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Molecular Oncology, Markers, Clinical Correlates |
1 Division of Molecular and Genomic Medicine, National Health Research Institutes, Departments 2 Pathology, 3 Cardio-Thoracic Surgery, 4 Hematology and Oncology, and 5 Thoracic Medicine, Chang-Gung Memorial Hospital, and 6 Institute of Genetics and Genome Research Center, National Yang-Ming University, Taipei, Taiwan
| ABSTRACT |
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Experimental Design: Mutational analysis of the kinase domain of EGFR coding sequence was done on 101 fresh frozen tumor tissues from patients without prior gefitinib treatment and 16 paraffin-embedded tumor tissues from patients treated with gefitinib. Detection of phosphorylated EGFR by immunoblot was also done on frozen tumor tissues.
Results: The 101 nonsmall cell lung cancer tumor specimens include 69 adenocarcinomas, 24 squamous cell carcinomas, and 8 other types of nonsmall cell lung cancers. Mutation(s) in the kinase domain (exon 18 to exon 21) of the EGFR gene were identified in 39 patients. All of the mutations occurred in adenocarcinoma, except one that was in an adenosquamous carcinoma. The mutation rate in adenocarcinoma was 55% (38 of 69). For the 16 patients treated with gefitinib, 7 of the 9 responders had EGFR mutations, and only 1 of the 7 nonresponders had mutations, which included a nonsense mutation. The mutations seem to be complex in that altogether 23 different mutations were observed, and 9 tumors carried 2 mutations.
Conclusions: Data from our study would predict a higher gefitinib response rate in lung adenocarcinoma patients in Chinese and, possibly, other East Asian populations. The tight association with adenocarcinoma and the high frequency of mutations raise the possibility that EGFR mutations play an important role in the tumorigenesis of adenocarcinoma of lung, especially in East Asians.
| INTRODUCTION |
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Recently, two research groups have discovered that EGFR mutations correlated with the clinical responsiveness to gefitinib in nonsmall cell lung cancer (23 , 24) . All of these mutations were within exons 18 through 21 of the kinase domain of EGFR. These mutations led to increased tyrosine kinase activity and conferred susceptibility to gefitinib. All of these mutations, except one, occurred in adenocarcinomas. The study by Paez et al. (24) also reported a much higher mutation rate in Japanese patients than in those from the United States (32% versus 3% for adenocarcinoma) and highest of all in Japanese women with adenocarcinoma (57%). These findings are highly correlated with the clinical characteristics known to be associated with a higher response rate to gefitinib (15 , 16) .
We have conducted mutational analysis of the EGFR gene from exons 18 to 21 in a series of 101 surgically resected nonsmall cell lung cancers with no prior chemotherapy or gefitinib treatment. We observed a high mutation rate of EGFR in the regions that have been reported to be associated with responsiveness to gefitinib. We also identified a range of new mutations that have not been reported previously. Additional mutational analysis of 16 patients with adenocarcinoma of lung treated with gefitinib also revealed mutations of EGFR in most of the responders.
| MATERIALS AND METHODS |
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For each specimen, frozen sections were done and stained with H&E first to exam the tumor proportion of the tissue. Only tumors with >50% of tumor component were sent forward for DNA extraction and sequence analysis. Immunoblot analysis was also carried out in most of the fresh tumor specimens to check whether there was autophosphorylation of EGFR. Complete clinical data including smoking history, clinical stage, pathological diagnosis, and follow-up status were obtained from medical records and reviewed by the physicians.
Formalin-Fixed Paraffin-Embedded Tumor Tissues from Patients Treated with Gefitinib
Tumor tissues obtained before the patients received any systemic treatment were collected retrospectively from patients treated with gefitinib. All of these tumors were formalin-fixed paraffin-embedded tissues from the Department of Pathology (Chang-Gung Memorial Hospital, Taipei, Taiwan). To minimize non-neoplastic tissue contamination, the tumor portion was selected and marked on the H&E stained tissue section slide first by a pathologist (Shiu-Feng Huang). Only the tumor portion was dissected from the unstained tissue section slides and sent for DNA extraction. The latter was done with DEXPAT (Takara Biomedical, Shiga, Japan) according to the manufacturers instructions.
Nucleotide Sequence Analysis
For mutational analysis of the kinase domain of EGFR coding sequence, exon 18, 19, 20, and 21 were amplified with four pairs of primers, specific to the flanking sequences of individual exon, and PCR amplicons were subjected to direct sequencing (the PCR primers and amplification procedures are shown in supplemental text and supplemental Tables 1 and 2 for frozen and paraffin-embedded tissue, respectively). Forward and reverse sequencing reactions were done with the same primers for PCR amplification and ABI BigDye Terminator kit v3.1 (Applied Biosystems, Foster City, CA) according to manufacturers instructions. Sequencing reactions were electrophoresed on an ABI3700 genetic analyzer. Sequence variations were determined by using Seqscape software (Applied Biosystems) with the EGFR reference sequence (NM_005228.3, National Center for Biotechnology Information). All of the sequence variations were confirmed by multiple, independent PCR amplifications and repeated sequencing reactions.
Immunoblot Analysis
Tumor and adjacent non-neoplastic tissues were homogenized in lysis buffer [50 mmol/L Tris (pH 7.4), 150 mmol/L NaCl, 1% Triton X-100, 0.5% sodium deoxycholate, 0.1% (w/v) SDS, 1 mmol/L dithiothreitol, 5 µg/mL leupeptine, 3 µg/mL aprotinin, 0.5 mmol/L phenylmethylsulfonylfluoride, and 1 mmol/L Na3VO4] with the MagNA Lyser Green Beads kit (Roche Applied Science, Mannheim, Germany). The extracts were centrifuged at 14,000 g to remove the tissue debris. One hundred micrograms of extracted protein were resolved by 8% SDS-PAGE, transferred to polyvinylidene difluoride membranes, and then subjected to immunoblot analyses with an antiphosphorylated EGFR monoclonal antibody (Chemicon, Temecula, CA) according to the manufacturers instructions. The expression level of EGFR was determined by an anti-EGFR antibody (Cell Signaling Technology, Inc., Beverly, MA), and an equal loading of extract was confirmed by immunoblotting with an anti-ßactin antibody (AC-15, Sigma, St. Louis, MO).
| RESULTS |
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In exon 18, four missense mutations (E709A, E709G, G719S, and G719C) were found, and each occurred in 1 tumor (Fig. 1, E and F)
. All four patients (Case 29, 30, 38, and 39) with a mutation in exon 18 had another mutation in exon 20 (S768I) or exon 21 (L858R).
In exon 20, 2 missense mutations and two in-frame duplications were found. The S768I mutation was found in 2 tumors (Case 38 and 39). The V769M mutation occurred in 1 tumor (Case 10). This tumor also had an in-frame deletion in exon 19. The two types of duplication patterns are shown in Fig. 2A
. Case 36 had a duplication of 12 bp from nucleotide 25305 to 2536 (Fig. 2B)
. The duplicated sequence spanned an intron-exon junction. Because this duplication involved the splice acceptor site of intron 19, reverse-transcriptase-PCR of the tumor RNA followed by sequencing was done. The result showed that the first splice acceptor site was used for the mutant form. The consequence was insertion of 4 amino acids (EAFQ) between codon 761 and 762 (Fig. 2C)
. Case 37 had a duplication of 9 bp at nucleotide 2549 to 2557, which resulted in insertion of 3 amino acids (SVD).
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We have additionally analyzed the entire exonic sequences of the EGFR gene in all 39 tumors with mutations and 38 other nonsmall cell lung cancers (31 adenocarcinomas, 4 squamous cell carcinoma, and 3 adenosquamous carcinoma) without mutations in the tyrosine kinase domain among our 101 patients. We found no additional mutation.
Formalin-Fixed Paraffin-Embedded Tumor Tissue from Patients Treated with Gefitinib
To ascertain the EGFR mutations within the tyrosine kinase domain are associated with responsiveness to gefitinib in Taiwanese lung cancer patients, we also did mutational study in tumors from 16 patients who had received gefitinib treatment as a single agent at Chang-Gung Memorial Hospital. A significant clinical response was defined according to the response evaluation criteria for global trial in solid tumors (25)
. Among them, 6 patients showed partial response to gefitinib, 2 patients had clinical benefit, 1 patient had serologic response, and 7 patients had no response. In total, 9 patients were considered as responders, and 7 patients were nonresponders. Mutations of EGFR were found in 7 of the 9 responders. The 2 responders with no mutations were the 2 patients with clinical benefit. Only 1 of the 7 nonresponders had mutations. The difference of the mutation rates between the responders and nonresponders is statistically significant (P = 0.041, by
2/Fishers exact tests). The clinical features and the results of mutational study are shown in Table 2
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A diagram showing all of the mutations and the amino acid sequence of the sequenced regions of EGFR discovered from the current study are shown in Fig. 3
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| DISCUSSION |
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We have taken a resequencing approach to detect directly any sequence variation in the exons and exon-intron junctions of the genomic region that encodes the kinase domain of EGFR. In total, 18 different mutations were observed in the 39 patients, and 12 of them have not been reported previously. The mutation spectrum covers deletion, duplication, and single-nucleotide substitution. Most of the mutations were within exons 19 or 21, which is a finding similar to the two previous reports (23 , 24) . All of the deletions were observed in exon 19, but we also identified known and new single-nucleotide substitutions in exon 18 and 21. In addition, we discovered new mutations (missense mutations and duplication) in exon 20. In nearly all of the cases, the mutation was acquired in the tumor tissue, as we did not detect mutation in the leukocyte of the same blood sample of the individual. Moreover, the mutations seem to be complex in that 7 tumors carried 2 mutations and that a homozygous mutational status was detected in 4 tumors. Among them, one (Case 30) had homozygous point mutations in both exon 18 and exon 21. These findings would suggest that the cancer cells might be accumulating multiple molecular events in the EGFR gene in these tumor specimens.
Recently, activating mutations in the EGFR gene have been reported to underline the response to chemotherapy with a kinase inhibitor, gefitinib. A much higher mutation rate was found in Japanese patients with adenocarcinoma. Our study revealed a high mutation rate in EGFR gene similar to that seen in Japanese patients. This result is highly consistent with an ethnical difference in the responsive rate to gefitinib as shown by clinical trials carried out in the United States, Japan, and Taiwan (15 , 19) . To ascertain the EGFR mutations within the tyrosine kinase domain are associated with responsiveness to gefitinib in Taiwanese lung cancer patients, we also did mutational analysis on tumors of 16 patients who had received gefitinib treatment. There were 9 responders and 7 nonresponders. All of the mutations in the tyrosine kinase domain except two were found in the responders. Among the 8 mutations found in 7 of the 9 responders, 5 were also found in our 101 fresh frozen tumor series and had been reported to be associated with gefitinib responsiveness by others (23 , 24) . There were 3 new mutations (del747_A750InsP, A839T, and K846R) found in the responders. Interestingly, we also found double mutations in 1 responder (both mutations have been reported to be associated with gefitinib responsiveness) and in 1 nonresponder. In the latter, a nonsense mutation (W731Stop) in exon 19 and 1 missense mutation (H773R) in exon 20 were found. Because the stop codon could have resulted in protein truncation and loss of EGFR function, it is understandable why this patient did not respond to gefitinib treatment.
Female patients with adenocarcinoma have been reported to be associated with a higher gefitinib response rate, especially in Japanese patients (16 , 21) . However, in our analysis of the 101 patients, we did not see significant difference in the EGFR mutation rate between male (18 of 33, 54.5%) and female patients (20 of 36, 55.5%) with adenocarcinoma, and the mutation patterns are also similar between the two groups. Of note, the report by Miller et al. (20) also found no significant difference in the response rate between male and female patients in their study of 139 patients. It remains to be determined whether gender might play a role in determining gefitinib treatment response in patients with EGFR mutation. We also found no significant difference in the smoking rate between adenocarcinoma patients with or without mutation.
By immunoblot analysis, we observed EGFR activation, as evidenced by increased EGFR phosphorylation in 26 of the 39 tumors (66.6%) with EGFR mutations. This result suggests that the EGFR mutations in these tumors may enhance their kinase activity. All of the new mutations identified in this study showed EGFR phosphorylation in at least one case, except Case 34, which was unique and had two missense mutations close to each other in exon 21. The functional change caused by these 2 mutations remains to be determined. For the 38 tumors without EGFR mutations, there were only 36.8% of tumors that had increased level of phosphorylated EGFR. As a whole, the EGFR kinase domain mutations seem to have a different effect on kinase activation. The functional significance of this finding requires additional investigation.
We have analyzed the entire exonic sequences of the EGFR gene in all of the 39 tumors with mutations and 38 other nonsmall cell lung cancers (31 adenocarcinomas, 4 squamous cell carcinoma, and 3 adenosquamous carcinoma) without mutations in the tyrosine kinase domain among our 101 patients. We found no additional mutation. Thus, the EGFR mutations in lung cancer seem to cluster in exons 18 to 21 in a predictable pattern. In the report of Lynch et al. (23) , they searched for the EGFR mutations in exon 19 and 21 in primary tumors from breast, colon, kidney, pancreas, brain, and a panel of 108 cancer-derived cell lines, and the result was totally negative. We also did not detect any mutation in exons 18 to 21 of EGFR in 30 pairs of tumor and nontumor liver tissues of hepatocellular carcinomas (data not shown). The tight association with adenocarcinoma and the recurrent pattern of EGFR mutations raise the possibility that these mutations play an important role in the tumorigenesis of adenocarcinoma of lung, especially in East Asians.
Finally, although the previous EGFR studies have revealed that the clinical response to gefitinib is associated with specific mutations in the EGFR kinase domain, and the finding is supportive of treatment selection based on molecular classification, it is still possible that not all of the patients with EGFR mutation will respond to gefitinib. The nonsense mutation found in 1 of the nonresponders in our series is a good example. Given the wide spectrum and complexity of EGFR mutations shown by this study, it will require additional analysis to investigate whether the new EGRF mutations discovered by this study also confer a similar beneficial effect with the gefitinib treatment. Nevertheless, data from our study would suggest that there should be a higher gefitinib response rate in lung adenocarcinoma patients in Chinese and, possibly, other East Asian populations.
| ACKNOWLEDGMENTS |
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| FOOTNOTES |
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The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked advertisement in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.
Note: Supplementary data for this article can be found at Clinical Cancer Research Online at http://clincancerres.aacrjournals.org.
Requests for reprints: Shih-Feng Tsai, Division of Molecular and Genomic Medicine, National Health Research Institutes, 128 Yen-Chiu-Yuan Road, Section 2, Taipei 115, Taiwan. Phone: 886-2-26534401, extension 6120; Fax: 886-2-27890484; E-mail: petsai{at}nhri.org.tw
Received 6/30/04; revised 9/26/04; accepted 10/14/04.
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