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Leucine-Rich Repeat Kinase 2 (LRRK2) phosphorylates p53 and induces p21WAF1/CIP1 expression
Molecular Brainvolume 8, Article number: 54 (2015)
The Correction to this article has been published in Molecular Brain 2017 10:48
Leucine-rich repeat kinase 2 (LRRK2) is a gene in which a mutation causes Parkinson’s disease (PD), and p53 is a prototype tumor suppressor. In addition, activation of p53 in patient with PD has been reported by several studies. Because phosphorylation of p53 is critical for regulating its activity and LRRK2 is a kinase, we tested whether p53 is phosphorylated by LRRK2.
LRRK2 phosphorylates threonine (Thr) at TXR sites in an in vitro kinase assay, and the T304 and T377 were identified as putative phosphorylated residues. An increase of phospho-Thr in the p53 TXR motif was confirmed in the cells overexpressing G2019S, and human induced pluripotent stem (iPS) cells of a G2019S carrier. Interactions between LRRK2 and p53 were confirmed by co-immunoprecipitation of lysates of differentiated SH-SY5Y cells. LRRK2 mediated p53 phosphorylation translocalizes p53 predominantly to nucleus and increases p21WAF1/CIP1 expression in SH-SY5Y cells based on reverse transcription-polymerase chain reaction and Western blot assay results. The luciferase assay using the p21WAF1/CIP1 promoter-reporter also confirmed that LRRK2 kinase activity increases p21 expression. Exogenous expression of G2019S and the phosphomimetic p53 T304/377D mutants increased expression of p21WAF1/CIP1 and cleaved PARP, and cytotoxicity in the same cells. We also observed increase of p21 expression in rat primary neuron cells after transient expression of p53 T304/377D mutants and the mid-brain lysates of the G2019S transgenic mice.
p53 is a LRRK2 kinase substrate. Phosphorylation of p53 by LRRK2 induces p21WAF1/CIP1 expression and apoptosis in differentiated SH-SY5Y cells and rat primary neurons.
Leucine-rich repeat kinase 2 (LRRK2) is one of the Parkinson’s disease (PD)-causative genes along with SNCA (α-synuclein), PARK2 (Parkin), DJ-1 and PINK1 [1, 2]. LRRK2 contains both kinase and GTPase domains [3–5] whose activities are critical for signal transduction. Moreover, the G2019S pathogenic mutation  increases kinase activity [7, 8] and affects various pathogenic phenotypes such as increased neuronal cytotoxicity and protein aggregation [7, 9, 10], decreased neurite length [11, 12] and changes in the autophagy rate [12, 13]. In addition, pharmacological inhibition of kinase activity rescues pathogenic phenotypes, such as neurocytotoxicity and defective neurite outgrowth . Because of the relevance of LRRK2 kinase activity to PD pathogenesis, LRRK2 has emerged as a therapeutic target of PD, and the effort to identify LRRK2 kinase substrates and chemical inhibitors has intensified [15–21]. To date, several diverse proteins have been reported as potential LRRK2 kinase substrates. Some examples are β-tubulin , ArfGAP1 [23, 24], tau , members of the mitogen-activated protein kinase kinase family , eukaryotic initiation factor 4E-binding protein (4E-BP; ), Akt1 , ribosomal protein s15 , endophilin A , Rab5 , Bcl-2  and Snapin . It is unclear whether these proteins are actual physiological substrates. Some studies suggest that LRRK2 plays roles in vesicle trafficking, autophagy, mitochondrial dysfunction, and inflammation [13, 18, 30–32]. In addition, one study identified several ribosomal proteins as LRRK2 kinase substrates using an unbiased proteomics suggesting that LRRK2 is a translational regulator  along with a previous 4E-BP study .
p53 is encoded by TP53, and is a well-known tumor suppressor that is mutated in numerous types of tumor cells . p53 is a transcription factor that is degraded through interacting with MDM2 under normal condition, but p53 is phosphorylated at specific residues, become stabilized and resistant to its own degradation during exposure to genomic or other stressors [34, 35]. Phosphorylated p53 enhances its nuclear retention, resulting in increased p53 binding to its target sequences and activation of target genes, most of which function in apoptosis or cell growth arrest .
p53 has been postulated to contribute to PD pathogenesis. For example, PD toxins, such as MPTP, rotenone, and 6-hydroxydopamine activate p53 . In addition, PD causative genes, such as Parkin, DJ-1, and α-synuclein affect p53 expression or its activity [37–39].
Here, we report that LRRK2 phosphorylates p53, which could be another clue to the relationship between p53 and PD pathogenesis.
LRRK2 phosphorylates p53 in vitro
We were interested in identifying novel LRRK2 kinase substrates. Because of p53 activation in PD brains, we tested whether LRRK2 phosphorylates p53 using E. coli-expressed recombinant p53 protein and [γ-32P]ATP in an in vitro kinase assay. The GST-ΔN LRRK2 wild type (WT) phosphorylated p53 significantly and the corresponding G2019S (GS) and kinase-dead D1994A (DA) mutant proteins enhanced and nullified p53 phosphorylation, respectively, as expected (Fig. 1A-a). The GST-ΔN LRRK2 was used instead of the full length WT because the former exhibited stronger kinase activity than the latter (data not shown).
Because the TXR motif is suggested as a conserved LRRK2 phosphorylation site [20, 40–42], we checked whether such sites are present in p53. We found three sites: 211TFR, 304TKR, and 377TSR (numbers indicate position of threonine in human p53 protein, Fig. 1c). To investigate whether p53 is phosphorylated on these sites, we tested to see if phosphorylated p53 was detectable by Western blot with anti-phospho-TXR antibody (p-TXR). p-TXR is a commercial phospho-specific antibody that recognizes a phosphorylated threonine residue in the TXR motif. This antibody was shown to detect a specific phosphorylated threonine (T1410) in the LRRK2 TXR motif (TQR) after autophosphorylation of LRRK2 . The Western blot result using the p-TXR antibody after the in vitro kinase assay detected phosphorylated p53 proteins after incubation with LRRK2 WT or GS, but not with DA. This is similar to the autoradiogram shown in Fig. 1A-a, suggesting that p53 was phosphorylated at threonines in the TXR sites (Fig. 1A-b). The in vitro kinase assay was carried out with p53 WT and the mutant proteins to detect the p53 phosphorylation sites. We first used the 1–293 deletion mutant of p53, in which the C-terminus of 100 amino acids has been deleted. As shown in Fig. 1B-b, the p-TXR antibody detected no signal in the 1–293 proteins after incubation with LRRK2, whereas it detected strong signal in the T387A, a positive control, suggesting that TXR phosphorylation sites are present on the C-terminal 100 amino acids. When we used the T304A, T377A, and T304/377A point mutant proteins in which the indicated threonine residues were mutated to alanine, the p-TXR antibody signal decreased in both T304A and T377A mutants and disappeared in the double-mutant T304/377A protein, suggesting that these sites are phosphorylated by LRRK2 (Fig. 1B-b). In contrast to the Western blot data, autoradiography revealed residual phosphorylation of the T304/377A protein, although radioactivity decreased by up to 50 % when compared to that of the WT (Fig. 1B-a). This residual activity was similar to the level observed in the 1–293 deletion protein, suggesting that although LRRK2 mainly phosphorylates p53 via the T304 and T377 sites, there may be additional LRRK2-mediated phosphorylation sites in the N-terminal 293 amino acid region (Fig. 1B-a). The kinase assay with the recombinant LRRK2 WT full length yielded a similar result (Additional file 1: Figure S1A). The p-TXR antibody specificity was confirmed by two separate results. First, p53 WT or the T304/377A double-mutant was not recognized by the p-TXR antibody (Fig. 1A-b & B-b). Second, moesin, an LRRK2 kinase substrate, was detected by the p-TXR antibody after the moesin was used as substrate in an in vitro kinase assay (Additional file 1: Figure S1B). Moesin has been reported to be phosphorylated by LRRK2 at T558 in TLR site by LRRK2 .
We applied MS to clearly determine the p53 phosphorylated residues. The p53 protein was used for the MS analysis with or without co-incubation of the LRRK2 G2019S recombinant proteins. However, two such trials failed to detect a positive signal.
LRRK2 interacts with and phosphorylates p53 in physiological condition
Next, we tested whether LRRK2 and p53 interact with each other in physiological condition. The human neuroblastoma SH-SY5Y cell line is one of the most widely used dopaminergic cellular models with differentiation by retinoic acid. Moreover, treatment of cells with retinoic acid significantly increases LRRK2 expression  with little difference of p53 expression, increasing the possibility for LRRK2-mediated p53 phosphorylation (Additional file 2: Figure S2). The differentiated cell lysates were co-immunoprecipitated with the p53 or LRRK2 antibody. The results showed that both LRRK2 and p53 were specifically co-immunoprecipitated with the corresponding partner protein (Fig. 2a). To measure p53 cellular phosphorylation level by LRRK2, the cell lysates were immunoprecipitated with the p53 antibody and detected with the p-TXR antibody. Transfection of the SH-SY5Y cells with shLRRK2 or myc-G2019S plasmid significantly decreased or increased p-TXR levels in the p53 immunoprecipitates, respectively (Fig. 2b & c). The increase of p53 phosphorylation was also observed in the rat primary neuron cells overexpressing G2019S and dopaminergic neurons differentiated from human induced pluripotent stem (iPS) cells derived from fibroblasts of a G2019S carrier (Fig. 2d & Additional file 3: Figure S3). We conducted a similar experiment after treating the cells with LRRK2-IN-1, the LRRK2 kinase specific inhibitor . Inhibitor treatment decreased p53 phosphorylation (Additional file 4: Figure S4A).
Altogether, these results suggest that LRRK2 phosphorylates the threonine in the p53 TXR motifs. However, the high residual activity (>50 %) observed in samples treated with LRRK2-IN-1 suggested that LRRK2 is not the sole kinase phosphorylating such p53 sites although we cannot exclude the possibility that the residual activity is due to incomplete inhibition of LRRK2 kinase activity in the LRRK2-IN-1 treatment (Additional file 4: Figure S4A, pS935 in the input panel). In fact, various kinases such as TFIIH CDK7-cycH-p36 , protein kinase C [46, 47], CHK1, and CHK2  reportedly phosphorylate at least p53 Thr377.
LRRK2-induced p53 phosphorylation accumulates p53 in the nucleus and activates p21WAF1/CIP1 expression
p53 is an important transcription factor. Human p53 contains three functional nuclear localization signals (NLSs), such as 305 ~ 322, 369 ~ 375, and 379 ~ 384(, Fig. 1C). We tested whether the structural change, which may be caused by phosphorylating T304 and T377 sites, could affect p53 nuclear localization because they are very close to these NLSs. The SH-SY5Y cell line contains WT p53, which is located in the cytoplasm and nucleus . Knocking down of LRRK2 expression by shLRRK2 transfection or ectopic expression of G2019S significantly decreased or increased the amount of nuclear p53 compared to that in the control, respectively (Fig. 3a & b). The treatment of LRRK2 kinase inhibitor exhibited a similar result to that of shLRRK2 transfection (Additional file 4: Figure S4B). These results suggest that LRRK2 kinase mediated p53 phosphorylation causes accumulation of nuclear p53. In addition, immunofluorescence staining assay after ectopic expression of the p53 WT or phosphomimetic mutant T304/377D proteins in the differentiated SH-SY5Y cell line also showed that the number of cells predominantly expressing nuclear p53 increased in cells transfected with the mutant p53 compared to those with the p53 WT (Fig. 3c).
Next, we investigated the physiological consequences of LRRK2-induced p53 phosphorylation. We again utilized LRRK2-IN-1 and plasmids expressing shLRRK2 or G2019S. After each treatment or transfection, the cells were analyzed for p21WAF1/CIP1 (p21) expression by RT-PCR and Western blot. Transfection of the cells with shLRRK2 or G2019S resulted in decreased or increased p21 mRNA and protein levels, respectively (Figs. 4a & b and 5a & b). We also used reporter plasmids expressing a luciferase under control of the p21(waf) promoter to further confirm the regulation of p21 by LRRK2-mediated p53 phosphorylation at the transcriptional level . The shLRRK2 transfection decreased luciferase activity, whereas overexpressing LRRK2 G2019S or the phosphomimetic p53 T304/377D increased it (Fig. 4c). In addition, we observed that G2019S-expressing cells significantly increased cleaved PARP, an apoptotic marker, and released lactate dehydrogenase (LDH) activity, and reduced cell viability in the CCK 8 assay, suggesting apoptosis-mediated cytotoxicity (Fig. 5b). Treating SH-SY5Y cells with a LRRK2 kinase inhibitor, LRRK2-IN-1, exhibited the similar results- decrease of p21 mRNA and protein levels based on the RT-PCR and Western blot assays (Additional file 4: Figure S4C-D). Treatment of the cells with GSK2578215A, another LRRK2 kinase specific inhibitor , also exhibited decrease of p21 expression (Additional file 4: Figure S4E). The effectiveness of LRRK2-IN-1 and shLRRK2 was confirmed by the reduction in phosphorylated S-935 LRRK2  and LRRK2 mRNA and protein levels, respectively (Figs. 4a and 5a and Additional file 4: Figure S4A). Besides, exogenous expression of p53 WT, T304/377D and T304/377A exhibited increase of p21 expression, cleaved PARP and cytotoxicity in order of T304/377D > WT ≈ T304/377A > vector (Fig. 5c). Moreover, direct expression of the T304/377D or exogenous FLAG-p21 by transfection also exhibited similar results- increase of p21, cleaved PARP and cytotoxicity in a dose-dependent manner (Fig. 5d and e).
In addition, the rat primary neurons transfected with plasmids expressing myc-G2019S, p53 T304/377D or FLAG-p21 also exhibited increase of p21, cleaved PARP and cytotoxicity (Fig. 6 and Additional file 5: Figure S5). Similar to the SH-SY5Y cells, exogenous expression of p53 WT, T304/377D and T304/377A in the rat primary neurons exhibited increase of p21 expression in order of T304/377D > WT ≈ T304/377A > vector (Figs. 5c vs. 6b). The Western blot with the G2019S TG mice mid-brain lysates also revealed that p21 expression in the TG mice significantly increased compared to that in the non TG littermates (Fig. 6d).
Altogether, these data suggested the activation of p21 and apoptotic cell death via specific p53 phosphorylation by LRRK2 kinase activity.
p53 as a LRRK2 kinase substrate
We found here that LRRK2 phosphorylated p53 on T304 and T377 using a specific p-TXR antibody (Fig. 1). We also observed cellular interaction of LRRK2 with p53 (Fig. 2a). Using the unbiased proteomics approach (Table S1 in ), p53 has been previously reported as one of LRRK2 interacting proteins, which supports our data.
In contrast to the Western blot data, the in vitro isotope kinase assay showed that the T304/377A mutant was still phosphorylated, although radioactivity decreased considerably compared to that of the WT (Fig. 1A & B). Combined with the Western blot result, our data suggest that LRRK2 phosphorylates p53 at other sites in addition to T304 and T377. These sites may occur in the 293 amino acids N-terminal. In fact, the p53 N-terminus is heavily phosphorylated, resulting in different effects on p53 function . Repeated MS analysis of phosphorylated p53 after incubation with LRRK2 failed to reveal such sites, and the identity of the putative additional site(s) remains unknown. Therefore, the T304/377D mutant may have only exhibited a partial effect on LRRK2-mediated p53 phosphorylation, although we used the mutant as a phosphomimetic protein in this study. Therefore, we also employed the treatment of LRRK2 kinase inhibitors, and transfection of G2019S or shLRRK2 plasmid regulating the LRRK2 expression level. Regardless of differences in experimental approaches, corresponding differences in p21 expression and cleaved PARP level have been commonly observed in the differentiated SH-SY5Y cells, rat primary neurons, G2019S TG mice brain lysates and dopaminergic neurons differentiated from human iPS cells of a G2019S carrier (Figs. 5 & 6), suggesting that apoptotic cell death by LRRK2  was partially mediated through p53 phosphorylation.
The p53 phosphorylation system is very complex. One specific kinase phosphorylates multiple p53 sites, and the same residue can be phosphorylated by multiple kinases in response to diverse stressors . Phosphorylation of p53 results in various phenotypes, depending on the site phosphorylated, such as the changes in binding affinity for a specific partner protein, the stability or DNA binding affinity which usually results in a change in p53 transcription activity . The p53 Thr 377 is one of the minor phosphorylation sites by TFIIH CDK7-cycH-p36  or protein kinase C [46, 47]. In addition, both CHK1 and CHK2 phosphorylated Thr377 and Ser378, and 377/378D phosphomimetic mutation reduced p53 Lys373 acetylation , suggesting a repressed p53 transcriptional activity. Our results suggest that LRRK2-mediated p53 phosphorylation increases nuclear localization of p53 (Fig. 3) and activates p21 expression (Figs. 4, 5 and 6). The discrepancy in the results  may be because each kinase phosphorylates other specific sites in addition to T377.
In contrast to T377, phosphorylation on Thr304 has been reported in endogenous p53 in human foreskin fibroblasts treated with the p53 activating chemical, etoposide . However, physiological function of this phosphorylation is unknown.
Physiological consequences of p53 phosphorylation by LRRK2
p53 is a well-characterized transcription factor activating multiple genes that mediate apoptosis and cell growth arrest in response to various genotoxic and non-genotoxic stressors. We initially tested the effect of LRRK2-induced p53 phosphorylation on its target genes, p21 and MDM2, by RT-PCR and Western blot analyses. The results suggest that LRRK2-induced p53 phosphorylation activates expression of p21 (Figs. 4, 5 and 6) but not that of MDM2. MDM2 expression was changed to a pattern similar to that of p21, under some conditions, but the difference was not significant (data not shown).
P21WAF1/CIP1 (p21) is a cell growth inhibitor activated by p53 . The functions of p21 in cell proliferation and neuronal cell toxicity are controversial. The induction of p21 is required for neuron survival . However, increased p21 expression induced by p53 phosphorylation inhibits proliferation of embryonic neuronal cells . Another study reported that p53 induces p21 expression and apoptosis in neuroblastoma cells . In addition, DNA-damaging drug treatment induces p53 and p21 expression and results in apoptosis in SH-SY5Y cells . In our study, LRRK2-mediated p53 phosphorylation in differentiated SH-SY5Y cells and primary neurons significantly increased p21 expression and cytotoxicity (Figs. 4, 5 and 6). This result was repeatedly confirmed under various conditions, such as ectopic expression of phosphomimetic T304/377D or G2019S mutants, treatment of two different LRRK2 kinase inhibitors, down-regulation of LRRK2 expression level by shLRRK2 transfection, and G2019S TG brain lysates (Figs. 4, 5 and 6 and Additional file 4: Figure S4). More importantly, ectopic expression of p21 itself in differentiated SH-SY5Y cells and rat primary neurons suggested that p21 activation in these cells results in apoptosis (Figs. 5e & 6c). We also tested the effect of p53 T304/377D expression in the human colon cancer HCT116 p53 null cell line. In contrast to differentiated SH-SY5Y cells, no p21 expression was observed in the promoter and Western blot assays of the HCT cell line, suggesting that the effect we observed may be a cell-type, perhaps a neuron-specific one (data not shown).
Transfection of the phosphomimetic p53 T304/377D mutant exhibited increase of p21 expression whereas transfection of the T304/377A mutant that was unable to be phosphorylated showed lower p21 expression, similar to that of the WT (Figs. 5c & 6b). The reason why the T304/377A mutant still contains the activity similar to the WT might be because the T304/377A mutant can be still phosphorylated by other kinases at additional sites, like the WT.
Involvement of p53 in PD pathogenesis has been suggested in several reports, showing that the expression of p53 is higher in PD brains than in non-PD brains and that several PD-causing chemicals, such as rotenone and 6-hydroxydopamine, activate p53 [61–67]. In addition, rotenone induces upregulation of p53, p38, phospho-p38, and Bax in cultured PC12 cells and rats . Several studies investigating PD-causative genes revealed that p53 is an important regulator of PD. For example, parkin and p53 reciprocally regulate each other in a cell-specific manner. p53 is a transcriptional activator of Parkin in cancer cells , and Parkin is a p53 transcriptional repressor in neuronal cells . In addition, cytosolic p53 inhibits mitophagy mediated by Parkin in mouse hearts . However, these transcriptional regulations were observed in a cell-specific manner , as in our data showing differences in p21 activation between the SH-SY5Y and HCT116 p53 null cell lines. Two other PD-recessive genes, DJ-1 and PINK1, also regulate p53 functions [37, 70].
Because p53 is one of the most important tumor suppressors, the physiological consequence of p53 phosphorylation by LRRK2 related to cancer is a critical question. Our Western data show increase in p21 and cleaved PARP protein levels and cytotoxicity of G2019S overexpressing cells. The low incidence of most cancers, excluding melanoma, in patients with PD has been well-documented in several epidemiological studies [71–73]. Our data provide a possible mechanism for this observation- i.e., increase of LRRK2 kinase activity inducing p53 phosphorylation and increasing p21 expression and cytotoxicity in most tissues- which is probably making cells more susceptible to p53-activating stimuli and evading cancer. However, a contradictory study showed that LRRK2 gene amplification causes a certain types of cancers, such as papillary renal and thyroid cancers . In addition, there are contradictory reports about the effect of the G2019S mutation on the cancer [75, 76]. More studies are required to explain this discrepancy. In addition, it remains to be determined whether our observation is directly related to a PD pathogenic mechanism by a LRRK2 G2019S mutation and which stimuli activate LRRK2 kinase activity related to p53.
LRRK2, a PD causative gene, phosphorylates p53 at T304 and T377 residues. Phosphorylation of p53 by LRRK2 increases p53 nuclear localization, expression of p21WAF1/CIP1, cleaved PARP level, and cytotoxicity in differentiated SH-SY5Y cells and rat primary neurons.
Plasmids and recombinant proteins
Plasmids expressing the HA-tagged human p53 gene (16434) and FLAG-p21 (16240) were purchased from Addgene (Cambridge, MA, USA) and shLRRK2 plasmid specifically inhibiting expression of endogenous human LRRK2 (TI202451) from ORIGENE (Rockville, MD, USA). The pET28 bacterial vector (Novagen, Darmstadt, Germany) expressing histidine tagged full length p53 [His-p53(1–393 amino acids)], and deleted p53, [His-p53(1–293 amino acids)], were previously reported . The indicated p53 mutations were introduced by in vitro site-directed mutagenesis with proper primer pairs, and their sequences were confirmed by sequencing the full length of the cloned open reading frame. LRRK2 and its mutant plasmids were constructed as described previously [31, 77]. The recombinant LRRK2 WT, G2019S, and D1994A proteins with or without the N-terminal 970 amino acids were purchased from Invitrogen (Carlsbad, CA, USA). The following antibodies were used: LRRK2 (ab133474 [MJFF2]; Abcam, Cambridge, MA, USA, 1:1000), p53 (for human p53: sc-126, Santa Cruz Biotechnology, Dallas, TX, USA, 1:1000 and #2527S, Cell Signaling Technology, Danvers, MA, USA, 1:500; for mouse p53: sc-1312, Santa Cruz Biotechnology, 1:100; for immunoprecipitation of mouse p53: ab26, Abcam,), p21 (sc-397, Santa Cruz Biotechnology, 1:100), pS935 (ab133450, Abcam, 1:500), Lamin B (sc-6217, Santa Cruz Biotechnology, 1:500), LDH (sc-33781, Santa Cruz Biotechnology, 1:500), β-actin (sc-47778, Santa Cruz Biotechnology, 1:1000), p-TXR (#2351S, Cell Signal Technology, 1:500), hsp90 (610418, BD transduction Laboratories, Bedford, MA, USA, 1:5000) α-tubulin (T5168, Sigma-Aldrich, St. Louis, MO, USA, 1:2500).
The p-TXR antibody, which recognizes PKC-mediated phosphorylation motif  was used to detect phospo-p53 phosphorylated on the p-TXR motif threonine residue.
Cell culture and transfection
Human SH-SY5Y cells were cultured in DMEM containing 10 % fetal bovine serum at 37 °C with 5 % CO2 and differentiated in medium containing all-trans retinoic acid (10 μM) for 6–7 days to obtain dopaminergic neuron-like properties.
Rat primary cortical neuron cultures were carried out as described previously . The LRRK2 specific kinase inhibitors LRRK2 IN-1 (438193, Merck Millipore, Darmstadt, Germany) and GSK2578215A (4629, Tocris Biosciences, Bristol, United Kingdom) was added as indicated. Transfection of plasmid was carried out with Lipofectamine LTX (Invitrogen) as recommended by the manufacturer.
In vitro kinase assay
We used the N-terminal truncated protein fused to GST or full length recombinant LRRK2 protein (Invitrogen), for the LRRK2 in vitro kinase assay. Protein (50 ng) was used for each kinase reaction. The indicated proteins were incubated in 20 μl kinase buffer [2.5 μCi of γ32P-ATP (BLU502; Perkin Elmer, Waltham, MA, USA), 50 μM ATP, 25 mM Tris–HCl (pH 7.5), 5 mM β-glycerol phosphate, 2 mM DTT, 0.1 mM NA3VO4 and 10 mM MgCl2] containing approximately 100 ng of the indicated proteins at 30 °C for 20 min. p53 WT or mutant proteins were expressed and purified from the E. coli BL21 strain. The samples were subjected to sodium dodecyl sulfate-polyacrylamide gel electrophoresis and the dried gel was analyzed by autoradiography.
Reprogramming of human fibroblasts to induced pluripotent stem cells and their differentiation to dopaminergic neurons
Normal human fibroblast (IMR-90, ATCC) and Parkinson’s disease patient fibroblasts with LRRK2-G2019S mutation (#ND29492, Coriell Cell Repositories, Camden, NJ, USA) were reprogrammed to induced pluripotent stem cells (iPSCs) as described in previous report  with some modifications. In detail, the vectors were introduced using the Neon (Invitrogen) and the reprogramming medium was supplemented with 0.5 μM A83-01 (Tocris, Bristol, UK), 3 μM CHIR99021 (Tocris), and 0.2 mM sodium butyrate (Sigma).
The use of human cells and human pluripotent stem cells (hPSCs) were reviewed by institutional review board of KRIBB and we followed the guidelines in all experiments. The hPSCs were differentiated to neuroectodermal spheres (NES) as described previously . For the dopaminergic neuronal differentiation, NESs that were cultured for four days after passaging were placed in dopaminergic neural patterning medium (DPM; DMEM/F12, N2 supplement (1:100), B27 supplement (1:50), 100 U/ml penicillin-streptomycin (all from Invitrogen), 100 ng/ml SHH, 100 ng/ml FGF8, 1 μM purmorphamine (Tocris), 3 μM CHIR99021 (Tocris) and 0.2 mM 2-Phospho-L-ascorbic acid (Sigma)) for four days. Patterned NESs were dissected by McIlwain tissue chopper and attached on matrigel-coated culture dishes. After four days, DPM was replaced by terminal differentiation medium (TDM; DMEM/F12, N2 supplement (1:100), B27 supplement (1:50), 100 U/ml penicillin-streptomycin, 20 ng/ml BDNF, 20 ng/ml GDNF, 0.5 mM dibutyryl-cAMP (Enzo, Farmingdale, NY, USA), and 0.2 mM 2-Phospho-L-ascorbic acid (Sigma)). All cytokines were obtained from Peprotech (Rocky Hill, NJ, USA). To get differentiated neurons, half of TDM was replaced every two days until 2 weeks.
The lysates of the differentiated neurons were immunoprecipitated with p53 antibody and were subjected to the western blot analysis with p-TXR antibody to investigate the level of phospho-Threonine at TXR of p53.
Immunoprecipitation, nuclear fractionation and Western blot
The cell lysates were centrifuged at 16,000 × g for 10 min at 4 °C to remove insoluble material. The supernatants were precleared, then immunoprecipitated with anti-p53 or anti-LRRK2 (MJFF2, Abcam) at 4 °C for 8 h, and further incubated with protein-A agarose (Pierce, Rockford, IL,USA) for 24 h. The antibody-protein complexes were subjected to Western blot analysis using the indicated antibodies.
Cell nuclei were fractionated using a Nuclear/Cytosol Fractionation kit (K266-100, Bioscience, Milpitas, CA, USA) as suggested by the manufacturer, after the indicated treatment.
G2019S TG mice (#009609, Jackson Laboratory, Bar Harbor, ME, USA) and normal control littermates were sacrificed by cervical dislocation. Brain tissues were disrupted using a Dounce Homogenizer (10 strokes) and lysed by passing the extracts through a 22-gauge needle five times. The brain lysates were centrifuged at 16,000 × g for 30 min at 4 °C to remove insoluble material, and supernatants were used for further Western blot analysis.
The immunoprecipitated antibody-protein complexes, cell or brain lysates, or fractionated samples were subjected to Western blot analysis using the indicated antibodies.
Luciferase assay and reverse transcription –polymerase chain reaction (RT-PCR)
Differentiated SH-SY5Y cells were transfected with the indicated reporter plasmids. The shLRRK2 plasmid was co-transfected with the reporter plasmid to knock down LRRK2 expression. The luciferase assay was conducted using the Dual Luciferase Assay kit (Promega, Madison, WI, USA). pRL-TK was co-transfected to normalize transfection efficiency.
Total RNA was isolated from the indicated cells, used for cDNA synthesis, and the target mRNAs were amplified by PCR using the cDNAs as templates and the indicated primer sets under the indicated conditions (Table 1). The PCR products were analyzed by agarose gel analysis.
Differentiated SH-SY5Y cells were transfected with HA-tagged p53 WT, T304/377D, or empty vector. After incubation, cell were sequentially immunostained with HA antibody and Alexa Fluoro 488 secondary antibody (Invitrogen) and the nuclei were counterstained with 4',6-diamidino-2-phenylindole (DAPI). The experiments were repeated to prepare three sets. Each set was observed under a Zeiss LSM700 confocal microscope and ten images were randomly taken. Predominant localization of p53 protein was scored blindly as nuclear, cytosol or both and the number of cells in each case was counted.
All statistical analysis was carried out with the Prism5 program (GraphPad Software, La Jolla, CA, USA).
Leucine-rich repeat kinase 2
induced Pluripotent Stem Cells
Reverse Transcription – Polymerase Chain Reaction
Threonine– X – Arginine
Nuclear Localization Signals
- CHK1 and CHK2:
Check Point Kinase1 and Check Point Kinase2
Poly ADP-ribose Polymerase
Heat Shock Protein 90
human Pluripotent Stem Cells
Brain-Derived Neurotrophic Factor
Glial cell-Derived Neurotrophic Factor
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This study was supported by grants from the InAm Neuroscience Research Center (Sanbon Hospital, Wonkwang University, Korea) and from the Basic Science Research Program (2012R1A1A3008447 to WS), Stem cell research program (NRF-2013M3A9B4076483 to JK) and SRC (MSIP No. 2011–0030049, 2011–0030928, 2012–003338 to HS) through the National Research Foundation of Korea (NRF) funded by the Ministry of Education, Science and Technology.
The authors declare that they have no competing interests.
DH and HK conducted the biochemical and cellular analyses with support from BP, HS, IS, and WS. WS constructed the plasmids. DH and WS designed the study. JK, HSim, HA, JK, HSeo, KCC, BP, IS, and WS provided materials and apparatus. DH, HK, BP, and WS analyzed and interpreted the data. DH and WS wrote the manuscript. All authors read and approved the final manuscript.
A correction to this article is available online at https://doi.org/10.1186/s13041-017-0327-6.
LRRK2 phosphorylates p53 and moesin at TXR sites in the in vitro kinase assay. A. Phosphorylation of various p53 proteins by the Flag-tagged full length LRRK2 protein (Invitrogen) after the in vitro kinase assay. Phosphorylated p53 was detected by either autoradiography or Western blot with the p-TXR antibody. B. Western blot analysis after the in vitro kinase assay using moesin, various GST-ΔN-LRRK2 WT and mutant proteins, and cold ATP. (DOC 88 kb)
Differentiating SH-SY5Y cells with retinoic acid induces LRRK2 expression with little difference of p53. Indicated concentration of all- trans-retinoic acid was treated for two days. (DOC 65 kb)
Increased phosphorylation of Thr in the p53 TXR sites in dopaminergic neurons differentiated from fibroblast-derived iPS cells that were obtained from the human G2019S carrier (WT/GS) and non-carrier (WT/WT). The indicated cell lysates were immunoprecipitated with the p53 antibody and the immunoprecipitates (IP: p53) were subjected to Western blot. Input indicates 20% of the cell lysates. Numbers below the gel figures are relative protein level of each TXR band ([p-TXR]/[total p53]) based on the densitometric analysis. The antibodies used for Western blot analysis were indicated in the right side of each blot. (DOC 57 kb)
LRRK2 kinase inhibitor decreased p21 expression. Differentiated SH-SY5Y cells were treated with 1 μM LRRK2-IN-1 for 2 h (A-D) or 0.5 μM GSK2578215A (Tocris Biosciences, Bristol, United Kingdom) for 12 h (E). The p53 immunoprecipitates of the cell lysates were used to detect p-TXR level (A). The LRRK2-IN-1 treated cells were also used to determine relative amount of nuclear p53 (B) as in Fig. 3a. The cell lysates were used to detect p21 mRNA (C) and protein (D) levels as in Figs. 4 and 5. p21 expression level of GSK2578215A treated cells were also tested (E). Activities of LRRK2 kinase inhibitor treatments were confirmed by reduced level of LRRK2 p935 (pS935). – indicates vehicle treatment. Lamin B and LDH were used for nuclear and cytosolic markers, respectively. All experiments were repeated three times, and a representative result is shown with a bar graph. *: p <0.05; **: p <0.01. (DOC 188 kb)
Expression of T304/377D mutant increased cytotoxicity in rat primary neurons. The neuronal cells were transfected with vector, HA-p53, T304/377D and T304/377A. The cytotoxicity was measured by LDH assay. n = 6. **: p <0.01; ***: p <0.001. (DOC 49 kb)