 and 1µl of 10 mM dNTPs for 10 mins at 65°C. After incubation, 4µl of 5x RT buffer, 2µl of dithiothreitol (DTT, 0.1 M), 1µl of RNaseOUT (40 U/μl) and 1µl of Super Script III RT enzyme (200 U/μl) were added and incubated for 50 mins at 50°C. The reaction was terminated at 85°C for 5 mins. cDNAs were stored at −20°C.

Gene expression analyses

RT-PCR was performed to determine the level of mRNA for the five piRNA pathway genes (Table S1) and beta actin (ACTB) in 52 patient samples and 3 ovarian cancer cell lines. Each 25µl reaction contained 200 ng of cDNA, 5µl of 5x Go Taq Green Master Mix (Promega), 1µl of 5 mM dNTP solution (Roche), 0.5µl of each primer (20 pmol/μl) and 0.5µl Taq DNA polymerase. The PCR conditions were the same for all genes, except the annealing temperature (Table S1), and were as follows: initial denaturation at 95°C for 2 mins, 95°C for 30 secs, annealing at gene specific temperature for 30 secs (Table S1), extension at 72 °C for 1 min, 32 cycles. PCR of ACTB control was performed with 27 cycles, followed by 5 mins of final extension at 72 °C. The PCR products were visualized on a 1.5% agarose gel stained with ethidium bromide. Band intensity was measured (Quantity One program, Version 4, Bio-Rad), and the relative intensity of each gene was normalized to that of ACTB. PCR products were confirmed by sequencing (Big Dye Terminator v3.1 cycle sequencing kit, Applied Biosystems). RT–PCR was performed in triplicate for each primer pair.

Statistical analyses of gene expression

Data are presented as median relative expression (first quartile to third quartile). The transcript level of each gene was normalized against ACTB. Kolmogorov-Smirnov and Shapiro-Wilk tests suggested that the expression level of each gene from all of the 52 samples is not normally distributed. Thus, a Kruskal-Wallis test, which uses a non-parametric method, was used to compare the gene expression from malignant, benign and normal groups. The Spearman's correlation test was performed to investigate the correlation between a patient's age and consequent gene expression. R-value closer to 1 indicates a stronger positive correlation, whereas an R-value closer to -1 shows a stronger negative correlation. In the Kruskal-Wallis and Spearman's tests, a P-value of <0.05 was considered statistically significant.

RNA in situ hybridization

Probes were labelled with digoxigenin-11-UTP (Roche Diagnostics) according to the manufacturer's protocol. Formalin-fixed paraffin-embedded tissue sections were deparaffinised in xylene and subsequently washed in graded ethanol. All solutions were prepared in diethylpyrocarbonate (DEPC)-treated H2O to inactivate RNase activity. mRNA-bound nucleoproteins were removed by proteinase K incubation (1.2µg/ml) (Roche Diagnostics) for 30 mins at 37 °C. Slides were washed with 1x PBS and acetylated (1 M triethanolamin/0.178% HCl/0.25% acetic anhydride). Slides were prehybridised at 65°C for 2 hrs with prehybridization buffer (50% deionized formamide/2x SSC/1x Denhardt's solution/0.005 M phosphate buffer/10% dextran sulphate/1 mg/ml yeast total RNA/1 mg/ml salmon sperm DNA) and hybridised with about 200 ng of cRNA probe in prehybridization buffer overnight at 50°C in a humid chamber. Slides were washed in 2x SSC, 1x SSC, 0.5x SSC and 0.1x SSC for 15 mins each at 50°C. To remove unbound cRNA probes, the tissue was subjected to RNase A (150µg/ml) digestion for 30 mins at 37°C. Specifically bound cRNA probes were detected using an anti-DIG antibody coupled to alkaline phosphatase with nitrobluetetrazolium chloride/X-phosphate-5-bromo-4-chloro-3-​indolylphosphate(NBT/BCIP) (Roche Diagnostics) as chromogenic substrate.

Cloning and construct preparation for invasion analyses

The MAEL (CCDS1257) and PIWIL1 (CCDS9268) cDNA sequences were obtained from the NCBI CCDS database. Full-length cDNA sequence was amplified using the Expand High Fidelity PCR system (Roche) according to the manufacturer's protocol and cloned into a pcDNA3.1 mammalian expression vector. Plasmid DNAs including pcDNA 3.1 (Invitrogen) or pEGFP-N1 empty vectors (Clontech) were transfected into SKOV3 cells using Lipofectamine LTX (Invitrogen) following the manufacturer's instruction. SKOV3 cells were selected due to their endogenous L1 expression levels and the fact that they showed no piRNA pathway gene expression (Fig. 1C). For each transfection, 8×104 SKOV3 cells were seeded onto a 24-well plate 14 hrs before transfection and were cultured in RPMI 1640/5% FBS without Penicillin-streptomycin. Plasmid DNA (500 ng) was diluted in 100µl of Opti-MEM medium (Invitrogen) and incubated with 0.5µl Plus reagent (Invitrogen) and 2µl Lipofectamine LTX (Invitrogen) for 30 mins before being added into each well. After 6 hrs, the cell culture medium was replaced with new RPMI 1640/5% FBS medium and cells were incubated for 24 hrs at 37°C, 5% CO2 before harvesting for in vitro invasion analyses. The transfection of pEGFP-N1 empty vectors into SKOV3 cells allowed the transfection efficiency to be measured, as successfully transfected cells expressed the GFP protein. The pEGFP-N1 vector was subjected to the same growth and transfection conditions as outlined above, to determine the transfection efficiency which was approximately 70% after 24 hrs.

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Figure 1. piRNA pathway gene expression in human normal ovaries and ovarian cancers.

RT-PCR analyses of PIWIL1-4 and MAEL expression in (A) malignant EOC, benign ovarian cancers (B) normal ovaries and (C) ovarian cancer cell lines. This is a representation of 4 out of 25 malignant EOC and 19 benign ovarian cancer tissues. Increased expression of PIWIL1, 2, 4 and MAEL, but not PIWIL3, are found in malignant cancers compared to benign tumors. All normal ovaries show PIWIL2 and PIWIL4 expression but only some have PIWIL1, 3 and MAEL expression. No endogenous PIWIL1, 2, 4 and MAEL expression is detected in OVCAR3 and SKOV3 cells. Ova* indicates tissue from a 20-year old pre-menopausal ovary while other ovaries are from individuals aged 44–76 years old.

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In vitro invasion analyses with xCelligence

Cell invasion was tested with real-time invasion assay monitoring using CIM devices and the xCelligence DP system (Roche Diagnostics) [28]. Briefly, 4 hrs before the invasion assay, a CIM plate (Roche) was coated with 1:20 diluted Growth factor reduced Matrigel basement membrane matrix (~450µg/ml) (BD Biosciences). Then 40,000 cells, untransfected or transfected with empty vector (Ev) or MAEL or PIWIL1 vectors, were seeded into each coated well. Cell activity was followed over a time period of 72 hrs by measuring the impedance signal in the CIM plate. The cell activity was recorded every minute in the first 12 hrs and every 5 mins for the following 12 hrs. Then from 24 hrs onwards until the end of the experiment, cell activity was recorded every 30 mins. In each CIM plate, triplicates of each group were performed to obtain the mean and standard deviation. The experiment was repeated three times.

PIWIL1 transcript sequencing

The PIWI domain of PIWIL1 transcript was PCR amplified and products of different size were cloned into pGEM-T Easy vector (Promega). A total of 30 positive colonies from different PCR bands were selected from each ligation reaction and plasmid DNAs were purified using standard alkaline lysis methods (Qiagen) [29]. 200 ng of plasmid DNA were sequenced (Big Dye Terminator v3.1 Cycle Sequencing Kit, Applied Biosystems) using SP6 and T7 universal primers.

Results

Expression of piRNA pathway genes is increased in malignant EOC compared to benign tumors or normal ovarian tissues

piRNA pathway genes are consistently expressed in the mammalian ovary [11]. In order to investigate a possible role of this pathway in EOC, we performed semi-quantitative RT-PCR to investigate the expression of PIWIL1, PIWIL2, PIWIL3, PIWIL4 and MAEL in advanced stage serous EOC (n = 25), benign ovarian tumors (n = 19) and normal ovarian tissue (n = 8) (Table 1, Table S3 and Fig. 1A, B). Semi quantitative analysis revealed that the relative expression levels of PIWIL1 and MAEL were significantly higher in malignant EOC compared to benign and normal tissues (Fig. 2A, B). The relative expression levels of PIWIL2 and PIWIL4 in malignant groups were not significantly different to that in benign or normal ovarian tissues (Fig. 2C, D). However, the expression of PIWIL2 and PIWIL4 are significantly lower in benign tumors compared to normal ovarian tissue, suggesting an alteration of gene expression during the progression of EOC. The relative expression of PIWIL3 is different to other PIWIL genes such that the expression of this gene is significantly higher in the normal ovary when compared to both malignant and benign tissues (Fig. 2E). Furthermore, the relative expression of PIWIL3 in normal ovary is positively correlated with patient age in the normal ovary tissues (n = 8) (r = 0.750, P = 0.05) (Table 2). In contrast to PIWIL3, PIWIL1 expression is negatively correlated with the age of patients (r = −0.737, P = 0.037). PIWIL1 is expressed in growing follicles in pre-menopausal ovaries, but in this study half of the ovaries tested were from women less than 50 years old and likely to be premenopausal.

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Figure 2. Box plot representing the expression of piRNA pathway genes in malignant EOC, benign ovarian cancer tissues and normal ovaries.

Semi-quantitative RT-PCR analysis of mRNA expression (relative to ACTB) of (A) PIWIL1, (B) MAEL, (C) PIWIL2, (D) PIWIL4 and (E) PIWIL3. (F) P-value of each comparison group. Malignant EOC (n = 25), benign ovarian cancer tissues (n = 19) and normal ovaries (n = 8). Kruskal-Wallis Test was performed to compare the gene expression level between two groups. Filled dot indicates mean of each group. * indicates 0.001<P<0.05; *** indicates P<0.001; NS, not significant.

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Table 2. Correlation between age of patients and piRNA pathway gene expression.

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L1 and piRNA pathway genes are over expressed in EOC cells

To analyse the expression pattern of piRNA pathway genes and L1 in EOC, RNA in situ hybridization was performed in malignant EOC (n = 5) and benign ovarian tumors (n = 2) (Table 3, Fig. S1). We found strong expression of L1 in the epithelial cells but L1 was absent in the stromal cells in all samples (Fig. 3A, E). Also we noted that the expression of L1 is variable in different patients (Fig. 3A). Strong expression of PIWIL1 was found in the epithelial cells in all EOC tissues (Fig. 3B, F) while MAEL and PIWIL2 showed strong expression in the epithelial cells and stromal cells of all EOC examined (Fig. 3C, G and D, H respectively).

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Figure 3. L1, PIWIL1, MAEL and PIWIL2 are expressed in the epithelial cells of malignant EOC.

In situ analysis of (A, A’, E) L1, (B, B’, F) PIWIL1, (C, C’, G) MAEL, (D, D’, H) PIWIL2 in two malignant EOC (A-D from SC3 while E-H from SC2). (A’-D’) Amplification images of A-D respectively. Strong expression of piRNA pathway genes and L1 was found in the squamous-to-cuboidal like epithelial cells of both malignant EOC except PIWIL1 which only expressed in SC2 but not SC3. L1 has patchy expression in some EOC such that some epithelial cells seem to have stronger L1 expression compared to others. MAEL and PIWIL2 but not PIWIL1 are also expressed in the stromal cells in both EOC. (E’-H’) Negative controls with sense probe of L1, PIWIL1, MAEL and PIWIL2 respectively. Ep = epithelial cells; S = stromal cells. Scale bar = 50µm.

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Table 3. Expression trends of piRNA pathway genes and L1 in the EOC after in situ hybridisation.

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Multiple PIWIL1 transcript variants exist in malignant EOC

PCR amplification of the PIWI domain from EOC cDNAs produced two distinct bands compared to cDNAs from normal testis or ovary (Fig. 4), suggesting the presence of multiple PIWIL1 transcript variants in malignant EOC. PCR products from testis and malignant EOC were extracted, cloned and sequenced. Multiple alignments of clone sequences showed many changes within the PIWI domain at the nucleotide level when compared to the testis and published PIWIL1 cDNA sequence. Single base pair changes have been identified in PIWIL1 transcripts of malignant EOCs (Table S2). In addition, most of these clones have exon deletion and unspliced introns which introduce premature stop codons. Importantly a 75-nt deletion which comprised the entire exon 17 was found in most of the sequenced clones in 5 out of 28 EOC patients (Fig. 4B). Furthermore, some clones showed partial splicing of introns 15 and 16 (Fig. 4B) such that 17 bp and 20 bp from the 5′ end of intron 15 and 16, respectively, are unspliced. In order to confirm that the mutations are due to splicing, genomic DNA of tumor samples were isolated and sequenced at the corresponding region. No mutations were identified between exons 15–18 (where the splicing errors occurred) in the genomic PIWIL1 sequence (Fig. S2). In order to predict if the above post-transcriptional alterations affect PIWIL1 function, sequences were translated and compared to the control (testis cDNA) and published peptide sequence (AAC97371.2). Loss of the entire exon 17 (73-nt deletion) in 11 clones introduced a premature stop codon in the PIWI domain (Fig. S3). Similarly, stop codons were found in clones that have unspliced introns (not shown).

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Figure 4. PIWIL1 transcript variants in EOC.

(A) PIWIL1 expression in control tissues (human testis, normal ovary (ov) 1, 2) and EOC tissue SC1 and 2. In the positive control, a 500 bp band was amplified, but in malignant SC1, two bands were obtained. (B) cDNA multiple alignment (partial) showing that most of the clones have a deletion of exon 17 (ΔΔ3) and 3 clones have partial splicing of intron 15 and 16 (). PIWIL1_ccds: published cDNA of PIWIL1 (CCDS9268); Testis C1: testis transcript clone 1; B1–3, B6, B9–B14, C6, C8, C9, C10–C15, D1–D10: clones with PIWIL1 transcripts.

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Over expression of piRNA pathway genes reduces invasiveness in vitro

In order to investigate the possible role of piRNA pathway genes in cancer progression, full-length PIWIL1 or MAEL transcripts were cloned and transfected transiently into the ovarian cancer cell line SKOV3 and assayed for invasiveness after 24 hrs of transfection. RT-PCR was performed to validate the insertion of plasmids into these cells. RT-PCR confirmed GFP, PIWIL1 or MAEL over expression (Fig. S4A). Expression of MAEL and PIWIL1 constructs remained high in the transfected cells 50 hr post-transfection (Fig. S4A). MAEL, PIWIL1 and empty vector (Ev) transfected cells and untransfected SKOV3 cells were applied to the xCELLigence system to investigate their effect on cell invasiveness [30]. Surprisingly, the invasiveness of MAEL and PIWIL1 transfected cells was lower compared to untransfected or empty vector cells (Fig. 5). Cell invasiveness from each group started to reach a plateau after 30 hrs, thus only cell activity of the first 30 hrs is shown. Our results suggest that overexpression of PIWIL1 and MAEL have a repressive effect on SKOV3 cell invasiveness.

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Figure 5. Invasion assay of MAEL or PIWIL1 transfected SKOV3 cells.

PIWIL1 and MAEL transfected cells have lower invasiveness compared to untransfected cells and Ev transfected cells. In each experiment, each group was performed in triplicate and this experiment was repeated three times. This is a combined data plot of three independent experiments for all groups. Error bars represent standard deviation. WT indicates untransfected SKOV3 cells; empty vector (Ev), MAEL and PIWIL1 indicate cells transfected with MAEL or PIWIL1 vectors. None indicates well without cells.

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Discussion

The piRNA pathway is important for TE silencing, epigenetic regulation and stem cell self-renewal in a wide range of organisms [31], [32]. Global DNA hypomethylation and TE derepression, such as L1, is a common feature of cancer genomes [33], [34] in humans PIWIL1 and 2 overexpression has been observed in tumors from various tissues [15][18], [21][23]. However, it is still unclear whether piRNA pathway genes are differentially expressed in ovarian cancer or have a role in ovarian tumor progression. We examined the expression of piRNA pathway genes PIWIL14, MAEL and L1 in malignant EOC, benign tumors and normal ovary tissues, and also investigated possible roles of PIWIL1 and MAEL in ovarian cancer cell lines.

Expression of PIWIL12 has been investigated in various cancerous tissues [15][18], [21], [23], [35], but not MAEL, PIWIL3 and PIWIL4. Although the expression of PIWIL2 and 4 appeared high in tumor samples this was not significant, likely due to the fact that PIWIL2 and PIWIL4 were strongly expressed in normal ovarian tissues (Fig. 1B) and their expression among malignant tissues is highly variable. The expression of PIWIL1 and MAEL however is significantly increased in malignant EOC when compared to benign tumors. PIWIL1 and MAEL, but not PIWIL2 and 4, were significantly up regulated when compared to normal ovaries. In contrast to PIWIL2 and 4 that are expressed in all normal ovarian tissues examined, the expression of PIWIL1 and MAEL is found only in a subset of normal ovarian tissues from patients who were less than 50 years old. In normal ovary, PIWIL1 and MAEL are expressed in the cumulus cells of growing follicles in human [11]. The normal ovarian tissues tested are from individuals aged 44–76 years old, and half of these samples were derived from individuals less than 50 years old. Thus, the variable expression of PIWIL1 and MAEL in the normal ovaries could be explained by the difference in abundance of growing follicles, which express piRNA pathway genes across the samples.

MAEL is known as a cancer/testis gene as it is expressed in testis and a number of cancer cell lines [36]. Here we identified for the first time the increased expression of MAEL in malignant EOC and benign ovarian tumors. Similar to PIWI, MAEL is essential to ensure proper germline stem cell differentiation in Drosophila and other vertebrates [37]. Overexpression of piRNA pathway genes in EOC may indicate that some stem cell characteristics are present in tumor cells or that the piRNA pathway has been activated for example by activity of retrotransposons. Expression of these genes may also be a signature of the presence of ovarian cancer stem cells [38].

The expression of piRNA pathway genes in normal ovary and certain types of EOC may provide a new perspective on the origin of ovarian cancer. Somatic cells of the maturing follicle may come in contact with the ovarian surface epithelium during ovulation or may be present in the inclusion cyst which is thought to play a role in the origin of epithelial ovarian cancer [3] although the presence of inclusion cysts seems to not per se increase the risk of developing ovarian cancer [39]. Hypomethylation of the L1 promoter region is correlated with increased L1 mRNA expression, in malignant breast cancer tissues and cell lines [40], [41]. The expression of PIWIL genes and MAEL in both normal ovary and malignant EOC correlate with increased expression of repeat elements and raises the possibility that the piRNA pathway may have been triggered by TE expression. However, we noticed that L1 expression was absent in earlier stage malignant tumors (n = 6) but consistently present at all stage 3c tumor samples. This provides some circumstantial evidence that the activation of piRNA pathway genes may precede L1 expression during tumor progression. This is consistent with work in other tumors that correlate L1 expression with cancer progression [42]. Maelstrom knock out results in decreased DNA methylation in gonads, but not in somatic tissue. In gonads this leads to a dramatic increase in transposable element expression in the germ cells [43]. Our observation of MAEL overexpression in the absence of detectable L1 expression in early stage tumor samples raises the possibility that non-functional MAEL may play a role in decreasing DNA methylation promoting subsequent L1 expression.

Although PIWIL1 transcript level was significantly increased in malignant EOC compared to benign and normal tissues, cloning and sequencing of these transcripts suggested that these transcripts may produce aberrant and non-functional PIWIL1 protein. Multiple mutations were found in PIWIL1 transcripts including unspliced introns, loss of exons as well as single base pair changes. Single base pair changes maybe a result of RNA editing [44]. Among thirty clones of PIWIL1 transcripts from malignant tissues, one third of these clones have A to G (I) substitution. In addition, most of these clones have exon deletion and unspliced introns which introduced premature stop codons (Table 2). The presence of premature stop codons suggests that although PIWIL1 expression is high in malignant tissues, the corresponding protein (if any) maybe truncated and non-functional. Such defects in pre-mRNA splicing have been found in liver cancer and have been implicated in its progression [45].

In situ analyses revealed that L1, PIWIL1, PIWIL2 and MAEL are strongly expressed in the epithelial cells. Surprisingly we also found evidence for PIWIL2 and MAEL expression in the stromal cells in malignant EOC. It is unclear at this point if these are epithelial cells invading stromal tissue or individual stromal cells expressing these genes. Several lines of evidence have demonstrated that alteration of gene expression in stromal cells may create a microenvironment which facilitates tumor growth, playing a role in cancer progression [46][48]. For example, changes of gene expression in the stromal cells surrounding colon cancer cells have been shown to produce matrix metalloproteinases (MMPs) which increase tumor invasion capacity in vitro and in vivo [47], [49].

There are a number of ways in which genes associated with the piRNA pathway can play a role in genome regulation and it has been suggested that activity of these genes can have effects on methylation and expression of TEs as well as genome instability. In addition, PIWI proteins can mediate, activating or repressing effects on chromatin via interaction with heterochromatin protein 1 or polycomb group proteins. Despite this experimental evidence elucidating the role of PIWIL1 and MAEL in cancer is difficult as differing effects are observed. Recent studies suggest that PIWIL1 maybe a marker for cancer cell proliferation as it is co-expressed with KI67 [16], a reliable proliferating cell marker [50]. In addition, studies in a Drosophila brain tumor model suggested that inactivation of Piwi suppressed tumor growth and thus Piwi may promote cancer progression in this system [51]. This is further supported by slowed tumor growth after knockdown of PIWIL1 in lung cancer cell lines [52]. Recently several other studies investigated the effect of PIWI and MAEL overexpression on tumor progression. Liu et al observed increased expression of the Maelstrom gene in hepatocellular cancer (HCC). When overexpressed, MAEL led to increased growth, migration and invasiveness in HCC cell lines [53]. Liang et al. showed in another study, that stable overexpression of Piwil2 in mouse embryonic fibroblasts increased proliferation and invasiveness [54]. However, in humans over expression of PIWIL1 did not increase cell growth but caused programmed cell death in myeloid leukaemia KG1 cells, suggesting that PIWIL1 may prevent tumor development in these cells [55]. Our results in SKOV3 cells support those findings. Together this suggests that MAEL may undergo different roles depending on cell type and differentiation status. Given that these results were obtained in different cell types and tested in different assays and species it is difficult to reconcile the divergent results. One possible pathway that may shed some light on this is the AKT-GSK3b-Snail pathway. Recent work showed that MAEL overexpression triggers EMT via the AKT-GSK3b-SNAIL pathway. It has been suggested that activation of AKT will lead to degradation of SNAIL ultimately leading to EMT and increased invasiveness. However in SKOV3 cells SNAIL overexpression has been reported to increase invasiveness [56]. The decrease of invasiveness after MAEL overexpression observed in the present study could be due to a reduction in SNAIL activity by MAEL.

Conclusions

Increasing evidence of piRNA pathway activity in various cancers raises questions about a role of this pathway in the origin and progression of these malignancies. As reported in this study, over expression of piRNA pathway genes and L1 elements in malignant ovarian cancer suggest a role of this pathway in EOC. Expression of PIWIL1 and MAEL is significantly up regulated in malignant EOC when compared to benign lesions and normal ovaries. In situ analyses revealed that L1, PIWIL1, PIWIL2 and MAEL are strongly expressed in the cancerous cells but surprisingly MAEL and PIWIL2 expression was also found in the stromal cells lining tumor tissues, suggesting a change in cell composition or identity in the tissue surrounding the cancer cells. Identification of aberrant PIWIL1 transcript revealed that non-functional PIWIL1 proteins may be produced. In contrast to other cell systems, in vitro real-time invasion assay showed that over expression of piRNA pathway components such as PIWIL1 and MAEL has a repressive effect on ovarian cancer cell invasiveness. Together, these results highlight the complexity in which the piRNA pathway may influence tumor progression and warrant further work to better understand the role of the piRNA pathway in the origin and progression of ovarian cancer.

Supporting Information

Figure S1.

Expression of piRNA pathway genes and L1 in malignant EOC. (A) MAEL antisense from SC2 which shows strong expression in stromal cells (+++) compared to epithelial cells which have weak expression. (B) L1 expression in SC3. Epithelial cells have patchy strong expression of L1 while low expression was observed in the stromal cells. +++ strong expression; + weak expression. (A’–B’) Negative controls with a sense probe of MAEL and L1 respectively. Scale bar = 50µm

doi:10.1371/journal.pone.0099687.s001

(TIF)

Figure S2.

No mutations found in the genomic PIWIL1 sequence in serous carcinoma 1. SC1 gDNA was aligned with published PIWIL1 gDNA (ENSG00000125207) sequence from exon 15 to exon 18. All exon sequences and partial intron sequences were shown. Green bar indicates 100% conservation between the aligned sequences.

doi:10.1371/journal.pone.0099687.s002

(TIF)

Figure S3.

PIWIL1 transcript variants encoded premature stop codon. (A) 19 clones with exon 17 (ΔΔ13) deletions, 3 clones with unspliced introns and 1 clone with a single base change resulted in the introduction of premature stop codons. PIWIL1_ccds9268: published PIWIL1 peptide sequence (AAC97371.2); Testis C1: translated testis clone 1; B1-3, B6, B9-B14, C6, C8, C9, C10-C15, D1-D10: clones with PIWIL1 translated sequence. * inside the boxes in panel A indicates premature stop codon.

doi:10.1371/journal.pone.0099687.s003

(TIF)

Figure S4.

Expression of PIWIL1 and MAEL is maintained in transfected cells throughout the invasion study. (A) RT-PCR showing the expression of GFP, MAEL and PIWIL1 in transfected cells (left panel) at the start of invasion study (24 hrs post-transfection) and (right panel) the end of invasion study (74 hrs after transfection). The expression of GFP, MAEL or PIWIL1 can only be detected in specific vector transfected cells but not empty vector transfected or wildtype cells. (B) A high number of GFP positive cells were still observed after 74 hrs of transfection. Scale bar = 10µm.

doi:10.1371/journal.pone.0099687.s004

(TIF)

Table S1.

Primers for RT-PCR and in situ hybridization (ISH).

doi:10.1371/journal.pone.0099687.s005

(DOCX)

Table S2.

Nucleotide changes in PIWI domain of PIWIL1 transcripts.

doi:10.1371/journal.pone.0099687.s006

(DOCX)

Table S3.

Classification of the individual tumor samples used.

doi:10.1371/journal.pone.0099687.s007

(DOCX)

Acknowledgments

We thank Dr. Tasman Daish and Dr. Enkhjargal Tsend-Ayush (University of Adelaide) for experimental advice, Dr. Briony Forbes (University of Adelaide) for providing the pcDNA3.1 vectors and Dr. Peter McCarthy (University of Adelaide) for providing the pEGFP-N1 vector, Miss Noor Alia Lokman for organising the patient tissues. F.G. is an Australian Research Council Research Fellow.

Author Contributions

Conceived and designed the experiments: FG SLL. Performed the experiments: SLL. Analyzed the data: SLL IMDDAT DR MKO CR FG. Contributed reagents/materials/analysis tools: MKO CR. Wrote the paper: SLL FG.

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