Prostate cancer accounts for approximately 25% of all new cancer diagnoses in European men [1]. When diagnosed in its early stages, the disease can be curable, or managed well for decades [2]. However, if the tumour progresses and metastasises, treatment options are limited, and patients eventually succumb to the disease. Hormone deprivation treatment can delay progression, but cannot cure the patient, and development of castration resistance is common [2]. A better understanding of the molecules involved in metastatic disease can also help to recognise the early steps of metastasis, and enable intervention before metastatic spread occurs.
Several different pathways and molecules are known to be involved in the mestastatic process. For example, epithelial-mesenchymal transition (EMT) leads to an increased migratory potential of cancer cells, which in turn promotes metastasis. At the metastatic site, the cells are thought to revert back through mesenchymal-epithelial transition (MET), which acts to support tumour formation [3]. However, there is also evidence that some cells do not fully complete the EMT program, but merely take on a hybrid state in which they express both epithelial and mesenchymal markers [4–6].
These complex gene expression programs are not only controlled by regulatory proteins such as transcription factors, but also through non-coding RNAs. For example, the microRNA-200 (miR-200) family and microRNA-205 (miR-205) can skew cells towards an epithelial phenotype by suppressing ZEB1 [7–9]. Similarly, microRNA-96 (miR-96) can promote epithelial features both by suppressing their translational repressor ZEB1 [10, 11] and by directly upregulating E-Cadherin and EpCAM proteins [12]. The regulation by microRNAs (miRNAs) is mediated through imperfect sequence complementarity to the mRNA target. A single miRNA can have hundreds of different targets in a cell, some with overlapping or opposing functions, facilitating the fine-tuning of biological processes. The deregulation of miRNAs in diseases, including prostate cancer [9, 13], has been established for several years now and has inspired many efforts to implement these molecules as biomarkers or therapeutic targets [14, 15].
As RNA sequencing is becoming more and more affordable, and bioinformatic pipelines are improving rapidly, large-scale analysis of sequenced sample sets has revealed that RNA heterogeneity is much higher than previously anticipated [16–18]. For example, adenosine deaminase acting on RNA (ADAR) enzymes can convert adenosine nucleotides to inosines in the process of A-to-I editing [17–19]. All double-stranded RNAs in a cell represent potential ADAR targets, including primary miRNAs (primiRNAs) from which miRNAs are produced, which can affect both pri-miRNA processing and target selection of the resulting mature miRNA [20]. This forces us to re-evaluate the functions and clinical potential previously assigned to different miRNAs in an isoform-specific manner.
We recently developed an RT-qPCR method that can distinguish between A-to-I-edited miRNAs, and determined the levels of each editing isoform of miR-379 in a clinical prostate cancer cohort [21, 22]. The editing site of miR-379 is located in the seed sequence [23], and the two isoforms have been proposed to bind different sets of mRNA targets [24]. Editing of pri-miR-379 has also been shown to impede miR-379 processing and therefore the levels of mature edited miR-379 [23, 25].
We found that the miR-379 editing frequency was increased in patients with prostate cancer compared to those with benign prostatic hyperplasia. Interestingly, downregulation of unedited miR-379 was associated with metastasis, castration resistance and shorter overall survival, whereas edited miR-379 levels were not associated with these parameters [21]. It suggests that edited miR-379 may not have the same function as unedited miR-379 in prostate cancer cells.
The following three hypotheses were formed based on these results:
1. The main function of miR-379 editing is the downregulation of the miRNA. In this model, either only unedited miR-379 or both isoforms could have a tumour-suppressive function.
2. Increased editing of miR-379 leads to increased production of edited miR-379, which could have a tumour-promoting function.
3. Increased miR-379 editing and reduction of unedited miR-379 are merely the result of increased ADAR2 editing activity in prostate tumours, but play no active role in prostate cancer development.
It is also possible that both of the mechanisms stated in hypothesis 1 and 2 are at work, where increased miR-379 editing leads to both a reduction of putatively tumour-suppressive unedited miR-379, and an increase of potentially oncogenic edited miR-379.
In order to collect more evidence to support or reject these hypotheses, we transfected different prostate cancer cell lines with unedited and edited miR-379, and performed different functional in vitro assays as well as gene expression analyses.