Although Bcl-2 family members control caspase activity by regulating mitochondrial permeability, caspases can, in turn, amplify the apoptotic process upstream of mitochondria by ill-characterized mechanisms. We herein show that treatment with a potent inhibitor of Bcl-2 and Bcl-xL, ABT-737, triggers caspase-dependent induction of the BH3-only protein, Mcl-1 inhibitor, Noxa. RNA interference experiments reveal that induction of Noxa, and subsequent cell death, rely not only on the transcription factor E2F-1 but also on its regulator pRb. In response to ABT-737, pRb is cleaved by caspases into a p68Rb form that still interacts with E2F-1. Moreover, pRb occupies the noxa promoter together with E2F-1, in a caspase-dependent manner upon ABT-737 treatment. Thus, caspases contribute to trigger the mitochondrial apoptotic pathway by coupling Bcl-2/Bcl-xL inhibition to that of Mcl-1, via the pRb/E2F-1-dependent induction of Noxa.
The Bcl-2 family, composed of anti- and pro-apoptotic proteins, are major regulators of apoptosis1, 2, 3, 4 upstream of mitochondrial permeability and caspase activity. Pro-apoptotic proteins include multi-domain proteins, such as Bax and Bak, and their upstream effectors the Bcl-2 homology 3 (BH3)-only proteins, such as Bid, Bim, Puma, Bad, Noxa and so on. The anti-apoptotic members are frequently overexpressed in cancer cells and they promote survival, in great part, by physically interacting with the BH3 domain of their pro-apoptotic counterparts. Small molecules that bind to the BH3-binding grove of Bcl-2 homologs (the so-called ‘BH3 mimetics’) have been developed as pro-apoptotic inhibitors of these proteins.5 There are subtle yet significant differences in the BH3-binding interfaces of Bcl-2 homologs: Bim or Puma interact with all known Bcl-2 homologs, whereas Bad interacts preferentially with Bcl-2 and Bcl-xL and Noxa with Mcl-1.6, 7 These differences explain why currently known BH3-mimetics only inhibit subsets of anti-apoptotic proteins.8 One of these compounds is ABT-737, which occasionally presents in vitro monotherapy toxicity.5 It potently inhibits the BH3-binding activity of Bcl-2, Bcl-xL and Bcl-w but not that of Mcl-1 and Bfl-1.9 ABT-737 promotes cell death by displacing, from its targets, ‘BH3 activators’ such as Bim or Puma (BH3-only proteins that can directly activate multi-domain proteins when free from anti-apoptotic proteins)10, 11 and/or active Bax.12 Efficient induction of apoptosis by ABT-737 requires that pro-apoptotic proteins are not sequestered by an excess of empty Mcl-1 or Bfl-1 that are not efficiently inhibited by ABT-737. Thus, sensitivity to ABT-737 is enhanced by combined treatments that decrease Mcl-1 expression and/or induce Noxa, a BH3-only protein that essentially functions as an inhibitor of Mcl-1.13, 14, 15, 16, 17, 18
ABT-737 is a powerful tool to investigate how death signals induced by direct inhibition of subsets of anti-apoptotic Bcl-2 family members lead to cell demise. Caspase activity contributes to the final stages of cell death induced by inhibition of Bcl-2 homologs. However, executioner caspases were found to be required for full-blown Bax activation and mitochondrial permeabilisation in response to diverse stimuli.19 In addition, when caspase activity is blocked, subsets of mitochondria remain refractory to permeabilisation and allow cells to survive to death stimuli.20, 21 Thus, caspase activity might also amplify the apoptotic process upstream of mitochondria, and fuel signals initiated by inhibition of some Bcl-2 homologs by ill-characterized mechanisms.
It is notable that, whereas the pro-apoptotic activity of ABT-737 relies on the nearly immediate ability of this compound to disrupt pre-existing complexes,8, 22 its effects on whole cells sometimes take numerous days to be manifest, implying that de novo synthesis of key actors might intervene. ABT-737 treatment was shown to induce the transcription of death receptor 523 and to induce a twofold change in the transcription of nearly 430 genes when added to renal carcinoma cells.24 Most relevantly here, low-level activation of the caspase cascade was incriminated in some of these transcriptomic effects.24 Thus, caspases may contribute to the long-term biological effects of Bcl-2/Bcl-xL inhibition. Whether and how this could actually amplify cell death induced by such inhibition remains to be determined.
In this manuscript, we show that caspase activity contributes to the response of cancer cells to ABT-737 by promoting the transcriptional induction of Noxa. Transcriptional pathways known to modulate levels of the Bcl-2 protein family (including that of Noxa) involve p53 or E2F-1.25, 26 E2F-1 differs from that of other E2F family members due to its ability to regulate not only cell-cycle progression but also apoptosis as it directly induces the expression of p73, of caspase 3 and 7 and of some pro-apoptotic Bcl-2 family members.27, 28, 29, 30, 31, 32, 33, 34 We show here that E2F-1 is a major contributor of caspase-dependent induction of Noxa in response to ABT-737 treatment. Caspases cleave the E2F-1 regulator pRb in ABT-737-treated cells, giving rise to a p68Rb truncated form, which has a direct role in Noxa and cell death inductions together with E2F-1. Thus, caspase activity provides a feed-forward mechanism that amplifies the mitochondrial apoptotic pathway by coupling inhibition of Bcl-2/Bcl-xL to that of Mcl-1, via the induction of E2F-1 transcription of Noxa by a pRb-dependent mechanism.
ABT-737 induces late but specific Bax and caspase-dependent apoptosis in the glioma U251 cells
The effects of ABT-737 were investigated on glioma U251 cells in which significant cell death rates were measured only after 48 h of treatment with 2 μM of ABT-737, whereas no cell death was detected at earlier time points (Figure 1a). These delayed effects of ABT-737 were confirmed to be on-target effects, as simultaneous silencing of Bcl-2 and Bcl-xL, but not that of either one alone, induced cell death at a similar rate to that measured upon ABT-737 treatment (Figures 1a and b). This indicates that the viability of U251 requires the sustained and combined activities of Bcl-2 and Bcl-xL. Consistent with a role for the canonical mitochondrial apoptotic pathway in delayed cell death that results from Bcl-2/Bcl-xL inhibition, knock down of Bax expression by siRNA significantly reduced cell death rates induced by ABT-737 treatment (Figure 1c). Finally, pre-treatment of U251 cells with a pan-caspase inhibitor before addition of ABT-737 inhibited cell death (Figure 1a), showing that the late effects of ABT-737 on cell viability rely on caspase activation.
E2F-1-dependent induction of the BH3-only Noxa has a key role in the induction of U251 cell death by ABT-737
The delayed effects on cell death of ABT-737 suggest that the mounting of a death signal, possibly via the de novo synthesis of a key factor, might contribute to the response. Kraft and colleagues recently identified the noxa gene (PMAIP1) as one gene whose expression is strongly induced by ABT-737.24 Consistently, we observed a strong increase of Noxa expression in U251 cells upon ABT-737 treatment at both protein and mRNA levels (Figures 2a and b). Importantly, silencing of Noxa significantly decreased cell death rates induced by ABT-737 treatment (Figure 2c), indicating that such induction has a role in cell death induction.
Transcriptional factors such as p53 and E2F-1 are known to regulate Noxa expression. As U251 cells express a mutated p53 (R273H), we focused on E2F-1, as the mRNA levels of another E2F-1 target p73 were also found to be upregulated by ABT-737 (Supplementary Figure S1A). Silencing of E2F-1 by RNA interference prevented Noxa induction by ABT-737 (Figure 3a) and decreased cell death rates (Figure 3b). Conversely, transient overexpression of E2F-1 in U251 cells increased Noxa expression (Figure 3c), affected cell viability by itself and enhanced cell sensitivity to ABT-737 treatment (Figure 3d). By contrast, overexpression of a transcriptionally inactive mutant of E2F-1 (E132)30 had no effect (Figure 3d). Notably, upregulation of Noxa and sensitization to ABT-737 induction of cell death by overexpression of E2F-1 were also observed in the colorectal cancer p53-null HCT116 cells (Supplementary Figure S2), establishing that p53 is dispensable for E2F-1 -dependent induction of Noxa.
Taken together, these results indicate that ABT-737 treatment induces E2F-1-dependent Noxa upregulation, thereby contributing to cell death induced by the inhibition of Bcl-2 and Bcl-xL.
The E2F-1 regulatory protein pRb is cleaved by caspases upon ABT-737 treatment
To understand how ABT-737 treatment might influence E2F-1 activity, we investigated its influence on the expression of E2F-1 and of its regulator pRb. We observed no detectable modification in the expression levels of E2F-1 upon ABT-737 treatment (Figure 4a). We did not detect any modification of the phosphorylation of full-length pRb at Ser 807–811, a phosphorylation that relieves E2F-1 effects on cell-cycle progression from the negative regulation of pRb (Figure 4a). However, ABT-737 treatment modified the size of pRb polypeptides. Three bands of 100, 68 and 48 kDa, respectively, in addition to the 110 kDa band corresponding to full-length pRb, were immunodetected in lysates from ABT-737-treated U251 cells (Figures 4b and c). These bands were not detected in ABT-737-treated cells in which pRb was silenced, confirming that they all correspond to pRb polypeptides (Figure 4d). Notably, the truncated pRb polypeptides were also observed in cells in which Bcl-2 and Bcl-xL were silenced simultaneously, but not when either one of them was downregulated alone, indicating that their appearance results from an on-target effect of ABT-737 (Figure 4e).
Kinetic analysis of ABT-737-treated U251 cells indicated that the appearance of the truncated forms of pRb was concomitant with increases in cell death rates, suggesting that it may associate with a pro-death mechanism (Figure 5a, see also below). It is documented that cleavage of pRb by caspases 3 and 7 at the DEAD site truncates pRb at the C-terminal end, giving rise to a band of 100 kDa, whereas two bands of 48 and 68 kDa, respectively, are obtained after cleavage at the DSID site (Figure 5b).35, 36, 37 In U251 cells pre-treated with a pan-caspase inhibitor before ABT-737, the p68Rb form was no longer detected (Figure 5c). Moreover, neither the p68Rb nor the p48Rb forms were detected after treatment of cells with ABT-737 in which Bax expression had been silenced (Figure 4d).
These data support the notion that pRb is cleaved by caspases that are activated as a result of Bax-dependent mitochondrial permeabilisation in response to ABT-737.
pRb contributes to caspase-dependent induction of Noxa
As pRb cleavages occurred concomitantly to cell death and as Noxa is an actor of this cell death, we wondered if pRb might have a role in Noxa induction upon ABT-737 treatment. Consistent with a positive role for pRb in these events, silencing of pRb by RNA interference prevented the upregulation of Noxa by ABT-737, as observed when E2F-1 was silenced (Figure 3a). Moreover, it had no effect on the viability of U251 cells by itself but it significantly decreased cell death rates induced by ABT-737 treatment (Figure 3b).
Involvement of pRb in Noxa induction prompted us to investigate whether caspases contribute to Noxa induction upon ABT-737 treatment. Pretreatment of U251 cells with a pan-caspase inhibitor impeded the induction of Noxa (at both protein and mRNA levels) by ABT-737 (Figures 2b and 5d). Importantly, kinetics of pRb cleavages and Noxa induction followed the kinetics of caspase activation. Indeed, induction of Noxa was detected at 40 h of ABT-737 treatment (Figure 5d), a time point that coincided with detectable appearance of pRb cleavage products (Figure 5a), detectable enhancement of specific caspase activity (Figure 5e) and detectable enhancement of cell death rates (Figure 5a). This puts forth a temporal link between caspase activation and Noxa induction by ABT-737.
Taken altogether, these data argue that pRb and caspases participate to Noxa induction in response to ABT-737.
pRb and E2F-1 bind to the Noxa promoter upon ABT-737 treatment
The regulation of E2F-1 transcriptional activity by pRb is, in great part, due to a physical interaction between these two proteins.27, 28 It is well established that the binding of the hypophosphorylated pRb to E2F-1 inhibits the ability of the latter to induce the expression of genes involved in cell-cycle progression.38 By contrast, recent data showed that hyperphosphorylated pRb can maintain an interaction with E2F-139 and that pRb may also function, in certain instances, as a binding partner for E2F-1 to positively upregulate pro-apoptotic genes, such as p73.40, 41 To further understand how, upon ABT-737 treatment, E2F-1 and pRb contribute to induce Noxa expression and cell death, we studied the interactions between E2F-1 and the forms of pRb, in addition to their individual and combined presence on the noxa promoter.
By co-immunoprecipitation assays using antiE2F-1 antibodies and lysates from ABT-737 or mock-treated cell, we observed that E2F-1 interacted with full-length pRb in U251 cells treated with ABT-737 or not (Figure 6, top panel), even in its phosphorylated form (Figure 6, bottom panel). The p68Rb form, but not the p48Rb form, co-immunoprecipitated with anti E2F-1 antibodies upon ABT-737 treatment (Figure 6, bottom panel). This is consistent with the fact that p68Rb still harbors the domain of interaction with E2F-1, whereas p48Rb does not (Figure 5b).38 The use of pRb antibodies (that recognized both full-length and p68Rb forms) in reverse immunoprecipitation experiments confirmed that E2F-1 co-immunopreciptated with pRb in cells treated with ABT-737 or not (Figure 6, top panel).
The data above suggest that pRb may cooperate with E2F-1 to induce Noxa transcription upon ABT-737 treatment. Thus, we studied the ability of these two proteins to occupy noxa and p73 promoter regions. Chromatin immunoprecipitation (ChIP) experiments showed that both E2F-1 and pRb were present on noxa and p73 promoter regions and that this occupancy was increased by ABT-737 treatment (Figure 7a). Also, in correlation with the expression patterns of these genes following ABT-737 treatment, RNA polymerase II was observed bound to these promoters. The recruitment of pRb on these promoters appeared specific as it was not recruited on the promoter of plk1 (a E2F-1 target gene involved in cell-cycle progression), whereas E2F-1 was present as expected (Figure 7a).
To further investigate whether E2F-1 and pRb occupy promoter regions in ABT-737-treated cells as binding partners, serial chromatin immunoprecipitation assays were performed (Figure 7b). E2F-1 and pRb were indeed recruited together on noxa and p73 promoters upon ABT-737. Moreover, the pRb complexes present on these promoters were associated with RNA polymerase II stabilization in response to ABT-737. These results indicate that pRb-E2F1-RNA polymerase II complexes bind specifically to noxa and p73 promoter regions, supporting the notion that these complexes function as transcriptional inducers of these genes in response to ABT-737.
The antibodies used in the ChIP assays cannot discriminate full-length pRb from its p68Rb-truncated form. We thus performed numerous assays to investigate whether caspase-cleaved p68Rb contributes to E2F-1 transcriptional activation of pro-apoptotic genes upon ABT-737 treatment. First, we performed ChIP assays in cells pretreated with a pan caspase inhibitor before ABT-737 (Figure 7c) to evaluate a role for caspases in pRb recruitment to critical promoters. We observed that the recruitment of pRb, and that of RNA polymerase II, on p73 and noxa promoters in ABT-737-treated cells were strongly reduced by caspase inhibition. Second, we analyzed the presence of pRb forms in the chromatin and in the soluble fractions of nuclear extracts of U251 cells treated with ABT-737 or not. The full-length pRb form was detected in both fractions of untreated cells while p68Rb strongly accumulated in the chromatin fraction of treated cells (Figure 7d). Third, we directly tested the ability of p68Rb to induce Noxa expression independently from caspases. Breast cancer BT549 pRb-negative cell line was infected with retroviruses allowing expression p48Rb or p68Rb truncated forms alongside with a GFP marker (Figure 7e). The ectopic expression of p68Rb was sufficient by itself to trigger a dramatic accumulation of Noxa in BT549 cells treated with a pan-caspase inhibitor. Induction of Noxa by ectopic p68Rb was also patent in ABT-737-treated BT549 cells. By contrast, no Noxa induction was observed in uninfected cells or in cells expressing ectopic p48Rb (Figure 7e).
As the recruitment of pRb on the noxa and p73 promoter together with RNA polymerase II is caspase-dependent, as the p68Rb form is chromatin bound and as its ectopic expression leads to Noxa induction, our data strongly argue that caspase cleavage of pRb into p68Rb contributes to Noxa transcription in ABT-737-treated cells.
Nutlin-3a sensitizes p53-mutated breast cancer cells to ABT-737 by upregulating Noxa in a pRb- and E2F-1-dependent manner
As treatment with the Mdm2 inhibitor Nutlin-3a was shown to enhance the pRb/E2F-1 pathway,33, 34 we reasoned that it may increase cell sensitivity to ABT-737, provided pRb is present. We found that combination of Nutlin-3a to ABT-737, but not treatment with anyone alone, induced dramatic cell death in the breast cancer cell lines MDA-MB-231 and MDA-MB-468, cells that carry p53 mutations (R280K and R273H, respectively) and constitutively express low levels of pRb (Figures 8a and b). A strong induction of Noxa protein expression, associated with a cleavage of pRb, was detected in both the cell lines treated with ABT-737 and Nutlin-3a (Figure 8b). Moreover, silencing of either Bax, Noxa, pRb or E2F-1 lead to a decrease of MDA-MB-231 cell death in response to the combination treatment ABT-737/Nutlin-3a (Figure 8c). Silencing of E2F-1 and pRb impeded Noxa induction in ABT-737/Nutlin-3a-treated cells, suggesting that they regulate Noxa expression under these conditions (Figure 8c). By contrast, neither cell death nor induction of Noxa were observed in ABT-737/Nutlin-3a-treated BT549 cells, which lack pRb expression, consistent with the notion that cell death induced by ABT-737/Nutlin-3a involves pRb (Figures 8a and d).
Thus, cell death induced by ABT-737 combined with Nutlin-3a may recruit pRb and E2F-1 and relies on their ability to increase Noxa expression.
We report here that inhibition of Bcl-2 and Bcl-xL by ABT-737 enhances a caspase-dependent increase in Noxa induction mediated by E2F-1 and, less expectedly, by its regulator protein pRb. Transcriptional upregulation of Noxa was previously described in response to treatment with BH3-mimetics.24, 42 As Noxa potently binds to Mcl-1,6 its ability to promote ABT-737 induction of cell death generally relies on its capacity to inhibit Mcl-1 that is not targeted by ABT-737.13, 14, 15, 16, 17 Silencing of Mcl-1 increased cell death rates in ABT-737-treated U251 cells (without affecting Noxa expression in untreated or ABT-737-treated cells, Supplementary Figures S3A and S3B). This is consistent with the notion that, in these cells, Mcl-1 represents a major restrain to ABT-737 efficiency that Noxa induction contributes to overcome. The novel perspective that emerges from our study is that caspases impact on mitochondrial permeability by triggering Noxa-mediated Mcl-1 inhibition in response to inhibition of Bcl-2 and Bcl-xL and that this occurs via transcription-dependent mechanisms that involve E2F-1 and pRb.
The transcription factor E2F-1 is a key actor of this caspase-dependent induction of Noxa, as evidenced by its role in cell death induced by ABT-737, by its influence on Noxa expression and its ability to occupy the noxa promoter. E2F-1 was already described to promote apoptosis in response to either DNA damage or oncogenic stress, in part, through regulating the transcription of genes encoding for BH3-only proteins.25, 27, 28, 30 In U251 cells, ABT-737 had no effect on Puma expression, which appeared dispensable for efficient induction of apoptosis (Supplementary Figures S3A and S3C). By contrast, the E2F-1 target gene p73 was enhanced upon ABT-737 treatment (Supplementary Figure S1A) and its silencing affected cell death and also impeded the expression of Noxa (Supplementary Figure S1B). Thus, p73 may by itself contribute to cell death in response to ABT-737. This suggests that E2F-1 (and pRb as discussed below) may regulate Noxa transcription (and cell death) not only directly but also indirectly via its transcriptional target p73.
A recent work showed that pRb participates (even in its phosphorylated form) to form a transcriptionally active complex with E2F-1 to regulate expression of pro-apoptotic genes.40, 41 Our data are mostly consistent with these data, as they show that, upon ABT-737 treatment, pRb interacts with E2F-1, is recruited to both noxa and p73 promoters and contributes to Noxa expression and to cell death induction, contrary to current understanding of the regulation of E2F-1 by pRb. Strikingly, our data establish that caspase cleavage of pRb may favor these molecular events. One feature of pRb is that it can provide a link between caspase activation and E2F-1 activity as it is cleaved by caspases during chemotherapy-induced cell death, at two distinct sites.37 Upon ABT-737 treatment also, pRb is cleaved at these two sites and gives rise to the p68Rb and p48Rb forms. Cleavage of pRb was proposed to promote apoptosis via the release of E2F-1 from cleaved pRbs.37, 43 Nevertheless, the p68Rb-truncated form keeps the domain of interaction with E2F-1 and, in agreement, we found that p68Rb interacts with E2F-1 upon ABT-737 treatment. As caspase activity is required to upregulate Noxa and as a siRNA-targeting pRb expression impedes the induction of Noxa, we propose that p68Rb has an active role in the E2F-1 upregulation of Noxa (Supplementary Figure S4). We suggest that it does so by engaging complexes in which E2F-1 is transcriptionally active and that encompass RNA polymerase II. Supporting this, we found that the p68Rb truncated form is present in the chromatin fraction of ABT-737-treated cells, that caspase inhibition affects the recruitment of pRb and RNA polymerase II on noxa and p73 promoters and that ectopic expression of p68Rb in the BT549 pRb-negative cells promotes a strong induction of Noxa independently from caspases.
In conclusion, our studies put forth the notion that, upon inhibition of Bcl-2/Bcl-xL, caspases can trigger Mcl-1 inhibition through induction of Noxa. They do so by generating a cleaved form of p68Rb that exerts a previously unforeseen positive regulation of the noxa promoter together with E2F-1, with which it interacts. Enhancement of this transcriptional pathway may constitute an efficient way to overcome cancer cell resistance to ABT-737, independently of p53, as exemplified by the fact that the combination of ABT-737 with Nutlin-3a induces Noxa and promotes cell death in breast cancer cells carrying mutant p53, provided pRb is expressed.
Materials and Methods
Cell lines and cell culture
The U251, MDA-MB-231, MDA-MB-468 and BT 549 cell lines obtained from ATCC, were grown in DMEM and RPMI medium, respectively. HCT116 p53−/− cells, grown in McCoy’s 5A, were kindly provided by Dr B. Vogelstein (The John Hopkins Kimmel Cancer Center, Baltimore, MD, USA). When specified, ABT-737 was used at 2 μM, Nutlin-3a (Sigma, St Louis, MO, USA) at 10 μM, zVAD-FMK (Promega, Madison, WI, USA) at 50 μM and QVD-OPh (R&D System, Minneapolis, MN, USA) at 10 μM.
Plasmids, siRNAs and transfection
The E2F-1 cDNA from pSG5LHAE2F1 vector (Addgene, Cambridge, MA, USA, ref. 10736)44 was cloned into pcDNA3Flag from pcDNA3Flagp53 (Addgene ref. 10838)45 and the resulting plasmid, named pE2F1Flag, was sequenced. The E132 E2F-1, which carries a point mutation within the DNA-binding domain, was expressed from a plasmid obtained from Addgene (ref. 24224).46 Following siRNAs were used: siBax (HSC.RNAI.N138761.10.1), siBcl-2 (HSC.RNAI.N000633.6.1), siBcl-xL (BCL2L1 ON-TARGETplus L-003458-00), siE2F1 (HSC.RNAI.N005225.10.3), siNoxa (AC2Z4U4), siPuma (ON-TARGETplus smart pool t-004380-00-0005), sip73 (HSC.RNAI.N0055427.10.8), sipRb (sc-29468) and SiScramble (siScr) (SC37007). Plasmids and siRNAs were transfected according to manufacturer’s instructions (Invitrogen, Carlsbad, CA, USA) using Lipofectamine 2000 and lipofectamine RNAi Max, respectively.
The bicistronic retroviral pMIG vector containing an internal ribosome entry site upstream of the enhanced GFP gene,47 was used to introduce cDNAs corresponding to p48Rb or p68Rb using BglII/HpaI and BamHI/PmeI sites, respectively. Retroviruses were produced in Phoenix cells maintained in DMEM with 10% (vol/vol) FBS. Briefly, 10 Phoenix cells were transfected with 45 μg of pMIG (mock, encoding p48Rb or p68Rb) and 5 μg of pVSVG (encoding the vesicular stomatitis virus G protein) complexes with PEI.6 Forty-eight hours after transfection, viral supernatants were collected. MOI was determined by flow cytometry and BT549 cells were infected at MOI of 1.
Cell viability was determined by a trypan blue staining procedure. Caspase activities were measured using the Caspase Glow assay system according to the manufacturer’s protocol (Promega) and were normalized to the activity measured under control condition. Immunoprecipitations were performed at 4 °C on cell extracts (500 μg) from cells lysed in lysis buffer (HEPES 10 mM; NaCl 150 mM; 1% CHAPS; pH7.4; protease inhibitors; 0.5% Nonidet P-40). Cell extracts were precleared with 20μl of protein G-agarose (Sigma-Aldrich, St Louis, MO, USA) for 1 h, and cleared extracts were immunoprecipitated with 4 μg of the indicated antibodies overnight followed by the addition of 50 μl of protein G-agarose for 1 h. Immunoprecipitated proteins were washed in lysis buffer and once with 10 mM Tris, pH 8, 100 mM EDTA and then eluted with heated sample buffer. To extract proteins from the chromatin and soluble nuclear fraction, cells were collected with a rubber scraper. The pellet was resuspended in solution A (10 mM Hepes pH7.9, 1.5 mM MgCl2, 10 mM KCl, 0.5 mM DTT, 0.5 mM PMSF) and submitted to three freezing/thawing cycles. The mixture was centrifuged at 2000 r.p.m. for 5 minutes. The pellet was washed in solution A and then resuspended in solution C (20 mM Hepes pH 7.9, 25% glycerol, 1.5 mM MgCl2, 420 mM NaCl, 0.2 mM EDTA, 0.5 mM DTT, 0.5 mM PMSF). The mixture was incubated for 30 min in ice and then centrifuged at 12 000 r.p.m. for 15 min. The supernatant represents the soluble nuclear fraction. The pellet, corresponding to the chromatin fraction, was resuspended in lysis buffer (SDS: 1%; EDTA: 10 mM; Tris-Hcl ph 8,1: 50 mM; protease inhibitors Na3VO4 1 mM, NaF 100 × ) and sonicated. The mixture was centrifuged at 13 000 r.p.m. and the supernatant that corresponds to the chromatin fraction was collected.
RNA extraction and quantitative real-time PCR
Total RNAs were extracted with RNAeasy mini kit (Qiagen, Valencia, CA, USA). The quality of the RNAs was assessed by analysis on an Agilent 2100 bioanalyser (Agilent Biotechnologies, Santa Clara, CA, USA). RNAs were retro-transcribed using Superscript transcriptase (Superscript II, Invitrogen). Following forward and reverse primers were used: p73 (5′-CTTCAACGAAGGACAGTCTG-3′ and 5′-AAGTTGTACAGGATGGTGGT-3′), Noxa (5′-GCTGGAAGTCGAGTGTGCTA-3′ and 5′-CCTGAGCAGAAGAGTTTGGA-3′). Real-time PCR was carried out as previously described.48
Immunoblot analysis and antibodies
After two washings with cold PBS, cells were lysed in ice-cold lysis buffer (SDS: 1%; EDTA: 10 mM; Tris-Hcl ph 8,1: 50 mM; protease inhibitors Na3VO4 1 mM, NaF 100 × ) and extracts were sonicated. Protein extracts were separated by SDS-PAGE, transferred onto a PVDF membrane (Millipore, Billerica, MA, USA) and revealed with a chemiluminescence kit (Millipore). Following antibodies were used: actin (MAB1501R, Millipore), β-tubulin (T0198, Sigma), Bax (A3533, Dako, Glostrup, Denmark), Bcl-2 (1017-1, Epitomics, Burlingame, CA, USA), Bcl-xL (1018-1, Epitomics), E2F-1 (3742, Cell Signaling, Danvers, MA, USA), Mcl-1 (sc-819, Santa Cruz Biotechnologies, Santa Cruz, CA, USA), Noxa (ALX-804-408, Enzo Life Science, New York, NY, USA), pRb XZ55 (554144, BD Pharmingen, San Diego, CA, USA), pRb G3-245 (554136, BD Pharmingen), phospho-pRb (S807-811) (558389, BD Pharmingen), p73 (5B429, Imgenex, San Diego, CA, USA), Puma (4743, Sigma), and Flag (F1804, Sigma). The following antibodies against E2F-1 C-20 (sc-193, Santa cruz Biotechnologies), pRb 4H1 (9309, Cell Signaling) and polymerase II (sc-899, Santa Cruz Biotechnologies) were used for immunoprecipitations and ChIP assays.
ChIP and serial ChIP assay
Single (ChIP) and serial ChIP experiments were performed essentially as previously described.49 The following primers were used: NOXA IS: 5′-CGTCTAGTTTCCCTACGTC-3′; 5′-AGATGCCAACTACACACG-3′, p73-1100: 5′-TGAGCCATGAAGATGTGC-3′; 5′-GCTGCTTATGGTCTGATGCTTATG-3′,39 p73 control 5′-CAATTGTCCCCCTCTTCTGA-3′; 5′-GTGGCAGAAGGGTGCTTAAA-3′ and PLK1 IS 5′-GTTTTCCCCGGCTGGGTCCG-3′; 5′-AAGCTGCGCTGCAGACCTCG-3′.
Data were from at least three independent experiments. Statistical analysis of data was performed using one-tailed Student’s t-test on GraphPad Prism (La Jolla, CA, USA). Error bars represent S.E.Ms. The following symbols are used: *, ** and *** that correspond to a P value inferior to 0.05, 0.01 and 0.001, respectively.
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We thank O. Micheau and B. Mignotte for their kind gift of the pMIG plasmid and of pRb cDNA, respectively. We thank members of the lab ‘Cell Survival and Tumor Escape in Breast Cancer’ for their technical advice and for fruitful comments. JB-C and JLP are supported by grants from the Ministère de la Recherche et de l’Enseignement Supérieur and from INSERM Region, respectively. PJ is supported by ARC (no. SFI20101201568), Fondation de France (Tumor committee), Région Pays de Loire and Canceropole Grand Ouest (2010-12798).
The authors declare no conflict of interest.
Edited by RA Knight
Supplementary Information accompanies the paper on Cell Death and Differentiation website
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Bertin-Ciftci, J., Barré, B., Le Pen, J. et al. pRb/E2F-1-mediated caspase-dependent induction of Noxa amplifies the apoptotic effects of the Bcl-2/Bcl-xL inhibitor ABT-737. Cell Death Differ 20, 755–764 (2013). https://doi.org/10.1038/cdd.2013.6
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