These authors contributed equally to this work.
Proteins ZNF198 and SUZ12 are down-regulated in hepatitis B virus (HBV) X protein-mediated hepatocyte transformation and in HBV replication†
Article first published online: 7 APR 2011
Copyright © 2011 American Association for the Study of Liver Diseases
Volume 53, Issue 4, pages 1137–1147, April 2011
How to Cite
Wang, W.-H., Studach, L. L. and Andrisani, O. M. (2011), Proteins ZNF198 and SUZ12 are down-regulated in hepatitis B virus (HBV) X protein-mediated hepatocyte transformation and in HBV replication. Hepatology, 53: 1137–1147. doi: 10.1002/hep.24163
Supported by National Institutes of Health (NIH) grants DK044533 and CA135192 (to O.M.A.). L.S. supported by the Bilsland's graduate student fellowship of Purdue University. The authors acknowledge support of the Purdue University Cytometry Laboratory.
- Issue published online: 7 APR 2011
- Article first published online: 7 APR 2011
- Accepted manuscript online: 10 JAN 2011 01:03PM EST
- Manuscript Accepted: 20 DEC 2010
- Manuscript Received: 28 MAY 2010
- National Institutes of Health (NIH). Grant Numbers: DK044533, CA135192
- Bilsland's graduate student fellowship of Purdue University
Chronic hepatitis B virus (HBV) infection is a major etiologic factor in hepatocellular carcinoma (HCC) pathogenesis, involving effects of chronic liver inflammation and of the weakly oncogenic HBV X protein (pX). pX-mediated hepatocyte transformation requires Polo-like kinase1 (Plk1) activity, but the mechanism is not fully understood. We identified by a genome-wide short hairpin RNA (shRNA) library screen the genes zinc finger, MYM-type 2 (ZNF198) and suppressor of zeste 12 homolog (Drosophila) (SUZ12) whose protein depletion rescues pX-expressing cells from DNA damage-induced apoptosis. ZNF198 and SUZ12 are components of chromatin remodeling complexes and associate with promyelocytic leukemia (PML) nuclear bodies. Knockdown of ZNF198 and SUZ12 by small interfering RNA (siRNA) reduced p53 stability and DNA repair, rescued pX-expressing hepatocytes from DNA damage-induced apoptosis, and increased pX-induced polyploidy and oncogenic transformation, suggesting ZNF198 and SUZ12 have a role in pX-mediated transformation. Interestingly, during pX-mediated transformation the protein but not messenger RNA (mRNA) levels of ZNF198 and SUZ12 progressively decreased, whereas Plk1 levels increased. Inhibition of Plk1 activity restored protein levels of ZNF198 and SUZ12. In addition, transfected Polo-box-domain (PBD) of Plk1 coimmunoprecipitated with ZNF198 and SUZ12, suggesting that these proteins are Plk1 substrates. Elevated Plk1 and reduced protein levels of ZNF198 and SUZ12 were also observed in human liver cancer cell lines derived from HBV-related tumors and in the presence of HBV replication. Importantly, knockdown by siRNA of ZNF198 and SUZ12 enhanced HBV replication. Conclusion: Reduced protein levels of ZNF198 and SUZ12 and elevated Plk1 occur during pX-mediated hepatocyte transformation in human liver cancer cell lines, as well as during HBV replication, underscoring the significance of these genes both in HBV-mediated HCC pathogenesis and HBV replication. We propose Plk1 activity down-regulates ZNF198 and SUZ12, thereby enhancing both HBV replication and pX-mediated oncogenic transformation. (HEPATOLOGY 2011)
Liver cancer has the most rapidly growing mortality rate in the U.S.1 Chronic hepatitis B virus (HBV) infection is a major factor in hepatocellular carcinoma (HCC) pathogenesis.2 Despite the HBV vaccine, the World Health Organization estimates that 400 million people are chronically infected with HBV. Current treatments include antiviral nucleoside analogs, eventually resulting in viral resistance.3 Furthermore, high levels of viremia in chronic HBV patients is prognostic of the disease advancing to HCC.4
Contributing factors to HBV-mediated HCC pathogenesis include chronic liver inflammation and regeneration,5 and effects of the weakly oncogenic HBV X protein (pX).6, 7 In chronic HBV-infected patients, viral DNA integrates into the host's genome, with the majority of tumors displaying continued expression of pX.8 pX is essential for the viral life cycle.9 pX also increases activation of mitogenic pathways,10, 11 resulting in accelerated cell cycle entry,12 and enhanced transcription of cellular genes. Importantly, pX increases expression of replication licensing factors Cdc6 and Cdt1, resulting in DNA re-replication-induced DNA damage.13 Furthermore, pX activates Plk1 in untransformed hepatocytes, which mediates checkpoint adaptation, thereby propagating DNA damage and generating partial polyploidy.14 Significantly, expression of Plk1 is elevated during pX-mediated transformation and inhibition of Plk1 suppresses transformation.15
Plk1 is expressed in proliferating cells,16 and elevated Plk1 expression occurs in many human cancers,17 including virus-induced cancers.18, 19 Plk1 depletion induces apoptosis in cancer cell lines but not normal cells.20 Significantly, Plk1 inhibitors are currently in clinical trials.21, 22
In this study we identified by a genome-wide short hairpin RNA (shRNA) library screen suppressor of suppressor of zeste 12 homolog (Drosophila) (SUZ12)23 and zinc finger, MYM-type 2 (ZNF198)24 as playing a role in pX-mediated hepatocyte transformation. Both proteins associate with promyelocytic leukemia (PML) nuclear bodies (NBs) and are components of chromatin remodeling complexes.23–26 SUZ12 is essential for the activity of the polycomb repressive complex (PRC2), mediating the trimethylation of H3 on lysine 27 (H3K27me3), a mark of silent chromatin.23 Interestingly, a PRC2 target gene is epithelial cell adhesion molecule (EpCAM),27 expressed in hepatic progenitors,28 and elevated in hepatic cancer stem cells.29 ZNF198 stabilizes the LSD1-CoREST-HDAC1 complex26 and associates with DNA repair proteins in PML NBs.30
PML NBs have a role in p53 apoptosis,31 DNA repair,32 and viral replication.33 Viruses employ various mechanisms to disrupt PML NBs in favor of viral replication.33–35 During HBV replication, PML NBs become altered in both number and morphology.36 Significantly, HBV replication depends on histone modifications associated with the HBV covalently closed circular DNA (cccDNA), the template of pregenomic RNA (pgRNA) transcription.37 Moreover, HDAC1 associated with cccDNA correlates with reduction in HBV replication.38
In this study we show that small interfering RNA (siRNA) knockdown of ZNF198 and SUZ12 results in defective DNA repair and p53 apoptosis, survival of pX-expressing cells from DNA damage-induced apoptosis, enhanced pX-induced polyploidy, and accelerated oncogenic transformation. Interestingly, during pX-mediated hepatocyte transformation protein levels of ZNF198 and SUZ12 become reduced, whereas Plk1 levels increase. Intriguingly, down-regulation of the protein levels of ZNF198 and SUZ12 during pX-mediated transformation is dependent on Plk1 activity, suggesting that these proteins are Plk1 substrates. The same inverse relationship occurs in human liver cancer cell lines and during HBV replication. Importantly, siRNA knockdown of ZNF198 and SUZ12 increases HBV replication. We propose that Plk1 down-regulates ZNF198 and SUZ12, thus enhancing both pX-mediated transformation and HBV replication.
Materials and Methods
Cell Culture and Other Assays.
Construction of 4pX-1-Derived Knockdown Cell Lines.
4pX-1 cells were stably transfected by a retrovirus-based pGIPZ vector containing shRNAmir sequence for SUZ12, ZNF198, Topors, and PML (Open Biosystems), as described.42 Clonal cell lines were isolated by selection with puromycin (1.0 μg/ml) and screened by immunoblots.
shRNA Library Screen.
A stable population of 4pX-1 cells was generated following infection with a lentiviral shRNA library (System Biosciences, SBI) and selection by puromycin. The shRNA library represents 39,000 mouse transcripts in the pFIV-H1-Puro lentivirus vector. Each RNA transcript is targeted by 3-5 different siRNAs (one shRNA per vector). 4pX-1 cells (2.5 × 107) infected with lentiviral shRNA library, were grown for 10 days in the presence of doxorubicin (0.25 μg/mL) and pX expression. Clones of infected 4pX-1 cells surviving apoptosis for 10 days were propagated separately. The shRNA insert from each surviving cell clone was cloned, sequenced, and the depleted gene identified.
Statistical analyses were performed by Student's t test.
To gain insight into the mechanism by which pX mediates hepatocyte transformation, we identified genes whose protein depletion rescued pX-expressing hepatocytes from DNA damage-induced apoptosis. We performed a genome-wide shRNA library screen employing the immortalized, tetracycline-regulated pX-expressing 4pX-1 cell line39 infected with a lentiviral shRNA library as described in Materials and Methods.
To validate the shRNA library screen we constructed stable knockdown cell lines in 4pX-1 cells for ZNF198 and SUZ12, as well as Topors and PML31, 44 serving as controls for PML NB function (Fig. 1A). To determine the role of ZNF198 and SUZ12 in apoptosis, knockdown cell lines were grown in apoptotic conditions induced by cotreatment with pX and doxorubicin (Fig. 1B-D and Supporting Fig. 3). To exclude clonal artifacts, additional clonal isolates from each cell line were analyzed. obtaining the same results (Supporting Fig. 4). All knockdown cell lines exhibited significantly decreased p53 levels in comparison to 4pX-1 cells (Fig. 1B and Supporting Fig. 3), suggesting SUZ12 and ZNF198, similar to PML and Topors, modulate p53 apoptosis. Indeed, on day 2 of treatment the level of active caspase3 was reduced in all knockdown cell lines relative to 4pX-1 cells (Fig. 1C). Furthermore, cell viability of the knockdown cell lines on day 6 of treatment with pX and doxorubicin was greatly enhanced in comparison to pX-expressing 4pX-1 cells (Fig. 1D). Because knockdown of SUZ12 and ZNF198 rescued pX-expressing cells from p53 apoptosis, these results validate the shRNA library screen.
Knockdown of ZNF198 and SUZ12 Abrogates DNA Repair.
PML NBs are involved in DNA repair,32 and both ZNF198 and SUZ12 associate with PML NBs.24, 25 Accordingly, we examined the effect of diminished ZNF198 and SUZ12 proteins on DNA repair. Immunofluorescence microscopy for Mre11, a component of the DNA repair Mre11-Rad50-Nbs1 complex, was used to monitor formation of DNA repair foci after doxorubicin treatment (Fig. 2A). 4pX-1 cells treated with doxorubicin displayed the characteristic Mre11 immunostaining of DNA repair foci.45 By contrast, depletion of ZNF198 and SUZ12 disrupted this distinct nuclear localization of Mre11, suggesting defective DNA repair, similar to PML knockdown.32 Furthermore, the DNA repair potential of each knockdown cell line was assessed by transfection of linearized pGL2-Luciferase vector digested with EcoRI within the luciferase gene.46 Restoration of luciferase activity requires precise joining of the EcoRI ends by DNA repair. Indeed, luciferase activity was significantly reduced in ZNF198, SUZ12, and PML knockdown cells (Fig. 2B), indicating that DNA repair is compromised. Furthermore, employing the comet assay,13 nearly 80% of ZNF198 and SUZ12 knockdown cells exhibit DNA tailing independent of pX expression, with significantly increased length of DNA tails (Supporting Fig. 5A-C). Immunoblots of γ-H2AX, a marker of DNA damage, directly confirmed that depletion of SUZ12 and ZNF198 enhanced DNA damage (Supporting Fig. 5D).
Down-Regulation of ZNF198 and SUZ12 Increases pX-Induced Polyploidy, Leading to Transformation.
Because knockdown of ZNF198 and SUZ12 suppresses both p53 apoptosis (Fig. 1B-D) and DNA repair (Fig. 2), and pX allows propagation of DNA damage,14 we investigated the effect of diminished protein levels of ZNF198 and SUZ12 on pX-induced polyploidy. ZNF198 and SUZ12 knockdown cells exhibit a 50% increase in polyploidy in the presence of pX, quantified by flow cytometry (Fig. 3A and Table 1). Furthermore, pX-induced polyploid cells from ZNF198 and SUZ12 knockdown cells formed robust colonies on soft agar immediately after isolation by live cell sorting (Fig. 3B,C). By contrast, pX-induced polyploid cells from 4pX-1 cells require an additional 40 cell doublings for growth on soft agar.15 Knockdown of PML also resulted in anchorage-independent growth with pX expression, in agreement with the oncogenic potential of PML.47 Because growth on soft agar is a criterion of oncogenic transformation, these results suggest that ZNF198 and SUZ12 are tumor suppressors of pX-mediated transformation.
|−pX||1.36 ± 0.68||6.02 ± 1.65||3.55 ± 0.85||4.66 ± 0.85|
|+pX||6.67 ± 1.02||11.85 ± 1.78||9.25 ± 2.55||8.24 ± 1.87|
ZNF198 and SUZ12 Are Down-Regulated During pX-Mediated Transformation and in Human Liver Cancer Cell Lines.
To elucidate the role of ZNF198 and SUZ12 in pX-mediated transformation, we examined by immunoblots ZNF198 and SUZ12 protein levels in our liver cancer progression model of P1-P5 cultures15 (Fig. 4A). Protein levels of ZNF198 and SUZ12 progressively decreased, whereas Plk1, which is required for pX-mediated transformation, increased as pX-induced polyploid cells become transformed (Fig. 4B). This inverse relationship in protein levels of ZNF198 and SUZ12 versus Plk1 was also observed in human liver cancer cell lines, including those derived from HBV-induced HCCs (Hep3B and SNU423) (Fig. 4C and Supporting Fig. 6).
The observed down-regulation of ZNF198 and SUZ12 during pX-mediated transformation could be due to transcriptional or posttranscriptional mechanisms. Accordingly, we quantified by real-time polymerase chain reaction (PCR) ZNF198 and SUZ12 mRNA levels in P1-P5 cultures (Fig. 4D). We observed increased mRNA levels for both ZNF198 and SUZ12 during pX-mediated transformation, thus excluding transcriptional effects. Because Plk1 is elevated during pX-mediated transformation15 and Plk1-mediated phosphorylation usually signals proteasomal degradation of its substrate,16, 22 we investigated the effect of Plk1 inhibition on ZNF198 and SUZ12 protein levels. P4 cultures treated for 3-6 hours with the Plk1 inhibitor BI 253621 exhibit increased protein levels for ZNF198 and SUZ12 (Fig. 4E). Furthermore, because Plk1 interacts with its substrates by way of the Polo-box-domain, PBD,48 we investigated the interaction of ZNF198 and SUZ12 with Plk1. PBD-FLAG transiently transfected in 4pX-1 cells, coimmunoprecipitated increased amounts of ZNF198 and SUZ12 in the presence of pX (Fig. 4F), suggesting that ZNF198 and SUZ12 are Plk1 substrates.
Elevated Plk1 and Reduced ZNF198 and SUZ12 Protein Levels in the Presence of HBV Replication.
ZNF19824 and SUZ1225 associate with PML NBs which are frequently disrupted by viral infection.33–35 Therefore, we examined the protein levels of ZNF198 and SUZ12 in the context of HBV replication. In the HepAD38 cell line, the HBV genome is under control of the tet-off promoter.40 Tetracycline removal permits transcription of pgRNA, which serves as template for HBV replication. Employing quantitative PCR for HBV replication with template DNA from isolated intracellular virion particles,41 we confirmed HBV replication in HepAD38 cells within 1 week after removal of tetracycline (Fig. 5A), as described.40 Interestingly, in the context of increasing HBV replication the protein levels of ZNF198 and SUZ12 became progressively reduced, whereas those of Plk1 increased (Fig. 5B). Because ZNF198 and SUZ12 associate with PML NBs,24, 25 we examined by immunoblots the amount of these proteins that coimmunoprecipitated with PML. In agreement with the reduced protein levels of ZNF198 and SUZ12 during HBV replication, 10 days following tetracycline removal, i.e., in the presence of HBV replication, the amount of ZNF198 and SUZ12 associated with PML protein was also significantly reduced (Fig. 5C).
Therefore, we investigated whether this reduction in the protein levels of ZNF198 and SUZ12 during HBV replication had an effect on PML NBs. Employing immunofluorescence microscopy for PML, we observed that the morphology and number of PML NBs in HepAD38 cells were altered 10 days following tetracycline removal, with fewer PML NBs per cell and diffuse PML immunostaining (Fig. 5D). Similar experiments were performed using 4pX-1, 4pX-1-PMLkd, 4pX-1-SUZ12kd, and 4pX-1-ZNF198kd cells, as controls. Specifically, in 4pX-1-ZNF198kd and 4pX-1-SUZ12kd cells, immunofluorescence microscopy of endogenous PML (Fig. 5E) or transfected PML-RFP demonstrated that knockdown of ZNF198 and to a lesser extent of SUZ12 had an effect on formation of PML NBs (Supporting Fig. 7).
To determine the functional significance of the down-regulation of ZNF198 and SUZ12 during HBV replication and their association with PML NBs, we knocked-down each of these proteins by siRNA transfection in HepAD38 cells. Importantly, siRNA knockdown of ZNF198 or PML significantly increased HBV replication (P < 0.01) on day 1 after tetracycline removal. Specifically, upon siRNA knockdown of PML or ZNF198, HBV replication in HepAD38 cells, grown without tetracycline for 1 day, increased to nearly the same level as in untransfected HepAD38 cells grown without tetracycline for 5 days. Likewise, SUZ12 knockdown exerted a small but statistically significant increase (P < 0.05) in HBV replication (Fig. 6). These results establish that down-regulation of ZNF198 and SUZ12 and disruption of PML NBs enhance HBV replication in HepAD38 cells.
In this study we identified ZNF198 and SUZ12 as novel negative regulators of pX-mediated hepatocyte transformation. We show that during pX-mediated transformation, protein levels of SUZ12 and ZNF198 are down-regulated, whereas those of Plk1 required for pX-mediated transformation15 increase. We provide evidence suggesting that ZNF198 and SUZ12 are Plk1 substrates. Importantly, increased protein levels of Plk1 and reduced levels of ZNF198 and SUZ12 occur in liver cell lines derived from HBV-induced tumors, and in the presence of HBV replication. We propose that Plk1 down-regulates ZNF198 and SUZ12, thereby enhancing both HBV replication and pX-mediated transformation (Fig. 7).
Loss of ZNF198 and SUZ12 Accelerate pX-Mediated Transformation.
SUZ12 and ZNF198 were identified by a genome-wide shRNA library screen, searching for proteins whose depletion rescues pX-expressing hepatocytes from DNA damage-induced apoptosis. ZNF198 and SUZ12 modulate chromatin remodeling and associate with PML NBs.23–26 Independent studies have shown that deregulation of the function of ZNF198 and SUZ12 is linked to cancer.49, 50 Interestingly, the ZNF198 gene located on chromosome 13q12.11 is frequently affected by loss of heterozygosity in early onset HCC, correlated with high tumor grade and HBV-induced tumors.51, 52 In our studies, knockdown of ZNF198 and SUZ12 increased survival of pX-expressing cells from DNA damage-induced apoptosis (Fig. 1) and suppressed DNA repair (Fig. 2) likely by disruption of PML NBs (Fig. 5E). Indeed, in 4pX-1 cells, PML knockdown abrogates both p53 apoptosis and DNA repair (Figs. 1, 2), in agreement with earlier studies by others.31, 32 Reduction in p53 apoptosis and DNA repair by knockdown of ZNF198 or SUZ12 increased polyploidy and accelerated transformation by pX (Fig. 3), suggesting ZNF198 and SUZ12 are tumor suppressors of pX-mediated transformation.
Interestingly, in our liver cancer progression model, as P1-P5 cultures undergo pX-mediated transformation we observed that protein levels of ZNF198 and SUZ12 become progressively reduced, whereas those of Plk1 required for pX-mediated transformation increase (Fig. 4B). We hypothesized that during pX-mediated transformation, Plk1 by phosphorylation down-regulates ZNF198 and SUZ12. In support of this hypothesis we demonstrate: (1) mRNA levels of ZNF198 and SUZ12 are not reduced during pX-mediated transformation (Fig. 4D), thereby excluding down-regulation at the transcriptional level; (2) inhibition of Plk1 by treatment with BI 2536 restored protein levels of ZNF198 and SUZ12 in P4 cultures (Fig. 4E), suggesting that Plk1 activity induces their degradation; (3) ZNF198 and SUZ12 coimmunoprecipitate with PBD of Plk1 in the presence of pX (Fig. 4F), similar to other Plk1 substrates.48 Studies are in progress to identify Plk1 phosphorylation sites in ZNF198 and SUZ12 and determine their functional significance in pX-mediated transformation.
The mechanism by which down-regulation of ZNF198 and SUZ12 contributes to pX-mediated transformation is not yet understood. ZNF198 stabilizes the LSDI-Co-REST-HDAC1 complex,26 thereby suppressing transcription. The telomerase reverse transcriptase (hTERT) gene, activated in more than 90% of human cancers, is a target of the LSD1-Co-REST-HDAC1 complex.53 Regarding the SUZ12/PRC2 complex, gene targets of the silencing H3K27me3 modification include, among others,54 EpCAM,27 and IGF II55 elevated in HBV-mediated HCCs.56, 57 Significantly, EpCAM-positive HCC cells are tumor-initiating cells.29 Additional genes transcriptionally silenced by the SUZ12/PRC2 complex and relevant to HBV-mediated HCC are presented in our recent review.58 Specifically, in addition to EpCAM and IGFII, SUZ12 target genes relevant to HCC include DKK1,2, BAMBI, MYC, MCM5, RPA2, CCNA1, and CCND2. Importantly, EpCAM, IGFII, DKK1, 2, and BAMBI are up-regulated in hepatic cancer stem cells29 and poor prognosis HCCs derived from HBV-positive patients.56, 57 The genes MYC, MCM5, RPA2, CCNA1, and CCND2 that comprise the proliferation gene cluster are up-regulated in poor prognosis HCC.18, 59–60 We reason that a cellular mechanism that down-regulates SUZ12 enables reexpression of these genes that are elevated in HBV-induced and poor prognosis HCCs.
Down-Regulation of ZNF198 and SUZ12 During HBV Replication.
Viruses disrupt by various mechanisms PML NBs, enhancing viral replication.33–35 In HepAD38 cells undergoing HBV replication, the protein levels of ZNF198 and SUZ12 become reduced, whereas those of Plk1 increase. In addition, PML NBs become disrupted (Fig. 5). Importantly, siRNA knockdown of ZNF198 and PML enhances HBV replication, indicating the functional involvement of ZNF198 and PML NBs in HBV replication (Fig. 6). In HSV1-infected cells, ICP0 disrupts nuclear localization of LSD1-CoREST-HDAC complex34, 35 shown to be stabilized by ZNF198.26 Whether the same occurs in HBV replication is unknown. Likewise, SUZ12 knockdown exerts a small but statistically significant (P < 0.05) effect on HBV replication (Fig. 6). Because the SUZ12/PRC2 complex mediates transcriptional repression of cellular genes by way of the H3K27me3 modification, it is plausible that it has a similar effect on the transcription of the viral pgRNA. Further studies are needed to elucidate the mechanism by which ZNF198 and SUZ12 modulate HBV replication. Importantly, the suggested down-regulation of ZNF198 and SUZ12 by Plk1 together with the role of these proteins in HBV replication identifies Plk1 as a likely antiviral target. Recent studies have also identified involvement of Plk1 in HCV replication.61
In summary, our studies demonstrate an inverse relationship between elevated protein levels of Plk1 and down-regulation of ZNF198 and SUZ12 during pX-mediated transformation and HBV replication. Diminished protein levels of ZNF198 and SUZ12 enhance both pX-mediated transformation and HBV replication. Our results also suggest that Plk1 mediates the down-regulation of ZNF198 and SUZ12. We propose inhibition of Plk1 will exert both anticancer and antiviral effects.
Acknowledgment: The authors thank Drs. B. Slagle for assistance with HBV replication assays, C. Seeger and M. Bouchard for HepAD38 and HepG2 cell lines, respectively, and R.L. Hullinger for critical review of the article.
- 22Multifaceted polo-like kinases: drug targets and antitargets for cancer therapy. Nat Rev 2010; 9: 644-660.
- 57Transcriptome classification of HCC is related to gene alterations and to new therapeutic targets. HEPATOLOGY 2007; 45-52. 42-52., , , , , , et al.
Additional Supporting Information may be found in the online version of this article.
|HEP_24163_sm_suppinfofig1.tif||1837K||Supporting fig. 1. Identification of genes whose protein depletion rescued pX-expressing 4pX-1 cells from DNA damage-induced apoptosis. The tetracycline-regulated pX-expressing 4pX-1 cell line (39), an immortalized, less-differentiated hepatocyte cell line (14) was used for this study. We generated a stable population of 4pX-1 cells infected with a lentiviral shRNA library. Infected 4pX-1 cells were grown for 10 days in apoptotic conditions induced by pX + doxorubicin. Cells surviving apoptosis for 10 days were propagated separately, generating individual cell clones. The shRNA insert of surviving clones was sequenced and the depleted gene identified. The most frequent genes detected by this screen were ZNF198 and SUZ12. *Topors (43) was identified by a similar screen, involving 10-day selection of infected 4pX-1 cultures with pX + doxorubicin, but without propagation of surviving cells.|
|HEP_24163_sm_suppinfofig2.tif||2306K||Supporting fig. 2. ZNF198 and SUZ12 associate with PML NBs in pX-expressing cells. A. Lysates from 4pX-1 cells grown ± pX and ± doxorubicin treatment, as indicated, were immunoprecipitated with PML antibody. IgG immunoprecipitations with lysates from 4pX-1 cells expressing pX. PML and IgG immunoprecipitates were immunoblotted for the indicated proteins. B. Confocal microscopy of 4pX-1 cells with indicated antibodies.|
|HEP_24163_sm_suppinfofig3.tif||909K||Supporting fig. 3: . Knockdown of ZNF198 and SUZ12 increases cell survival in conditions of pX-mediated apoptosis.. Lysates from indicated cell lines grown without (-) pX and in the presence of doxorubicin (0.5 μg/ml) for 6 h . Actin is loading control.|
|HEP_24163_sm_suppinfofig4.tif||1314K||Supporting fig. 4. Knockdown of ZNF198 and SUZ12 increases cell survival in conditions of pX-mediated apoptosis. A. Immunoblots of ZNF198, SUZ12, Topors and PML using lysates from clonal isolate-2 of indicated knockdown cell lines. 4pX-1 cells with stable integration of pGIPZ empty vector were constructed in parallel. B. Immunoblots of p53 using lysates from indicated clonal isolate-2. Cells were grown ± pX and doxorubicin (0.5 μg/ml) for 6 h.|
|HEP_24163_sm_suppinfofig5.tif||2119K||Supporting fig. 5: Defective DNA repair in ZNF198 and SUZ12 knockdown cells A. Comet assay of cells grown ± pX for 24 h. Cells stained with SYBR Green were analyzed by agarose gel electophoresis (13). B. Quantification of cells with DNA tailing. (250 cells counted, from three independent assays). C. Quantification of length of DNA tails using Comet Assay IV software, Perspective Instruments. D. Immunoblots of ?-H2AX using lysates from indicated cell lines grown ± pX for 24 h.|
|HEP_24163_sm_suppinfofig6.tif||828K||Supporting fig. 6. Immunoblots of ZNF198, SUZ12 and p53 using WCE isolated from the indicated cell lines after time course treatment (0-12 h) with 0.5 μg/ml doxorubicin. Actin is the loading control. The status of endogenous p53 is indicated in parenthesis.|
|HEP_24163_sm_suppinfofig7.tif||2095K||Supporting fig. 7. Immunofluorescence microscopy of endogenous PML or transfected PML-RFP protein in 4pX-1, 4pX-1-SUZ12kd, 4pX-1-ZNF198kd, and 4pX-1-PMLkd at 60X magnification. Quantification of PML NBs is from approximately 100 cells.|
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