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Molecular Biology and Genetics |
Department of Pathology [Y. R. C., Hy. K., H. J. K., N-G. K., J. J. K., Ho. K.], Brain Korea 21 Projects for Medical Sciences [Y. R. C., Hy. K., H. J. K.], Laboratory Medicine [H. O. K.], Yonsei Proteome Research Center [K-S. P., Y-K. P.], and Cancer Metastasis Research Center [N-G. K., Ho. K.], Yonsei University College of Medicine, 120-752 Seoul, Korea
| ABSTRACT |
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| INTRODUCTION |
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Among the molecular genetic changes reported to be related to GISTs, gain-of-function mutations of the KIT proto-oncogene are the most frequent and important (3, 4, 5) . KIT encodes a type III receptor kinase (6) , the ligand of which is stem cell factor (7) . Mutations in KIT result in ligand-independent kinase activity and autophosphorylation of KIT (8 , 9) . The KIT mutation is known to be present in 3092% of GISTs (5 , 10, 11, 12) . Mutations are reported to be most frequent in exon 11 and rare in exons 9 and 13. Deletions, insertions, and point mutations have been reported, and mutations of exon 11 and exon 13 were reported to be gain-of-function mutations (3 , 5 , 11) . Recent studies have also demonstrated that STI571, an inhibitor of tyrosine kinase, was effective at treating GISTs (13) .
Although there is much experimental and clinical evidence that gain-of-function mutations of KIT evoke uncontrolled cell proliferation and stimulate downstream signaling pathways, the specific downstream pathways related to tumor development and/or progression of GISTs and the target molecules have not been elucidated. We, therefore, carried out a proteomic study on 20 GISTs and compared the results with respect to the KIT mutation status.
| MATERIALS AND METHODS |
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Conventional pathological parameters (tumor size, number, differentiation) were examined prospectively without prior knowledge of the molecular data. The GISTs were divided into three groups according to the criteria of Lewin et al. (1)
. The guidelines for the diagnosis of gastric stromal tumor malignancy are composed of two unequivocal factors (histologically confirmed metastasis and invasion of adjacent organs) and seven high-risk factors (larger than 5.5 cm in diameter; more than five mitoses per 50 high power fields; presence of tumor necrosis; nuclear pleomorphism; dense cellularity; microscopic invasion into the lamina propria or blood vessels; and the presence of alveolar or cell balls). Tumors having more than one unequivocal or two high-risk features were categorized as malignant GISTs, tumors having only one high-risk feature were categorized as borderline GISTs, and tumors having neither unequivocal nor high-risk features were categorized as benign GISTs. According to these criteria, 4 cases were categorized as benign, 10 cases as borderline, and 6 cases as malignant GIST (Table 1)
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KIT Mutation Analysis.
Somatic mutations in exons 9, 11, 13, and 17 of KIT were detected using PCR-based assay with previously described primers (5
, 10 , 11)
. PCR was carried out in a mixture of 20 µl containing 1.5 mM MgCl2; 20 pmol of primer; 0.2 mM each dATP, dGTP, and dTTP; 5 µM dCTP; 1 µCi of [
-32P]dCTP (3000 Ci/mmol; DuPont New England Nuclear, Boston, MA); 50 ng of sample DNA; 1x PCR buffer; and 1.25 units of Taq DNA polymerase (Life Technologies, Inc., Grand Island, NY). After denaturation at 95°C for 5 min, DNA amplification was performed for 2530 cycles. Each cycle consisted of denaturation at 95°C for 30 s, primer annealing at 55°C for 30 s, and elongation at 72°C for 15 s. PCR products were separated in 6% polyacrylamide gels, followed by autoradiography for single-strand conformational polymorphism analysis. The PCR products were also sequenced using an ABI Prism 310 Genetic Analyzer (Applied Biosystems, Foster City, CA).
Two-Dimensional Electrophoresis.
GIST tissues were suspended in sample buffer containing 40 mM Tris, 7 M urea, 2 M thiourea, 4% 3-[(3-Cholamidopropyl)dimethylammonio]-1-propane sulfonate (CHAPS), 100 mM 1,4-dithioerythritol, and protease inhibitor cocktail (Roche, Mannheim, Germany). Suspensions were sonicated for
30 s and centrifuged at 100,000 x g for 45 min. One mg of total GIST protein was used for each electrophoresis. Aliquots of proteins in sample buffer were applied onto immobilized pH 310 nonlinear gradient strips (Amersham Pharmacia Biotech, Uppsala, Sweden). Isoelectric focusing was conducted at 80,000 Vh. The second-dimension electrophoresis was carried out in 916% linear gradient polyacrylamide gels (18 cm x 20 cm x 1.5 mm) as described previously (15)
. After protein fixation in 40% methanol and 5% phosphoric acid for 12 h, gels were stained with Coomassie Blue G250 for 24 h. Gels were destained with H2O and scanned in a Bio-Rad G710 densitometer, and data were converted into electronic files, which were then analyzed with Melanie III computer software (GenBio, Geneva, Switzerland).
Identification of Protein Spots.
For mass spectrometry fingerprinting, protein spots were directly cut out of the gels, destained, and treated with trypsin. Aliquots of the peptide mixtures obtained from trypsin treatment were applied onto a target disk and allowed to air-dry. Spectra were obtained using a Voyager DE PRO MALDI-TOF spectrometer (Applied Biosystems, Foster City, CA). Protein database searching was performed with MS-Fit5
using monoisotopic peaks. A mass tolerance was first allowed within 50 ppm, and then recalibration was performed at 20 ppm after obtaining the protein lists.
Western Blot Analysis.
For Western blot analysis, tumor tissues and matched nontumorous smooth muscle tissues were suspended in ice-cold lysis buffer [50 mM Tris (pH 7.4), 1% Triton X-100, 5 mM EDTA, 1 mM KCl, 140 mM NaCl, 2 mM MgCl2, 1 mM phenylmethylsulfonyl fluoride, 1 mM sodium fluoride, 1% aprotinin, 1 uM leupeptin, and 1 mM sodium orthovanadate] for 15 min. Suspensions were sonicated for
30 s and centrifuged at 20,000 x g for 15 min. For nuclear and cytoplasmic protein fractionation, five GISTs (three GISTs with KIT mutation and two GISTs without KIT mutation) that had sufficient amounts of tissue for preparation of tissue lysates were selected. Nuclear and cytoplasmic extracts were prepared as described previously (16
, 17)
. Approximately 0.3 g of frozen tissue was added to a cryogenic vial containing 1 ml of buffer A [10 mM HEPES (pH 7.9), 10 mM KCl, 0.1 mM EDTA, 0.1 mM EGTA, 1 mM DTT, and 0.5 mM phenylmethylsulfonyl fluoride], and homogenized. The cells were allowed to swell on ice for 15 min, after which 50 µl of 10% NP40 were added. After vigorous vortexing for 10 s, the homogenate was centrifuged for 30 s. The supernatant was collected and used for cytoplasmic protein assay. The pellet was resuspended in 100 µl of ice-cold buffer C [20 mM HEPES (pH 7.9), 0.4 M NaCl, 1 mM EDTA, 1 mM EGTA, 1 mM DTT, and 1 mM phenylmethylsulfonyl fluoride] and shaken at 4°C for 15 min on a shaking platform. After being centrifuged for 5 min at 4°C, the supernatant was collected and used for nuclear protein assay. Twenty µg of total protein lysates and cytoplasmic extracts and 5 µg of nuclear protein extracts were loaded into each lane, size-fractionated by SDS-PAGE, and transferred to a polyvinylidene difluoride membranes that were blocked with Tris-buffered saline-Tween 20 containing 5% skim milk. Primary antibodies, KIT (C-19, polyclonal; Santa Cruz Biotech, Santa Cruz, CA), HMGB1 (polyclonal; BD Biosciences, Franklin Lakes, NJ), MMP2 (425D11, monoclonal; Calbiochem, Temecula, CA), glyceraldehyde-3-phosphate dehydrogenase (G3PDH; polyclonal; Trevigen, Gaithersburg, MD) were diluted 1:5000 in blocking buffer and incubated for 1 h at room temperature. After washing, membranes were incubated for 1 h with horseradish peroxidase-conjugated secondary antibody (Amersham Pharmacia Biotech), washed, and then developed with ECL-Plus (Amersham Pharmacia Biotech).
Immunohistochemical Analysis.
Formalin-fixed and paraffin-embedded tissues were used for the immunostaining of KIT and HMGB1. Deparaffinization and rehydration were performed using xylene and alcohol. The sections were treated with 0.3% hydrogen peroxidase for 3 min and with blocking antibody for 30 min. The same primary antibodies used for Western blotting were applied in immunohistochemistry. The antibody against KIT protein was applied at 1:1000 (v/v), whereas the antibody against HMGB1 was at 1:100 (v/v). Avidin-biotin complex methodology was used. The chromogen was diaminobenzidine, and counterstaining was done with methyl green. The evaluation of KIT was categorized as expressed and absent. The expression of HMGB1 was categorized as overexpressed and normal. Cases with definite nuclear staining in more than 30% of the tumor cells and/or cytoplasmic expression were categorized as overexpressed, and cases with definite nuclear staining in less than 30% of the tumor cells were categorized as normal.
| RESULTS |
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Two-Dimensional Electrophoresis Analysis of GISTs.
Proteome analysis was performed on GISTs by high-resolution two-dimensional electrophoresis. More than 1000 protein spots were detected on the two-dimensional electrophoresis gels and localized in the ranges of pI 310 and a relative molecular mass of 10200 kDa. We were able to identify more than 250 protein species in two-dimensional electrophoresis gels using MALDI-TOF spectrometry. Because matched normal tissues with the same histogenetic origin cannot be obtained in GISTs, we performed computer-assisted comparative analysis of the respective Coomassie Blue spot patterns of GISTs with and without KIT mutation or of benign and malignant GISTs. Accordingly, we found that HMGB1 [formerly named HMG1 (Ref. 18
; Fig. 1A
] was overexpressed in GISTs with KIT mutation.
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| DISCUSSION |
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Frequent mutations of KIT in GISTs had been reported by many laboratories (3 , 5 , 10 , 11) . In agreement with the previous reports, we found frequent mutations (14 of 20, 70%) in our GISTs. Most of the mutations were deletions (8 of 14, 57%) in exon 11, as has been previously reported. Exon 11 constitutes the juxtamembrane region of KIT, which serves as an antidimerization domain. Deletions, insertions, or point mutations in this domain result in the activation of tyrosine kinase activity by allowing ligand-independent receptor dimerization (8 , 9) . Recently germ-line and somatic point mutations of exon 13 (K642E) were reported and were found to be activating mutations in the kinase domain of KIT gene (11) . In this study, we provide direct evidence of KIT protein overexpression in all of our GISTs with KIT mutation. KIT overexpression in GISTs is a well-known characteristic, and is currently used as a diagnostic marker. Most of the previous studies regarding KIT expression in GISTs in human tissues were performed by using immunohistochemistry, and quantitative evaluations of KIT expression and comparisons between this and KIT mutations has not been performed. We applied Western blot by using fresh tumor samples, thus enabling relative quantification by Western blot, and we compared the results with KIT mutation data. We found that KIT overexpression was directly related to KIT mutation regardless of the mutation type. The ubiquitous KIT activation in GISTs by activating KIT mutation (12) and its roles have previously been suggested epidemiologically (10 , 12 , 20) . In addition, there have been a number of reports on the aberrant expression of KIT in other tumors (21, 22, 23) and on the relationship between KIT activation and the protection of apoptosis and the enhancement of tumor invasion (24) . On the basis of these reports, we suggest that mutations of exon 11 of KIT induce the overexpression and the constitutive activation of KIT, which subsequently plays a role in tumor transformation and progression.
Initially, this work was designed as part of our attempts to identify a set of protein biomarkers involved in the progression of malignant tumors by proteome analysis. We used GISTs for the following reasons: (a) there are well-defined diagnostic criteria for differentiating benign, borderline, and malignant tumors; (b) most GISTs show similar chromosomal, morphological, and immunohistochemical characteristics; and (c) there are high percentages of tumor cells in GIST. During the course of this work, we found that several proteins are overexpressed in GISTs with KIT mutation, and, thus, we focused on the cause and consequence of HMGB1 overexpression in GISTs with KIT mutation. The implications of our proteome analysis are at least 3-fold. The direct link between KIT mutation and HMGB1 expression should be regarded as a novel finding. We found HMGB1 expression in all 14 of the GISTs with KIT mutation, and 12 of these showed very strong expression by two-dimensional electrophoresis analysis. In GISTs without KIT mutation, HMGB1 was not expressed in four of six GISTs. Interestingly, two GISTs with insertion mutations in the distal portion of exon 11 of KIT showed low levels of HMGB1 expression. From these results, we suspect that the constitutive activity of KIT caused by these two insertion mutations in the distal portion of exon 11 would be milder than that caused by mutations in the proximal portion of the juxtamembrane domain. Although the number of inserted sequences is not identical to ours, similar insertional mutations at the same sites have been reported previously (12) , and further functional study of these two insertion mutations is needed.
We demonstrated that the tumor cells are the origin of overexpressed HMGB1 in our GISTs by immunohistochemical analysis. HMGB1 was abundantly expressed in the nuclei of the tumor cells and/or some of the tumor cell cytoplasms, and the expression was correlated with the result of two-dimensional electrophoresis and Western blot analysis. We also demonstrated marked variation of HMGB1 expression in colorectal carcinomas. Variations in HMGB1 expression at the RNA level had been reported in breast carcinomas (25) , gastric carcinomas (26) , and hepatocellular carcinomas (27) . Overexpression of HMGB1 and cisplatin resistance had been reported (28) , and the role of HMGB1 in the repair of cisplatin-DNA adduct had been proposed (28 , 29) . The marked intertumoral variation of HMGB1 expression level and the reported roles of HMGB1 in tissue differentiation and tumor progression raise the possibility that the roles of HMGB1 in tumor differentiation and progression may be different according to the HMGB1 expression level.
One of the important roles of the KIT mutation of GISTs in tumorigenesis may be the activation of signal transduction pathways of the cell cycle. In this study, we found that KIT, HMGB1, and MMP2 are concomitantly overexpressed in GISTs with KIT mutation, and, thus, HMGB1 and MMP2 may be downstream target molecules in GISTs with KIT mutation. HMGB1 was originally identified as a chromosomal DNA-binding protein (30) . Apart from this intranuclear function, HMGB1 was also shown to be localized in the extracellular medium of different cell types as matrix-bound and in soluble molecules (31) and to have an extracellular function in inflammation and tumor metastasis (19 , 32 , 33) . On the basis of the reported function of HMGB1, the role of HMGB1 overexpression in GIST tumorigenesis can be explained in two ways. First, overexpressed HMGB1 can influence the expression and function of several related genes. HMGB1 is mainly localized in the nucleus and interacts with several transcription factors, by binding to the minor groove of DNA (33) , increasing the binding affinity of several transcription factors, (34) and down-regulating the binding affinity of p53 and p73 in the human BAX promoter (35) . Thus, we suggest that the overexpression of HMGB1 can contribute to tumorigenesis by altering tumor suppressor gene function. Second, HMGB1 directly activates signal transduction pathways related to cellular proliferation and/or metastasis. In addition to its intracellular role, HMGB1 is also secreted and/or released by certain cells and plays important roles in tumor growth, invasion, and metastasis (19 , 33) . Secreted and/or released HMGB1 binds to receptor for advanced glycation end products (RAGE), as a receptor-ligand pair, and this complex activates several molecules, including mitogen-activated protein kinase (MAPK) signaling molecules and MMPs. The suppression of tumor growth and metastasis by blocking RAGE-amphoterin (synonym of HMGB1) complex in mice had been reported (19) . Therefore, it is likely that, after necrosis some of the overexpressed HMGB1 may exist in secreted forms or released forms that are capable of facilitating tumor growth and metastasis. Although we could not confirm that a portion of the HMGB1 in our GISTs was in a secreted form, we demonstrated the presence of HMGB1 by showing that MMP2 is selectively overexpressed according to HMGB1 expression in our GISTs. Taken together, our results suggest that KIT mutation in GISTs is strongly related to HMGB1 overexpression which may contribute to tumor growth and invasion.
| FOOTNOTES |
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1 Supported by grants of the 2001 Korean National Cancer Program, Ministry of Health and Welfare, Republic of Korea (to Ho. K.), Cancer Metastasis Research Center at Yonsei University (to Ho. K.), "21C Frontier Project: Functional Genomics of the Human Genome" (to Y-K. P., FG-1-4-01), and Adult Stem Cell No. 5 (to H. O. K.) from Stem Cell Research Center of the 21C Frontier Research Program funded by the Ministry of Science and Technology, Republic of Korea. ![]()
2 Y. R. C., Hy. K., and H. J. K. contributed equally to this work. ![]()
3 To whom requests for reprints should be addressed, at Department of Pathology, Yonsei University College of Medicine, CPO Box 8044, Seoul, Korea. Phone: 82-2-361-5263; Fax: 82-2-362-0860; E-mail: hkyonsei{at}yumc.yonsei.ac.kr ![]()
4 The abbreviations used are: GIST, gastrointestinal stromal tumor; KIT, v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homologue; HMGB1, high mobility group box 1; MALDI-TOF, matrix-associated laser desorption ionization mass spectrophotometry-time of flight; MMP, matrix metalloproteinase; pI, isoelectric point; ICC, interstitial cell(s) of Cajal; ppm, parts per million. ![]()
5 Internet address: http://prospector.ucsf.edu/ucsfhtml3.4/msfit.htm. ![]()
Received 7/24/02. Accepted 3/ 5/03.
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