Global profiling of proteolytically modified proteins in human metastatic hepatocellular carcinoma cell lines reveals CAPN2 centered network

Proteomics

Volumn 12, Issue 12, 2012, Pages 1917-1927

  Shen, Chengpin ^a   Yu, Yanyan ^a   Li, Hong ^a   Yan, Guoquan ^a   Liu, Mingqi ^a   Shen, Huali ^a   Yang, Pengyuan ^a  

^a FUDAN UNIVERSITY   (China)

Author keywords

Biomarker; Hepatocellular carcinoma; Metastasis; Network; Proteolysis; Systems biology

Indexed keywords

ALPHA6 INTEGRIN; BETA4 INTEGRIN; CALPAIN 2; CATHEPSIN B; CATHEPSIN D; CYTOKERATIN 19; CYTOKERATIN 8; DNA DEPENDENT PROTEIN KINASE CATALYTIC; DNA TOPOISOMERASE; EZRIN; FIBRONECTIN; FN1 PROTEIN; HEAT SHOCK PROTEIN 90; HERMES ANTIGEN; LAMIN A; LAMIN C; LIPOCORTIN 2; NUCLEAR MITOTIC APPARATUS PROTEIN 1; NUCLEOLIN; PLECTIN 1; POLYPYRIMIDINE TRACT BINDING PROTEIN 1; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE INHIBITOR; RAN GTPASE ACTIVATING PROTEIN 1; SCATTER FACTOR RECEPTOR; SPECTRIN; TUMOR MARKER; UNCLASSIFIED DRUG; VIMENTIN;

AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; APOPTOSIS; ARTICLE; CARBOXY TERMINAL SEQUENCE; CELL MIGRATION; HUMAN; HUMAN CELL; IN VITRO STUDY; LIVER CELL CARCINOMA; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN EXPRESSION; WESTERN BLOTTING;

CALPAIN; CARCINOMA, HEPATOCELLULAR; CELL LINE, TUMOR; HUMANS; LIVER NEOPLASMS; MASS SPECTROMETRY; PEPTIDE FRAGMENTS; PROTEIN INTERACTION MAPS; PROTEOLYSIS; PROTEOME; PROTEOMICS; REPRODUCIBILITY OF RESULTS; TUMOR MARKERS, BIOLOGICAL;

EID: 84862993090     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.201200027     Document Type: Article

References (41)

1. Doucet, A., Butler, G. S., Rodriguez, D., Prudova, A., et al. Metadegradomics toward in vivo quantitative degradomics of proteolytic post-translational modifications of the cancer proteome. Mol. Cell. Proteomics 2008, 7, 1925-1951.
2. Dix, M. M., Simon, G. M., Cravatt, B. F., Global mapping of the topography and magnitude of proteolytic events in apoptosis. Cell 2008, 134, 679-691.
3. Lopez-Otin, C., Overall, C. M., Protease degradomics: a new challenge for proteomics. Nat. Rev. Mol. Cell Biol. 2002, 3, 509-519.
4. Niessen, S., Hoover, H., Gale, A. J., Proteomic analysis of the coagulation reaction in plasma and whole blood using PROTOMAP. Proteomics 2011, 11, 2377-2388.
5. Enoksson, M., Li, J. W., Ivancic, M. M., Timmer, J. C. et al., Identification of proteolytic cleavage sites by quantitative proteomics. J. Proteome Res. 2007, 6, 2850-2858.
6. Timmer, J. C., Enoksson, M., Wildfang, E., Zhu, W. et al., Profiling constitutive proteolytic events in vivo. Biochem. J. 2007, 407, 41-48.
7. McDonald, L., Robertson, D. H. L., Hurst, J. L., Beynon, R. J., Positional proteomics: selective recovery and analysis of N-terminal proteolytic peptides. Nat. Methods 2005, 2, 955-957.
8. Van Damme, P., Martens, L., Van Damme, J., Hugelier, K. et al., Caspase-specific and nonspecific in vivo protein processing during Fas-induced apoptosis. Nat. Methods 2005, 2, 771-777.
9. Puente, X. S., Sanchez, L. M., Overall, C. M., Lopez-Otin, C., Human and mouse proteases: a comparative genomic approach. Nat. Rev. Genet. 2003, 4, 544-558.
10. Streckfus, C., Bigler, L., Tucci, M., Thigpen, J. T., A preliminary study of CA15-3, c-erbB-2, epidermal growth factor receptor, cathepsin-D, and p53 in saliva among women with breast carcinoma. Cancer Invest. 2000, 18, 101-109.
11. Nisman, B., Biran, H., Heching, N., Barak, V. et al., Prognostic role of serum cytokeratin 19 fragments in advanced non-small-cell lung cancer: association of marker changes after two chemotherapy cycles with different measures of clinical response and survival. Brit. J. Cancer 2008, 98, 77-79.
12. Li, Y., Tian, B., Yang, J., Zhao, L. et al., Stepwise metastatic human hepatocellular carcinoma cell model system with multiple metastatic potentials established through consecutive in vivo selection and studies on metastatic characteristics. J. Cancer Res. Clin. Oncol. 2004, 130, 460-468.
13. Tian, J., Tang, Z., Ye, S., Establishment of a human hepatocellular carcinoma (HCC) cell line with high metastatic potential (MHCC97) and its biological characteristics. Zhonghua Zhongliu Zazhi 1998, 20, 405-407.
14. Li, Y., Tang, Z., Ye, S., Liu, Y. et al., Establishment of human hepatocellular carcinoma cell line with spontaneous pulmonary metastasis through in vivo selection. Zhonghua Yi Xue Za Zhi 2002, 82, 601-605.
15. Yu, Y. Y., Shen, H. L., Yu, H. X., Zhong, F. et al., Systematic proteomic analysis of human hepotacellular carcinoma cells reveals molecular pathways and networks involved in metastasis. Mol. Biosyst. 2011, 7, 1908-1916.
16. Mayampurath, A. M., Jaitly, N., Purvine, S. O., Monroe, M. E. et al., DeconMSn: a software tool for accurate parent ion monoisotopic mass determination for tandem mass spectra. Bioinformatics 2008, 24, 1021-1023.
17. Petyuk, V. A., Mayampurath, A. M., Monroe, M. E., Polpitiya, A. D. et al., DtaRefinery, a software tool for elimination of systematic errors from parent ion mass measurements in tandem mass spectra data sets. Mol. Cell. Proteomics 2010, 9, 486-496.
18. Hanahan, D., Weinberg, R. A., The hallmarks of cancer. Cell 2000, 100, 57-70.
19. Mantovani, A., CANCER inflaming metastasis. Nature 2009, 457, 36-37.
20. Demarchi, F., Schneider, C., The calpain system as a modulator of stress/damage response. Cell Cycle 2007, 6, 136-138.
21. Franco, S. J., Huttenlocher, A., Regulating cell migration: calpains make the cut. J. Cell Sci. 2005, 118, 3829-3838.
22. Lofvenberg, L., Backman, L., Calpain-induced proteolysis of beta-spectrins. FEBS Lett. 1999, 443, 89-92.
23. Jiang, X. H., Gillen, S., Esposito, I., Giese, N. A. et al., Reduced expression of the membrane skeleton protein beta1-spectrin (SPTBN1) is associated with worsened prognosis in pancreatic cancer. Histol. Histopathol. 2010, 25, 1497-1506.
24. Kitisin, K., Ganesan, N., Tang, Y., Jogunoori, W. et al., Disruption of transforming growth factor-beta signaling through beta-spectrin ELF leads to hepatocellular cancer through cyclin D1 activation. Oncogene 2007, 26, 7103-7110.
25. Dowling, P., Meleady, P., Dowd, A., Henry, M. et al., Proteomic analysis of isolated membrane fractions from superinvasive cancer cells. Biochim. Et Biophys. Acta-Proteins and Proteomics 2007, 1774, 93-101.
26. Bowyer, P. W., Simon, G. M., Cravatt, B. F., Bogyo, M., Global profiling of proteolysis during rupture of plasmodium falciparum from the host erythrocyte. Mol. Cell. Proteomics 2011, 10, 1-13.
27. Simon, G. M., Dix, M. M., Cravatt, B. F., Comparative assessment of large-scale proteomic studies of apoptotic proteolysis. Acs. Chem. Biol. 2009, 4, 401-408.
28. Djabali, K., Portier, M. M., Gros, F., Blobel, G., et al. Network antibodies identify nuclear laminin B as a physiological attachment site for peripherin intermediate filaments. Cell 1991, 64, 109-121.
29. Shoeman, R. L., Sachse, C., Höner, B., Mothes, E., et al. Cleavage of human and mouse cytoskeletal and sarcomeric proteins by human immunodeficiency virus type 1 protease. Actin, desmin, myosin and tropomyosin. Am. J. Pathol 1993, 142, 221-230.
30. Kruger, S., Haeckel, C., Buehling, F., Roessner, A., Inhibitory effects of antisense cathepsin B cDNA transfection on invasion and motility in a human osteosarcoma cell line. Cancer Res. 1999, 59, 6010-6014.
31. Ritonja, A., Popovic, T., Turk, V., Wiedenmann, K., et al. Amino-acid sequence of human-liver cathepsin-B. FEBS Lett. 1985, 181, 169-172.
32. Musil, D., Zucic, D., Turk, D., Engh, R. A. et al., The refined 2.15-A X-ray crystal-structure of human liver cathepsin-B - the structural basis for its specificity. EMBO J. 1991, 10, 2321-2330.
33. Erickson, A. H., Conner, G. E., Blobel, G., Biosynthesis of a lysosomal enzyme. Partial structure of two transient and functionally distinct NH2-terminal sequences in cathepsin D. J. Biol. Chem. 1981, 256, 11224-11231.
34. Conner, G. E., Richo, G., Isolation and characterization of a stable activation intermediate of the lysosomal aspartyl protease cathepsin D. Biochemistry (Mosc). 1992, 31, 1142-1147.
35. Benes, P., Vetvicka, V., Fusek, M., Cathepsin D-Many functions of one aspartic protease. Crit. Rev. Oncol. Hematol. 2008, 68, 12-28.
36. Okamoto, I., Tsuiki, H., Kenyon, L. C., Godwin, A. K. et al., Proteolytic cleavage of the CD44 adhesion molecule in multiple human tumors. Am. J. Pathol. 2002, 160, 441-447.
37. Takahashi, N., Knudson, C. B., Thankamony, S., Ariyoshi, W. et al., Induction of CD44 cleavage in articular chondrocytes. Arthr. Rheum. 2010, 62, 1338-1348.
38. Nagano, O., Saya, H., Mechanism and biological significance of CD44 cleavage. Cancer Sci. 2004, 95, 930-935.
39. Qin, L. X., Tang, Z. Y., Recent progress in predictive biomarkers for metastatic recurrence of human hepatocellular carcinoma: a review of the literature. J. Cancer Res. Clin. Oncol. 2004, 130, 497-513.
40. Lida, R., Yasuda, T., Kishi, K., Identification of novel fibronectin fragments detected specifically in juvenile urine. FEBS J. 2007, 274, 3939-3947.
41. Labat-Robert, J., Fibronectin in malignancy - Effect of aging. Semin. Cancer Biol. 2002, 12, 187-195.