1. Introduction
MicroRNAs (miRs) are versatile non-coding RNA molecules implicated in gene regulation. They are short, about 22 nucleotides long, single-stranded molecules that mainly silence gene expression by repressing translation or targeting mRNA degradation [
1]. According to the MirBase v.23 database (
https://www.mirbase.org/), the human genome encodes approximately 2300 mature miRs [
2,
3], and it has been estimated that nearly all mRNA transcripts contain miR response elements encoded in their sequences [
4]. MiRs control different biological processes, from cellular proliferation to differentiation and development; in addition, miRs can be involved in the progression and onset of pathological conditions such as cancer [
5,
6].
The repair process after injury of the urinary bladder involves various cell types as it leads to an inflammatory response, cell proliferation, local migration, the formation of granulation tissue, a new extracellular matrix, angiogenesis, apoptosis, and tissue remodeling that ends in scar formation [
7,
8]. The above-mentioned events are triggered upon injury and are controlled by a myriad of cellular signals involving cytokines and growth factors acting in a temporal manner. The fine-tuning of specific gene expressions is ultimately responsible for the progression of the process. MiRs are reported as key epigenetic factors that control healing by targeting genes involved in several cellular features such as epithelial and fibroblast cell proliferation and migration, angiogenesis, extracellular matrix production, apoptosis, and inflammation [
9]. In the context of tissue injury, miRs have been proven to play a critical regulatory role in wound healing, particularly in the skin. Several studies have identified specific miRs that are involved in modulating the different processes of tissue repair. Given these insights, we previously aimed to investigate whether similar miRs were involved in the healing process of the urinary bladder, which shares some biological pathways with skin tissue repair. Our initial analysis identified a set of significantly expressed genes upon bladder wounding [
10]. In addition, we identified a set of miRs that did not pass our stringent cut-off criteria but presented differential expression profiles that allowed us to clearly separate wounded from non-wounded animals; miR-132 was detected in the latter set of genes.
MiR-132 was initially described as a miR related to neuronal function [
11] and has been proposed as a potential therapeutical drug for preventing or treating neurogenerative disorders [
12]. MiR-132 has also attracted attention for its role in wound healing. In cutaneous wounds, miR-132 plays an important role in transitioning from the inflammatory to the proliferative phase of healing by inhibiting inflammatory stimulus and increasing keratinocyte proliferation [
13,
14]. We hypothesized that miR-132 could be equally important in bladder wound healing. In this study, we therefore aimed at exploring the role of miR-132 in rat bladders in vivo and in human urothelial cells (HUCs) in vitro.
3. Discussion
In this study, we investigated the role of miR-132 in urinary bladder wound healing. We found that there was a significant upregulation of this miR during the first week of rodent bladder wound healing, suggesting its potential involvement in the early stages of tissue repair. Through in situ hybridization, we found that the cells within the rat bladder that mainly expressed miR-132 were urothelial cells. To further elucidate its translational and functional role, we conducted in vitro assays on primary HUCs, focusing on urothelial cell wound responses: proliferation and migration. We found that miR-132 was temporally upregulated after in vitro scratch wounding. Furthermore, the stimulus of a wound-enriched environment for the urothelial cells, such as exposure to cytokines IL-6, IL-10, and TGF-β1, induced expression of miR-132 in these cells. MiR-132 gain and loss of function experiments, using specific mimic and inhibitor oligonucleotides, showed that miR-132 induced both urothelial cell proliferation and migration in vitro. Furthermore, by using bioinformatic target predicting tools and a literature review, we identified three possible targets for miR-132 in urothelial cells. All together, these assays demonstrated that miR-132 influenced primary urothelial cell proliferation and migration, indicating its importance in the process of healing.
MiR-132 is a versatile miR with significant roles in various biological processes, from neural function [
15] to immune responses and tissue repair [
16,
17,
18]. Our findings were in agreement with studies reporting a pivotal role of this miR in skin wound healing, such as its key functions in modulating the transition from the inflammatory phase to the proliferative phase of wound healing [
13], by regulation of a large number of immune response- and cell cycle-related genes, thereby reducing an excessive inflammatory response and stimulating proliferation.
The early upregulation of miR-132 post injury indicated its role as an early response element. This early upregulation might be crucial for initiating the repair process. The upregulation of miR-132, induced by Il-6, IL-10, and TGF-β1, suggests that this miR acts within a complex network modulated by these cytokines.
To understand the molecular mechanisms by which miR-132 modulated the observed effects, we used miRTarBase for miR target prediction. This computational tool uses algorithms to predict miR binding sites on target mRNAs based on sequence complementarity and other factors such as evolutionary conservation. Furthermore, the database contains information on the level and type of experimental evidence for each of the predicted targets, facilitating the identification of strong candidate genes.
In our study, we combined targeted miR prediction with literature reviews to identify putative targets of miR-132. This approach led us to focus on RASA1, PTEN, and MAPK as potential targets. While we validated the relationship between miR-132 and these genes through mRNA expression analyses, there were differences in the level of regulation of the three genes.
RASA1 was regulated by miR-132 at both the mRNA and protein levels, while MAPK and PTEN did not demonstrate clear protein regulation by miR-132. Specifically, inhibition of miR-132 led to an upregulation of these genes at both the mRNA and protein levels, suggesting that miR-132 represses MAPK and PTEN under normal conditions. However, the introduction of a miR-132 mimic did not significantly downregulate MAPK or PTEN, which may be due to compensatory regulatory mechanisms or the stable nature of MAPK and PTEN proteins.
Taken together, this suggested that miR-132 regulation may mainly impact mRNA degradation rather than protein abundancy. Further investigations are needed to determine the exact regulatory mechanisms involved.
Furthermore, one study limitation is that our approach to select the possible miR-132 target genes was inherently selective, focusing on already-known or predicted interactions. To gain a more comprehensive understanding of miR-132’s target repertoire, a proteomic or whole-genome approach could allow for the unbiased identification of both direct and indirect targets.
Furthermore, we lacked functional assays directly linking the observed increase in cell proliferation and migration with the activity of these target genes. Although we demonstrated changes in the expression patterns of RASA1, PTEN, and MAPK, we did not establish a direct causal relationship between these changes and the enhanced proliferative and migratory behaviors. RASA1 has been shown to inhibit cell migration by competing with Rab21, a GTPase that binds to integrins and regulates receptor trafficking [
19]. The other two target genes, PTEN [
20] and MAPK [
21], regulate the cell cycle.
The limitations of this study highlight the need for further research to establish the functional significance of these targets in the context of miR-132-mediated bladder wound healing. Future studies should include assays that directly measure the impact of modulating these genes on cellular functions related to wound healing, such as proliferation and migration. Techniques such as gene knockdown or overexpression followed by detailed phenotypic analyses would provide more robust evidence of the roles these targets play in miR-132 function.
The role of miR-132 in bladder tissue has been previously studied in the context of bladder outlet obstruction, implying that this miR acts on tissue remodeling and fibrosis [
22]. To our knowledge, the role of miR-132 in urothelial healing is new.
Given its role in cell proliferation and migration, miR-132 could be a promising therapeutic target in cases of impaired bladder wound healing, bladder inflammatory diseases, and fibrosis. Modulating its expression through miR mimics or inhibitors, particularly in the early stages of injury, could enhance the healing process. However, precise control would be necessary to avoid excessive cell proliferation or migration, which could lead to complications such as hypertrophic scarring or improper tissue regeneration.
Our study provided valuable insights into the regulation and potential targets of miR-132 in bladder wound healing, and highlighted the need for comprehensive functional validations to fully elucidate the molecular mechanisms at play. Addressing these gaps would further enhance our understanding of miR-132’s and other miRs’ therapeutic potential and their role in tissue regeneration (
Figure 9).
4. Materials and Methods
4.1. Ethics
The in vivo urinary bladder wound healing study was approved by the national animal ethics laws and institutional regulations on animal studies (Stockholm County Committee on Animal Research, 20150703 Reg. N107/15) [
8]. The animal interventions and housing complied with veterinary best practice norms and the ARRIVE guidelines at the Unit for Comparative Medicine, Karolinska Institutet, Solna, Sweden.
4.2. RNA Extraction
Rodent bladder RNA was isolated as previously described [
8,
10]. In brief, RNA was extracted using a TissueLyser (Qiagen, Hilden, Germany) for tissue homogenization and Qiazol Lysis Reagent® (Thermo Fisher Scientific, Waltham, MA, USA). After extraction, the concentration of total RNA was determined using a NanoDrop® ND-1000 Spectrophotometer (NanoDrop Technologies Inc., Wilmington, DE, USA).
4.3. RT-PCR Analysis
For each sample, 20 ng of total RNA was reverse-transcribed into complementary DNA (cDNA) using the TaqMan microRNA Reverse Transcription Kit and the multiplex RT primer pool containing miR-specific stem-loop primers (Thermo Fisher Scientific, Foster City, CA, USA) as previously described [
10]. The expression of miR-132 was determined using TaqMan expression assays (Thermo Fisher Scientific Foster City, CA, USA) and normalized based on the values of U6 small nuclear RNA (rat samples) or RNU48 (human samples). Detailed information for the TaqMan assays used in this study is provided in
Table 1.
To quantify mRNAs, total RNA was reverse-transcribed using the RevertAid First Strand cDNA Synthesis Kit (Thermo Fisher Scientific, Foster City, CA, USA). RASA1, MAPK, and PTEN mRNAs were quantified using TaqMan gene expression assays. Target gene expression levels were normalized between samples to the internal control 18 S rRNA (forward: 5′-CGGCTACCACATCCAAGGAA-3′; reverse: 5′-GCTGGAATTACCGCGGCT-3′; probe: 5′-FAM-TGCTGGCACCAGACTTGCCCTC-TAMRA-3′).
4.4. In Situ Hybridization in Rat Urinary Bladders
For in situ hybridization, we used miRCURY LNA™ miR detection probes (Qiagen, Hilden, Germany) and followed the manufacturer’s instructions and previously published [
13]. In brief, formalin-fixed paraffin-embedded rat bladder sections (6 μm thickness) were deparaffinized and washed followed by 3 min treatment with proteinase K (Qiagen, Hilden, Germany) (2 μg/mL) at 37 °C. After 30 min in the pre-hybridization buffer, the sections were hybridized with a miR-132-specific or scramble digoxigenin (DIG)-labeled miRCURY locked nucleic acid probe (25 nM) (Exiqon Woburn, MA, USA) for 2 h at 50 °C. Then, the slides were washed under stringent conditions with saline–sodium citrate buffer (SSC) pre-warmed at 55 °C. The sections were then incubated with alkaline phosphatase (AP)-conjugated anti-DIG antibody (1:1000) (Roche, Mannheim, Germany) for 1.5 h at room temperature. The probe was visualized by adding freshly prepared AP substrate (Roche, Mannheim, Germany) to the sections and incubated at room temperature for 2–12 h in a humidity chamber. Thereafter, the sections were washed and mounted.
4.5. Histological Analysis
Immunostainings were performed with 5 μm paraffin-embedded sections as previously described [
8]. Briefly, after deparaffinization and tissue hydration, antigen retrieval was performed with citrate buffer at 95 °C for 20 min. Endogenous peroxidase activity was quenched by immersing in 3% H
2O
2 (Sigma, St. Louis, MO, USA)/methanol for 10 min. Non-specific binding was blocked by incubation with 4% of normal serum (Vector Laboratories Burlingame, CA, USA) in tris-buffered saline (TBS) for 30 min at room temperature. Immunodetection was performed with the following antibodies at 4 °C overnight: CD68 (inflammation marker, cat.ab31630, Abcam, Cambridge, UK) and Ki67 (proliferative cells, cat.ab16667, Abcam, Cambridge, UK), followed by incubation with rabbit- or rat-absorbed horseradish peroxidase-conjugated (HRP)-conjugated goat anti-mouse IgG secondary antibody (Vector Laboratories), respectively, for 1 h at room temperature. Antibody binding was viewed after the incubation of slides with 3-amino-9-ethylcarbazole or 3,3′-diaminobenzidine HRP substrate (Vector Laboratories) for 5 min. The slides were then counterstained with hematoxylin, dehydrated in graded alcohol, cleared in X-TRA-Solv (J.T. Baker, Burgdorf, Germany) and mounted with mounting medium, X-TRA-Kit (J.T. Baker, Burgdorf, Germany).
4.6. HUC Culture
Human bladder urothelial cells were purchased from Science Research Laboratories. Cells were cultured on poly-L-lysine-coated culture flasks at the recommended minimal density (5000 cells/cm
2) in urothelial cell medium (UCM, catalog #4321) and growth factor supplements (catalog #4352) as previously published [
10]. Cells were used for a maximum of four passages.
4.7. In Vitro 2D Wound Healing Assay in HUCs
Primary HUCs were seeded into poly-L-lysine-coated culture dishes at a density of 40,000 cells/cm2. Once the cells formed a 100% confluency, the monolayers were wounded using a p200 pipet tip. Seven longitudinal and seven vertical straight lines were created. After washing once with PBS, 2 mL of UCM was added to the plates. RNA was extracted after 6, 12, and 24 h for further RNA expression analysis.
4.8. Urothelial Cell Treatments
Before stimulus, HUCs were placed for 12 h in UCM without supplements. HUCs were then stimulated with cytokines and growth factors (all from ImmunoTools, Friesoythe, Germany) at the following concentrations: IL-10 (20 ng/mL), IL-6 (10 ng/mL), and TGF-β1 (10 ng/mL).
4.9. Cell Transfection
Cells were transfected with MirVana for Hsa-miR-132 mimic (hsa-miR-132-3p IDMC10166, inhibitor (hsa-miR-132-3p ID:MH10166), and their controls (Thermo Fisher Scientific, mirVana™, Ambion™) by using Lipofectamine™ RNAiMAX Transfection Reagent and following the specifications of the manufacturer (Thermo Fisher Scientific, Foster City, CA, USA). The mimic double-stranded RNA molecules are designed to mimic endogenous MiR-132, resulting in downregulation of target mRNA targets. Inhibitors are single-stranded oligonucleotides designed to bind and inhibit endogenous miR-132. As the negative control, we used mirVana miRNA Mimic Negative Control #1 (Cat n# 4464058 Thermo Fisher Scientific, Foster City, CA, USA) and mirVana miRNA Inhibitor Negative Control #1 (Cat # 4464076 Thermo Fisher Scientific, Foster City, CA, USA).
4.10. MiR-132 Gene Target Selection
To find genes targeted by miR-132 related to wound healing and bladder tissue repair, we explored the public database for prediction that is available in the miRTarBase (
https://doi.org/10.1093/nar/gkab1079). MiRTarBase revealed experimentally validated target genes for human miR-132. Three genes were selected based on a high score of interaction and because they had been previously studied in scientific articles [
23,
24].
4.11. Analysis of Cell Migration
After transfections with mimics and inhibitors for miR-132, HUCs were plated in IncuCyte
® ImageLock 96-well plates (Essen Bioscience, Ann Arborm MI, USA, catalog number: 4379) at a total density of 40000 cells/well as previously described [
25]. Twenty-four hours later, the IncuCyte
® WoundMaker was used to create a standardized homogeneous wound in each well. Each plate was then placed inside the IncuCyte
® live-cell analysis system (Essen Bioscience; model: IncuCyte
® ZOOM), and the wounds were monitored every two hours. Initial scratch wound area, scratch wound area, and confluence of the wounded area were obtained. The images were analyzed with the IncuCyte
® Cell Migration Analysis software (nr. 9600-0012, Incucyte Zoom 2018A GUI) as previously described [
26]. The data were presented as the percentage of wound confluence over time. Comparisons of migration rates were performed at 6–24 h post wounding. Representative images at each analyzed time point are included in
Figure 6.
4.12. Metabolic Proliferation Assays
The effect of the gain or loss of miR-132 expression in HUC proliferation was evaluated using the Cell Counting Kit-8 (Sigma), by following the manufacturer’s instructions. In brief, 24 h after transfection, the cells were harvested and counted using Countess® Cell Counting Chamber slides (Thermo Fisher Scientific, Foster City, CA, USA). The standard curve was generated with a known amount of HUCs that were plated at the beginning of the experiment. Five thousand cells/well were plated into each well using 6 replicates per condition. The absorbance at 450 nm was measured in all the wells including transfected cells. The total number of cells was calculated in relation to the generated standard curve.
4.13. Western Blot
HUCs were transfected with MirVana for Hsa-miR-132 mimic, inhibitor, and their corresponding controls (Thermo Fisher Scientific,
mirVana™, Ambion™), as mentioned above. Forty-eight hours after transfection, the total protein was collected using radioimmunoprecipitation assay buffer consisting of 150 mM NaCl, 1.0% IGEPAL
® CA-630, 0.5% sodium deoxycholate, 0.1% SDS, and 50 mM tris, pH 8 (Sigma Aldrich, Darmstadt, Germany) and in the presence of proteinase (Complete™ ULTRA Tablets, Mini, EASYpack Protease Inhibitor Cocktail, Roche, Basel, Switzerland) and phosphatase inhibitor cocktails (PhosStop Roche, Basel, Switzerland). Total protein concentration was evaluated using the bicinchoninic acid assay as per the manufacturer’s instructions (Thermo Fisher Scientific, Waltham, MA, USA). Then, 20 µg of total protein was loaded into 7.5% SDS-polyacrylamide electrophoresis gel (Mini-PROTEAN
® TGX™ Precast Gels, Bio-Rad, Hercules, CA, USA) and transferred onto polyvinylidene fluoride membranes (Trans-Blot Turbo Transfer System, Bio-Rad, Hercules, CA, USA) as previously described [
8]. The membranes were thereafter blocked with TBS containing 5% bovine serum albumin and incubated overnight with a 1:1000 dilution of primary antibodies specific to β-tubulin, RASA1, PTEN, and MAPK, followed by 2 h of HRP secondary antibody incubation.
4.14. Statistical Analysis
Each experiment was performed with a minimum of 3 different biological replicates and 3 technical replicates. For the in vivo rat wound healing samples, a non-parametric Mann–Whitney
U test was used to calculate the differences in gene expression. By comparing normalized gene expression values from each biological replicate,
p-values < 0.05 were considered significant. Experiments involving in vitro cultured cells,
t-test, and ANOVA tests were performed using GraphPad Prism version 10.3.1 for macOS (GraphPad Software, Boston, MA, USA,
www.graphpad.com).