Abstract
The tumor suppressor p53 is an important regulator of intracellular reactive oxygen species (ROS) levels, although downstream mediators of p53 remain to be elucidated. Here, we show that p53 and its downstream targets, p53-inducible ribonucleotide reductase (p53R2) and p53-inducible gene 3 (PIG3), physically and functionally interact with catalase for efficient regulation of intracellular ROS, depending on stress intensity. Under physiological conditions, the antioxidant functions of p53 are mediated by p53R2, which maintains increased catalase activity and thereby protects against endogenous ROS. After genotoxic stress, high levels of p53 and PIG3 cooperate to inhibit catalase activity, leading to a shift in the oxidant/antioxidant balance toward an oxidative status, which could augment apoptotic cell death. These results highlight the essential role of catalase in p53-mediated ROS regulation and suggest that the p53/p53R2–catalase and p53/PIG3–catalase pathways are critically involved in intracellular ROS regulation under physiological conditions and during the response to DNA damage, respectively.
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Main
Reactive oxygen species (ROS) are generated as products or by-products in cells and function as signaling molecules and cellular toxicants.1, 2 Therefore, a series of antioxidant mechanisms maintain and protect intracellular redox homeostasis.2, 3, 4 A shift in the balance between oxidants and antioxidants toward oxidation causes DNA mutations, protein oxidation, and lipid peroxidation, which eventually lead to loss of molecular function1, 2, 5 and contribute to the pathogenesis of human diseases, including aging and cancer.3
The p53 protein has been proposed as a critical regulator of intracellular ROS levels. Upon activation following DNA damage, p53 can activate several genes that result in increased ROS generation, which contributes to the induction of apoptosis in cells with unrepaired DNA damage.6, 7, 8, 9, 10 The induction of apoptosis is central to the tumor-suppressive activity of p53.11, 12 By using the serial analysis of gene expression technique to evaluate the patterns of gene expression following p53 expression, a series of p53-inducible genes (PIG genes) have been identified that are predicted to encode proteins that could generate ROS.8 Of particular interest is p53-inducible gene 3 (PIG3), which shares sequence similarity with NADPH-quinine oxidoreductase, and is induced by p53 before the onset of apoptosis and contributes to ROS generation.8 Thus, PIG3 is believed to be one of the major factors involved in p53-induced apoptosis through ROS generation. This was the first clear connection between p53 and ROS generation, but the molecular mechanisms of PIG3-induced ROS generation have not yet been elucidated. Under physiological condition, basal levels of p53 can also upregulate antioxidant genes that function to lower ROS levels, and this antioxidant function of p53 is important in preventing oxidative stress-induced DNA damage and tumor development under low-stress conditions.13, 14, 15, 16, 17, 18, 19, 20, 21 Thus, p53 has opposing roles in the regulation of ROS, depending on the nature and intensity of the stress and on the cellular context. However, the precise molecular mechanisms of the balance between prooxidant and antioxidant states caused by p53 are not completely understood.
In this study we sought to identify cellular and molecular mechanism of p53-mediated positive and negative regulation of ROS generation. Our study reveals that p53 cooperating with PIG3 or p53-inducible ribonucleotide reductase (p53R2), p53 downstream targets, regulates ROS levels through up- and downregulation of catalase activity.
Results
p53 and PIG3 directly bind with catalase
To clarify the molecular mechanisms of p53-mediated ROS regulation, a yeast two-hybrid screen was used to identify molecular partners of p53 and PIG3 implicated in the regulation of intracellular ROS levels. We isolated catalase, the antioxidant enzyme that defends against hydrogen peroxide (H2O2),5, 22 by searching for new p53- and PIG3-interacting proteins. To examine the interaction between endogenous p53 and catalase, cell extracts from U2OS and RKO cells were immunoprecipitated with the anti-catalase. Western blot analyses revealed that p53 was present in the immunoprecipitates obtained with anti-catalase antiserum, and that this interaction increased significantly after H2O2 or UV treatment (Figure 1a). To demonstrate the specificity of the catalase antibody, we created a catalase-deficient U2OS cell line using catalase-targeting small interference RNA and performed the co-immunoprecipitation in these cells. Immunoprecipitation of the catalase in catalase-knockdown cells treated with UV irradiation resulted in only a very faint band, indicating the specificity of this interaction (Figure 1b). Overexpression experiments in H1299 (p53–/–) cells further confirmed that p53 specifically bound to catalase (Figure 1c).
To determine whether PIG3 interacts with catalase in a cell endogenously expressing PIG3 protein, cell extracts from RKO cells were immunoprecipitated with the anti-catalase antibody. Western blot analyses revealed that PIG3 was clearly present in the immunoprecipitates obtained with anti-catalase antiserum, and this interaction increased after UV treatment (Figure 1d).
We next used purified recombinant proteins to test the possibility of a direct interaction of p53 and PIG3 to catalase. We premixed the purified human p53 or PIG3 with recombinant human catalase (Supplementary Figures 1a and b) and subjected the protein precipitates that we obtained to western blot assays using antibody specific to catalase. Immunoprecipitation with antibody to p53 pulled down catalase from the p53-catalase mixture (Figure 1e). Similarly, immunoprecipitation with antibody to PIG3 captured catalase from the PIG3-catalase mixture (Figure 1f). These results suggest that p53 and PIG3 directly interacted with catalase.
p53 and PIG3 suppress catalase activity through association with catalase
The affinity of p53 and PIG3 for catalase described above prompted a search for a functional interaction between these proteins. Because p53 and PIG3 have no catalase activity (data not shown), the possibility that they may affect the enzymatic activity of catalase was investigated. Using recombinant purified human proteins, catalase activity was tested in the presence or absence of p53 and PIG3. Catalase activity was strongly and dose-dependently repressed by recombinant p53 (Figure 2a) and PIG3 (Figure 2b) protein. To further evaluate the role of p53 in the regulation of catalase function in vivo, we examined whether catalase is inhibited when p53 is overexpressed. Consistent with these in vitro results, ectopically expressed p53 decreased catalase activity in U2OS, RKO, and HCT116 cells (Figure 2c). Coincidently, p53-expressing cells showed increased ROS production (Figure 2d). However, we did not detect differences in the ROS levels between control and p53 expressing H460 cells (Figure 2d, lane 4). As H460 cells are deficient in catalase (Figure 2c, lane 4), p53 expression would likely fail to upregulate ROS production in catalase-deficient cells. Indeed, ectopic expression of p53 increased ROS levels in catalase-overexpressing H460 cells (Figure 2e) but not in catalase-depleted U2OS and RKO cells (Figure 2f), indicating that catalase is required for p53-mediated ROS regulation.
We next tested whether PIG3 expression influences catalase activity in p53-deficient cells. SW480 cells (p53 mutant), H1299 cells (p53 null), and HCT116 p53–/– cells were transiently transfected with either the PIG3 expression vector or its control vector, and catalase activity was measured. Ectopic expression of PIG3 reduced catalase activity and stimulated ROS production (Supplementary Figures 2a and b). Together, these results indicate that p53 and PIG3 suppress catalase activity in vitro and in vivo.
To identify the p53 region responsible for the interaction with catalase, we generated various fragments of V5-tagged human p53 and performed a series of co-immunoprecipitation experiments. We found that amino acid residues 301–393 in the C-terminus of p53 (P5) have a crucial role in the interaction with catalase (Figure 3a). Similarly, we generated expression constructs for a series of GFP-tagged PIG3 deletion mutants to identify the PIG3 domain responsible for the PIG3–catalase interaction. The immunoprecipitation results indicated that deletion of PIG3 residues 201–332 (PG3) abolished PIG3 binding to catalase (Figure 3b).
Catalase-binding region of p53 and PIG3 may inhibit catalase activity. If so, p53 mutants and PIG3 mutants that do not bind catalase should not affect catalase activity. The full-length p53 and P5 constructs, which retain the catalase interaction site, were able to suppress catalase activity (Figure 3c) and increase ROS levels (Figure 3d). In contrast, a region between amino acids 1 and 300 of p53 (P1), which does not bind catalase, only slightly affected catalase activity and ROS levels. Similarly, the expression of full-length PIG3 and PG5 reduced catalase activity (Figure 3e) and increased ROS levels (Figure 3f), whereas a PIG3 mutant missing amino acids 201–332 (PG3) did not. Thus, the p53 and PIG3 region necessary for interacting with catalase is crucial for regulating catalase activity and ROS levels.
p53R2 mainly contributes to p53-mediated antioxidant function in physiological conditions
Previous studies have indicated that p53 knockdown increases ROS levels through the downregulation of antioxidant genes.14, 17, 20 The present study also confirmed that p53 knockdown in U2OS and RKO cells increased ROS production (Figure 4a). However, interestingly, p53 knockdown in HCT116 cells decreased ROS levels. p53 knockdown may differently modulate the expression of antioxidant genes in these cells, consequently altering ROS levels. However, the expression of antioxidant genes was comparable among p53-depeleted U2OS, RKO, and HCT116 cells (Supplementary Figure 3), indicating that the different patterns of ROS levels are not dependent on these antioxidants. In an effort to explain these observed differences in ROS levels, we examined the effect of p53 knockdown on catalase activity. Indeed, ROS levels were significantly inversely correlated with catalase activity in all three p53-depleted cell lines (Figures 4a and b). Given that purified p53 protein inhibited catalase activity in vitro (Figure 2a) and that p53 overexpression reduced catalase activity in vivo (Figure 2c), p53 knockdown-dependent downregulation of catalase activity in U2OS and RKO cells (Figure 4b) is likely mediated by an additional factor. Catalase has been shown not to be regulated15 or upregulated23 by p53, and our data imply that p53 cannot directly regulate catalase expression (Supplementary Figures 3 and 4).
p53R2 is a downstream target gene of p53,24, 25 and microgram quantities of purified p53R2 protein exhibit catalase activity.26 Thus, p53R2 is a reasonable candidate for the p53-mediated upregulation of catalase activity under physiological conditions. However, microgram quantities of p53R2 protein are too high to be considered physiologically relevant. We found that 0.1–10.0 ng of purified p53R2 protein, when incubated with purified catalase protein (Supplementary Figure 5), significantly and dose-dependently increased catalase activity (Figure 4c). While investigating how p53R2 regulates catalase activity, we found that p53R2 interacts with catalase in the presence or absence of UV irradiation (Figure 4d).
Overexpression experiments in HEK293T cells showed that the 36 C-terminal amino acids (R4) of p53R2 are required for the p53R2–catalase interaction (Figure 4e). Furthermore, wild-type p53R2 and R4 (residues 316–351), which retain the catalase interaction site, were able to increase catalase activity and reduce ROS levels (Supplementary Figures 6a and b). In contrast, a region comprising amino acids 1–206 of p53R2 (R2), which does not bind catalase, only slightly affected catalase activity and ROS levels. These data indicate that p53R2 increases catalase activity through a direct interaction with the enzyme.
To further explore the functional consequence of these interactions, we tested whether p53R2 depletion could affect catalase activity. Knockdown of p53R2 in U2OS and RKO cells reduced catalase activity and increased ROS levels (Supplementary Figures 7a and b), whereas only small changes occurred in p53R2-depeleted HCT116 cells. HCT116 cells contain mutated p53R2 (V115L),27 and we hypothesized that this mutant form of p53R2 may have no influence on catalase activity. We subsequently showed that wild-type p53R2, but not mutated p53R2 (V115L), increased catalase activity and suppressed ROS levels (Supplementary Figures 8a and b).
We next investigated the effect of p53 knockdown on the p53R2–catalase interaction. Immunoprecipitation analyses revealed that the binding (Figure 4f) of catalase and p53R2 markedly decreased in p53-knockdown cells. Moreover, introducing p53R2 into p53-depleted cells restored catalase activity (Figure 4g) and ROS levels significantly decreased (Figure 4h). These results strongly suggest that wild-type p53R2 contributes to maintain increased catalase activity under unstressed conditions in p53-proficient cells.
Binding patterns of p53 and p53R2 to catalase
Because catalase localized mainly to the peroxisome,28 we examined the subcellular localization of p53, PIG3, p53R2, and catalase before and after UV irradiation. In unstressed cells, p53R2 and catalase localized in the peroxisomal fraction; however, p53 and PIG3 was very faint but predominantly peroxisomal-free supernatant fraction. In UV-stressed cells, the peroxisomal localizations of p53, PIG3, and p53R2 were increased (Supplementary Figure 9). Immunofluorescence analyses revealed that p53R2 but not p53 was colocalized with catalase in unstressed cells (Supplementary Figure 10). In contrast, both p53 and p53R2 colocalized with catalase after UV irradiation.
To further investigate the binding patterns of p53 and p53R2 to catalase in vivo, we performed a bimolecular fluorescence complementation (BiFC) assay using the fluorescent protein Venus, which enables visualization of direct protein interactions in living cells.29, 30 To achieve this, we constructed various plasmids encoding the N-terminal half (VN) or C-terminal half (VC) of Venus fused to the target proteins. U2OS cells co-transfected with VN-p53 and VC-catalase exhibited only a faint BiFC signal, which markedly increased after UV treatment (Figures 5a and c). In contrast, cells co-transfected with VN-p53R2 and VC-catalase produced a strong BiFC signal that was not significantly affected by UV irradiation (Figures 5b and c). To further dissect the kinetics of the dynamic changes in the binding of p53 and p53R2 to catalase in vivo, we conducted time-lapse BiFC imaging experiments in UV-irradiated living cells. The signal attributable to binding between p53 and catalase increased dramatically and became saturated about 2 h after UV irradiation, whereas the same experimental paradigm failed to alter the BiFC signal between p53R2 and catalase (Figures 5d and e). The mean value of the fluorescence intensity of cells further confirmed the kinetics of the dynamic changes in the binding activity between p53 and catalase in response to genotoxic stress (Figure 5f). These results strongly indicate that p53R2 efficiently interacts with catalase under unstressed conditions in vivo, whereas p53 binds catalase upon DNA damage.
p53 upregulates ROS generation through suppression of catalase activity in response to DNA damage
We next examined whether p53 influences catalase activity in response to DNA damage. We found that catalase activity significantly decreased in U2OS and HCT116 cells after UV treatment (Figure 6a) and ROS levels coincidently increased in these cells (Figure 6b). In contrast, catalase activity and ROS levels were only slightly affected in p53-deficient Saos-2 and HCT116 p53–/– cells, indicating that a p53–catalase pathway is important for regulating DNA damage-induced ROS generation. To investigate the role of catalase in p53-induced apoptosis, we examined the effect of catalase on UV-induced apoptosis. We found that catalase overexpression in U2OS cells significantly reduced UV-induced apoptosis (Supplementary Figures 11a and b). Because p53 overexpression in p53-null H1299 cells triggers apoptotic cell death in these cells,31 H1299 cells stably transfected with control or catalase expression vectors were infected with Ad-p53, and apoptosis was examined. Catalase overexpression completely abolished the p53-induced generation of ROS in H1299 cells (Supplementary Figure 12). Notably, p53-induced apoptotic sub-G1 DNA contents (Figure 6c) and active caspase-3/7 (Figure 6d) decreased significantly in catalase-overexpressing H1299 cells. Finally, using PIG3-overexpressing p53 null cells, we examined whether catalase suppresses UV-induced apoptosis. We observed that the intracellular ROS formation was significantly increased in the PIG3-overexpressing HCT116 p53–/– cells by UV irradiation (Supplementary Figure 13). Importantly, PIG3-overexpressing cells infected with Ad-catalase underwent less apoptosis than those infected with the Ad-control vector after UV irradiation (Figures 6e and f). Taken together, these data suggest that after DNA damage, p53 and PIG3 cooperate to trigger apoptosis by repressing catalase activity.
Discussion
Here, we demonstrate that p53 upregulates intracellular ROS levels through suppression of catalase activity: first, p53 and catalase can form a stable complex both in vitro and in vivo. Second, p53 protein is able to inhibit catalase activity in vitro. Third, cells that overexpress p53 exhibit lower catalase activity compared with that of control cells, indicating that p53 downregulates catalase activity in stressed cells, which have hyperphysiological levels of p53. Fourth, ectopic expression of p53 is not able to sufficiently increase ROS levels in catalase-deficient cells. Finally, PIG3, a key mediator of p53-dependent ROS generation, also associates with catalase and inhibits catalase activity both in vitro and in vivo. This suggests that after genotoxic stress, high levels of p53 and PIG3 cooperate in cells to cause a strong inhibition of catalase activity, resulting in an increase in ROS generation. Collectively, the inhibition of catalase activity caused by p53 is probably the main prooxidant function of p53.
We found that the decreased catalase activity caused by p53 contributed substantially to p53-induced apoptosis. In response to DNA damage, catalase activity was suppressed significantly in p53-expressing cells, but not in p53-deficient cells, causing an increase in intracellular ROS generation that allowed p53-induced apoptosis to occur. Notably, catalase protected p53-induced apoptosis through suppression of p53-induced ROS generation and inhibition of PIG3-dependent apoptosis after UV irradiation. Thus, after DNA damage, p53-dependent suppression of catalase activity can regulate overall cellular ROS levels, leading to apoptosis induction. This regulation is biologically important because the magnitude and duration of p53 activity is a critical determinant of cell fate via regulation of ROS levels, which have a significant impact on cell growth, survival, and tumorigenesis.33
Another important finding is that the antioxidant function of p53 is derived from the p53R2-catalase pathway, which maintains low ROS levels under physiological conditions. At physiological levels, p53 has a subtle but vital function in maintaining ROS at nontoxic levels through transactivation of a series of genes, including glutathione peroxidase (GPX1), sestrin family members SESN1 and SESN2,14 aldehyde dehydrogenase (ALDH4A1),34 TP53-induced glycolysis and apoptosis regulator (TIGAR),17 TP53-induced nuclear protein 1 (TP53INP1),20 and mitochondrial SOD2 (MnSOD) expression.35 p53 can also repress the expression of MnSOD35 and Nrf236 and subsequently modulate ROS levels. We found that p53 knockdown increased ROS levels in U2OS and RKO cells, whereas p53 knockdown decreased ROS generation in HCT116 cells. However, the expression patterns of p53-dependent antioxidant genes were similar among p53-depeleted U2OS, RKO, and HCT116 cells, implying that these antioxidant genes might not be contributing to p53’s role in regulating ROS levels under no stress or low stress. Importantly, our finding of an inverse correlation between catalase activity and ROS levels in p53-deficient U2OS, RKO, and HCT116 cells raised the possibility that a physiological level of p53 might modulate ROS generation through the regulation of catalase activity. However, because our results showed that hyperphysiological levels of p53 suppressed catalase activity, we enquired why p53 knockdown paradoxically suppressed catalase activity in U2OS and RKO cells. p53 deficiency led to a decrease in levels of catalase in rat retina cells,23 whereas p53 did not affect the expression of catalase in human cells.15 Our observations that both p53 overexpression and p53 knockdown did not affect catalase expression indicate that the different catalase activities among the p53-deficient HCT116, U2OS, and RKO cells are independent of catalase transcription.
We elucidated the mechanism by which p53-knockdown regulates catalase activity and identified an important role for p53R2, a p53-downstream target, in upregulating catalase activity in unstressed p53-proficient cells. Physiological levels of p53 powerfully negatively regulated intracellular ROS levels via this regulation. Previous reports showed that p53R2 possesses catalase activity.26 p53R2, however, exerts its catalase activity through p53R2/catalase protein–protein interactions because p53R2 directly interacts with catalase, leading to an increase in catalase activity in vitro. Expression of a deletion mutant of p53R2 (R2), which does not interact with catalase, had no effect on either catalase activity or ROS levels. p53R2 has been reported to be induced by genotoxic stress in a p53-dependent manner.24, 37 Our observation that the basal expression of p53R2 in p53-proficient cells is significantly higher than in p53-deficient cells, and that the depletion of endogenous p53 leads to a significant decrease in p53R2 expression, indicates that physiological levels of p53 are sufficient for upregulation of p53R2 in unstressed cells. In normal and unstressed conditions, the subcellular localization of p53 is mainly nuclear,38 and both p53R2 and catalase are present in the cytosol. Thus, basal levels of p53 may upregulate catalase activity through p53R2. Indeed, we found that knockdown of endogenous p53 in unstressed cells resulted in a significant decrease in catalase activity, which was associated with decreased binding of p53R2 to catalase. p53R2 expression restored catalase activity in p53 knockdown cells, and consequently, ROS levels were reduced to basal levels. These observations imply that the increased catalase activity induced by p53R2 is probably the main antioxidant function of p53. Our data also established that mutated p53R2 (V115L) was not sufficient to increase catalase activity; ectopic expression of wild-type p53R2, but not mutant p53R2, resulted in increased catalase activity and decreased ROS levels in U2OS, RKO, and HCT116 cells. Because HCT116 cells contain mutated p53R2 (V115L),27 p53R2 downregulation did not affect catalase activity in these cells. These results explain why p53 knockdown led to increased catalase activity in HCT116 cells, in contrast to U2OS and RKO cells.
Collectively, our findings clearly demonstrate that p53 regulates ROS levels through direct protein–protein interactions, although p53 is widely accepted to produce opposing effects on ROS levels through the transcriptional induction of prooxidant and antioxidant genes. These results add another layer of complexity to p53-mediated regulation of ROS. We propose a dynamic model for the upregulation and downregulation of ROS production by p53, and its downstream targets p53R2 and PIG3 (Figure 7). Under normal conditions and conditions of mild stress, p53 maintains catalase activity through p53R2, thereby ensuring that ROS levels remain low and control chromosomal stability. Under severe genotoxic stress conditions, high levels of p53 and the pro-apoptotic protein, PIG3, significantly reduce catalase activity and thereby shift the intracellular environment toward oxidative conditions to induce apoptotic cell death. Thus, depending on the transcriptional activation of specific downstream target genes and the specific interacting partners, p53 has either prooxidant or antioxidant functions. Given the complex interactions among p53, ROS, and cancer,1, 39, 40 our findings should have a major impact on clarifying the molecular pathways that regulate chromosome stability and cancer progression.
Materials and Methods
Materials
Reagents were obtained from the following sources: antibodies to catalase, p53, p53-HRP, PIG3, and p53R2, from Santa Cruz (Santa Cruz, CA, USA); anti-cleaved caspase-3 and anti-cleaved caspase-7, from Cell Signaling; (Beverly, MA, USA) antibody to the V5 tag, from Invitrogen (Carlsbad, CA, USA); antibody to α-tubulin, from NeoMarker (Rocklin, CA, USA); anti-rabbit IgG, and anti-goat IgG, from R&D Systems (Minneapolis, MN, USA); anti-mouse IgG, from Upstate (Lake Placid, NY, USA); peroxidase-conjugated anti-goat, anti-rabbit, and anti-mouse secondary antibodies, from Jackson ImmunoResearch Laboratories (West Grove, PA, USA); anti-PMP70, hydrogen peroxide, poly-L-lysine, neomycin, and propidium iodide, from Sigma-Aldrich (St. Louis, MO, USA); protease inhibitor cocktail, from Roche (Mannheim, Germany); Amplex Red catalase assay kit and 5-(and-6)-chloromethyl-2′,7′-dichlorodihydrofluoescein diacetate, acetyl ester (CM-H2DCFDA), from Molecular Probes (Carlsbad, CA, USA); protein G-Sepharose beads, from GE Healthcare (Milwaukee, WI, USA); IMDM (Iscove’s modified Dulbecco’s medium), EMEM (Eagle’s minimum essential medium), RPMI 1640 medium, McCoy’s 5A medium, penicillin-streptomycin (PS), and trypsin, from Gibco-BRL (Gaithersburg, MD, USA); and fetal bovine serum (FBS), from Cambrex (East Rutherford, NJ, USA).
Cell culture
The human colon carcinoma cell lines HCT116 and HCT116 p53−/− were cultured in IMDM with 10% FBS and 1% PS. The human colon carcinoma cell line RKO was grown in EMEM with 10% FBS and 1% PS. The human osteosarcoma cell lines U2OS and Saos-2 were cultured in McCoy’s 5A medium with 15% FBS and 1% PS. The human lung carcinoma cell lines, NCI H460 and NCI H1299, and colon carcinoma cell line, SW480, were maintained in RPMI 1640 medium with 10% FBS and 1% PS. The human embryonic kidney cell line HEK293T was grown in DMEM with 10% FBS and 1% PS. The HCT116 p53−/− cell line was a gift from Dr. Bert Vogelstein (Johns Hopkins University School of Medicine, Baltimore, MD, USA), and the HEK293T cell line was obtained from the Cornell Institute for Medical Research. All other cell lines were obtained from the American Type Culture Collection (Rockville, MD, USA).
Immunoprecipitation assay and western blot analysis
Cells were rinsed once with ice-cold PBS and lysed in ice-cold NP-40 lysis buffer (50 mM Tris-HCl (pH 8.0), 150 mM NaCl, and 1% Nonidet P-40) with one tablet of EDTA-free protease inhibitor cocktail (Roche). The soluble fraction of the cell lysates was isolated by centrifugation at 13 000 × g for 20 min in a microfuge. Supernatants were measured for protein concentration using a detergent-compatible protein assay (Bio-Rad, Hercules, CA, USA), and equal amounts of proteins were separated by 6–15% SDS-PAGE, followed by electrotransfer onto a polyvinylidene difluoride membrane (Millipore, Bedford, MA, USA). The membranes were blocked for 2 h with TBS-t (10 mM Tris-HCl (pH 7.4), 150 mM NaCl, and 0.1% Tween-20) containing 5% non-fat milk at room temperature and then incubated with primary antibodies overnight at 4°C. The blots were washed four times for 15 min with TBS-t containing 0.1% Tween 20 and then incubated for 2 h with peroxidase-conjugated secondary antibodies (1:4000) at room temperature. The membranes were washed four more times and developed using an enhanced chemiluminescence detection system (iNtRON Biotech, Gyeonggi-do, Korea). For the immunoprecipitation assay, lysates were precleared with protein G-Sepharose beads before adding the primary antibody for 15 min. After removing protein G-Sepharose by centrifugation, supernant was transferred and incubated with primary antibodies for 16 h at 4°C. Twenty microliter of 50% slurry of protein G-Sepharose beads were added, and the incubation was continued for an additional 1 h. The immunoprecipitates were washed three times with modified RIPA buffer (25 mM Tris (pH 7.2), 150 mM NaCl, 5 mM MgCl2, 0.5% NP-40, 1 mM DTT, and 5% glycerol). Immunoprecipitated proteins were denatured in SDS sample buffer, boiled for 5 min, and analyzed by western blotting using the appropriate antibodies.
For the in vitro protein binding assay, purified recombinant catalase was incubated with p53 or PIG3 in NP-40 lysis buffer overnight at 4°C. After incubation with antibody to p53 or PIG3 overnight at 4°C, protein G-Sepharose beads were then added. The beads were washed, and the bound immunocomplexes were analyzed by western blotting with anti-catalase antibody.
Expression and purification of recombinant proteins
The p53R2 and PIG3 cDNAs were cloned into the His-pET vector via BamHI and XhoI sites. Recombinant 6His-tagged p53R2 and PIG3 protein was expressed in Escherichia coli BL21 (DE3) cells after induction with 1 mM IPTG for 6 h in LB-medium at 37°C. The bacterial cells were collected by centrifugation, resuspended in lysis buffer (20 mM Tris-HCl (pH 7.9), 500 mM NaCl, 5 mM imidazole, 1 mM NaF, and 1 mM PMSF), sonicated, and then centrifuged at 12 000 × g at 4°C for 30 min The recombinant proteins were purified with a Ni–NTA affinity column (Qiagen, Chatsworth, CA, USA), according to the manufacturer’s instructions. Recombinant purified p53 protein was obtained from Calbiochem and recombinant purified catalase was purchased from Sigma (St. Louis, MO, USA).
Semiquantitative RT-PCR analysis
RNA extraction was carried out using TRIzol (Invitrogen), according to the manufacturer’s instructions. Reverse transcription was performed using a M-MLV RT (Invitrogen). The following primers were synthesized and used for PCR: p53 sense 5′-ATGGAGGAGCCGCAGTCAGATC-3′ and antisense 5′-TCAGTCTGAGTCAGGCCCTTCT-3′; p53R2 sense 5′-ATGGGCGACCCGGAAAGGCCG-3′ and antisense 5′-TTAAAAATCTGCATCCAAGGTGAA-3′; catalase sense 5′-ATGGCTGACAGCCGGGATCCC-3′ and antisense 5′-TCACAGATTTGCCTTCTCCCTTG-3′; SESN1 sense 5′-CGACCAGGACGAGGAACTT-3′ and antisense 5′-CCAATGTAGTGACGATAATGTAGG-3′; SESN2 sense 5′-ATGATCGTGGCGGACTCCGAG-3′ and antisense 5′-TCAGGTCATGTAGCGGGTGATG-3′; GPX1 sense 5′-ATGAACGAGCTGCAGCGGCGC-3′ and antisense 5′-CTAGGCACAGCTGGGCCCTTG-3′; ALDH4A1 sense 5′-ATGCTGCTGCCGGCGCCCGC-3′ and antisense 5′-TCACTGCATGTACGCGTAGCTC-3′; SOD2 sense 5′-ATGTTGAGCCGGGCAGTGTGC-3′ and antisense 5′-TTACTTTTTGCAAGCCATGTATCT-3′; TIGAR sense 5′-ATGGCTCGCTTCGCTCTGACTG-3′ and antisense 5′-TTAGCGAGTTTCAGTCAGTCCAT-3′; Nrf-2 sense 5′-ATGATGGACTTGGAGCTGCCGC-3′ and antisense 5′-CTAGTTTTTCTTAACATCTGGCTT-3′; TP53INP1 sense 5′-ATGTTCCAGAGGCTGAATAAAATG-3′ and antisense 5′-TTAGTAATTGTACTGACGCGGGC-3′; GAPDH sense 5′-TGACCACAGTCCATGCCATC-3′ and antisense 5′-TTACTCCTTGGAGGCCATGT-3′.
Plasmid constructs and clones
The cDNA for human wild-type p53 was amplified from GM00637 human fibroblast cells by RT-PCR using the p53 primers 5′-ATGGAGGAGCCGCAGTCAGATCCT-3′ (sense) and 5′-GTCTGAGTCAGGCCCTTCTGTC-3′ (antisense). The amplified p53 cDNA construct was cloned into the mammalian expression vector pcDNA3.1/V5-His TOPO (Invitrogen) and confirmed by DNA sequencing. The various truncated p53 cDNA fragments (coding for amino acids 1–300, 1–100, 101–393, 101–300, and 301–393) were PCR-amplified using NOVA-Taq polymerase (Genenmed Inc, Seoul, Korea), and the resulting PCR products were cloned into pcDNA3.1/V5-His TOPO.
The cDNA for human p53R2 and PIG3 was amplified from GM00637 human fibroblast cells by RT-PCR using the p53R2 primers, 5′-GAATTCATGGGCGACCCGGAAAGGC-3′ (sense) and 5′-AAAATCTGCATCCAAGGTGAA-3′ (antisense); and PIG3 primers, 5′-GGTACCATGTTAGCCGTGCACTTTGA-3′ (sense) and 5′-GAATTCTCACTGGGGCAGTTCCAGG-3′ (antisense); respectively. The amplified p53R2 and PIG3 cDNA constructs were cloned into the mammalian expression vector pcDNA3.1/V5-His TOPO (Invitrogen) and confirmed by DNA sequencing. The full-length p53R2 cDNA and various truncated p53R2 cDNA fragments (coding for amino acids 1–351, 1–160, 1–206, 11–351, and 316–351) were PCR-amplified using NOVA-Taq polymerase (Genenmed Inc), and the resulting PCR products were cloned into the Gateway Entry vector pENTR/D-TOPO (Invitrogen). The full-length PIG3 cDNA and various truncated PIG3 cDNA fragments (coding for amino acids 1–332, 1–300, 1–250, 1–200, 1–160 and 161–332) were constructed using same procedure. The constructs were checked for integrity by sequencing and then used for transfer of the inserts into plasmid pcDNA-DEST47 (C-terminal GFP tag) (Invitrogen) by Gateway LR reactions.
The cDNA for human wild-type catalase was amplified from GM00637 human fibroblast cells by RT-PCR using the catalase primers 5′-ATGGCTGACAGCCGGGATCCC-3′ (sense) and 5′-CAGATTTGCCTTCTCCCTTGCC-3′ (antisense). The amplified catalase cDNA construct was cloned into the mammalian expression vector pcDNA3.1/V5-His TOPO (Invitrogen) and confirmed by DNA sequencing. For stable transfection, the catalase expression vector and control vector were transfected into NCI H1299 cells using Lipofectamine 2000 (Invitrogen), according to the manufacturer’s instructions. After transfection, the cells were incubated for 5 weeks in complete medium containing 400 μg/ml neomycin, and the clones resistant to neomycin were isolated and analyzed.
Expression of p53, p53R2, and catalase by the adenovirus system
The full-length cDNAs for p53, p53R2, and catalase were cloned into pENTR/D-TOPO vector using a pENTR Directional TOPO cloning kit (Invitrogen). After purification of the plasmids from the transformed DH5α competent cells, the cDNA inserts were transferred to pAd/CMV/V5-DEST vector (Invitrogen) by means of a Gateway system using LR clonase (Invitrogen). The plasmids were purified and digested with PacI (New England Biolabs, Ipswich, MA, USA). The linearized plasmids (1 μg) were then mixed with 3 μl of Lipofectamine 2000 (Invitrogen) in 200 μl Opti-MEM medium (Invitrogen) and transfected into subconfluent HEK293T cells in 1 ml of Opti-MEM in six-well plates (Iwaki Glass). The HEK293T cells were cultured for 1–2 weeks in DMEM medium containing 10% FBS and 1% PS, with replacement of the medium every 2–3 days. When most of the cells had become detached from the plates, the cells and culture medium were harvested together, freeze-thawed twice, and centrifuged to obtain the adenovirus-enriched supernatants. Aliquots of the supernatants were added to fresh HEK293T cells and cultured for 1 week to amplify the adenoviruses. After two to four amplifications, the resulting adenovirus-containing media were used as virus stocks. Viral titers were determined by the plaque-forming assay with HEK293T cells. As a control, pAd/CMV/V5-GW/lacZ vector (Invitrogen) was digested with PacI and transfected into HEK293T cells, to produce lacZ-bearing adenovirus. Aliquots of the adenovirus-containing media were added to cells and cultured for the appropriate periods for subsequent analyses.
Small-interference RNA knockdown of p53, p53R2, and catalase
Using the small-interference RNA (siRNA) Target Finder Program (Ambion, Austin, TX, USA), siRNA sequences targeting human p53, p53R2, and catalase were designed. The sequences of the 21-bp siRNA duplexes were: p53, 5′-UUACACAUGUAGUUGUAGUGGAUGG-3′ (sense strand); p53R2, 5′-UGAGUUUGUAGCUGACAGAUU-3′ (sense strand); and catalase, 5′-UGGAUAUGGAUCACAUACU-3′ (sense strand). Control siRNA was purchased from Bioneer (Daejeon, Korea). Cells were transiently transfected with siRNA duplexes using Lipofectamine RNAiMAX (Invitrogen).
Measurement of intracellular ROS levels
Intracellular ROS production was assayed using the fluorochrome marker 5-(and-6)-chloromethyl-2′,7′-diclorodihydrofluoescein diacetate, acetyl ester (CM-H2DCFDA) probe (Invitrogen, Molecular Probes). A fresh stock solution of CM-H2DCFDA was prepared in DMSO and diluted to a final concentration of 5 μM in 1 Ă— PBS. Cells were washed with 1 Ă— PBS, followed by incubation with CM-H2DCFDA working solution for 30 min in the dark at 37°C. The cells were washed twice and resuspended in PBS, and the increase in fluorescence was detected by flow cytometry (FACSCalibur, BD Biosciences, San Diego, CA, USA). We analyzed the data with CellQuest software and used the mean fluorescence intensity to quantify responses. The mean fluorescence of 30 000 analyzed cells (corrected for autofluorescence) of each treatment group was taken as a measure of the total ROS load.
Assay for catalase activity
Cells were sonicated in 0.1 M Tris-HCl (pH 7.5) for two 30-s bursts. After centrifugation at 12 000 Ă— g for 20 min, the supernatants were measured for protein concentration using a detergent-compatible protein assay (Bio-Rad), and catalase activity was measured with an Amplex Red catalase assay kit, according to the manufacturer’s protocol (Molecular Probes). After incubating the samples with 40 μM H2O2 for 30 min, the remaining H2O2 was measured to determine the catalase activity. Amplex Red and horseradish peroxidase react with H2O2 to produce resorufin, a fluorescent compound detectable by spectrophotometry. Standard curves for the enzymatic activity of catalase were determined using purified catalase. Enzyme-specific activity was expressed as units/ml of protein, where one unit of catalase activity was defined as 1 μmol H2O2 consumed per min.
Apoptosis assay
Floating and trypsin-detached cells were collected and washed once with ice-cold PBS, followed by fixing in 70% cold ethanol for 30 min at 4°C. The cells were then washed with ice-cold PBS, resuspended in PBS containing propidium iodide (50 μg/ml), RNase A (100 μg/ml), and 0.1% Triton X-100, and left for 30 min at room temperature. To analyze apoptosis, hypodiploid DNA (sub-G1) populations were assayed using a FACSCalibur flow cytometer with CellQuest software (Becton Dickinson, Franklin Lakes, NJ, USA). The results represent the means of triplicate determinations in which a minimum of 10 000 cells was assayed for each determination. Any sub-G1 populations were counted as apoptotic cells.
Preparation of peroxisomal-free and peroxisomal fraction
Peroxisomal-free and peroxisomal fraction were isolated by using Peroxisome Isolation Kit (PEROX1, Sigma), according to the instructions of the manufacturer. Briefly, U2OS cells were treated with or without 10 J/m2 UV irradiation. At 24 h after UV treatment, cells were harvested and added in peroxisome extraction buffer, and then transfer cell suspension to in a Dounce homogenizer tube and carefully homogenized for 25 strokes using pestle B on ice. Centrifuge tube at 1000 × g for 10 min at 4°C. Transfer the supernatant and centrifuge at 2000 × g for 10 min at 4°C. Transfer the supernatant to a new centrifuge tube and centrifuge at 25 000 × g for 20 min Transfer the supernatant liquid (peroxisomal-free fraction) to a new tube and collect the pellet (peroxisomal fraction) in a peroxisome extraction buffer.
Immunofluorescence microscopy
U2OS cells were cultured on cover slips coated with poly-L-lysine (Sigma) and were treated with or without 10 J/m2 UV irradiation. At 24 h after UV treatment, cells were then washed twice with PBS, fixed in 4% paraformaldehyde for 10 min, followed by permeabilization with 0.3% Triton X-100 for 15 min at room temperature. Next, the cover slips were washed three times with PBS and then blocked with 0.1% BSA in PBS for 1 h at room temperature. The cells were double-immunostained with primary antibodies against various proteins overnight at 4°C, after which the cells were washed with PBS and stained with Alexa Fluor 488- (green fluorescence; Molecular Probes) or Alexa Fluor 594- (red fluorescence; Molecular Probes) conjugated secondary antibodies, as appropriate. After washing, the cells were mounted using Vectashield mounting medium with 4,6-diamidino-2-phenylindole (Vector Laboratories, Burlingame, CA, USA). Fluorescence images were taken using a confocal microscope (Zeiss LSM 510 Meta; Carl Zeiss, Jena, Germany) and Zeiss LSM Image Examiner software (Carl Zeiss).
BiFC analyses
The BiFC assay is based on the complementation of two non-fluorescent receptor molecule fragments that generate a fluorescence signal only when they directly interact in vivo. By fusing cDNAs encoding residues 1–172 (VN173) of Venus to sequences encoding p53 or p53R2, and the C-terminus of Venus (residues 155–238) (VC155) to a sequence-encoding catalase, we generated three different plasmids: p53-VN, p53R2-VN, and catalase-VC. pHA-VC155 were kindly provided by Chang-Deng Hu (Purdue University School of Pharmacy, West Lafayette, IN, USA).41 U2OS cells were cultivated in 35-mm culture dishes overnight and then cotransfected with the expression vectors (200 ng each) using a Microporator Neon (Invitrogen). At 24 h post transfection, the cells were exposed to UV radiation (50 J/m2). Samples were examined under a fluorescence microscope, and the images were captured using a YFP filter set (excitation, 500 nm; dichromic beam splitter, 515 nm; emission, 535 nm). Cells producing fluorescent signals after UV irradiation (BiFC signal-positive cells) were counted. For immunofluorescence analyses, cells were fixed with 3.75% paraformaldehyde in PBS and incubated with anti-GFP N-terminus and anti-GFP C-terminus antibodies. The cells were visualized with secondary antibodies conjugated to Alexa Fluor 350 (Invitrogen) or TRITC (Jackson ImmunoResearch Laboratories).
Time-lapse imaging analyses
Cells were transferred to a live cell chamber (Live Cell Instrument, Seoul, South Korea) in growth medium containing 10% FBS and cotransfected with the BiFC expression vectors (300 ng each) using a Microporator Neon (Invitrogen). For the UV radiation experiments, transfected cells were incubated in a humidified chamber at 37°C and ambient CO2 levels for 12 h, and then exposed to UV radiation (50 J/m2). Images were collected at 37°C using an Olympus IX-81 microscope. At each time point, a fluorescence image was taken using a YFP filter set. To quantify changes in the BiFC signals, the fluorescence intensities of 15 individual fluorescent cells were measured using an automated intensity recognition feature of the MetaMorph Imaging System (Universal Imaging Corporation, Downingtown, PA, USA).
Yeast two-hybrid analysis
A yeast two-hybrid screen was performed using a Matchmaker GAL4 Two-Hybrid System 3 (Clontech, Mountain View, CA), following the manufacturer’s directions. Saccharomyces cerevisiae strain AH109, containing distinct ADE2, HIS3, lacZ, and MEL1 reporter constructs, was used for the assay. The AH109 strain was transformed with the bait plasmid pGBT9, encoding an in-frame fusion of the GAL4 DNA-binding domain with full-length p53 and PIG3. Transformants were plated onto selective SD medium lacking Trp and incubated for 3–5 days at 30°C. Yeast strains containing the bait plasmid were transformed with a prostate cDNA library fused to the GAL4 activation domain in pACT2 vector. Diploids were plated on SD-Leu/-Trp/-His medium, and growing colonies, indicative of a potentially positive interaction between the bait (p53 or PIG3) and prey (library protein), were re-streaked on SD-Leu/-Trp/-His/-Ade plates. Finally, positive clones were replica-plated on maximally selective SD-Leu/-Trp/-His/-Ade/X-α-gal medium to ensure that the colonies contained the correct phenotype. Plasmid DNA was isolated from positive clones and sequenced to identify the genes encoding the interacting proteins. The sequences were analyzed using the BLAST program available from NCBI.
Statistical analysis
The statistical significance of the difference between mean values was tested using Student’s t-test (**P<0.01; *P<0.05). Data are means±S.E.M.
Abbreviations
- PIG3:
-
p53-inducible gene 3
- p53R2:
-
p53-inducible ribonucleotide reductase
- ROS:
-
reactive oxygen species
- H2O2:
-
hydrogen peroxide
- BiFC:
-
bimolecular fluorescence complementation
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This research was supported by the Ministry of Education, Science and Technology funded by the Korea Government (2012–0001122).
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Kang, M., Kim, HB., Piao, C. et al. The critical role of catalase in prooxidant and antioxidant function of p53. Cell Death Differ 20, 117–129 (2013). https://doi.org/10.1038/cdd.2012.102
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DOI: https://doi.org/10.1038/cdd.2012.102
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