Ligand-Dependent Platelet-Derived Growth Factor Receptor (PDGFR)-A Activation Sensitizes Rare Lung Cancer and Sarcoma Cells to PDGFR Kinase Inhibitors

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Ligand-Dependent Platelet-Derived Growth Factor Receptor (PDGFR)-A Activation Sensitizes Rare Lung Cancer and Sarcoma Cells to PDGFR Kinase Inhibitors Published OnlineFirst April 14, 2009; DOI: 10.1158/0008-5472.CAN-08-4327 Research Article Ligand-Dependent Platelet-Derived Growth Factor Receptor (PDGFR)-A Activation Sensitizes Rare Lung Cancer and Sarcoma Cells to PDGFR Kinase Inhibitors Ultan McDermott,1 Rachel Y. Ames,1 A. John Iafrate,2 Shyamala Maheswaran,1 Hannah Stubbs,2 Patricia Greninger,1 Kaitlin McCutcheon,1 Randy Milano,1 Angela Tam,1 Diana Y. Lee,1 Laury Lucien,1 Brian W. Brannigan,1 Lindsey E. Ulkus,1 Xiao-Jun Ma,3 Mark G. Erlander,3 Daniel A. Haber,1 Sreenath V. Sharma,1 and Jeffrey Settleman1 1Center for Molecular Therapeutics, Massachusetts General Hospital Cancer Center and Harvard Medical School, Charlestown, Massachusetts; 2Molecular Diagnostics Laboratory, Department of Pathology, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts; and 3AviaraDx, Inc., Carlsbad, California Abstract Introduction Platelet-derived growth factor (PDGF) receptors (PDGFR) and Sunitinib is a multitargeted tyrosine kinase inhibitor that their ligands play critical roles in several human malignan- potentlyinhibits vascular endothelial growth factor (VEGF), cies. Sunitinib is a clinically approved multitargeted tyrosine platelet-derived growth factor (PDGF), and c-KIT receptor kinases kinase inhibitor that inhibits vascular endothelial growth (1). In renal cell carcinoma, sunitinib showed superiorityover factor receptor, c-KIT, and PDGFR, and has shown clinical standard IFN-a therapy(2); sunitinib is now recommended for activity in various solid tumors. Activation of PDGFR previouslyuntreated patients with advanced renal cell carcinoma. signaling has been described in gastrointestinal stromal Sunitinib is also approved for treatment of imatinib-refractory tumors (PDGFRA mutations) as well as in chronic myeloid gastrointestinal stromal tumors (GIST), manyof which harbor leukemia (BCR-PDGFRA translocation), and sunitinib can activating c-KIT or PDGF receptor (PDGFR) kinase domain yield clinical benefit in both settings. However, the discovery mutations (3). A recent phase II clinical studyhas revealed efficacy of PDGFR activating mutations or gene rearrangements in of single-agent sunitinib in advanced non–small-cell lung cancer other tumor types could reveal additional patient populations (NSCLC) patients (4). Accumulating evidence indicates that who might benefit from treatment with anti-PDGFR therapies, inhibition of VEGF signaling using various antiangiogenic agents such as sunitinib. Using a high-throughput cancer cell line can suppress tumor growth and improve patient survival (2, 5, 6); screening platform, we found that only 2 of 637 tested human however, it is unclear from studies involving multikinase inhibitors, tumor-derived cell lines show significant sensitivity to single- such as sunitinib, as to the relative contribution of VEGF receptor agent sunitinib exposure. These two cell lines [a non–small- inhibition in suppressing tumor growth. cell lung cancer (NSCLC) and a rhabdomyosarcoma] showed The PDGFR/PDGF system includes two receptors (PDGFRA and expression of highly phosphorylated PDGFRA. In the suniti- PDGFRB) and four ligands (PDGFA, PDGFB, PDGFC, and PDGFD; nib-sensitive adenosquamous NSCLC cell line, PDGFRA ref. 7). Ligand binding induces receptor dimerization, enabling expression was associated with focal PFGRA gene amplifica- autophosphorylation of specific tyrosine residues and subsequent tion, which was similarly detected in a small fraction of recruitment of a varietyof signal transduction molecules (8). squamous cell NSCLC primary tumor specimens. Moreover, in PDGFR regulates normal cellular growth and differentiation (9), this NSCLC cell line, focal amplification of the gene encoding and expression of activated PDGFR promotes oncogenic transfor- the PDGFR ligand PDGFC was also detected, and silencing mation (10), suggesting that activating mutations or gene PDGFRA or PDGFC expression by RNA interference inhibited rearrangements could playa role in human tumorigenesis. in vitro in vivo proliferation. A similar codependency on PDGFRA and PDGFC Numerous and studies showed that inhibition of was observed in the sunitinib-sensitive rhabdomyosarcoma PDGFRA signaling disrupts cancer cell survival in the subset of PDGFRA cell line. These findings suggest that, in addition to GISTs with activating mutations (11, 12). In a recent study gastrointestinal stromal tumors, rare tumors that show of 150 NSCLC patient samples, activated PDGFRA was detected in PDGFC-mediated PDGFRA activation may also be clinically 13% of cases (13), suggesting that a subset of these patients might responsive to pharmacologic PDGFRA or PDGFC inhibition. benefit from therapies directed against PDGFRA. Moreover, [Cancer Res 2009;69(9):3937–46] PDGFRA overexpression has been observed in metastatic versus nonmetastatic medulloblastoma patient samples, and disrupting PDGFRA function inhibited the metastatic potential of medullo- blastoma cells in vitro (14). We recentlyreported the development of a high-throughput platform for profiling a large panel of human cancer cell lines with Note: Supplementarydata for this article are available at Cancer Research Online molecularlytargeted inhibitors to identifysubsets with significant (http://cancerres.aacrjournals.org/). Requests for reprints: JeffreySettleman, Center for Molecular Therapeutics, sensitivity(15). That analysisrevealed several examples of Massachusetts General Hospital Cancer Center and Harvard Medical School, 149 13th genotype-associated sensitivities to selective kinase inhibitors, Street, Charlestown, MA 02129. Phone: 617-724-9556; Fax: 617-726-7808; E-mail: showing the utilityof this strategyto reveal cell autonomous [email protected]. I2009 American Association for Cancer Research. tumor cell responses to anticancer agents. Here, we describe the doi:10.1158/0008-5472.CAN-08-4327 profiling of 637 cancer cell lines for sensitivityto single-agent www.aacrjournals.org 3937 Cancer Res 2009; 69: (9). May 1, 2009 Downloaded from cancerres.aacrjournals.org on September 26, 2021. © 2009 American Association for Cancer Research. Published OnlineFirst April 14, 2009; DOI: 10.1158/0008-5472.CAN-08-4327 Cancer Research sunitinib, using a monoculture format that precludes any additional wash in PBS/0.5% BSA, cells were stained with 10 Ag/mL contribution of drug effects on angiogenesis. Our studies revealed propidium iodide (Sigma) and treated with RNase A (Sigma) before two- that the majorityof tested cell lines are highlyrefractoryto dimensional fluorescence-activated cell sorting analysis using CellQuest sunitinib. Of the two cell lines showing sunitinib sensitivity, both software (Becton Dickinson). SNP and gene expression analyses. Gene copynumbers were were found to express high levels of PDGFRA and PDGFC mRNA determined as previouslydescribed using the GeneChip Human Mapping and phosphorylated PDGFRA protein. ShRNA knockdown of 250K. The arraywas then scanned on the GeneChip Scanner 3000 7G and PDGFRA was as effective as sunitinib in decreasing cell analyzed using GTYPE version 4.0 with the Dynamic Model Mapping proliferation in both cell lines, and targeting the PDGFC ligand Algorithm and the GeneChip Human Mapping 500K Set libraryfiles alone was similarlyeffective. (Mapping 250K_Nsp). Our findings suggest that whereas antiangiogenesis activity For gene expression studies, RNA was extracted using the Qiagen RNA probablyaccounts for the majorityof the clinical benefit associated easykit (P/N 74106) and amplified and biotin labeled with the Arcturus with sunitinib treatment in solid tumors, in rare cases, beyond RiboAmp RNA Amplification Kit using biotinylated ribonucleotides (Perkin- PDGFRA-mutant GISTs, activated PDGFRA maybe the critical Elmer PN Biotin-11-UTP, NEL543001EA/Biotin-11-CTP, NEL542001EA) in vitro target, and that selective PDGFRA inhibitors maybe useful in the during transcription. Labeled aRNA was hybridized to Affymetric GeneChip Human X3P (GPL1352) using protocols described within the clinical management of a subset of tumors that exhibit PDGFRA Affymetrix GeneChip Expression Analysis Technical Manual (PN701021 Rev. activation. Moreover, in tumors with evidence of PDGFC ligand 3). Data were acquired using the Affymetrix GeneChip 3000 Scanner with overexpression, neutralizing antibodies maybe an equallyeffective autoloader and 7G upgrade. GCOS ver 1.4 software was used to run the therapeutic modality. scanner and analyze the data. The expression value for each gene was calculated using Affymetrix GeneChip software and data were analyzed using dChip software4 (17). Probe sets were filtered using two criteria: (a) Materials and Methods coefficient of variation between 0.5 and 1,000 and (b) P call rate in arrays Human cancer cell lines and cell viability assays. Human cancer cell z20%. lines were obtained from commercial vendors and were maintained and Quantitative PCR. Total RNA was isolated and purified from cells using tested for viabilityusing an automated platform, as previouslydescribed STAT-60 (Tel-Test, Inc.). cDNA was transcribed from 2 Ag of total RNA using (15). Cells were treated for 72 h with 1 Amol/L sunitinib and then assayed the AffinityScript Multi Temperature cDNA Synthesis kit (Stratagene). for cytostatic or cytotoxic responses. We elected to use this concentration Quantitative PCR was done using the QuantiTect SYBR Green PCR kit based on steady-state plasma concentrations of f0.2 Amol/L at clinically (Qiagen) and with an ABI PRISM 7000 real-time cycler (Applied
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