Selection of putative colorectal cancer markers by applying PCA on the soluble proteome of tumors: NDK A as a promising candidate

Journal of Proteomics

Volumn 74, Issue 6, 2011, Pages 874-886

  Álvarez Chaver, Paula ^a   Rodríguez Piñeiro, Ana M ^a   Rodríguez Berrocal, Francisco J ^a   García Lorenzo, Andrés ^a   Páez de la Cadena, María ^a   Martínez Zorzano, Vicenta S ^a  

^a UNIVERSITY OF VIGO   (Spain)

Author keywords

Biomarkers; Colorectal cancer; Nucleoside diphosphate kinase A; Principal component analysis; Tumor tissue

Indexed keywords

DJ 1 PROTEIN; NUCLEOSIDE DIPHOSPHATE KINASE A; PROTEOME; RETINOBLASTOMA BINDING PROTEIN 4;

ADULT; AGED; ARTICLE; CARCINOGENESIS; CELL DIFFERENTIATION; CELL STRAIN CACO 2; CLINICAL ARTICLE; COLORECTAL CANCER; CONTROLLED STUDY; FEMALE; HUMAN; HUMAN CELL; HUMAN TISSUE; IMMUNODETECTION; MALE; MASS SPECTROMETRY; MUCOSA; PRINCIPAL COMPONENT ANALYSIS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEOMICS;

14-3-3 PROTEINS; ADULT; AGED; AGED, 80 AND OVER; CACO-2 CELLS; COLORECTAL NEOPLASMS; FEMALE; HUMANS; INTESTINAL MUCOSA; INTRACELLULAR SIGNALING PEPTIDES AND PROTEINS; MALE; MIDDLE AGED; NM23 NUCLEOSIDE DIPHOSPHATE KINASES; ONCOGENE PROTEINS; PRINCIPAL COMPONENT ANALYSIS; PROTEOME; RETINOBLASTOMA-BINDING PROTEIN 4; TANDEM MASS SPECTROMETRY; TUMOR MARKERS, BIOLOGICAL;

EID: 79955472772     PISSN: 18743919     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jprot.2011.02.031     Document Type: Article

References (60)

1. Ferlay J., Parkin D.M., Steliarova-Foucher E. Estimates of cancer incidence and mortality in Europe in 2008. Eur J Cancer 2010, 46:765-781.
2. Duffy M.J., van Dalen A., Haglund C., Hansson L., Holinski-Feder E., Klapdor R., et al. Tumour markers in colorectal cancer: European Group on Tumour Markers (EGTM) guidelines for clinical use. Eur J Cancer 2007, 43:1348-1360.
3. Kim H.J., Yu M.H., Kim H., Byun J., Lee C. Noninvasive molecular biomarkers for the detection of colorectal cancer. BMB Rep 2008, 41:685-692.
4. Rodríguez-Piñeiro A.M., Rodríguez-Berrocal F.J., Páez de la Cadena M. Improvements in the search for potential biomarkers by proteomics: application of principal component and discriminant analyses for two-dimensional maps evaluation. J Chromatogr B Analyt Technol BiomedLife Sci 2007, 849:251-260.
5. Roblick U.J., Hirschberg D., Habermann J.K., Palmberg C., Becker S., Krüger S., et al. Sequential proteome alterations during genesis and progression of colon cancer. Cell Mol Life Sci 2004, 61:1246-1255.
6. Roblick U.J., Bader F.G., Lenander C., Hellman U., Zimmermann K., Becker S., et al. Undifferentiated pelvic adenocarcinomas: diagnostic potential of protein profiling and multivariate analysis. Int J Colorectal Dis 2008, 23:483-491.
7. Gornall A.G., Bardawill C.J., David M.M. Determination of serum proteins by means of the biuret reaction. J Biol Chem 1949, 177:751-766.
8. Álvarez-Chaver P., Rodríguez-Piñeiro A.M., Rodríguez-Berrocal F.J., Martínez-Zorzano V., Páez de la Cadena M. Identification of hydrophobic proteins as biomarker candidates for colorectal cancer. Int J Biochem Cell Biol 2007, 39:529-540.
9. Bradford M.M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 1976, 72:248-254.
10. Ramagli L.S., Rodriguez L.V. Quantitation of microgram amounts of protein in two-dimensional polyacrylamide gel electrophoresis sample buffer. Electrophoresis 1985, 6:559-563.
11. Pinto M., Robine-Leon S., Appay M.D., Kedinger M., Triadou N., Dussaulx E., et al. Enterocyte-like differentiation and polarization of the human colon carcinoma cell line Caco-2 in culture. Biol Cell 1983, 47:323-330.
12. Messer M., Dahlqvist A. A one-step ultramicro method for the assay of intestinal disaccharidases. Anal Biochem 1966, 14:376-392.
13. Merino-Trigo A., Rodríguez-Berrocal F.J., de Miguel E., Páez de la Cadena M. Activity and properties of alpha-l-fucosidase are dependent on the state of enterocytic differentiation of HT-29 colon cancer cells. Int J Biochem Cell Biol 2002, 34:1291-1303.
14. Laemmli U.K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 1970, 227:680-685.
15. Shevchenko A., Wilm M., Worm O., Mann M. Mass spectrometric sequencing of proteins silver-stained polyacrylamide gels. Anal Chem 1996, 68:850-858.
16. Bordier C. Phase separation of integral membrane proteins in Triton X-114 solution. J Biol Chem 1981, 256:1604-1607.
17. Qoronfleh M.W., Benton B., Ignacio R., Kaboord B. Selective enrichment of membrane proteins by partition phase separation for proteomic studies. J Biomed Biotechnol 2003, 4:249-255.
18. Zuobi-Hasona K., Crowley P.J., Hasona A., Bleiweis A.S., Brady L.J. Solubilization of cellular membrane proteins from Streptococcus mutans for two-dimensional gel electrophoresis. Electrophoresis 2005, 26:1200-1205.
19. Rodríguez-Piñeiro A.M., Ayude D., Rodríguez-Berrocal F.J., Páez de la Cadena M. Concanavalin A chromatography coupled to two-dimensional gel electrophoresis improves protein expression studies of the serum proteome. J Chromatogr B Analyt Technol Biomed Life Sci 2004, 803:337-343.
20. Martínez-Fernández M., Rodríguez-Piñeiro A.M., Oliveira E., Páez de la Cadena M., Rolán-Alvarez E. Proteomic comparison between two marine snail ecotypes reveals details about the biochemistry of adaptation. J Proteome Res 2008, 7:4926-4934.
21. Aitken A. 14-3-3 proteins: a historic overview. Semin Cancer Biol 2006, 16:162-172.
22. Wilker E., Yaffe M.B. 14-3-3 Proteins-a focus on cancer and human disease. J Mol Cell Cardiol 2004, 37:633-642.
23. Tzivion G., Gupta V.S., Kaplun L., Balan V. 14-3-3 proteins as potential oncogenes. Semin Cancer Biol 2006, 16:203-213.
24. Larriba M.J., Casado-Vela J., Pendás-Franco N., Peña R., García de Herreros A., Berciano M.T., et al. Novel snail1 target proteins in human colon cancer identified by proteomic analysis. PLoS ONE 2010, 5:e10221.
25. Niemantsverdriet M., Wagner K., Visser M., Backendorf C. Cellular functions of 14-3-3 zeta in apoptosis and cell adhesion emphasize its oncogenic character. Oncogene 2008, 27:1315-1319.
26. Qi W., Liu X., Qiao D., Martínez J.D. Isoform-specific expression of 14-3-3 proteins in human lung cancer tissues. Int J Cancer 2005, 113:359-363.
27. Arora S., Matta A., Shukla N.K., Deo S.V., Ralhan R. Identification of differentially expressed genes in oral squamous cell carcinoma. Mol Carcinog 2005, 42:97-108.
28. Jang J.S., Cho H.Y., Lee Y.J., Ha W.S., Kim H.W. The differential proteome profile of stomach cancer: identification of the biomarker candidates. Oncol Res 2004, 14:491-499.
29. Shen J., Person M.D., Zhu J., Abbruzzese J.L., Li D. Protein expression profiles in pancreatic adenocarcinoma compared with normal pancreatic tissue and tissue affected by pancreatitis as detected by two-dimensional gel electrophoresis and mass spectrometry. Cancer Res 2004, 64:9018-9026.
30. Somiari R.I., Somiari S., Russell S., Shriver C.D. Proteomics of breast carcinoma. J Chromatogr B Analyt Technol Biomed Life Sci 2005, 815:215-225.
31. Friedman D.B., Hill S., Keller J.W., Merchant N.B., Levy S.E., Coffey R.J., et al. Proteome analysis of human colon cancer by two-dimensional difference gel electrophoresis and mass spectrometry. Proteomics 2004, 4:793-811.
32. Lü B., Xu J., Zhu Y., Zhang H., Lai M. Systemic analysis of the differential gene expression profile in a colonic adenoma-normal SSH library. Clin Chim Acta 2007, 378:42-47.
33. Nicolas E., Morales V., Magnaghi-Jaulin L., Harel-Bellan A., Richard-Foy H., Trouche D. RbAp48 belongs to the histone deacetylase complex that associates with the retinoblastoma protein. J Biol Chem 2000, 275:9797-9804.
34. Hoek M., Stillman B. Chromatin assembly factor 1 is essential and couples chromatin assembly to DNA replication in vivo. Proc Natl Acad Sci USA 2003, 100:12183-12188.
35. Fukuoka J., Fujii T., Shih J.H., Dracheva T., Meerzaman D., Player A., et al. Chromatin remodeling factors and BRM/BRG1 expression as prognostic indicators in non-small cell lung cancer. Clin Cancer Res 2004, 10:4314-4324.
36. Song H., Xia S.L., Liao C., Li Y.L., Wang Y.F., Li T.P., et al. Genes encoding Pir51, Beclin 1, RbAp48 and aldolase b are up or down-regulated in human primary hepatocellular carcinoma. World J Gastroenterol 2004, 10:509-513.
37. Pacifico F., Paolillo M., Chiappetta G., Crescenzi E., Arena S., Scaloni A., et al. RbAp48 is a target of nuclear factor-kappaB activity in thyroid cancer. J Clin Endocrinol Metab 2007, 92:1458-1466.
38. Casas S., Ollila J., Aventín A., Vihinen M., Sierra J., Knuutila S. Changes in apoptosis-related pathways in acute myelocytic leukemia. Cancer Genet Cytogenet 2003, 146:89-101.
39. Nagakubo D., Taira T., Kitaura H., Ikeda M., Tamai K., Iguchi-Ariga S.M., et al. DJ-1, a novel oncogene which transforms mouse NIH3T3 cells in cooperation with ras. Biochem Biophys Res Commun 1997, 231:509-513.
40. Bonifati V., Rizzu P., van Baren M.J., Schaap O., Breedveld G.J., Krieger E., et al. Mutations in the DJ-1 gene associated with autosomal recessive early-onset parkinsonism. Science 2003, 299:256-259.
41. Taira T., Saito Y., Niki T., Iguchi-Ariga S.M., Takahashi K., Ariga H. DJ-1 has a role in antioxidative stress to prevent cell death. EMBO Rep 2004, 5:213-218.
42. Yang Y., Gehrke S., Haque M.E., Imai Y., Kosek J., Yang L., et al. Inactivation of Drosophila DJ-1 leads to impairments of oxidative stress response and phosphatidylinositol 3-kinase/Akt signaling. Proc Natl Acad Sci USA 2005, 102:13670-13675.
43. Le Naour F., Misek D.E., Krause M.C., Deneux L., Giordano T.J., Scholl S., et al. Proteomics-based identification of RS/DJ-1 as a novel circulating tumor antigen in breast cancer. Clin Cancer Res 2001, 7:3328-3335.
44. Kim R.H., Peters M., Jang Y., Shi W., Pintilie M., Fletcher G.C., et al. DJ-1, a novel regulator of the tumor suppressor PTEN. Cancer Cell 2005, 7:263-273.
45. Melle C., Ernst G., Escher N., Hartmann D., Schimmel B., Bleul A., et al. Protein profiling of microdissected pancreas carcinoma and identification of HSP27 as a potential serum marker. Clin Chem 2007, 53:629-635.
46. Giusti L., Iacconi P., Ciregia F., Giannaccini G., Donatini G.L., Basolo F., et al. Fine-needle aspiration of thyroid nodules: proteomic analysis to identify cancer biomarkers. J Proteome Res 2008, 7:4079-4088.
47. Ummanni R., Junker H., Zimmermann U., Venz S., Teller S., Giebel J., et al. Prohibitin identified by proteomic analysis of prostate biopsies distinguishes hyperplasia and cancer. Cancer Lett 2008, 266:171-185.
48. Wallet V., Mutzel R., Troll H., Barzu O., Wurster B., Veron M., et al. Dictyostelium nucleoside diphosphate kinase highly homologous to Nm23 and Awd proteins involved in mammalian tumor metastasis and Drosophila development. J Natl Cancer Inst 1990, 82:1199-1202.
49. Steeg P.S., Horak C.E., Miller K.D. Clinical-translational approaches to the Nm23-H1 metastasis suppressor. Clin Cancer Res 2008, 14:5006-5012.
50. Polley A.C., Mulholland F., Pin C., Williams E.A., Bradburn D.M., Mills S.J., et al. Proteomic analysis reveals field-wide changes in protein expression in the morphologically normal mucosa of patients with colorectal neoplasia. Cancer Res 2006, 66:6553-6562.
51. Boissan M., De Wever O., Lizarraga F., Wendum D., Poincloux R., Chignard N., et al. Implication of metastasis suppressor NM23-H1 in maintaining adherens junctions and limiting the invasive potential of human cancer cells. Cancer Res 2010, 70:7710-7722.
52. Huwer H., Kalweit G., Engel M., Welter C., Dooley S., Gams E. Expression of the candidate tumor suppressor gene nm23 in the bronchial system of patients with squamous cell lung cancer. Eur J Cardiothorac Surg 1997, 11:206-209.
53. Okabe-Kado J., Kasukabe T., Honma Y., Hanada R., Nakagawara A., Kaneko Y. Clinical significance of serum NM23-H1 protein in neuroblastoma. Cancer Sci 2005, 96:653-660.
54. Niitsu N., Nakamine H., Okamoto M., Tamaru J.I., Hirano M.A. A clinicopathological study of nm23-H1 expression in classical Hodgkin's lymphoma. Ann Oncol 2008, 19:1941-1946.
55. Okabe-Kado J., Kasukabe T., Honma Y., Kobayashi H., Maseki N. Extracellular NM23 protein promotes the growth and survival of primary cultured human acute myelogenous leukemia cells. Cancer Sci 2009, 100:1885-1894.
56. Keller M., Rüegg A., Werner S., Beer H.-D. Active caspase-1 is a regulator of unconventional protein secretion. Cell 2008, 132:818-831.
57. Hauck W., Stanners C.P. Control of carcinoembryonic antigen gene family expression in a differentiating colon carcinoma cell line, Caco-2. Cancer Res 1991, 51:3526-3533.
58. Stierum R., Gasparia M., Dommels Y., Ouatas T., Pluk H., Jespersen S., et al. Proteome analysis reveals novel proteins associated with proliferation and differentiation of the colorectal cancer cell line Caco-2. Biochim Biophys Acta 2003, 1650:73-91.
59. Ahn S.M., Simpson R.J. Body fluid proteomics: prospects for biomarker discovery. Proteomics Clin Appl 2007, 1:1004-1015.
60. Simpson R.J., Bernhard O.K., Greening D.W., Moritz R.L. Proteomics-driven cancer biomarker discovery: looking to the future. Curr Opin Chem Biol 2008, 12:72-77.