HDM2 antagonist MI-219 (spiro-oxindole), but not Nutlin-3 (cis-imidazoline), regulates p53 through enhanced HDM2 autoubiquitination and degradation in human malignant B-cell lymphomas
© Sosin et al.; licensee BioMed Central Ltd. 2012
Received: 22 June 2012
Accepted: 1 September 2012
Published: 18 September 2012
Lymphomas frequently retain wild-type (wt) p53 function but overexpress HDM2, thereby compromising p53 activity. Therefore, lymphoma is a suitable model for studying the therapeutic value of disrupting the HDM2-p53 interaction by small-molecule inhibitors (SMIs). HDM2 have been developed and are under various stages of preclinical and clinical investigation. Previously, we examined the anti-lymphoma activity of MI-319, the laboratory grade of a new class of HDM2 SMI, the spiro-oxindole, in follicular lymphoma. Since then, MI-219, the clinical grade has become readily available. This study further examines the preclinical effects and mechanisms of MI-219 in a panel of human lymphoma cell lines as well as a cohort of patient-derived B-lymphcytes for its potential clinical use.
Preclinical assessment of MI-219 was evaluated by means of an in vitro and ex vivo approach and compared to Nutlin-3, the gold standard. Characterization of p53 activity and stability were assessed by quantitative PCR, Western blot, and immunoprecipitation. Biological outcome was measured using Trypan blue exclusion assay, Annexin V/PI, PARP and caspase-3 cleavage. Surprisingly, the overall biological effects of Nutlin-3 were more delayed (48 h) while MI-219 triggered an earlier response (12-24 h), predominantly in the form of apoptotic cell death. Using a cell free autoubiquitination assay, neither agent interfered with HDM2 E3 ligase function. MI-219 was more effective in upregulating wt-p53 stabilization compared to Nutlin-3. MI-219, but not Nutlin-3, enhanced the autoubiquitination and degradation of HDM2.
Our data reveals unexpected differences between MI-219 and the well-studied Nutlin-3 in lymphoma cell lines and patient samples. We suggest a novel mechanism for MI-219 that alters the functional activity of HDM2 through enhanced autoubiquitination and degradation. Additionally, this mechanism appears to correspond to biological outcome. Our results provide evidence that different classes of HDM2 SMIs elicit molecular events that extend beyond HDM2-p53 dissociation which may be of biological and potentially therapeutic importance.
KeywordsHDM2 p53 Apoptosis MI-219 Nutlin-3 B-cell lymphoma Small-molecule inhibitor Autoubiquitination
The estimated number of newly diagnosed non-Hodgkin’s lymphoma cases for 2012 is expected to be 70,130 of which 18,940 patients (27%) will fail to survive. This represents a 9.89% increase in diagnosed cases compared to that estimated in 2007. While the expected mortality has marginally decreased from 29.5% in 2007 to 27% in 2012, there is reason for optimism but no reason to celebrate until a complete cure is found [1, 2]. Unlike solid tumors which could be treated in situ or removed if diagnosed early, lymphoma cells circulate alongside with normal lymphocytes making treatment options limited. However, the inherent defects within the cells that initiate transformation of normal cells into cancer are similar, as are the mechanisms evading cell death and development of resistance.
One of the most recognized defects is altered functionality of p53, the protein product of the TP53 gene . p53, often considered guardian of genome, is a master transcriptional regulator at the center of complex molecular networks controlling cell proliferation and death. Therefore, the integrity of functional wild-type p53 (wt-p53) tumor suppressor activity is a vital component of normal cellular homeostasis and protection from cancer development. p53 is activated in response to multiple stress signals and activated p53 induces genes involved in biological outcomes such as apoptosis, cell cycle arrest, DNA repair, senescence, and more recently, metabolism [4–6]. Deregulation of p53 by inactivating mutations occurs in approximately 50% of all human cancers, impairing DNA binding and transcription of tumor suppressive target genes . Tumors that possess a mutant p53 (mt-p53) have been shown to evade apoptosis, resist many therapeutic interventions, and exhibit qualities associated with poor prognosis [8–11]. Therefore, maintaining functional wt-p53 activity is central to favorable treatment outcomes in cancer.
Numerous posttranslational mechanisms exist to control p53 activity and ultimately determine its cellular fate. HDM2 (Human Double Minute 2) is a RING finger E3-ubiquitin ligase that acts as the predominant negative regulator of p53. HDM2 is also a transcriptional target gene of p53, creating an autoregulatory feedback loop that regulates p53 activity and stability. HDM2 binds to p53, inactivates its transcriptional activity and facilitates ubiquitin-dependent degradation of p53 by exporting it out of the nucleus [12–14]. Furthermore, p53-independent functions of HDM2 exist and may be influenced through interaction with additional proteins . In addition to its role in regulating functional p53 activity, HDM2 is also capable of self-regulation via autoubiquitination and is thought to degrade itself by means of the proteasome [16, 17]. Although this self-regulatory function of HDM2 is well-documented, the control and activation of this function still remains highly elusive. Importantly, HDM2 destabilization is required for proper p53 response. In fact, an early step in the accumulation of p53 in response to stress, DNA damage in particular, is an associated increase in HDM2 autoubiquitination and degradation [18, 19].
Overexpression of HDM2 has been shown to facilitate cancer development and progression in several tumor types and is often found in hematological malignancies. It is observevd more frequently in low grade non-Hodgkin’s lymphomas (NHL) (56.5%) than in aggressive NHL (10.8%), with HDM2 elevated even further in patients with advanced clinical stage . Abnormal expression of HDM2 has also been detected in Hodgkin lymphomas (HL) . However, little is known about the prognostic value of HDM2 in lymphomas. Several non-genotoxic small-molecule inhibitors (SMIs) have been developed to block HDM2-p53 with attempts to restore tumor suppressive activity to tumor cells with wt-p53. This is an attractive therapeutic strategy , particularly in lymphomas, where p53 mutations account for less than 15% of all cases [23, 24], yet wt-p53 remains dysfunctional due to overexpressed HDM2.
Although preclinical assessment of several HDM2 SMIs have demonstrated great promise, it is becoming increasingly clear that multiple molecular mechanisms modulate their anti-cancer efficacy in conjunction with genetic components of the patient’s tumor. More importantly, novel HDM2 SMIs are currently under clinical evaluation in phase I studies, demonstrating the significant impact and clinical relevance of these agents . We previously reported the anti-lymphoma effects of a laboratory grade spiro-oxindole MI-319, in our established WSU-FSCCL cell line and xenograft model . Since then, the clinical grade MI-219 has become readily available. In this study, we assessed the preclinical potential of MI-219 and re-examined selected molecular consequences associated with HDM2 inhibition in lymphoma cell lines and a cohort of malignant patient-derived B-lymphocytes. Our data uncovers unexpected differences between MI-219 compared to archetypical Nutlin-3. The results suggest a crucial role of mediating enhanced HDM2 activity towards itself, in conjunction with wt-p53 reactivation, which affects MI-219 sensitivity in this tumor type. More in-depth understanding of how HDM2 SMIs impact the myriad of biological processes conducted by p53 in lymphoma cells is necessary in order to in maximize their therapeutic exploitation.
Characteristics of patient sample
Characteristics of lymphoma patient samples
TYPE OF LYMPHOMA
p53 status Exons 5-9 (cDNA)
15.5%- deletion of 17p
11%-loss of lgH locus
Normal/46, XY 
54.5%- deleted 13q
58.5%- deleted 13q
51%- deleted 13q
9%- deleted 17p
23.5%- deleted 13q
72%- deleted 13q
Effect of HDM2 inhibition in patient-derived B lymphoma cells
Induction of apoptotic cell death in wt-p53 lymphoma cell lines
Summary of Annexin positive cells in wtp-53 lymphoma cell lines exposed to HDM2-SMIs
5.3 ± 0.7
5.3 ± 0.7
p = <0.001
7.0 ± 2.5
13.7 ± 1.3
p = <0.001
8.8 ± 2.0
23.8 ± 2.8
p = <0.001
10.6 ± 1.7
36.1 ± 2.3
p = <0.001
6.2 ± 0.7
6.0 ± 0.7
p = <0.0001
9.6 ± 1.6
27.6 ± 8.2
12.3 ± 2.4
43.0 ± 18.6
p = <0.01
17.3 ± 4.9
69.7 ± 6.6
p = <0.001
6.1 ± 1.2
6.1 ± 1.2
p = <0.0001
10.1 ± 0.7
19.5 ± 1.0
12.6 ± 1.9
35.6 ± 7.6
p = <0.001
16.5 ± 2.6
74.5 ± 4.9
p = <0.001
7.9 ± 1.2
7.9 ± 1.2
p = 0.026
11.2 ± 1.6
12.5 ± 1.3
11.8 ± 1.5
13.5 ± 0.6
13.6 ± 2.4
14.8 ± 2.9
8.9 ± 1.7
8.9 ± 1.7
p = 0.026
11.2 ± 3.0
14.2 ± 2.5
14.5 ± 3.0
19.9 ± 3.5
20.1 ± 3.8
27.9 ± 4.8
p = 0.05
2.8 ± 2.5
12.8 ± 2.5
15.9 ± 6.5
19.7 ± 9.4
18.9 ± 8.9
23.1 ± 10
21.1 ± 9.7
32.4 ± 9.2
Evaluation of p53 and p53-dependent target proteins
To understand a possible explanation for the enhanced activity of MI-219 over that of Nutlin-3, we determined the IC50s of the HDM2 SMIs using viable cell count as the endpoint in cultures of wt-p53 cell lines (WSU-FSCCL and KM-H2) at equal concentrations for both HDM2 inhibitors. Although the IC50s at 48 h were similar for both agents in wt-p53 WSU-FSCCL cells (2.5 μM for MI-219 and 3 μM for Nutlin-3), the IC50s were significantly different in wt-p53 KM-H2 cells (3 μM for MI-219 and 8 μM for Nutlin-3).
HDM2 inhibition enhances the posttranslational stability of p53
Treatment with 10 μM Nutlin-3 or 10 μM MI-219 alone for 24th led to an overall increase in p53 protein expression. Whether p53 stability is related to HDM2 inhibition was evaluated by pre-incubation of 10 μM Nutlin-3 or MI-219 for 24 hours in wt-p53 WSU-FSCCL cells followed by treatment with 50 μM CHX at the indicated time points. Blocking protein synthesis after pre-treatment with HDM2 SMI led to an overall increase in p53 protein expression. Intriguingly, MI-219 treatment was more effective in enhancing p53 stability than Nutlin-3. Pre-treatment with 10 μM Nutlin-3 barely extended the p53 stability in the presence of CHX compared to 10 μM Nutlin-3 alone (Time 0-2 h;~ t1/2 =0.86 h) (Figure 6B1) whereas 10 μM MI-219 greatly enhanced the overall stabilization of p53 protein despite the presence of CHX (Figure 6B2).
HDM2 inhibition upregulates p53-dependent genes in wt-p53 lymphoma cell lines
MI-219, but not Nutlin-3, enhances HDM2-medicated autoubiquitination and degradation
Identification of HDM2 degraded species from WSU-FSCCL cells was confirmed by immunoprecipitation studies described in Methods. HDM2 from cells exposed to increasing concentrations of Nutlin-3 and MI-219 for 12 h was immunoprecipitated using a1:1 ratio of mouse monoclonal antibodies SMP-14 and D-12 (SMP-14 is known to detect the 60 kDa cleavage product of HDM2) and then immunoblotted (IB) with HDM2 polyclonal antibody (AF1244) to revealed the full length HDM2 in addition to higher molecular weight species (~130 kDa bands [likely autoubiquitinated HDM2]) and ~60 kDa band (the major degraded species of HDM2) (Figure 8B). The intensity of the degraded HDM2 bands were concentration-dependent when obtained from MI-219-treated cells but this was not seen in HDM2 extracted from Nutlin-3-treated cells.
To determine to what extent each of the two HDM2 SMIs induced autoubiquitination of HDM2 in WSU-FSCCL, cells were treated with increasing concentrations of Nutlin-3 and MI-219 for 16 h. Prior to cell harvesting, cells were exposed to MG132 (10 μM) for an additional 15 minutes to preserve the ubiquitinated proteins. HDM2 was immunoprecipitated using antibodies to HDM2 as described above. The blots were then immunoblotted with monoclonal anti-ubiquitin antibody to detect ubiquitinated HDM2. Blots shown in Figure 8C demonstrate that MI-219 induced far greater dose dependent autoubiquitination of HDM2 than Nutlin-3 in this cell line.
These findings suggest that MI-219 but not Nutlin-3 posttranslationally regulates HDM2 protein by inducing autoubiquitination and degradation of itself as a way of compensating for the high levels of HDM2 produced in response to activated p53.
Comparison of MI-219-induced HDM2 autoubiquitination and degradation in KM-H2 versus WSU-FSCCL cell lines
In unstressed cells, p53 is tightly regulated by HDM2 to ensure that its anti-proliferative and anti-apoptotic activity will not harm normal cells. HDM2 and p53 exist in a finely tuned balanced auto regulatory feedback loop by which the two proteins mutually control their cellular levels . In many cancers, this balance is skewed when overexpression of HDM2 leads to constant suppression of p53 posttranslational modifications (such as phosphorylation, acetylation, methylation) which are necessary for the p53 response to stress. Although the majority of lymphoma tumors retain wt-p53 status, mechanisms to compromise p53 signaling, such as HDM2 overexpression, deletions in p14ARF, and viral oncogenes exist to prevent p53 activation in response to stress or initiate programmed cell death [28–30]. Because of the importance of HDM2 in regulating p53 function, attempts are being made to test the effects of its inhibition in cancer. The discovery of small molecular inhibitors of HDM2-p53 interaction is considered a significant development in the treatment of all types of cancers, particularly those in which the activation of wt- p53 is suppressed. These small molecules are designed to physically sit in the p53 binding pocket of HDM2, thereby preventing HDM2-p53 interaction . HDM2 inhibitors R7112 (Nutlin-3 analog) and JNJ-26854165 (a tryptamine derivative) are currently under clinical evaluation in Phase I studies (NCT00623870, NCT00559533, NCT00676910) and the first results from Phase 1 pharmacokinetic and pharmacodynamic study for JNJ-26854165 or Serdemetan in patients with advanced solid tumors has recently been published . These first results indicate that this agent showed clinical efficacy but at elevated doses some toxic effect were of concern. The authors concluded newer derivatives would provide more optimal results.
We had previously investigated MI-319 in preclinical studies using lymphoma cell lines with encouraging results and found that MI-219, MI-319 and Nutlin-3 exhibited similar activity against the cell lines at the concentrations used in this study . Here, we investigated selected effects of MI-219, a clinical grade spiro-oxindole  against lymphoma cell lines and patient-derived primary indolent non-Hodgkin’s SLL/CLL lymphoma samples. Using the cis-imidazoline inhibitor, Nutlin-3 as a benchmark for comparison, we noted significant differences between the two classes which may have clinical implications. Compared to Nutlin-3, differences could be attributed to enhanced MI-219-induced HDM2 autoubiquitination and degradation which resulted in higher levels of p53 expression and p53 stabilization at equivalent concentrations. Our results indicate that the enhanced MI-219-induced increase in p53 is the result of disruption of the HDM2-p53 complex and released p53 rather than de novo transcribed or translated p53. Further in-depth studies with the WSU-FSCCL cell line demonstrated that MI-219 enhanced efficacy was associated with significantly increased p53-induced p53AIP1 mRNA at the expense of p53-induced HDM2 mRNA at 24 h which was not seen with Nutlin-3. Nutlin-3 induce a greater increase in p53-induced p21 mRNA than MI-219 at 48 h. These results provide evidence that MI-219 can induce cell death pathways earlier and more robustly than Nutlin-3 in cell lines and in patient samples. The enhanced effects of MI-219 could be attributed to several factors including higher binding affinity reported for MI-219 to HDM2 (7-fold higher than Nutlin-3) , differences in chemical structure or differences in solubility between the two agents. Although in our previous study, we found the binding affinity of MI-219 to be only ~3 times higher than that for Nutlin-3, it is highly unlikely that a 3-fold difference is crucial as both HDM2 inhibitors are over 500 times more potent than the natural p53 peptide . Polar groups added to MI-319 to produce the structure of MI-219, increased its solubility for better dispersal in aqueous media and resulted in increased biological activity . The relationship between aqueous solubility and activity has also been demonstrated in the development of another HDM2 SMI, HLI373, which was found to be more potent than its insoluble parent compound HLI 98 s . Three p53 amino acids (Phe19, Trp23 and Leu26) have been found to be essential for binding between the two proteins and are inserted into a deep pocket on the surface of HDM2. Nutlin-3 mimics the p53 binding pocket at these three amino acids. In contrast, MI-219 mimics 4 key binding residues in p53 (Phe 19, Leu22, Trp23 and Leu26) resulting in more optimal hydrogen binding and hydrophobic interaction with HDM2 and this alone may account for its increased efficacy.
While it is known that p53 is induced in response to a number of stimuli including DNA damage, if p53 is bound to HDM2, that response is suppressed. During DNA damage, in normal cells, HDM2 can be phosphorylated at multiple sites which leads to HDM2 ubiquitination, degradation and p53 stabilization [35, 36]. Once again, in cells in which HDM2 is overexpressed, more HDM2 protein can quickly bind to and suppress p53 activation. The focus of our study here was to demonstrate that HDM2 inhibition using HDM2 SMIs would allow free p53 to be activated, if and when necessary, in response to internal as well as external stimuli or stress. Because HDM2 inhibition with these HDM2 SMI does not involve a response to DNA damage, the question remains as to what then initiates the activated p53-induced death pathways in lymphoma cells once p53 suppression is released. Are they the same factors encountered by normal cells and is the response the same for cancer and non-cancerous cells are question for future studies. However, p53 is not the only partner for HDM2. There are more than 30 known proteins that form interactions with HDM2 and include proteins such as NF-κB, p21,pRb, TGFβ-1 as well as others . Their function and significance are not fully understood, although they may have therapeutic implications and have been shown to play a role in cellular responses such as transcriptional regulation, apoptosis and the cell cycle [15, 38].
In addition to disrupting the HDM2-p53 interaction, there is evidence that HDM2 SMIs may induce posttranslational modification of p53. Poyurovsky et al. recently showed that Nutlin-3 induced the modification of the C-terminus of p53 (including acetylation) which may explain its lower efficiency in dissociating p53-HDM2 in vitro . In other studies, using solid tumors, MI-219 was found to target the class II histone deacetylase SIRT 1 (which deacetylates p53 allowing HDM2 to target p53 to ubiquitination) and the Bax-Ku70 interaction . Suppression of Ku70, in theory, would allow pro-apoptotic Bax localization to mitochondria and p53-mediated apoptosis.
Nutlin-3 was one of the first HDM2-SMIs to show significant efficacy in a number of models, thus, there are more published reports on this agent than on MI-219. Bixby et al. confirmed that p53 status was the most important predictor of response to HDM2 SMI in isolated CLL cells studied ex vivo . Results of other studies indicate CLL cells exposed to Nutlin-3 ex vivo in combination with cytotoxic chemotherapeutic agents have demonstrated synergy; while activity of Nutlin-3 as single agent, was modest . Ex vivo studies using isolated multiple myeloma cells indicate that Nutlin-3 was as effective as melphalan without the genotoxic effects . In treatment resistant acute myelogenous leukemia cell, Nutlin-induced apoptosis was mediated by transcriptional activation of pro-apoptotic Bcl-2 family proteins and transcriptional-independent mitochondrial permeabilization via mitochondrial p53 translocation . In Hodgkin lymphoma samples, Nutlin-3 was able to mediate p53 stabilization, cell cycle arrest and initiate the apoptotic death pathway, including Caspase-3 and PARP cleavage.
Differences in response to Nutlin-3 and MI-219 between the WSU-FSCCL and KM-H2 cell lines were seen in our study and may reflect biological differences between Hodgkin’s and non-Hodgkin’s lymphomas which they represent, including different time-frame of response to these two HDM2 SMIs.
This study is one of the first, if not the first, to compare the effects of Nutlin-3 and MI-219 in SLL/CLL samples ex vivo. These SLL/CLL and MZL samples represent slowly dividing tumor cells which have lost the ability to undergo programmed cell death or apoptosis and this leads to bone marrow replacement by lymphoma which impedes its function. Agents which affect mitotic or cell cycle pathways are generally not useful as a therapeutic regimen. Instead, optimal anti-cancer agents are sought to quickly initiate cell death processes for these lymphomas while sparing normal cells. The population studied here exhibits varied genetic characteristics and varied responses to standard treatment and thus, offered an excellent opportunity to test the effects of HDM2 SMIs for treatment of this disease. The results show that the response to MI-219-induced HDM2 autoubiquitination and degradation and associated increase in p53 varied among the studied samples and reflected the genetic diversity which has thwarted the development of a single cure for this group. In other studies, failure of CLL to respond upregulation of p53 have been attributed to polymorphism in the p21 gene , transactive defective spliced variants of the p53 gene , and altered p53-induced effectors .
For extended experimental research studies, we utilized cell lines derived from patients with aggressive forms of NHL. Since these cells do proliferate, effects of anti-cancer agent modifying cell cycle associated proteins (such as p21) can be demonstrated. Further studies in wt-p53 WSU-FSCCL NHL cell line confirmed that MI-219 induced enhance HDM2 autoubiquitination and degradation compared to that in Nutlin-3-treated cells. As this was a consistent finding observed in both wt-p53 cell lines and in patient samples, we demonstrated that none of the HDM2 SMIs (MI-219, MI-319 or Nutlin-3) inhibited recombinant HDM2 ubiquitination and degradation by themselves in a cell-free ubiquitination assay. This indicates that the E3 ligase function of HDM2 is not affected by the inhibitors. The exact mechanism for enhanced MI-219 induced HDM2 autoubiquitination will require further detailed investigation. Possible mechanisms include binding of MI-219, but not Nutlin-3, to HDM2 results in its interaction with one of the many proteins that are known to bind to, and modulate activity of HDM2. Some of these HDM2-interacting proteins have been shown to facilitate or induce HDM2 autoubiquitination and include L11, 14-3-3σ, SCL-BP1, FKBP25, ZNF668, TR3, and RASSF1A [48–54]. In addition, anticancer agents such as Parthenolide accelerate HDM2 autoubiquitination through mechanisms that required ATM and Berberine, which downregulates HDM2 at the posttranslational level through modulation of death domain-associated protein (DAXX) have recently been shown to induce apoptosis [55, 56].
In conclusion, our study reveals for the first time unexpected differences between MI-219 and the prototypical Nutlin-3 in lymphoma cell lines and patient samples. We propose a novel mechanism for MI-219 anti-lymphoma activity that alters the functional activity of HDM2 through enhanced autoubiquitination and degradation. Additionally, this mechanism appears to correspond to biological outcome. Our results provide evidence that different classes of HDM2 SMIs elicit molecular events that extend beyond HDM2-p53 dissociation which may be of biological and potentially therapeutic importance given the oncogenic nature of HDM2. Further investigation of such interaction is pivotal to full realization of the therapeutic potential of these agents in cancer therapy.
Human lymphoma cell lines and patient-derived B-lymphoma cells
WSU-FSCCL and WSU-DLCL2 cell lines were established in our laboratory as previously described [57, 58]. WSU-FSCCL (wt-p53) is a human B-cell follicular small cleaved cell line; WSU-DLCL2 (mt-p53) is a human diffuse large B-cell line. The human Hodgkin lymphoma derived cell line KM-H2 (wt-p53) was obtained from DSMZ (Germany). The human diffuse lymphoma cell line RL (mt-p53) was obtained from the American Type Culture Collection (Manassas, VA). Cells from normal, anonymous healthy donors were isolated from discarded apheresis cones obtained from the Red Cross and were kindly provided by Dr. Martin Bluth, Associate Director of Detroit Medical Center Transfusion Services. Peripheral blood was collected from lymphoma patients in leukemic phase following informed consent in the Lymphoma Clinic at St. John Hospital Van Elslander Cancer Center for clinical examination in accordance with institutional review board (IRB) approval. Ethical consideration for this research study to use the discarded blood after clinical analyses was approved following expedited review by the IRB at Wayne State University School of Medicine.
Patient-derived and normal donor peripheral blood mononuclear cells (PBMCs) were isolated by LymphoPrep density gradient centrifugation (ProGen Biotechnik GmbH, Germany). Monocytes were depleted from the LymphoPrep gradient fraction by allowing cells to adhere to a sterile plastic surface for approximately 1–2 hours at 37°C. Depletion of T-lymphocytes was carried out using 100 μl of Dynabeads pan CD2 (Dynal, Life Technologies, Grand Island, NY). Cells were incubated with prewashed beads for 30 min at 4°C while rotating. T-cells were depleted using the DynaMag as a magnetic retrieval device according to the manufacturer’s protocol. The unbound, negatively selected, highly purified B-cell populations were recovered by aspiration and used for functional assays. FACS analysis confirmed non-B-cell depletion and verified that the recovered cell population contained >90% B-lymphocytes. All cells were maintained in suspension in RPMI 1640 medium supplemented with 10% fetal bovine serum (Denville Scientific, Denville, NJ) and 1% Penicillin/Streptomycin (Invitrogen, Carlsbad, CA) at 37°C in a 5% CO2 humidified incubator.
Reagents and drug treatments
MI-219 (Ascenta Therapeutics, Malvern, PA) was synthesized using methods previously published [59, 60]. Disulfiram (a RING-finger ubiquitin E3 ligase inhibitor), Nutlin-3 (Sigma Aldrich, St. Louis, MO), its 150-times less active enantiomer (+)-Nutlin-3b (Cayman Chemical, Ann Arbor, MI), and MI-219 were dissolved in 100% DMSO as 10 mM stock solution. The proteasomal inhibitor, MG132 (Cayman Chemical) and cycloheximide (Sigma) were dissolved in 100% DMSO as 100 mM stock solution. Reagents were further diluted in sterile water immediately prior to adding to cultures to obtain the desired final concentration.
Identification of p53 status
p53 cDNA sequencing was used to identify the p53 status of the patient samples. Genomic DNA was extracted from approximately 1 × 106 purified B-lymphocytes recovered from each patient sample using a ZR-Duet™ DNA/RNA MiniPrep kit (Zymogen Biotech). Samples were quantitated by UV absorption at 260 nm and 200 ng was used in each PCR amplification reaction. Two primer sets were used to amplify p53 coding exons 5–9 as previously described [26, 61]. These exons have been identified as the DNA-binding region which contains approximately 90% of all known p53 mutations . Amplified cDNA PCR products were analyzed by agarose gel electrophoresis and purified using Wizard SV Gel/PCR Cleanup kit (Promega, Madison, WI). Two primers, one from each primer set, and 200 ng of the PCR products were sent to GeneWiz, Inc. (South Plainfield, NJ) for DNA sequencing. cDNA sequences were analyzed for p53 mutations by comparing the obtained sequences to BLAST wt-p53 coding sequence: NCBI Reference Sequence: NM_000546.4.
Characteristics of the patient’s lymphoma were made available through the Lymphoma Clinic at (St. John’s Hospital) and FISH analyses of chromosomal re-arrangements were provided by Dr. Steve Buck at Children’s Hospital of Michigan Flow Cytometry Core.
Cell viability assays
Cell lines and patient derived cells were seeded at a density of 2 x 105/ml and allowed to adapt overnight before being exposed to varying concentrations of Nutlin-3 or MI-219 the following day. Control cells were treated with equal volume of DMSO for a final concentration of 0.1%. 3-(4, 5-dimethylthiazol-2-yl)-2, 5-diphenyl-tetrazolium bromide (MTT) reagent (Sigma) was added 24, 48 or 72 hours later to halt reactions and monitor cell viability in cell lines. Purple formazan crystals were solubilized in DMSO and absorbance was read in a plate reader at 540 nM.3-(4, 5-dimethylthiazol-2-yl)-2, 5-diphenyl-tetrazolium bromide (MTT) reagent (Sigma) was added 24, 48 or 72 hours later to halt reactions and monitor cell viability in cell lines. Purple formazan crystals were solubilized in DMSO and absorbance was read in a plate reader at 540 nM. Cell viability was also determined at for patient samples using Trypan Blue (0.4%; Sigma) Exclusion. The IC50 was assessed as 50% inhibitory concentration compared to vehicle-treated (control). Data are represented as Mean ± SE. of at least three independent experiments performed in duplicate for each cell line.
Biostatistical analyses assessing percent survival of patient tumor samples were replicated for a minimum of 2 and a maximum of 6 times for each patient at each drug, dose, and time point. Cell survival for the cumulative patient cohort ranged from 0% to 100%. The quantile-quantile plot for patient samples indicated that the observed data had a longer right tail than would be expected if the data were normally distributed. Nonetheless, a mixed effects analysis of variance was used because the violation was not outrageously extreme and because no better alternative could be found given the experimental design. In the mixed effects model drug, concentration and time were defined as fixed effects; patient and replication were defined as random effects. Holm’s procedure was used to adjust for multiple comparisons.
cDNA preparation and quantitative real-time PCR to detect the induction of p53-target genes
Total RNA was extracted from treated and control lymphoma cells using the PureLink™ RNA Mini Kit (Invitrogen). Total RNA was quantified by NanoDrop and 1 μg of each sample was reverse-transcribed using the SuperScript® VILO™ cDNA synthesis kit according to the manufacurer’s instructions (Invitrogen). The resulting cDNA preparations were then cleaned of excess enzyme with Wizard SV Gel/PCR Cleanup kit (Promega). Real time PCR amplifications were conducted in a 10 μl reaction volume using the Roche LightCycler® 480 SYBR Green I Master (Roche, Pleasanton, CA) according to manufacturer’s protocol. 100 ng cDNA samples were used for each reaction and mixed with Quanti Tect Primers (Qiagen) to amplify p53, HDM2, p21, p53AIP1 using GAPDH as the internal standard. Qiagen priority patened primer sequences verified and standardized for specific gene products were those supplied with Qiagen Tect sets; (http://www.qiagen.com). Reactions were carried out in a 384-well microtiter plate using the LightCycler® 480 System (Roche). Two independent drug treatments per sample were performed in triplicate and each reaction was repeated at least once to ensure accuracy. The PCR cycle number at threshold (CT) was used for the comparison. Baseline gene expression and gene expression post treatment were quantified by qRT-PCR relative to GAPDH using the ΔΔCt method and expressed as fold induction of gene expression relative to that in the untreated control . Values represent mean ± SE of two independent experiments performed in triplicate. Statistical analyses were performed by two-way ANOVA using GraphPad Prism v. 4.0.
Treated cells were collected by centrifugation, washed twice with sterile PBS, and solubilized in M-PER lysis buffer (ThermoScientific, Rockford, IL) consisting of a cocktail of protease and phosphatase inhibitors (ThermoScientific). The concentration of total cell lysate was quantified by BCA protein method (Pierce; Thermo Scientific). Cellular lysates (50 μg of protein) were fractionated onto 14% or 4-20% Tris-Glycine SDS-PAGE gels, transferred onto PVDF membrane, and probed with primary antibodies to p53 (DO-1; Santa Cruz Biotechnology, Inc, Santa Cruz, CA), HDM2 (AF1244; R and D Systems, Minneapolis, MN); p21 (2947), cleaved PARP (5625), cleaved caspase-3 (9664) and ubiquitin (3936) from Cell Signaling Technology, Danvers, MA, with GAPDH (Trevigen, Gaithersburg, MD) as the internal control. Secondary antibodies were anti-mouse or anti-rabbit conjugated to HRP (Jackson ImmunoResearch). Proteins were visualized using chemiluminescence substrate reagents.
For statistical analyses of data for primary lymphoma cells, relative density was selected as the endpoint. It was defined as the ratio of the absolute density for a given protein treated with a given drug, at a given concentration, for a specific time, for a specific patient to the absolute density of GAPDH under the same conditions. Fixed effects linear models were used with drugs, Nutlin-3 and MI-219 concentrations, proteins, and time as fixed effects and patient as the random effect. Evaluation of the shape of the frequency distribution of relative density indicated that a natural log transformation was required to meet the assumptions of the statistical tests. Holm’s procedure was used to adjust for multiple comparisons.
Cell-free HDM2 autoubiquitination assay
Cell free autoubiquitination assays were performed using 200 ng of recombinant His-HDM2 in the presence or absence of E2-conjugatng enzyme, UbcH5b, recombinant human E1 (Boston Biochem, Cambridge, MA), in the presence or absence of HDM2 SMIs. Final concentration of drug was IC50 or 50 μM for Nutlin-3, MI-219, and MI-319 diluted in 30 μL reaction volume. Disulfiram (10 μM), an ubiquitin E3 ligase inhibitor was used as a control. Samples were incubated for 1.5 hours at 30°C. The reaction was stopped with the addition of 10 μl of 3X SDS loading dye, boiled for 5 minutes, separated on a 4-20% Tris-Glycine gradient gel (Invitrogen), and then immunoblotted with anti-ubiquitin antibody.
WSU-FSCCL or KM-H2 cells were treated with Nutlin-3 or MI-219 for specified period of time, harvested and lysed as described above. Total cellular lysate (1 mg) was incubated with 5 μg primary antibody overnight (a 1: 1 ratio of HDM2 antibodies SMP-14 and D-12, Santa Cruz) rotating at 4°C (SMP-14 is known to detect the 60 kDa degraded product of HDM2). The following day, Protein G agarose beads (Millipore) were added to each sample and incubated at 4°C for an additional 4 hours. Agarose bead-linked antibody: antigen complexes were collected by centrifugation, washed 3 times with 1× PBS prior to the addition of 3× SDS-PAGE loading dye, denatured at 95°C for 5 min, and centrifuged briefly. The solubilized immunoprecipitates were separated on a 4-20% Tris-Glycine gradient gel and immunoblot (IB) with HDM2 polyclonal antibody (AF1244). Ubiquitin antibody was used for co-immunoprecipitation.
Data analysis and statistical significance
Statistical analyses were performed by two-way ANOVA unpaired two-tailed GraphPad Prism v. 4.0 or unpaired two-tailed t test using Microsoft Excel. ImageJ densitometry software (Version 1.45, US National Institutes of Health) was used for quantification of Western blot bands. Selected bands were quantified based on their relative integrated intensities, calculated as the product of the selected pixel area and the mean gray value for those pixels normalized to internal control (GAPDH). Fold increase or decrease was calculated by standardizing each treatment as a ratio to the control. Additional data analysis and statistical methods are described in different sections of the Materials and Methods above. Statistical significance was set at p < 0.05 for all data comparisons.
Grant support: Ruth L. Kirschstein National Research Service Award T32-CA009531 (A. M. Sosin).
Chronic lymphocytic leukemia
Human Double Minute 2
p53 apoptosis-inducing protein 1
Peripheral blood mononuclear cells
The authors wish to thank Alden Wong and Dr. Jessica Back at the Karmanos Cancer Institute Flow Cytometry Core Facility for running the flow cytometric experiments. Appreciation is also extended to Dr. Larry Matherly at the Karmanos Cancer Institute for the use of qRT-PCR instrumentation. This work was graciously supported by an award from the Ruth L. Kirschstein National Research Service (T32-CA009531) to A.M. Sosin.
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