Characterization of the liver Tissue Interstitial Fluid (TIF) proteome indicates potential for application in liver disease biomarker discovery

Journal of Proteome Research

Volumn 9, Issue 2, 2010, Pages 1020-1031

  Sun, Wei ^a   Ma, Jie ^a   Wu, Songfeng ^a   Yang, Dong ^a   Yan, Yujuan ^a   Liu, Kehui ^a   Wang, Jinglan ^a   Sun, Longqin ^a   Chen, Ning ^a   Wei, Handong ^a   Zhu, Yunping ^a   Xing, Baocai ^b   Zhao, Xiaohang ^c   Qian, Xiaohong ^a   Jiang, Ying ^a   He, Fuchu ^a,d  

^a BEIJING INSTITUTE OF RADIATION MEDICINE   (China)

^b PEKING UNIVERSITY CANCER HOSPITAL AND INSTITUTE   (China)

^c CANCER HOSPITAL   (China)

^d FUDAN UNIVERSITY   (China)

Author keywords

Biomarker; Hepatocellular carcinoma; Liver; Plasma; Proteomics; Tissue interstitial fluid

Indexed keywords

BIOLOGICAL MARKER; GENE PRODUCT; PROTEIN; PROTEOME;

ANIMAL TISSUE; ARTICLE; CANCER PATIENT; COMPARATIVE STUDY; CONTROLLED STUDY; HUMAN; HUMAN CELL; INTERSTITIAL FLUID; ION TRAP MASS SPECTROMETRY; LIVER; LIVER CELL; LIVER CELL CARCINOMA; LIVER DISEASE; MEMBRANE VESICLE; MOUSE; NONHUMAN; PLASMA; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DETERMINATION; PROTEIN SECRETION; PROTEOMICS; SPECTROMETER; TIME OF FLIGHT MASS SPECTROMETRY; TISSUE INTERSTITIAL FLUID; TWO DIMENSIONAL GEL ELECTROPHORESIS; WESTERN BLOTTING;

ANIMALS; BIOLOGICAL MARKERS; BLOTTING, WESTERN; ELECTROPHORESIS, POLYACRYLAMIDE GEL; HUMANS; ISOELECTRIC POINT; LIVER; LIVER DISEASES; MICE; PROTEOME;

EID: 76149109783     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr9009172     Document Type: Article

References (64)

1. Jungermann, K.; Katz, N. Functional specialization of different hepatocyte populations. Physiol. Rev. 1989, 69 (3), 708-64.
2. Drucker, C.; Parzefall, W.; Teufelhofer, O.; Grusch, M.; Ellinger, A.; Schulte-Hermann, R.; Grasl-Kraupp, B. Non-parenchymal liver cells support the growth advantage in the first stages of hepatocarcinogenesis. Carcinogenesis 2006, 27 (1), 152-61.
3. Liotta, L. A.; Kohn, E. C. The microenvironment of the tumourhost interface. Nature 2001, 411 (6835), 375-9.
4. Hanash, S. Integrated global profiling of cancer. Nat. Rev. Cancer 2004, 4 (8), 638-44.
5. Mueller, M. M.; Fusenig, N. E. Friends or foessbipolar effects of the tumour stroma in cancer. Nat. Rev. Cancer 2004, 4 (11), 839-49.
6. Fidler, I. J. The pathogenesis of cancer metastasis: the 'seed and soil' hypothesis revisited. Nat. Rev. Cancer 2003, 3 (6), 453-8.
7. Coussens, L. M.; Werb, Z. Inflammation and cancer. Nature 2002, 420 (6917), 860-7.
8. Sedlaczek, P.; Frydecka, I.; Gabrys, M.; Van Dalen, A.; Einarsson, R.; Harlozinska, A. Comparative analysis of CA125, tissue polypeptide specific antigen, and soluble interleukin-2 receptor alpha levels in sera, cyst, and ascitic fluids from patients with ovarian carcinoma. Cancer 2002, 95 (9), 1886-93.
9. Rosty, C.; Christa, L.; Kuzdzal, S.; Baldwin, W. M.; Zahurak, M. L.; Carnot, F.; Chan, D. W.; Canto, M.; Lillemoe, K. D.; Cameron, J. L.; Yeo, C. J.; Hruban, R. H.; Goggins, M. Identification of hepatocarcinoma-intestine- pancreas/pancreatitis-associated protein I as a biomarker for pancreatic ductal adenocarcinoma by protein biochip technology. Cancer Res. 2002, 62 (6), 1868-75.
10. Anderson, N. L.; Polanski, M.; Pieper, R.; Gatlin, T.; Tirumalai, R. S.; Conrads, T. P.; Veenstra, T. D.; Adkins, J. N.; Pounds, J. G.; Fagan, R.; Lobley, A. The human plasma proteome: a nonredundant list developed by combination of four separate sources. Mol. Cell. Proteomics 2004, 3 (4), 311-26.
11. Faca, V. M.; Song, K. S.; Wang, H.; Zhang, Q.; Krasnoselsky, A. L.; Newcomb, L. F.; Plentz, R. R.; Gurumurthy, S.; Redston, M. S.; Pitteri, S. J.; Pereira-Faca, S. R.; Ireton, R. C.; Katayama, H.; Glukhova, V.; Phanstiel, D.; Brenner, D. E.; Anderson, M. A.; Misek, D.; Scholler, N.; Urban, N. D.; Barnett, M. J.; Edelstein, C.; Goodman, G. E.; Thornquist, M. D.; McIntosh, M. W.; DePinho, R. A.; Bardeesy, N.; Hanash, S. M. A mouse to human search for plasma proteome changes associated with pancreatic tumor development. PLoS Med. 2008, 5 (6), e123.
12. Celis, J. E.; Gromov, P.; Cabezon, T.;Moreira, J.M.; Ambartsumian, N.; Sandelin, K.; Rank, F.; Gromova, I. Proteomic characterization of the interstitial fluid perfusing the breast tumor microenvironment: a novel resource for biomarker and therapeutic target discovery. Mol. Cell. Proteomics 2004, 3 (4), 327-44.
13. Celis, J. E.; Moreira, J. M.; Cabezon, T.; Gromov, P.; Friis, E.; Rank, F.; Gromova, I. Identification of extracellular and intracellular signaling components of the mammary adipose tissue and its interstitial fluid in high risk breast cancer patients: toward dissecting the molecular circuitry of epithelial-adipocyte stromal cell interactions. Mol. Cell. Proteomics 2005, 4 (4), 492-522.
14. Berry, M. N.; Friend, D. S. High-yield preparation of isolated rat liver parenchymal cells: a biochemical and fine structural study. J. Cell Biol. 1969, 43 (3), 506-20.
15. Fleischer, S.; Kervina, M. Subcellular fractionation of rat liver. Methods Enzymol. 1974, 31 (Pt A), 6-41.
16. Li, D.; Li, J.; Ouyang, S.; Wu, S.; Wang, J.; Xu, X.; Zhu, Y.; He, F. An integrated strategy for functional analysis in large-scale proteomic research by gene ontology. Prog. Biochem. Biophys. 2005, 32 (11), 1026-9.
17. Lai, K. K.; Kolippakkam, D.; Beretta, L. Comprehensive and quantitative proteome profiling of the mouse liver and plasma. Hepatology 2008, 47 (3), 1043-51.
18. Pendas, A. M.; Zhou, Z.; Cadinanos, J.; Freije, J. M.; Wang, J.; Hultenby, K.; Astudillo, A.; Wernerson, A.; Rodriguez, F.; Tryggvason, K.; Lopez-Otin, C. Defective prelamin A processing and muscular and adipocyte alterations in Zmpste24 metalloproteinase-deficient mice. Nat. Genet. 2002, 31 (1), 94-9.
19. Kosak, S. T.; Skok, J. A.; Medina, K. L.; Riblet, R.; Le Beau, M. M.; Fisher, A. G.; Singh, H. Subnuclear compartmentalization of immunoglobulin loci during lymphocyte development. Science 2002, 296 (5565), 158-62.
20. Mootha, V. K.; Bunkenborg, J.; Olsen, J. V.; Hjerrild, M.; Wisniewski, J. R.; Stahl, E.; Bolouri, M. S.; Ray, H. N.; Sihag, S.; Kamal, M.; Patterson, N.; Lander, E. S.; Mann, M. Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell 2003, 115 (5), 629-40.
21. Da Cruz, S.; Xenarios, I.; Langridge, J.; Vilbois, F.; Parone, P. A.; Martinou, J. C. Proteomic analysis of the mouse liver mitochondrial inner membrane. J. Biol. Chem. 2003, 278 (42), 41566-71.
22. Taylor, S. W.; Fahy, E.; Zhang, B.; Glenn, G. M.; Warnock, D. E.; Wiley, S.; Murphy, A. N.; Gaucher, S. P.; Capaldi, R. A.; Gibson, B. W.; Ghosh, S. S. Characterization of the human heart mitochondrial proteome. Nat. Biotechnol. 2003, 21 (3), 281-6.
23. Nebl, T.; Pestonjamasp, K. N.; Leszyk, J. D.; Crowley, J. L.; Oh, S. W.; Luna, E. J. Proteomic analysis of a detergent-resistant membrane skeleton from neutrophil plasma membranes. J. Biol. Chem. 2002, 277 (45), 43399-409.
24. Bae, T. J.; Kim, M. S.; Kim, J. W.; Kim, B. W.; Choo, H. J.; Lee, J. W.; Kim, K. B.; Lee, C. S.; Kim, J. H.; Chang, S. Y.; Kang, C. Y.; Lee, S. W.; Ko, Y. G. Lipid raft proteome reveals ATP synthase complex in the cell surface. Proteomics 2004, 4 (11), 3536-48.
25. Wu, S.; Wan, P.; Li, J.; Li, D.; Zhu, Y.; He, F. Multi-modality of pI distribution in whole proteome. Proteomics 2006, 6 (2), 449-55.
26. Hu 1.0, a publicly available database. J. Proteome Res. 2010, 9 (1), 79-94.
27. Omenn, G. S.; States, D. J.; Adamski, M.; Blackwell, T. W.; Menon, R.; Hermjakob, H.; Apweiler, R.; Haab, B. B.; Simpson, R. J.; Eddes, J. S.; Kapp, E. A.; Moritz, R. L.; Chan, D. W.; Rai, A. J.; Admon, A.; Aebersold, R.; Eng, J.; Hancock, W. S.; Hefta, S. A.; Meyer, H.; Paik, Y. K.; Yoo, J. S.; Ping, P.; Pounds, J.; Adkins, J.; Qian, X.; Wang, R.; Wasinger, V.; Wu, C. Y.; Zhao, X.; Zeng, R.; Archakov, A.; Tsugita, A.; Beer, I.; Pandey, A.; Pisano, M.; Andrews, P.; Tammen, H.; Speicher, D. W.; Hanash, S. M. Overview of the HUPO Plasma Proteome Project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database. Proteomics 2005, 5 (13), 3226-45.
28. Shaltiel, S.; Schvartz, I.; Korc-Grodzicki, B.; Kreizman, T. Evidence for an extra-cellular function for protein kinase A. Mol. Cell. Biochem. 1993, 127-128, 283-91.
29. De Broe, M. E.; Wieme, R. J.; Logghe, G. N.; Roels, F. Spontaneous shedding of plasma membrane fragments by human cells in vivo and in vitro. Clin. Chim. Acta 1977, 81 (3), 237-45.
30. Taylor, D. D.; Black, P. H. Shedding of plasma membrane fragments. Neoplastic and developmental importance. Dev. Biol. 1986, 3, 33-57.
31. Dolo, V.; Ginestra, A.; Cassara, D.; Violini, S.; Lucania, G.; Torrisi, M. R.; Nagase, H.; Canevari, S.; Pavan, A.; Vittorelli, M. L. Selective localization of matrix metalloproteinase 9, beta1 integrins, and human lymphocyte antigen class I molecules on membrane vesicles shed by 8701-BC breast carcinoma cells. Cancer Res. 1998, 58 (19), 4468-74.
32. Dolo, V.; D'Ascenzo, S.; Violini, S.; Pompucci, L.; Festuccia, C.; Ginestra, A.; Vittorelli, M. L.; Canevari, S.; Pavan, A. Matrixdegrading proteinases are shed in membrane vesicles by ovarian cancer cells in vivo and in vitro. Clin. Exp. Metastasis 1999, 17 (2), 131-40.
33. Dolo, V.; Ginestra, A.; Ghersi, G.; Nagase, H.; Vittorelli, M. L. Human breast carcinoma cells cultured in the presence of serum shed membrane vesicles rich in gelatinolytic activities. J. Submicrosc. Cytol. Pathol. 1994, 26 (2), 173-80.
34. Taylor, D. D.; Black, P. H. Inhibition of macrophage Ia antigen expression by shed plasma membrane vesicles from metastatic murine melanoma lines. J. Natl. Cancer Inst. 1985, 74 (4), 859-67.
35. Dolo, V.; Adobati, E.; Canevari, S.; Picone, M. A.; Vittorelli, M. L. Membrane vesicles shed into the extracellular medium by human breast carcinoma cells carry tumor-associated surface antigens. Clin. Exp. Metastasis 1995, 13 (4), 277-86.
36. Ping, P.; Vondriska, T. M.; Creighton, C. J.; Gandhi, T. K.; Yang, Z.; Menon, R.; Kwon, M. S.; Cho, S. Y.; Drwal, G.; Kellmann, M.; Peri, S.; Suresh, S.; Gronborg, M.; Molina, H.; Chaerkady, R.; Rekha, B.; Shet, A. S.; Gerszten, R. E.; Wu, H.; Raftery, M.; Wasinger, V.; Schulz-Knappe, P.; Hanash, S. M.; Paik, Y. K.; Hancock, W. S.; States, D. J.; Omenn, G. S.; Pandey, A. A functional annotation of subproteomes in human plasma. Proteomics 2005, 5 (13), 3506-19.
37. Shin, B. K.; Wang, H.; Yim, A. M.; Le Naour, F.; Brichory, F.; Jang, J. H.; Zhao, R.; Puravs, E.; Tra, J.; Michael, C. W.; Misek, D. E.; Hanash, S. M. Global profiling of the cell surface proteome of cancer cells uncovers an abundance of proteins with chaperone function. J. Biol. Chem. 2003, 278 (9), 7607-16.
38. Jang, J. H.; Hanash, S. Profiling of the cell surface proteome. Proteomics 2003, 3 (10), 1947-54.
39. Feng, J. T.; Liu, Y. K.; Song, H. Y.; Dai, Z.; Qin, L. X.; Almofti, M. R.; Fang, C. Y.; Lu, H. J.; Yang, P. Y.; Tang, Z. Y. Heat-shock protein 27: a potential biomarker for hepatocellular carcinoma identified by serum proteome analysis. Proteomics 2005, 5 (17), 4581-8.
40. He, Q. Y.; Zhu, R.; Lei, T.; Ng, M. Y.; Luk, J. M.; Sham, P.; Lau, G. K.; Chiu, J. F. Toward the proteomic identification of biomarkers for the prediction of HBV related hepatocellular carcinoma. J. Cell Biochem. 2008, 103 (3), 740-52.
41. Sacco, R.; Leuci, D.; Tortorella, C.; Fiore, G.; Marinosci, F.; Schiraldi, O.; Antonaci, S. Transforming growth factor beta1 and soluble Fas serum levels in hepatocellular carcinoma. Cytokine 2000, 12 (6), 811-4.
42. Song, B. C.; Chung, Y. H.; Kim, J. A.; Choi, W. B.; Suh, D. D.; Pyo, S. I.; Shin, J. W.; Lee, H. C.; Lee, Y. S.; Suh, D. J. Transforming growth factor-beta1 as a useful serologic marker of small hepatocellular carcinoma. Cancer 2002, 94 (1), 175-80.
43. Tang, J.; Niu, J. W.; Xu, D. H.; Li, Z. X.; Li, Q. F.; Chen, J. A. Alteration of nuclear matrix-intermediate filament system and differential expression of nuclear matrix proteins during human hepatocarcinoma cell differentiation. World J. Gastroenterol. 2007, 13 (20), 2791-7.
44. Shi, Y. Y.; Wang, H. C.; Yin, Y. H.; Sun, W. S.; Li, Y.; Zhang, C. Q.; Wang, Y.; Wang, S.; Chen, W. F. Identification and analysis of tumour-associated antigens in hepatocellular carcinoma. Br. J. Cancer 2005, 92 (5), 929-34.
45. Qi, Y.; Chiu, J. F.; Wang, L.; Kwong, D. L.; He, Q. Y. Comparative proteomic analysis of esophageal squamous cell carcinoma. Proteomics 2005, 5 (11), 2960-71.
46. Sitek, B.; Luttges, J.; Marcus, K.; Kloppel, G.; Schmiegel, W.; Meyer, H. E.; Hahn, S. A.; Stuhler, K. Application of fluorescence difference gel electrophoresis saturation labelling for the analysis of microdissected precursor lesions of pancreatic ductal adenocarcinoma. Proteomics 2005, 5 (10), 2665-79.
47. Sun, W.; Xing, B.; Sun, Y.; Du, X.; Lu, M.; Hao, C.; Lu, Z.; Mi, W.; Wu, S.; Wei, H.; Gao, X.; Zhu, Y.; Jiang, Y.; Qian, X.; He, F. Proteome analysis of hepatocellular carcinoma by two-dimensional difference gel electrophoresis: novel protein markers in hepatocellular carcinoma tissues. Mol. Cell. Proteomics 2007, 6 (10), 1798-808.
48. Lim, S. O.; Park, S. J.; Kim, W.; Park, S. G.; Kim, H. J.; Kim, Y. I.; Sohn, T. S.; Noh, J. H.; Jung, G. Proteome analysis of hepatocellular carcinoma. Biochem. Biophys. Res. Commun. 2002, 291 (4), 1031-7.
49. Watashi, K.; Ishii, N.; Hijikata, M.; Inoue, D.; Murata, T.; Miyanari, Y.; Shimotohno, K. Cyclophilin B is a functional regulator of hepatitis C virus RNA polymerase. Mol. Cell 2005, 19 (1), 111-22.
50. Bini, L.; Magi, B.; Marzocchi, B.; Arcuri, F.; Tripodi, S.; Cintorino, M.; Sanchez, J. C.; Frutiger, S.; Hughes, G.; Pallini, V.; Hochstrasser, D. F.; Tosi, P. Protein expression profiles in human breast ductal carcinoma and histologically normal tissue. Electrophoresis 1997, 18 (15), 2832-41.
51. Ryo, A.; Uemura, H.; Ishiguro, H.; Saitoh, T.; Yamaguchi, A.; Perrem, K.; Kubota, Y.; Lu, K. P.; Aoki, I. Stable suppression of tumorigenicity by Pin1-targeted RNA interference in prostate cancer. Clin. Cancer Res. 2005, 11 (20), 7523-31.
52. Takezaki, E.; Murakami, S.; Nishibayashi, H.; Kagawa, K.; Ohmori, H. [A clinical study of complements as a marker of a hepatocellular carcinoma]. Gan No Rinsho 1990, 36 (12), 2119-22.
53. Tsai, J. F.; Tsai, J. H.; Chang, W. Y. Relationship of serum alphafetoprotein to circulating immune complexes and complements in patients with hepatitis B surface antigen-positive hepatocellular carcinoma. Gastroenterol. Jpn. 1990, 25 (3), 388-93.
54. Gminski, J.; Mykala-Ciesla, J.; Machalski, M.; Drozdz, M.; Najda, J. Immunoglobulins and complement components levels in patients with lung cancer. Rom. J. Intern. Med. 1992, 30 (1), 39-44.
55. Chen, Z.; Gu, J. Immunoglobulin G expression in carcinomas and cancer cell lines. FASEB J. 2007, 21 (11), 2931-8.
56. Hu, L.; Lau, S. H.; Tzang, C. H.; Wen, J. M.; Wang, W.; Xie, D.; Huang, M.; Wang, Y.; Wu, M. C.; Huang, J. F.; Zeng, W. F.; Sham, J. S.; Yang, M.; Guan, X. Y. Association of Vimentin overexpression and hepatocellular carcinoma metastasis. Oncogene 2004, 23 (1), 298-302.
57. Chahed, K.; Kabbage, M.; Ehret-Sabatier, L.; Lemaitre-Guillier, C.; Remadi, S.; Hoebeke, J.; Chouchane, L. Expression of fibrinogen E-fragment and fibrin E-fragment is inhibited in the human infiltrating ductal carcinoma of the breast: the two-dimensional electrophoresis and MALDI-TOF-mass spectrometry analyses. Int. J. Oncol. 2005, 27 (5), 1425-31.
58. Taketa, K.; Shimamura, J.; Ueda, M.; Shimada, Y.; Kosaka, K. Profiles of carbohydrate-metabolizing enzymes in human hepatocellular carcinomas and preneoplastic livers. Cancer Res. 1988, 48 (2), 467-74.
59. Eigenbrodt, E.; Basenau, D.; Holthusen, S.; Mazurek, S.; Fischer, G. Quantification of tumor type M2 pyruvate kinase (Tu M2-PK) in human carcinomas. Anticancer Res. 1997, 17 (4B), 3153-6.
60. Oremek, G. M.; Teigelkamp, S.; Kramer, W.; Eigenbrodt, E.; Usadel, K. H. The pyruvate kinase isoenzyme tumor M2 (Tu M2-PK) as a tumor marker for renal carcinoma. Anticancer Res. 1999, 19 (4A), 2599-601.
61. Torbenson, M.; Wang, J.; Choti, M.; Ashfaq, R.; Maitra, A.; Wilentz, R. E.; Boitnott, J. Hepatocellular carcinomas show abnormal expression of fibronectin protein. Mod. Pathol. 2002, 15 (8), 826-30.
62. Matsui, S.; Takahashi, T.; Oyanagi, Y.; Takahashi, S.; Boku, S.; Takahashi, K.; Furukawa, K.; Arai, F.; Asakura, H. Expression, localization and alternative splicing pattern of fibronectin messenger RNA in fibrotic human liver and hepatocellular carcinoma. J. Hepatol. 1997, 27 (5), 843-53.
63. Suer, S.; Baloglu, H.; Gungor, Z.; Sonmez, H.; Kokoglu, E. The distribution of tissue fibronectin and sialic acid in human breast cancer. Cancer Biochem. Biophys. 1998, 16 (1-2), 63-70.
64. Suer, S.; Sonmez, H.; Karaaslan, I.; Baloglu, H.; Kokoglu, E. Tissue sialic acid and fibronectin levels in human prostatic cancer. Cancer Lett. 1996, 99 (2), 135-7.