Apoptosis-associated microRNAs are modulated in mouse, rat and human neural differentiation
© Aranha et al; licensee BioMed Central Ltd. 2010
Received: 3 June 2010
Accepted: 24 September 2010
Published: 24 September 2010
MicroRNAs (miRs or miRNAs) regulate several biological processes in the cell. However, evidence for miRNAs that control the differentiation program of specific neural cell types has been elusive. Recently, we have shown that apoptosis-associated factors, such as p53 and caspases participate in the differentiation process of mouse neural stem (NS) cells. To identify apoptosis-associated miRNAs that might play a role in neuronal development, we performed global miRNA expression profiling experiments in NS cells. Next, we characterized the expression of proapoptotic miRNAs, including miR-16, let-7a and miR-34a in distinct models of neural differentiation, including mouse embryonic stem cells, PC12 and NT2N cells. In addition, the expression of antiapoptotic miR-19a and 20a was also evaluated.
The expression of miR-16, let-7a and miR-34a was consistently upregulated in neural differentiation models. In contrast, expression of miR-19a and miR-20a was downregulated in mouse NS cell differentiation. Importantly, differential expression of specific apoptosis-related miRNAs was not associated with increased cell death. Overexpression of miR-34a increased the proportion of postmitotic neurons of mouse NS cells.
In conclusion, the identification of miR-16, let-7a and miR-34a, whose expression patterns are conserved in mouse, rat and human neural differentiation, implicates these specific miRNAs in mammalian neuronal development. The results provide new insights into the regulation of neuronal differentiation by apoptosis-associated miRNAs.
Adult neural stem (NS) cells and embryonic stem (ES) cells are capable of differentiating into multiple cell types of the adult nervous system [1, 2]. This unique property promises future medical applications, ranging from regenerative medicine to drug screening. However, the therapeutic use of NS cells and ES cells will require the identification of cellular conditions that promote the efficient commitment of these progenitors to particular cell phenotypes.
Much progress has been made toward the elucidation of specific differentiation signaling pathways. Surprisingly, recent evidence suggests a functional role for apoptosis-associated proteins such as p53 [3, 4], caspases  and Bcl-2  in differentiation and development. In addition, the recent discovery of microRNAs (miRs or miRNAs) introduced a novel type of regulatory control of gene expression during developmental processes [7, 8]. miRNAs are a class of endogenous noncoding, highly conserved RNAs of ~ 22 nucleotides in length . They regulate mRNA expression either by translation repression or cleavage of targeted mRNA . In the past few years, our understanding of miRNAs has expanded, and a role for apoptosis-associated miRNAs in cell differentiation is emerging.
Let-7a, a member of the let-7 family, is associated with apoptosis by directly targeting caspase-3 . Let-7 was first identified in Caenorhabditis elegans and reported to control the timing of fate specification during larval development . In addition, let-7a was also implicated in neuronal differentiation [12, 13]. However, the mechanism by which let-7a regulates cell differentiation is unknown.
Members of the miR-34 family are direct p53 targets, and their upregulation induces apoptosis and cell cycle arrest [14–19]. In this regard, miR-34a has been shown to regulate genes involved in cell cycle control and apoptosis, including cyclin-dependent kinase 4 (CDK4), CDK6, cyclin D1, E2F3 and SIRT [17, 20, 21]. A role for miR-34a in megakaryocytic differentiation was recently reported, where the miRNA regulates the expression of MYB, and CDK4 and CDK6, thus promoting cell cycle arrest . Furthermore, miR-34a is involved in dendritic cell differentiation , and is required for proper differentiation of mouse ES cells by targeting Sirt1 .
miR-16 is implicated in induction of apoptosis by targeting Bcl-2 , and is involved in cell cycle regulation by targeting CDK6, cell division cycle protein 27 (CDC27), the caspase recruitment domain-containing protein 10 (CARD10), cyclin D1 and cyclin E [26–28]. Nevertheless, an involvement of miR-16 in cell differentiation is virtually unknown.
To gain further insight into the role of apoptosis-associated factors during cell differentiation, we monitored specific apoptosis-associated miRNAs during NS cell differentiation. Our results showed that the differential expression of miR-16, let-7a and miR-34a during mouse NS cell differentiation was not associated with cell death. In addition, upregulation of these miRNAs observed in distinct models of neural differentiation strongly suggests that apoptosis-associated miRNAs may play a role in differentiation.
Mouse NS Cells
Mouse NS cells containing a constitutively expressed marker for green fluorescent protein (GFP) were used to investigate the process of neural differentiation. Primary cells were obtained from central nervous system tissue of embryonic mice and cultured primarily as previously described [29–31]. Mouse NS cells were maintained as neurospheres in undifferentiation medium, serum-free, 1:1 mix of DMEM/F12 (Invitrogen Corp., Grand Island, NY) with 1 × N-2 supplement (Invitrogen Corp.), 20 ng/ml epidermal growth factor (EGF) (R & D Systems Inc., Minneapolis, MN), 20 ng/ml basic fibroblast growth factor (bFGF) (PeproTech EC, London, UK), and 1% penicillin-streptomycin (Invitrogen Corp.), at 37°C in humidified atmosphere of 5% CO2. Subculture occurred at day 7 with mechanical dissociation of neurospheres. The differentiation of mouse NS cells in vitro was induced by culturing dissociated cells in differentiation medium containing DMEM/F12 with 1 × N-2 supplement, 100 ng/ml bFGF, 10% fetal bovine serum (FBS) (Invitrogen Corp.), 500 nM all-trans retinoic acid (Sigma Chemical Co., St. Louis, MO), 50 μM taurine (Sigma Chemical Co.), 10 ng/ml transforming growth factor-β2 (TGF-β2) (R & D Systems Inc.) and 1% penicillin-streptomycin in tissue culture plates pre-coated with poly-D-lysine (Sigma Chemical Co.). The culture medium was changed every 3 days. Differentiated cells at 5 × 104 cells/ml were fixed at different time points, and processed for immunostaining and evaluation of differentiation. Cultures at 5 × 105 cells/ml were processed for western blot and PCR analysis.
In parallel experiments, cell death was prevented by adding tauroursodeoxycholic acid (TUDCA; Sigma Chemical Co.) to the culture medium. Briefly, cells with 3 days of differentiation were treated with 50 μM of TUDCA for 72 hours. At 6 days, cells were collected and processed for evaluation of apoptosis and miRNA expression.
miR-34a expression was modulated using 100 nM of precursor control and pre-miR-34a (Applied Biosystems, Foster City, CA). Mouse NS cells (2.5 × 105 cells/ml) were transfected at 3 or 5 days of differentiation using Lipofectamine 2000 (Invitrogen Corp) following manufacturer's instructions.
Mouse ES Cells
The ES cell line 46C (Sox1-GFP)  was grown and maintained as previously reported  and induced to differentiate using a monolayer protocol. Specifically, ES cells were plated in serum-free medium ESGRO Complete Clonal Grade medium (Millipor Inc.) at high density. After 24 hours, ES cells were gently dissociated and plated onto 0.1% (v/v) gelatin-coated tissue culture plastic at 1 × 104 cells/cm2 in RHB-A media (StemCell Science Inc.). For replating on day 4, cells were dissociated and plated at 2 × 104 cells/cm2 in laminin-coated tissue culture plastic, using RHB-A medium supplemented with 5 ng/ml murine bFGF (PeproTech EC, London, UK). Cells at days 4 and 8 of differentiation were collected to evaluate expression levels of differentiation markers and apoptosis-associated miRNAs. A positive control for neural differentiation was also included at day 8 using LY411575, a γ-secretase inhibitor known to inhibit the Notch pathway and thus enhance neuronal differentiation. Cells were supplemented with either 0.01% DMSO (control) or 10 nM LY411575 (in 0.01% DMSO) for 12 hours. LY411575-treated cells and respective controls were photographed under an inverted microscope Leica DMIL using a DC200 camera (Leica Wetzlar, Germany)
Rat adrenal pheochromocytoma (PC12) cells were propagated in RPMI 1640 medium (Invitrogen Corp.) supplemented with 10% horse serum (Invitrogen Corp.), 5% FBS (Invitrogen Corp.) and appropriate antibiotics in an humidified incubator maintained at 37°C with 5% CO2. PC12 cells were differentiated in RPMI 1640 medium containing 1% horse serum and antibiotics with either none, 5 or 50 ng/ml mouse nerve growth factor, (NGF 2.5S) (Chemicon, Temecula, CA) at 24 hours. Differentiation medium was replaced and fresh NGF 2.5 D was added every third day to differentiating cells. Cells were collected at 1, 2, 4 and 7 days prior to differentiation to evaluate expression levels of apoptosis-associated miRNAs.
The human teratocarcinoma-derived Ntera2/D1 neuron-like (NT2N) cells were obtained based on standard protocols with minor alterations [34, 35]. Briefly, cells were differentiated by treating adherent dividing cells with 10 μM all-trans retinoic acid (Sigma Chemical Co.) for up to 3 weeks. Cells were collected at various time points (0, 14 and 21 days); and for some a replate onto Matrigel coated culture dishes after 14 days of retinoic acid was performed. Replated cells were incubated with mitosis inhibitors (1 μM cytosine D-arabinofuranoside, 10 μM fluorodeoxyuridine, 10 μM uridine) (Sigma Chemical Co.), in the absence of retinoic acid, and collected 7 days after treatment to evaluate expression levels of apoptosis-associated miRNAs.
RNA isolation and semiquantitative reverse-transcriptase-polymerase chain reaction (RT-PCR)
Total RNA was isolated from mouse NS cells, PC12 and NT2N cells by TRIzol reagent (Invitrogen Corp.) according to manufacturer's protocol. ES cell RNAs were extracted using High Pure RNA Isolation kit (Roche Diagnostics), with the inclusion of DNAse I treatment according to manufacturer's instructions. For semiquantitative RT-PCR, 0.5-1 μg of total RNA from NS and ES cells were reverse-transcribed using oligo(dT) (Integrated DNA Technologies Inc., Coralville, IA) and SuperScript II reverse transcriptase (Invitrogen Corp.). Specific oligonucleotide primer pairs were incubated with cDNA template for PCR amplification using the Expand High FidelityPLUS PCR System from Roche Applied Science. The following sequences were used as primers: Nestin sense 5'-CTGGAACAGAGATTGGAAGGCCGCT-3'; Nestin antisense 5'-GGATCCTGTGTCTTCAGAAAGGCTGTCAC-3'; Mash1 sense 5'-AGATGAGCAAGGTGGAGACG-3'; Mash1 antisense 5'-TGGAGTAGTTGGGGGAGATG-3'; Ngn1 sense 5'-ATGCCTGCCCCTTTGGAGAC-3'; Ngn1 antisense 5'-TGCATGCGGTTGCGCTCGC-3'; Ngn2 sense 5'-ACCGCATGCACAACCTAAAC-3'; Ngn2 antisense 5'-AGCGCCCAGATGTAATTGTG-3'; b-III tubulin sense 5'-AATGAGGCCTCCTCTCACAA-3'; b-III tubulin antisense 5'-CTTGCTGATGAGCAGTGTGC-3'; GFAP sense 5'-CCAAACTGGCTGATGTCTACC-3'; and GFAP antisense 5'-GCTTCATGTGCCTCCTGTCTA-3', GAPDH sense 5'-ATTCAACGGCACAGTCAAGG-3'; and GAPDH antisense 5' TGGATGCAGGGATGATGTTC-3'. The ribosomal RNA subunit 28 S was used as control when using mouse NS cells, while GAPDH was used as control in mouse ES cells.
Preparation of labeled RNA and array hybridization
Microarray analysis was performed using a custom microarray platform, highly sensitive, allowing the profiling of even weakly expressed miRNAs . Briefly, a miRNA probe set containing ~1140 oligonucleotides as probes, complementary to Caenorhabditis elegans, Drosophila, zebra fish, mouse, rat and human miRNAs was purchased from Invitrogen. The set also included a number of internal and negative control probes. Oligonucleotides were printed in quadruplicates on Corning GAPSII-coated slides in the Microarray Facility at the University of Minnesota. For RNA labeling, 25 μg of total RNA was ligated to 0.5 μg of a synthetic linker, pCU-DY547 (Dharmacon, Lafayette, CO, USA). To control the hybridization process, reference DNA oligonucleotides complementary to a subset of mammalian miRNAs were combined and labeled with a ULYSIS Alexa Fluor 647 Kit (Invitrogen Corp.). Labeled RNAs and DNAs were then mixed and hybridized to microarray slides . Finally, slides were scanned with a ScanArray 5000 machine (Perkin Elmer, Waltham, MA, USA). Microarray images were processed with Bluefuse software (BlueGnome, Cambridge, UK) to quantify pixel intensities. Individual spots on the slides were further inspected to exclude abnormal spots from subsequent calculations.
Evaluation of miRNAs expression levels by quantitative Real Time-PCR
Real-time PCR was performed in an Applied Biosystems 7300 Sequence Detection System (Applied Biosystems, Foster City, CA). Ten nanograms of total RNA were reverse transcribed using a TaqMan® MicroRNA Reverse Transcription (RT) kit from Applied Biosystems. Each RT reaction contained 1x stem-loop RT specific primer, 1x reaction buffer, 0.25 mM each of dNTPs, 3.33 U/μl Multiscribe RT enzyme and 0.25 U/μl RNase inhibitor. The 15-μl reactions were incubated for 30 min at 16°C, 30 min at 42°C, and 5 min at 85°C and then held at 4°C. The PCR reaction was performed using a standard TaqMan® PCR kit protocol (Applied Biosystems). Briefly, following the RT step, 1.33 μl of the RT reaction were combined with 1 μl of a TaqMAn MicroRNA Assay (20x; forward primer, reverse primer and probe) and 17.67 μl of TaqMan® Universal PCR Master Mix, No AmpErase® UNG in a 20 μl final volume. The reactions were incubated at 95°C for 10 min, followed by 40 cycles of 95°C for 15 s and 60°C for 1 min; and were run in triplicate. miRNA expression levels relative to GAPDH (mouse NS cells, ES cells, and PC12) or RNU6B (NT2N) were calculated on the basis of ΔΔC t method. GeNorm and Norm-Finder were used to identify the best stable combination of reference genes/single gene for normalization in real-time PCR assays. Calibration was set using undifferentiated mouse NS cells, mouse ES cells with 4 days of differentiation or untreated with LY411575, PC12 with 1 day of differentiation and undifferentiated NT2N cells or non-replated NT2N cells. The n-fold change in miRNAs expression was determined according to the method of 2-ΔΔCT.
Steady-state levels of β-III tubulin, neuronal nuclei (NeuN) and glial fibrillary acidic protein (GFAP) were determined by Western blot. Total protein extracts of mouse NS cells were prepared in lysis buffer, following standard established protocols. Protein content was measured by the Bio-Rad protein assay kit according to the manufacture's specification, using bovine serum albumin as standard. 50-80 μg of total protein extracts were separated on 12% sodium dodecyl sulphate-polyacrylamide electrophoresis gel and then subjected to immunoblots using primary mouse monoclonal antibody reactive to β-III tubulin (Tuj1, Covance, Princeton, NJ), NeuN (MAB377, Chemicon International), and GFAP (MAB360, Chemicon International). Blots were subsequently incubated with secondary antibodies conjugated with horseradish peroxidase (Bio-Rad Laboratories, Hercules, CA, USA). Finally, membranes were processed for protein detection using Immobilon (Millipore Corporation, Billerica, MA) or SuperSignal reagent (Pierce, Rockford, IL). Ponceau S staining was used to assess equal gel loading .
Mouse NS cells were fixed with paraformaldehyde (4% w/v) in phosphate-buffered saline (PBS) and blocked for 1 hour at room temperature in PBS containing 0.1% Triton-X-100, 1% FBS, and 10% normal donkey serum (Jackson ImmunoResearch Laboratories, Inc., West Grove, PA). Subsequently, cells were incubated with either anti-β-III tubulin (rabbit, polyclonal; Chemicon International) or anti-GFAP antibodies (mouse, monoclonal; Chemicon International) at a dilution of 1:1000 in blocking solution, overnight at 4°C. Cells were then incubated with either anti-mouse or anti-rabbit IgG conjugated to AMCA (Jackson ImmunoResearch Laboratories, Inc.) and Alexa 594 (Molecular Probes-Invitrogen), respectively, for 2 hour at room temperature. Samples were mounted using Fluoromount-G™ (Beckman Coulter, Inc.). Fluorescence microscopy assessments were performed with a Zeizz AX10 microscope (Carl Zeiss, Jena, Germany) equipped with a Leica DFC490 camera (Leica Weitzlar, Germany). Living undifferentiated cells were photographed under an inverted microscope Leica DMIL with a DC200 camera (Leica Weitzlar, Germany).
Assessment of apoptosis
Apoptosis was assessed by evaluating DNA fragmentation, nuclear morphology and phosphatidylserine exposure.
Evaluation of DNA fragmentation by TUNEL assay. Apoptosis-induced DNA fragmentation was determined using the transferase mediated deoxyuridine triphosphate (dUTP)-digoxigenin nick-end labeling (TUNEL) assay. Cells were fixed with 4% (w/v) paraformaldehyde and processed using an Apoptag in situ apoptosis detection kit according to the manufacturer's protocol (Chemicon Int., Temecula, CA). The samples were examined using a Leica DM 2500 bright-field microscope (Leica Weitzlar, Germany).
Morphologic evaluation of apoptosis. Hoechst labeling of mouse NS cells was used to detect apoptotic nuclei. In brief, the medium was gently removed at the indicated times with minimal detachment of the cells. Attached cells were fixed with 4% (w/v) paraformaldehyde in PBS, pH 7.4, for 10 minutes at room temperature, incubated with Hoechst dye 33258 (Sigma Chemical Co.) at 5 μg/ml in PBS for 5 minutes, washed with PBS and mounted using PBS:glycerol (3:1, v/v). Microscopy assessments were performed with a Zeizz AX10 microscope (Carl Zeiss, Jena, Germany) equipped with a Leica DFC490 camera (Leica Weitzlar, Germany). Normal nuclei showed non-condensed chromatin dispersed over the entire nucleus. Apoptotic nuclei were identified by condensed chromatin, contiguous to the nuclear membrane, as well as nuclear fragmentation of condensed chromatin.
Cytofluorometric analysis of apoptosis. Apoptotic cells were quantified by cytofluorometric analysis using a FACSCalibur (Becton Dickinson, Mountain View, CA) as described previously . Cells were stained with the vital dye propidium iodide (PI; 5 μg/mL; Sigma, Steinheim, Germany) and concomitantly with Annexin-V-APC (eBioscience, Inc.) according to manufacturer's instructions to determine the phosphatidylserine exposure. Data were statistically evaluated using FlowJo software (Tree Star, Inc, Ashland, OR).
Cells were trypsinized (0.025% trypsin/EDTA; Invitrogen Corp.) and harvested in Ca2+-free and Mg2+-free PBS and 2% FBS. After washing, 0.5-1 × 106 cells were fixed with paraformaldehyde (4% w/v) in PBS for 20 min on wet ice, and blocked for 20 min in PBS, containing 0.25% saponin (Fluka, Biochemika, Switzerland) and 5% normal donkey serum (Jackson ImmunoResearch Laboratories, Inc., West Grove, PA). Subsequently, cells were incubated with anti-NeuN (MAB377; Chemicon International) at a dilution of 1:20 in PBS, containing 0.1% saponin and 5% normal donkey serum, for 30 min. Cells were then incubated with anti-mouse antibody conjugated to Cy5 (Jackson ImmunoResearch Laboratories, Inc.), for 20 min. Cells were analyzed using a FACSCalibur (Becton Dickinson, Mountain View, CA).
Results from different groups were compared using the Student's t test, or one-way ANOVA. Kruskal-Wallis or the Mann-Whitney U tests were also used whenever the assumptions of the parametric test were not satisfied. Values of p < 0.05 were considered statistically significant. All statistical analysis was performed with GraphPad InStat software (GraphPad Software, Inc, San Diego, CA).
NS cells have both neurogenic and gliogenic potential in vitro
The proneural basic helix-loop-helix (bHLH) transcription factor Neurogenin1 (Ngn1) was not expressed in neurospheres, while Mash1 was readily detected (Figure 1B). Following incubation in differentiation medium, cells displayed a sharp increase in markers for neurons and neural precursors. Ngn1 was readily detected at 6 hours and tended to decrease during cell differentiation. Mash1 was slightly increased but not significantly modulated. Upregulation of proneural bHLH transcription factors was associated with a subsequent increase in β-III tubulin at both the mRNA and protein levels, indicating that neurogenesis is induced early after cell incubation in differentiation medium. At the protein level, β-III tubulin expression peaked at 1 day of differentiation and gradually decreased thereafter (Figure 1C). These results suggested that the neurogenic potential of mouse NS cells rapidly decreased with differentiation.
In cell culture, there is an inverse relationship between Ngn expression and the propensity of the neural progenitors to undergo differentiation into astrocytes, suggesting that proneural bHLH factors might act to suppress the formation of astrocytes . In agreement with these observations, the glial marker GFAP was only detected at day 3, in association with decreased levels of Ngn1 and concomitant with a reduction in the number of neurons. Importantly, analysis of NeuN protein expression revealed postmitotic neurons after 6 days of differentiation. Finally, analysis by immunocytochemistry using β-III tubulin and GFAP markers further confirmed the decreased neurogenic potential of mouse NS cells throughout differentiation, and the generation of glial cells after the peak of neuronal production (Figure 1D).
Apoptosis-associate miRNAs are differentially modulated during mouse neural stem cell differentiation
miRNAs are thought to play a role in cancer pathogenesis. In fact, a specific subset of miRNAs is upregulated in most cancer profiles, and are, therefore, considered to be antiapoptotic miRNAs . The best characterized of that subgroup are miR-21, miR-222, miR-221, miR-17-92 cluster, miR-106 and miR-155. In contrast, proapoptotic miRNAs are usually downregulated in cancer, and include miR-15, miR-16, the let-7 family and members of the miR-34 family. Importantly, we have recently shown that apoptosis-associated factors temporally modulate mouse NS cell differentiation . As miRNAs have recently been implicated in neural differentiation , we sought to investigate whether apoptosis-specific miRNAs are particularly relevant during mouse NS cell differentiation.
Global miRNA expression profiling studies revealed differential expression patterns of apoptosis-related miRNAs throughout mouse NS cell differentiation (Tables 1 and 2). In general, let-7 family members were upregulated at 3 days, and decreased at 8 days of differentiation. Interestingly, and similar to miR-34a/b/c, miR-16 was upregulated at both 3 and 8 days of neural differentiation. In contrast, antiapoptotic miRNAs were in general downregulated at 8 days. Further analysis of the differentially expressed miRNAs involved clustering analysis into different groups, according to variations in the apoptosis-associated miRNAs expression (Additional file 1). Less differentiated cells (1 and 3 days) were grouped separately from those that were more differentiated (8 days). Importantly, similar grouping was not achieved in clustering analysis using all detected miRNAs.
The synchronous induction of proapoptotic miRNAs suggested that they may play a role during mouse NS cell differentiation. In contrast, antiapoptotic miR-20a was mainly downregulated throughout neural differentiation. In fact, its expression levels were ~ 2-fold downregulated from 6 days and beyond (p < 0.001), compared to undifferentiated cells. Curiously, miR-19a expression was mostly increased during the first 3 days of differentiation, gradually decreasing toward control levels. The onset of miR-19a expression correlates with induction of proliferation during the first 3 days of differentiation (data not shown).
Expression of apoptosis-related miRNAs is not associated with increased cell death during mouse NS cell differentiation
Apoptosis-associated miRNAs are upregulated in different models of neural differentiation
Human teratocarcinoma NT2 cells generate postmitotic neurons (NT2N) in response to retinoic acid and mitotic inhibitors . Retinoic acid treatment of NT2 cells induced neuronal differentiation as evidenced by the expression of the neuronal marker NeuroD at 14 and 21 days, as well as increased expression of β-III tubulin (data not shown). In NT2N, miR-16 expression was increased by 3.6-fold at day 14 (p < 0.001) and almost 4-fold at day 21 (p < 0.05) of differentiation (Figure 6B). Similarly, let-7a was highly upregulated, particularly at 21 days of retinoic acid treatment (p < 0.05). In contrast, miR-34a was not modulated during cell differentiation. Replated cells showed increased differentiation, as evidenced by the increase in β-III tubulin-positive cells and detection of NeuN-positive cells (data not shown). Surprisingly, increased differentiation after replating was associated with a significant decrease in both miR-16 and let-7a expression by ~ 2 (p < 0.05) and 5-fold (p < 0.001), while miR-34a increased by 4.5-fold (p < 0.05), compared with non-replated cells.
Differentiation of NS and ES cells in vitro has attracted wide interest as an experimental system for investigating specific molecular pathways of cell development. Here, we have demonstrated neuronal and glial conversion of mouse NS cells. In this model, the neuronal population is formed mainly during the first 2 days, as indicated by the upregulation of β-III tubulin. Nevertheless, commitment to mature neurons was confirmed by the expression of NeuN at 6 days, which indicates the presence of immature postmitotic neurons. Astrocytic population peaked at 6 days, and this was maintained throughout differentiation.
Functional studies of apoptosis-associated miRNAs have focused intensely on cancer research. However, our results demonstrate that specific miRNAs regulating pro-and antiapoptotic genes may also participate in differentiation processes. The involvement of miR-16 in cell differentiation has not been previously reported. Indeed, miR-16 expression was markedly increased throughout mouse, rat and human neural differentiation. Nevertheless, the onset of miR-16 expression during mouse NS cell differentiation was not associated with the appearance of any specific cell type. miR-16 was shown to be implicated in cell cycle regulation, as well as apoptosis induction by targeting Bcl-2 [25–28]. Apoptosis is not markedly regulated during mouse NS cell differentiation, and Bcl-2 expression is increased (data not shown). Therefore, a possible role for miR-16 in the context of differentiation may be associated with cell cycle control in downregulating the proliferation potential of differentiating cells. During differentiation of neural precursors, a tightly coordinated regulation of cell cycle exit is crucial for the generation of appropriate number of neurons and proper wiring of neuronal circuits . Nevertheless, here-to-fore unrecognized miR-16 targets may exert distinct, yet crucial functions during cell differentiation.
The let-7 family consists of eleven very closely related genes . They are highly conserved in animals from worms to humans, and their expression increases after differentiation and maturation of tissues . In addition to regulating apoptosis by targeting caspase-3 , it was also demonstrated that let-7 family members regulate RAS and HMGA2 oncogene through the 3'UTR [53–55]. In the present study, let-7a expression was shown to be cyclic during mouse NS cells differentiation, and corresponded to the onset of neurogenesis and gliogenesis. This suggests that let-7a expression is associated with a general mechanism of differentiation rather than differentiation of specific cell types. Our results are supported by the previous report showing that let-7a is a critical regulator of neuronal differentiation [12, 13]. In fact, increased let-7a expression during ES cells, PC12 and NT2N differentiation also underscores the important role of let-7a during general differentiation. Additional studies are warranted to evaluate the mechanism(s) by which let-7a regulates cell differentiation. Importantly, although highly modulated during cell differentiation, both let-7a and miR-16 were significantly expressed in neurospheres (data not shown). Therefore, it is possible that additional mechanisms exist to antagonize let-7a and miR-16 expression during NS cell differentiation.
A specific role for miR-34a during neuronal differentiation has not been reported. Interestingly, herein we showed a significant upregulation of miR-34a during mouse NS cell differentiation, and this paralleled the appearance of postmitotic neurons. In addition, in vitro transient overexpression of miR-34a increased the proportion of NeuN-positive cells. Given that miR-34a has been shown to regulate genes involved in cell cycle arrest, it is possible that miR-34a upregulation is related to cell cycle exit and the subsequent appearance of immature postmitotic neurons. In fact, miR-34a upregulation in ES cells after LY treatment, as well as in NT2N cells after incubation with the mitosis inhibitor, supports this hypothesis. In addition, it has been previously shown that miR-34a can suppress cell-cycle genes and induce neural phenotype in neuroblastoma tumors . Importantly, it has been previously reported that miR-34a overexpression had no effect on cell cycle arrest and survival/apoptosis of astrocytes [57, 58]. However, additional studies are required to confirm the influence of miR-34a in neurogenesis and evaluate whether it mediates p53 effects on cell differentiation. In fact, several potential miR-34a targets might be involved in the transition towards postmitotic neurons. It was previously demonstrated that miR-34a targets Sirt1 and is regulated by p53, which in turn, is activated by Sirt1 suppression . In addition, miR-34a may also regulate the differentiation process by influencing Notch signaling pathway [57, 60]. In contrast to let-7a and miR-16, miR-34a was barely detected in undifferentiated cells, supporting its specific involvement in cell differentiation.
miR-19a and miR-20a are members of the miR-17-92 cluster , which consists of seven mature miRNAs, previously linked to tumorigenesis. Recently, additional functions have been assigned to this cluster, particularly to miR-20a and miR-19a. Specifically, miR-20a was shown to control monocyte differentiation . In fact, transfection of hematopoietic progenitors with miR-20a increased the proliferation of monocytes and blocked differentiation, whereas inhibition of miR-20a caused a decrease in proliferation and more rapid differentiation and maturation. Our results, showing that miR-20a decreases during mouse NS cell differentiation, are in agreement with this previous report.
Only limited information is available regarding the physiological role of miR-19a. It has been demonstrated that it acts as a positive regulator of antiapoptotic Stat3/IL-6 receptor signaling by directly suppressing SOCS-1, thereby facilitating malignant growth of multiple myeloma . Further, miR-19 appears to affect the level of proapoptotic protein Bim, thereby preventing apoptosis and promoting cell survival. The possible role of miR-19a on cell survival, may explain why this miRNA was upregulated at early stages after the induction of mouse NS cell differentiation. However, additional studies are required to determine the specific role of both miR-20a and miR-19a during cell differentiation, and also evaluate if their expression is restricted to a specific cell type.
In conclusion, our results demonstrate that apoptosis-associated miRNAs are differentially expressed during neural differentiation, in the absence of cell death, and identify miR-16, let-7a and miR-34a as important players.
- NS cells:
neural stem cells
- ES cells:
embryonic stem cells
green fluorescent protein
- miR or miRNA:
We would like to acknowledge Yan Zeng (University of Minnesota Medical School, Minneapolis, Minnesota, USA) for miRNA expression profiling, and Rui Castro (iMed.UL, Lisbon, Portugal) for microarray data analysis. The authors thank Ricardo Viana and Inês Milagre (iMed.UL, Lisbon, Portugal) for providing PC12 and NT2N cell cultures, and Domingos Henrique (IMM, Lisbon, Portugal) for ES cell lines. This work was supported by grant PTDC/BIA-BCM/67922/2006 from Fundação para a Ciência e a Tecnologia (FCT), Lisbon, Portugal. MM Aranha and DM Santos are recipients of PhD fellowships from FCT, Portugal (SFRH/BD/28429/2006 and SFRH/BD/42008/2007, respectively).
- Doetsch F: The glial identity of neural stem cells. Nature Neuroscience. 2003, 6: 1127-1134. 10.1038/nn1144.PubMedView Article
- Temple S: Stem cell plasticity--building the brain of our dreams. Nature Reviews. 2001, 2: 513-520. 10.1038/35081577.PubMedView Article
- Maimets T, Neganova I, Armstrong L, Lako M: Activation of p53 by nutlin leads to rapid differentiation of human embryonic stem cells. Oncogene. 2008, 27: 5277-5287. 10.1038/onc.2008.166.PubMedView Article
- Porrello A, Cerone MA, Coen S, Gurtner A, Fontemaggi G, Cimino L, Piaggio G, Sacchi A, Soddu S: p53 regulates myogenesis by triggering the differentiation activity of pRb. Journal of Cell Biology. 2000, 151: 1295-1304. 10.1083/jcb.151.6.1295.PubMed CentralPubMedView Article
- Fernando P, Brunette S, Megeney LA: Neural stem cell differentiation is dependent upon endogenous caspase 3 activity. FASEB Journal. 2005, 19: 1671-1673.PubMed
- Zhang KZ, Westberg JA, Holtta E, Andersson LC: BCL2 regulates neural differentiation. Proceedings of the National Academy of Sciences of the United States of America. 1996, 93: 4504-4508. 10.1073/pnas.93.9.4504.PubMed CentralPubMedView Article
- Ambros V: The functions of animal microRNAs. Nature. 2004, 431: 350-355. 10.1038/nature02871.PubMedView Article
- Bartel DP: MicroRNAs: genomics, biogenesis, mechanism, and function. Cell. 2004, 116: 281-297. 10.1016/S0092-8674(04)00045-5.PubMedView Article
- Du T, Zamore PD: microPrimer: the biogenesis and function of microRNA. Development. 2005, 132: 4645-4652. 10.1242/dev.02070.PubMedView Article
- Tsang WP, Kwok TT: Let-7a microRNA suppresses therapeutics-induced cancer cell death by targeting caspase-3. Apoptosis. 2008, 13: 1215-1222. 10.1007/s10495-008-0256-z.PubMedView Article
- Reinhart BJ, Slack FJ, Basson M, Pasquinelli AE, Bettinger JC, Rougvie AE, Horvitz HR, Ruvkun G: The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature. 2000, 403: 901-906. 10.1038/35002607.PubMedView Article
- Liu SP, Fu RH, Yu HH, Li KW, Tsai CH, Shyu WC, Lin SZ: MicroRNAs regulation modulated self-renewal and lineage differentiation of stem cells. Cell Transplantation. 2009, 18: 1039-1045. 10.3727/096368909X471224.PubMedView Article
- Sempere LF, Freemantle S, Pitha-Rowe I, Moss E, Dmitrovsky E, Ambros V: Expression profiling of mammalian microRNAs uncovers a subset of brain-expressed microRNAs with possible roles in murine and human neuronal differentiation. Genome Biology. 2004, 5: R13-10.1186/gb-2004-5-3-r13.PubMed CentralPubMedView Article
- Bommer GT, Gerin I, Feng Y, Kaczorowski AJ, Kuick R, Love RE, Zhai Y, Giordano TJ, Qin ZS, Moore BB: p53-mediated activation of miRNA34 candidate tumor-suppressor genes. Current Biology. 2007, 17: 1298-1307. 10.1016/j.cub.2007.06.068.PubMedView Article
- Chang TC, Wentzel EA, Kent OA, Ramachandran K, Mullendore M, Lee KH, Feldmann G, Yamakuchi M, Ferlito M, Lowenstein CJ: Transactivation of miR-34a by p53 broadly influences gene expression and promotes apoptosis. Molecular Cell. 2007, 26: 745-752. 10.1016/j.molcel.2007.05.010.PubMed CentralPubMedView Article
- Corney DC, Flesken-Nikitin A, Godwin AK, Wang W, Nikitin AY: MicroRNA-34b and MicroRNA-34c are targets of p53 and cooperate in control of cell proliferation and adhesion-independent growth. Cancer Research. 2007, 67: 8433-8438. 10.1158/0008-5472.CAN-07-1585.PubMedView Article
- He L, He X, Lim LP, de Stanchina E, Xuan Z, Liang Y, Xue W, Zender L, Magnus J, Ridzon D: A microRNA component of the p53 tumour suppressor network. Nature. 2007, 447: 1130-1134. 10.1038/nature05939.PubMed CentralPubMedView Article
- Raver-Shapira N, Marciano E, Meiri E, Spector Y, Rosenfeld N, Moskovits N, Bentwich Z, Oren M: Transcriptional activation of miR-34a contributes to p53-mediated apoptosis. Molecular Cell. 2007, 26: 731-743. 10.1016/j.molcel.2007.05.017.PubMedView Article
- Tarasov V, Jung P, Verdoodt B, Lodygin D, Epanchintsev A, Menssen A, Meister G, Hermeking H: Differential regulation of microRNAs by p53 revealed by massively parallel sequencing: miR-34a is a p53 target that induces apoptosis and G1-arrest. Cell Cycle. 2007, 6: 1586-1593. 10.4161/cc.6.13.4436.PubMedView Article
- Sun F, Fu H, Liu Q, Tie Y, Zhu J, Xing R, Sun Z, Zheng X: Downregulation of CCND1 and CDK6 by miR-34a induces cell cycle arrest. FEBS Letters. 2008, 582: 1564-1568. 10.1016/j.febslet.2008.03.057.PubMedView Article
- Welch C, Chen Y, Stallings RL: MicroRNA-34a functions as a potential tumor suppressor by inducing apoptosis in neuroblastoma cells. Oncogene. 2007, 26: 5017-5022. 10.1038/sj.onc.1210293.PubMedView Article
- Navarro F, Gutman D, Meire E, Caceres M, Rigoutsos I, Bentwich Z, Lieberman J: miR-34a contributes to megakaryocytic differentiation of K562 cells independently of p53. Blood. 2009, 114: 2181-2192. 10.1182/blood-2009-02-205062.PubMedView Article
- Hashimi ST, Fulcher JA, Chang MH, Gov L, Wang S, Lee B: MicroRNA profiling identifies miR-34a and miR-21 and their target genes JAG1 and WNT1 in the coordinate regulation of dendritic cell differentiation. Blood. 2009, 114: 404-414. 10.1182/blood-2008-09-179150.PubMed CentralPubMedView Article
- Tarantino C, Paolella G, Cozzuto L, Minopoli G, Pastore L, Parisi S, Russo T: miRNA 34a, 100, and 137 modulate differentiation of mouse embryonic stem cells. FABEB Journal. 2010,
- Cimmino A, Calin GA, Fabbri M, Iorio MV, Ferracin M, Shimizu M, Wojcik SE, Aqeilan RI, Zupo S, Dono M: miR-15 and miR-16 induce apoptosis by targeting BCL2. Proceedings of the National Academy of Sciences of the United States of America. 2005, 102: 13944-13949. 10.1073/pnas.0506654102.PubMed CentralPubMedView Article
- Linsley PS, Schelter J, Burchard J, Kibukawa M, Martin MM, Bartz SR, Johnson JM, Cummins JM, Raymond CK, Dai H: Transcripts targeted by the microRNA-16 family cooperatively regulate cell cycle progression. Molecular and Cellular Biology. 2007, 27: 2240-2252. 10.1128/MCB.02005-06.PubMed CentralPubMedView Article
- Liu Q, Fu H, Sun F, Zhang H, Tie Y, Zhu J, Xing R, Sun Z, Zheng X: miR-16 family induces cell cycle arrest by regulating multiple cell cycle genes. Nucleic Acids Research. 2008, 36: 5391-5404. 10.1093/nar/gkn522.PubMed CentralPubMedView Article
- Chen RW, Bemis LT, Amato CM, Myint H, Tran H, Birks DK, Eckhardt SG, Robinson WA: Truncation in CCND1 mRNA alters miR-16-1 regulation in mantle cell lymphoma. Blood. 2008, 112: 822-829. 10.1182/blood-2008-03-142182.PubMed CentralPubMedView Article
- Reynolds BA, Weiss S: Generation of neurons and astrocytes from isolated cells of the adult mammalian central nervous system. Science. 1992, 255: 1707-1710. 10.1126/science.1553558.PubMedView Article
- Reynolds BA, Weiss S: Clonal and population analyses demonstrate that an EGF-responsive mammalian embryonic CNS precursor is a stem cell. Developmental Biology. 1996, 175: 1-13. 10.1006/dbio.1996.0090.PubMedView Article
- Rietze R, Reynolds B: Neural stem cell isolation and characterization. Method in Enzymology. 2006, 419: 3-23. 10.1016/S0076-6879(06)19001-1.View Article
- Ying QL, Stavridis M, Griffiths D, Li M, Smith A: Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture. Nature Biotechnology. 2003, 21: 183-186. 10.1038/nbt780.PubMedView Article
- Abranches E, Silva M, Pradier L, Schulz H, Hummel O, Henrique D, Bekman E: Neural differentiation of embryonic stem cells in vitro: a road map to neurogenesis in the embryo. PloS One. 2009, 4: e6286-10.1371/journal.pone.0006286.PubMed CentralPubMedView Article
- Cheung WM, Fu WY, Hui WS, Ip NY: Production of human CNS neurons from embryonal carcinoma cells using a cell aggregation method. BioTechniques. 1999, 26: 946-948. 950-942, 954PubMed
- Megiorni F, Mora B, Indovina P, Mazzilli MC: Expression of neuronal markers during NTera2/cloneD1 differentiation by cell aggregation method. Neuroscience Letters. 2005, 373: 105-109. 10.1016/j.neulet.2004.09.070.PubMedView Article
- Kalscheuer S, Zhang X, Zeng Y, Upadhyaya P: Differential expression of microRNAs in early-stage neoplastic transformation in the lungs of F344 rats chronically treated with the tobacco carcinogen 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone. Carcinogenesis. 2008, 29: 2394-2399. 10.1093/carcin/bgn209.PubMed CentralPubMedView Article
- Thomson JM, Parker J, Perou CM, Hammond SM: A custom microarray platform for analysis of microRNA gene expression. Nature Methods. 2004, 1: 47-53. 10.1038/nmeth704.PubMedView Article
- Romero-Calvo I, Ocon B, Martinez-Moya P, Suarez MD, Zarzuelo A, Martinez-Augustin O, de Medina FS: Reversible Ponceau staining as a loading control alternative to actin in Western blots. Analytical Biochemistry. 401: 318-320. 10.1016/j.ab.2010.02.036.
- Schutte B, Nuydens R, Geerts H, Ramaekers F: Annexin V binding assay as a tool to measure apoptosis in differentiated neuronal cells. Journal of Neuroscience Methods. 1998, 86: 63-69. 10.1016/S0165-0270(98)00147-2.PubMedView Article
- Alvarez-Buylla A, Garcia-Verdugo JM: Neurogenesis in adult subventricular zone. Journal Neuroscience. 2002, 22: 629-634.
- Tropepe V, Sibilia M, Ciruna BG, Rossant J, Wagner EF, van der Kooy D: Distinct neural stem cells proliferate in response to EGF and FGF in the developing mouse telencephalon. Developmental Biology. 1999, 208: 166-188. 10.1006/dbio.1998.9192.PubMedView Article
- Qian X, Shen Q, Goderie SK, He W, Capela A, Davis AA, Temple S: Timing of CNS cell generation: a programmed sequence of neuron and glial cell production from isolated murine cortical stem cells. Neuron. 2000, 28: 69-80. 10.1016/S0896-6273(00)00086-6.PubMedView Article
- Sun Y, Nadal-Vicens M, Misono S, Lin MZ, Zubiaga A, Hua X, Fan G, Greenberg ME: Neurogenin promotes neurogenesis and inhibits glial differentiation by independent mechanisms. Cell. 2001, 104: 365-376. 10.1016/S0092-8674(01)00224-0.PubMedView Article
- Garofalo M, Condorelli GL, Croce CM, Condorelli G: MicroRNAs as regulators of death receptors signaling. Cell Death and Differentiation. 17: 200-208. 10.1038/cdd.2009.105.
- Aranha MM, Sola S, Low WC, Steer CJ, Rodrigues CM: Caspases and p53 modulate FOXO3A/Id1 signaling during mouse neural stem cell differentiation. Journal of Cellular Biochemistry. 2009, 107: 748-758. 10.1002/jcb.22172.PubMedView Article
- Li X, Jin P: Roles of small regulatory RNAs in determining neuronal identity. Nature Reviews. 11: 329-338. 10.1038/nrn2739.
- Greene LA, Tischler AS: Establishment of a noradrenergic clonal line of rat adrenal pheochromocytoma cells which respond to nerve growth factor. Proceedings of the National Academy of Sciences of the United States of America. 1976, 73: 2424-2428. 10.1073/pnas.73.7.2424.PubMed CentralPubMedView Article
- Schimmelpfeng J, Weibezahn KF, Dertinger H: Quantification of NGF-dependent neuronal differentiation of PC-12 cells by means of neurofilament-L mRNA expression and neuronal outgrowth. Journal of Neuroscience Methods. 2004, 139: 299-306. 10.1016/j.jneumeth.2004.05.010.PubMedView Article
- Hara K, Yasuhara T, Maki M, Matsukawa N, Masuda T, Yu SJ, Ali M, Yu G, Xu L, Kim SU: Neural progenitor NT2N cell lines from teratocarcinoma for transplantation therapy in stroke. Progress in Neurobiology. 2008, 85: 318-334. 10.1016/j.pneurobio.2008.04.005.PubMedView Article
- Politis PK, Thomaidou D, Matsas R: Coordination of cell cycle exit and differentiation of neuronal progenitors. Cell Cycle. 2008, 7: 691-697. 10.4161/cc.7.6.5550.PubMedView Article
- Pasquinelli AE, Reinhart BJ, Slack F, Martindale MQ, Kuroda MI, Maller B, Hayward DC, Ball EE, Degnan B, Muller P: Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA. Nature. 2000, 408: 86-89. 10.1038/35040556.PubMedView Article
- Lee YS, Kim HK, Chung S, Kim KS, Dutta A: Depletion of human micro-RNA miR-125b reveals that it is critical for the proliferation of differentiated cells but not for the down-regulation of putative targets during differentiation. Journal of Biological Chemistry. 2005, 280: 16635-16641. 10.1074/jbc.M412247200.PubMedView Article
- Akao Y, Nakagawa Y, Naoe T: let-7 microRNA functions as a potential growth suppressor in human colon cancer cells. Biological & Pharmaceutical Bulletin. 2006, 29: 903-906.View Article
- Johnson SM, Grosshans H, Shingara J, Byrom M, Jarvis R, Cheng A, Labourier E, Reinert KL, Brown D, Slack FJ: RAS is regulated by the let-7 microRNA family. Cell. 2005, 120: 635-647. 10.1016/j.cell.2005.01.014.PubMedView Article
- Lee YS, Dutta A: The tumor suppressor microRNA let-7 represses the HMGA2 oncogene. Genes & Development. 2007, 21: 1025-1030.View Article
- Wei JS, Song YK, Durinck S, Chen QR, Cheuk AT, Tsang P, Zhang Q, Thiele CJ, Slack A, Shohet J: The MYCN oncogene is a direct target of miR-34a. Oncogene. 2008, 27: 5204-5213. 10.1038/onc.2008.154.PubMed CentralPubMedView Article
- Guessous F, Zhang Y, Kofman A, Catania A, Li Y, Schiff D, Purow B, Abounader R: microRNA-34a is tumor suppressive in brain tumors and glioma stem cells. Cell Cycle. 2010,
- Li Y, Guessous F, Zhang Y, Dipierro C, Kefas B, Johnson E, Marcinkiewicz L, Jiang J, Yang Y, Schmittgen TD: MicroRNA-34a inhibits glioblastoma growth by targeting multiple oncogenes. Cancer Research. 2009, 69: 7569-7576. 10.1158/0008-5472.CAN-09-0529.PubMed CentralPubMedView Article
- Yamakuchi M, Ferlito M, Lowenstein CJ: miR-34a repression of SIRT1 regulates apoptosis. Proceedings of the National Academy of Sciences of the United States of America. 2008, 105: 13421-13426. 10.1073/pnas.0801613105.PubMed CentralPubMedView Article
- Hermeking H: The miR-34 family in cancer and apoptosis. Cell Death and Differentiation. 17: 193-199. 10.1038/cdd.2009.56.
- Bonauer A, Dimmeler S: The microRNA-17-92 cluster: still a miRacle?. Cell Cycle. 2009, 8: 3866-3873.PubMedView Article
- Fontana L, Pelosi E, Greco P, Racanicchi S, Testa U, Liuzzi F, Croce CM, Brunetti E, Grignani F, Peschle C: MicroRNAs 17-5p-20a-106a control monocytopoiesis through AML1 targeting and M-CSF receptor upregulation. Nature Cell Biology. 2007, 9: 775-787. 10.1038/ncb1613.PubMedView Article
- Pichiorri F, Suh SS, Ladetto M, Kuehl M, Palumbo T, Drandi D, Taccioli C, Zanesi N, Alder H, Hagan JP: MicroRNAs regulate critical genes associated with multiple myeloma pathogenesis. Proceedings of the National Academy of Sciences of the United States of America. 2008, 105: 12885-12890. 10.1073/pnas.0806202105.PubMed CentralPubMedView Article
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