Differential LC-MS-based proteomics of surgical human cholangiocarcinoma tissues

Journal of Proteome Research

Volumn 8, Issue 8, 2009, Pages 4092-4103

  Kawase, Hiroshi ^a,b   Fujii, Kiyonaga ^b   Miyamoto, Masaki ^a   Kubota, Kanako C ^c   Hirano, Satoshi ^a   Kondo, Satoshi ^a   Inagaki, Fuyuhiko ^b  

^a HOKKAIDO UNIVERSITY GRADUATE SCHOOL OF MEDICINE   (Japan)

^b HOKKAIDO UNIVERSITY   (Japan)

^c HOKKAIDO UNIVERSITY HOSPITAL   (Japan)

Author keywords

Biomarker; Cholangiocarcinoma; Immunohistochemistry; LC MS based proteomics; SILAC; Spectral counting; Surgical tissue specimen

Indexed keywords

ALPHA ACTININ 1; ALPHA ACTININ 4; CATHEPSIN B; DJ 1 PROTEIN;

ADULT; AGED; ARTICLE; BILE DUCT CARCINOMA; CANCER CELL; CLINICAL ARTICLE; CONTROLLED STUDY; FEMALE; HUMAN; HUMAN CELL; HUMAN TISSUE; IMMUNOBLOTTING; IMMUNOCHEMISTRY; LIQUID CHROMATOGRAPHY; MALE; MASS SPECTROMETRY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEOMICS; UPREGULATION;

ACTININ; AGED; BILE DUCT NEOPLASMS; BILE DUCTS, INTRAHEPATIC; CATHEPSIN B; CHOLANGIOCARCINOMA; CHROMATOGRAPHY, LIQUID; FEMALE; HELA CELLS; HUMANS; IMMUNOBLOTTING; IMMUNOHISTOCHEMISTRY; INTRACELLULAR SIGNALING PEPTIDES AND PROTEINS; ISOTOPE LABELING; MALE; MIDDLE AGED; NEOPLASM PROTEINS; ONCOGENE PROTEINS; PEPTIDE FRAGMENTS; PROTEOMICS; REPRODUCIBILITY OF RESULTS; TANDEM MASS SPECTROMETRY; TUMOR MARKERS, BIOLOGICAL; UP-REGULATION;

EID: 68549094624     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr900468k     Document Type: Article

References (48)

1. Shaib, Y.; El-Serag, H. B. The epidemiology of cholangiocarcinoma. Semin. Liver Dis. 2004, 24 (2), 115-125.
2. Khan, S. A.; Thomas, H. C.; Davidson, B. R.; Taylor-Robinson, S. D. Lancet 2005, 366 (949), 1303-1314.
3. Khan, S. A.; Taylor-Robinson, S. D.; Toledano, M. B.; Beck, A.; Elliott, P.; Thomas, H. C. Changing international trends in mortality rates for liver; biliary and pancreatic tumours. J. Hepatol. 2002, 37 (6), 806-813.
4. Bonney, G. K.; Craven, R. A.; Prasad, R.; Melcher, A. F.; Selby, P. J.; Banks, R. E. Circulating markers of biliary malignancy, opportunities in proteomics. Lancet Oncol. 2008, 9 (2), 149-158.
5. Zhou, G.; Li, H.; DeCamp, D.; Chen, S.; Shu, H.; Gong, Y.; Flaig, M.; Gillespie, J. W.; Hu, N.; Taylor, P. R.; Emmert-Buck, M. R.; Liotta, L. A.; Petricoin, E. F. 3rd.; Zhao, Y. 2D differential in-gel electrophoresis for the identification of esophageal scans cell cancer-specific protein markers. Mol. Cell. Proteomics 2002, 1 (2), 117-124.
6. Zangar, R. C.; Varnum, S. M.; Bollinger, N. Studying cellular processes and detecting disease with protein microarrays. Drug Metab. Rev. 2005, 37 (3), 473-487.
7. Janzi, M.; Odling, J.; Pan-Hammarström, Q.; Sundberg, M.; Lundeberg, J.; Uhlén, M.; Hammarström, L.; Nilsson, P. Serum microarrays for large scale screening of protein levels. Mol. Cell. Proteomics 2005, 4 (12), 1942-1947.
8. Uhlén, M.; Björling, E.; Agaton, C.; Szigyarto, C. A.; Amini, B.; Andersen, E.; Andersson, A. C.; Angelidou, P.; Asplund, A.; Asplund, C.; Berglund, L.; Bergström, K.; Brumer, H.; Cerjan, D.; Ekström, M.; Elobeid, A.; Eriksson, C.; Fagerberg, L.; Falk, R.; Fall, J.; Forsberg, M.; Björklund, M. G.; Gumbel, K.; Halimi, A.; Hallin, I.; Hamsten, C.; Hansson, M.; Hedhammar, M.; Hercules, G.; Kampf, C.; Larsson, K.; Lindskog, M.; Lodewyckx, W.; Lund, J.; Lundeberg, J.; Magnusson, K.; Malm, E.; Nilsson, P.; Odling, J.; Oksvold, P.; Olsson, I.; Oster, E.; Ottosson, J.; Paavilainen, L.; Persson, A.; Rimini, R.; Rockberg, J.; Runeson, M.; Sivertsson, A.; Sköllermo, A.; Steen, J.; Stenvall, M.; Sterky, F.; Strömberg, S.; Sundberg, M.; Tegel, H.; Tourle, S.; Wahlund, E.; Waldén, A.; Wan, J.; Wernérus, H.; Westberg, J.; Wester, K.; Wrethagen, U.; Xu, L. L.; Hober, S.; Pontén, F. A human protein atlas for normal and cancer tissues based on antibody proteomics. Mol. Cell. Proteomics 2005, 4 (12), 1920-1932.
9. Adkins, J. N.; Varnum, S. M.; Auberry, K. J.; Moore, R. J.; Angell, N. H.; Smith, R. D.; Springer, D. L.; Pounds, J. G. Toward a human blood serum proteome, analysis by multidimensional separation coupled with mass spectrometry. Mol. Cell. Proteomics 2002, 1 (12), 947-955.
10. Qian, W. J.; Jacobs, J. M.; Liu, T.; Camp, D. G. 2nd.; Smith, R. D. Advances and challenges in liquid chromatography-mass spectrometry-based proteomics profiling for clinical applications. Mol. Cell. Proteomics 2006, 5 (10), 1727-1744.
11. Lin, Y.; Dynan, W. S.; Lee, J. R.; Zhu, Z. H.; Schade, R. R. The current state of proteomics in GI oncology. Dig. Dis. Sci. 2009, 54 (3), 431-457.
12. Scarlett, C. J.; Saxby, A. J.; Nielsen, A.; Bell, C.; Samra, J. S.; Hugh, T.; Baxter, R. C.; Smith, R. C. Proteomic profiling of cholangiocarcinoma, diagnostic potential of SELDI-TOF MS in malignant bile duct stricture. Hepatology 2006, 44 (3), 658-666.
13. Kristiansen, T. Z.; Bunkenborg, J.; Gronborg, M.; Molina, H.; Thuluvath, P. J.; Argani, P.; Goggins, M. G.; Maitra, A.; Pandey, A. A proteomic analysis of human bile. Mol. Cell. Proteomics 2004, 3 (7), 715-28.
14. Chen, B.; Dong, J. Q.; Chen, Y. J.; Wang, J. M.; Tian, J.; Wang, C. B.; Zou, S. Q. Two-dimensional electrophoresis for comparative proteomic analysis of human bile. Hepatobiliary Pancreat. Dis. Int. 2007, 6 (4), 402-406.
15. Chen, C. Y.; Tsai, W. L.; Wu, H. C.; Syu, M. J.; Wu, C. C.; Shiesh, S. C. Diagnostic role of biliary pancreatic elastase for cholangiocarcinoma in patients with cholestasis. Clin. Chim. Acta 2008, 390 (1-2), 82-89.
16. Ishihama, Y.; Sato, T.; Tabata, T.; Miyamoto, N.; Sagane, K.; Nagasu, T.; Oda, Y. Quantitative mouse brain proteomics using culture-derived isotope tags as internal standards. Nat. Biotechnol. 2005, 23 (5), 617-621.
17. Liu, H.; Sadygov, R. G.; Yates, J. R. 3rd. A model for random sampling and estimation of relative protein abundance in shotgun proteomics. Anal. Chem. 2004, 76 (14), 4193-4201.
18. Lau, S. K.; Weiss, L. M.; Chu, P. G. Differential expression of MUC1; MUC2; and MUC5AC in carcinomas of various sites, an immunohistochemical study. Am. J. Clin. Pathol 2004, 122 (1), 61-69.
19. Matull, W. R.; Andreola, F.; Loh, A.; Adiguzel, Z.; Deheragoda, M.; Qureshi, U.; Batra, S. K.; Swallow, D. M.; Pereira, S. P. MUC4 and MUC5AC are highly specific tumour-associated mucins in biliary tract cancer. Br. J. Cancer 2008, 98 (10), 1675-1681.
20. Aishima, S.; Asayama, Y.; Taguchi, K.; Sugimachi, K.; Shirabe, K.; Shimada, M.; Sugimachi, K.; Tsuneyoshi, M. The utility of keratin 903 as a new prognostic marker in mass-forming-type intrahepatic cholangiocarcinoma. Mod. Pathol. 2002, 15 (11), 1181-1190.
21. Kristiansen, T. Z.; Harsha, H. C.; Grønborg, M.; Maitra, A.; Pandey, A. Differential membrane proteomics using 18O-labeling to identify biomarkers for cholangiocarcinoma. J. Proteome Res. 2008, 7 (11), 4670-1677.
22. Shimonishi, T.; Miyazaki, K.; Kono, N.; Sabit, H.; Tuneyama, K.; Harada, K.; Hirabayashi, J.; Kasai, K.; Nakanuma, Y. Expression of endogenous galectin-1 and galectin-3 in intrahepatic cholangiocarcinoma. Hum. Pathol. 2001, 32 (3), 302-310.
23. Ahn, E. Y.; Pan, G.; Oh, J. H.; Tytler, E. M.; McDonald, J. M. The combination of calmodulin antagonists and interferon-gamma induces apoptosis through caspase-dependent and -independent pathways in cholangiocarcinoma cells. Am. J. Pathol. 2003, 163 (5), 2053-2063.
24. Hayes, P. C.; May, L.; Hayes, J. D.; Harrison, D. J. Glutathione S-transferases in human liver cancer. Gut 1991, 32 (12), 1546-1549.
25. Kikuchi, S.; Honda, K.; Tsuda, H.; Hiraoka, N.; Imoto, I.; Kosuge, T.; Umaki, T.; Onozato, K.; Shitashige, M.; Yamaguchi, U.; Ono, M.; Tsuchida, A.; Aoki, T.; Inazawa, J.; Hirohashi, S.; Yamada, T. Expression and gene amplification of actinin-4 in invasive ductal carcinoma of the pancreas. Clin. Cancer Res. 2008, 14 (17), 5348-5356.
26. Fu, L.; Qin, Y. R.; Xie, D.; Chow, H. Y.; Ngai, S. M.; Kwong, D. L.; Li, Y.; Guan, X. Y. Identification of alpha-actinin 4 and 67 kDa laminin receptor as stage-specific markers in esophageal cancer via proteomic approaches. Cancer 2007, 110 (12), 2672-2681.
27. Honda, K.; Yamada, T.; Endo, R.; Ino, Y.; Gotoh, M.; Tsuda, H.; Yamada, Y.; Chiba, H.; Hirohashi, S. Actinin-4; a novel actin-bundling protein associated with cell motility and cancer invasion. J. Cell Biol. 1998, 140 (6), 1383-1393.
28. Craig, D. H.; Downey, C.; Basson, M. D. SiRNA-mediated reduction of alpha-actinin-1 inhibits pressure-induced murine tumor cell wound implantation and enhances tumor-free survival. Neoplasia 2008, 10 (3), 217-222.
29. Craig, D. H.; Haimovich, B.; Basson, M. D. Alpha-actinin-1 phosphorylation modulates pressure-induced colon cancer cell adhesion through regulation of focal adhesion kinase-Src interaction. Am. J. Physiol. Cell. Physiol. 2007, 293 (6), 1862-1874.
30. Vasseur, S.; Afzal, S.; Tardivel-Lacombe, J.; Park, D. S.; Iovanna, J. L.; Mak, T. W. DJ-1/PARK7 is an important mediator of hypoxia-induced cellular responses. Proc. Natl. Acad. Sci. U.S.A. 2009, 106 (4), 1111-1116.
31. Yuen, H. F.; Chan, Y. P.; Law, S.; Srivastava, G.; El-Tanani, M.; Mak, T. W.; Chan, K. W. DJ-1 could predict worse prognosis in esophageal squamous cell carcinoma. Cancer Epidemiol. Biomarkers Prev. 2008, 17 (12), 3593-3602.
32. Tian, M.; Cui, Y. Z.; Song, G. H.; Zong, M. J.; Zhou, X. Y.; Chen, Y.; Han, J. X. Proteomic analysis identifies MMP-9; DJ-1 and A1BG as overexpressed proteins in pancreatic juice from pancreatic ductal adenocarcinoma patients. BMC Cancer 2008, 8, 241.
33. Mort, J. S.; Buttle, D. J. Cathepsin B. Int. J. Biochem. Cell Biol. 1997, 29 (5), 715-720.
34. Hwang, J. H.; Lee, S. H.; Lee, K. H.; Lee, K. Y.; Kim, H.; Ryu, J. K.; Yoon, Y. B.; Kim, Y. T. Cathepsin B is a target of Hedgehog signaling in pancreatic cancer. Cancer Lett. 2009, 273 (2), 266-272.
35. Youssoufian, H.; McAfee, M.; Kwiatkowski, D. J. Cloning and chromosomal localization of the human cytoskeletal alpha-actinin gene reveals linkage to the beta-spectrin gene. Am. J. Hum. Genet. 1990, 47 (1), 62-71.
36. Lauffenburger, D. A.; Horwitz, A. F. Cell migration, a physically integrated molecular process. Cell 1996, 84 (3), 359-369.
37. Knudsen, K. A.; Soler, A. P.; Johnson, K. R.; Wheelock, M. J. Interaction of alpha-actinin with the cadherin/catenin cell-cell adhesion complex via alpha-catenin. J. Cell Biol. 1995, 130 (1), 67-77.
38. Honda, K.; Yamada, T.; Hayashida, Y.; Idogawa, M.; Sato, S.; Hasegawa, F.; Ino, Y.; Ono, M.; Hirohashi, S. Actinin-4 increases cell motility and promotes lymph node metastasis of colorectal cancer. Gastroenterology 2005, 128 (1), 51-62.
39. Yamagata, N.; Shyr, Y.; Yanagisawa, K.; Edgerton, M.; Dang, T. P.; Gonzalez, A.; Nadaf, S.; Larsen, P.; Roberts, J. R.; Nesbitt, J. C.; Jensen, R.; Levy, S.; Moore, J. H.; Minna, J. D.; Carbone, D. P. A training-testing approach to the molecular classification of resected non-small cell lung cancer. Clin. Cancer Res. 2003, 9 (13), 4695-4704.
40. Bonifati, V.; Rizzu, P.; Squitieri, F.; Krieger, E.; Vanacore, N.; van Swieten, J. C.; Brice, A.; van Duijn, C. M.; Oostra, B.; Meco, G.; Heutink, P. DJ-1(PARK7); a novel gene for autosomal recessive; early onset parkinsonism. Neurol. Sci. 2003, 24 (3), 159-160.
41. Nagakubo, D.; Taira, T.; Kitaura, H.; Ikeda, M.; Tamai, K.; Iguchi-Ariga, S. M.; Ariga, H. DJ-1; a novel oncogene which transforms mouse NIH3T3 cells in cooperation with ras. Biochem. Biophys. Res. Commun. 1997, 231 (2), 509-513.
42. Kim, R. H.; Peters, M.; Jang, Y.; Shi, W.; Pintilie, M.; Fletcher, G. C.; DeLuca, C.; Liepa, J.; Zhou, L.; Snow, B.; Binari, R. C.; Manoukian, A. S.; Bray, M. R.; Liu, F. F.; Tsao, M. S.; Mak, T. W. DJ-1; a novel regulator of the tumor suppressor PTEN. Cancer Cell 2005, 7 (3), 263-273.
43. Davidson, B.; Hadar, R.; Schlossberg, A.; Sternlicht, T.; Slipicevic, A.; Skrede, M.; Risberg, B.; Flørenes, V. A.; Kopolovic, J.; Reich, R. Expression and clinical role of DJ-1; a negative regulator of PTEN; in ovarian carcinoma. Hum. Pathol. 2008, 39 (1), 87-95.
44. Tillman, J. E.; Yuan, J.; Gu, G.; Fazli, L.; Ghosh, R.; Flynt, A. S.; Gleave, M.; Rennie, P. S.; Kasper, S. DJ-1 binds androgen receptor directly and mediates its activity in hormonally treated prostate cancer cells. Cancer Res. 2007, 67 (10), 4630-4637.
45. Yan, S.; Sameni, M.; Sloane, B. F. Cathepsin B and human tumor progression. Biol. Chem. 1998, 379 (2), 113-23.
46. Cao, L.; Taggart, R. T.; Berquin, I. M.; Moin, K.; Fong, D.; Sloane, B. F. Human gastric adenocarcinoma cathepsin B, isolation and sequencing of full-length cDNAs and polymorphisms of the gene. Gene 1994, 139 (2), 163-169.
47. Sloane, B. F.; Honn, K. V.; Sadler, J. G.; Turner, W. A.; Kimpson, J. J.; Taylor, J. D. Cathepsin B activity in B16 melanoma cells, a possible marker for metastatic potential. Cancer Res. 1982, 42 (3), 980-986.
48. Murnane, M. J.; Sheahan, K.; Ozdemirli, M.; Shuja, S. Stage-specific increases in cathepsin B messenger RNA content in human colorectal carcinoma. Cancer Res. 1991, 51 (4), 1137-1142.