Characterization of glycoproteins in pancreatic cyst fluid using a high-performance multiple lectin affinity chromatography platform

Journal of Proteome Research

Volumn 13, Issue 1, 2014, Pages 289-299

  Gbormittah, Francisca Owusu ^a   Haab, Brian B ^b   Partyka, Katie ^b   Garcia Ott, Carolina ^a   Hancapie, Marina ^c   Hancock, William S ^a  

^a NORTHEASTERN UNIVERSITY   (United States)

^b VAN ANDEL RESEARCH INSTITUTE   (United States)

^c SANOFI   (France)

Author keywords

biomarker discovery; glycoproteins; mucinous cyst; nonmucinous cyst; pancreatic cancer; pancreatic cyst fluid

Indexed keywords

ADENYLYL CYCLASE ASSOCIATED PROTEIN 1; ALPHA 1 ACID GLYCOPROTEIN 2; ALPHA AMYLASE 2B; ALPHA AMYLASE PANCREAS ISOENZYME; BILE SALT ACTIVATED LIPASE; CADHERIN 17; CALCIUM ACTIVATED CHLORIDE CHANNEL REGULATOR 1; CARBONATE DEHYDRATASE I; CARBOXYPEPTIDASE A2; FIBRONECTIN; GLYCINE AMIDINOTRANSFERASE; GLYCOPROTEIN; HEXOKINASE 1; INTERSTITIAL COLLAGENASE; KININOGEN I; LEUCINE RICH ALPHA 2 GLYCOPROTEIN; LIPOCORTIN 5; METALLOPROTEINASE INHIBITOR 1; MUCIN 2; MUCIN 6; PANCREATIC LIPASE RELATED PROTEIN 2; PANCREATIC TRIACYLGLYCEROL LIPASE; PHOSPHOGLYCERATE KINASE 1; PIGMENT EPITHELIUM DERIVED FACTOR; PROTEIN P53; PROTEIN S 100; TETRANECTIN; TRANSCRIPTION FACTOR RUNX2; TRIACYLGLYCEROL LIPASE; UNCLASSIFIED DRUG; VITAMIN D BINDING PROTEIN;

ARTICLE; CHROMATOGRAPHY; CYST FLUID; DISEASE ASSOCIATION; GENE MAPPING; GENE ONTOLOGY; HIGH PERFORMANCE MULTIPLE LECTIN AFFINITY CHROMATOGRAPHY; HUMAN; IMMUNOBLOTTING; LIQUID CHROMATOGRAPHY; NEOPLASM; PANCREAS CYST; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; TANDEM MASS SPECTROMETRY; WESTERN BLOTTING;

CHROMATOGRAPHY, AFFINITY; ELECTROPHORESIS, POLYACRYLAMIDE GEL; GLYCOPROTEINS; HUMANS; LECTINS; MASS SPECTROMETRY; PANCREATIC CYST;

EID: 84891821241     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr400813u     Document Type: Article

References (44)

1. Cleary, S. P.; Gryfe, R.; Guindi, M.; Greig, P.; Smith, L.; Mackenzie, R.; Strasberg, S.; Hanna, S.; Taylor, B.; Langer, B.; Gallinger, S. Prognostic factors in resected pancreatic adenocarcinoma: analysis of actual 5-year survivors J. Am. Coll. Surg. 2004, 198 (5) 722-31
2. Snow, P. Pancreatic Cyst Fluid Analysis-A Review J. Gastrointest. Liver Dis. 2011, 20 (2) 175-180
3. Cuoghi, A.; Farina, A.; Z'graggen, K.; Dumonceau, J.-M.; Tomasi, A.; Hochstrasser, D. F.; Genevay, M.; Lescuyer, P.; Frossard, J.-L. Role of Proteomics to Differentiate between Benign and Potentially Malignant Pancreatic Cysts J. Proteome Res. 2011, 10 (5) 2664-2670
4. Kwon, R. S.; Simeone, D. M. The Use of Protein-Based Biomarkers for the Diagnosis of Cystic Tumors of the Pancreas Int. J. Proteomics 2011, 2011, 1-9
5. Hutchins, G. F.; Draganov, P. V. Cystic neoplasms of the pancreas: a diagnostic challenge World J. Gastroenterol. 2009, 15 (1) 48-54
6. Jeurnink, S. M.; Vleggaar, F. P.; Siersema, P. D. Overview of the clinical problem: facts and current issues of mucinous cystic neoplasms of the pancreas Dig. Liver Dis. 2008, 40 (11) 837-46
7. Matthaei, H.; Schulick, R. D.; Hruban, R. H.; Maitra, A. Cystic precursors to invasive pancreatic cancer Nat. Rev. Gastroenterol. Hepatol. 2011, 8 (3) 141-50
8. Hara, T.; Kawashima, H.; Ishigooka, M.; Kashiyama, M.; Takanashi, S.; Yamazaki, S.; Hosokawa, Y. Mucinous cystic tumors of the pancreas Surg. Today 2002, 32 (11) 965-9
9. Haab, B. B.; Porter, A.; Yue, T.; Li, L.; Scheiman, J.; Anderson, M. A.; Barnes, D.; Schmidt, C. M.; Feng, Z.; Simeone, D. M. Glycosylation Variants of Mucins and CEACAMs As Candidate Biomarkers for the Diagnosis of Pancreatic Cystic Neoplasms Ann. Surg. 2010, 251 (5) 937-945
10. Mann, B. F.; Goetz, J. A.; House, M. G.; Schmidt, C. M.; Novotny, M. V. Glycomic and proteomic profiling of pancreatic cyst fluids identifies hyperfucosylated lactosamines on the N-linked glycans of overexpressed glycoproteins Mol. Cell. Proteomics 2012, 11 (7) M111 015792
11. Cao, Z.; Maupin, K.; Curnutte, B.; Fallon, B.; Feasley, C. L.; Brouhard, E.; Kwon, R.; West, C. M.; Cunningham, J.; Brand, R.; Castelli, P.; Crippa, S.; Feng, Z.; Allen, P.; Simeone, D. M.; Haab, B. B. Specific glycoforms of MUC5AC and endorepellin accurately distinguish mucinous from non-mucinous pancreatic cysts Mol Cell Proteomics 2013, 12, 2724-2734
12. Kullolli, M.; Hancock, W. S.; Hincapie, M. Automated platform for fractionation of human plasma glycoproteome in clinical proteomics Anal. Chem. 2010, 82 (1) 115-20
13. Zeng, Z.; Hincapie, M.; Haab, B. B.; Hanash, S.; Pitteri, S. J.; Kluck, S.; Hogan, J. M.; Kennedy, J.; Hancock, W. S. The development of an integrated platform to identify breast cancer glycoproteome changes in human serum J. Chromatogr., A 2010, 1217 (19) 3307-15
14. Plavina, T.; Wakshull, E.; Hancock, W. S.; Hincapie, M. Combination of abundant protein depletion and multi-lectin affinity chromatography (M-LAC) for plasma protein biomarker discovery J. Proteome Res. 2007, 6 (2) 662-71
15. Shevchenko, A.; Tomas, H.; Havlis, J.; Olsen, J. V.; Mann, M. In-gel digestion for mass spectrometric characterization of proteins and proteomes Nat. Protoc. 2006, 1 (6) 2856-60
16. Nesvizhskii, A. I. A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics J. Proteomics 2010, 73 (11) 2092-123
17. Kapp, E. A.; Schutz, F.; Connolly, L. M.; Chakel, J. A.; Meza, J. E.; Miller, C. A.; Fenyo, D.; Eng, J. K.; Adkins, J. N.; Omenn, G. S.; Simpson, R. J. An evaluation, comparison, and accurate benchmarking of several publicly available MS/MS search algorithms: sensitivity and specificity analysis Proteomics 2005, 5 (13) 3475-90
18. Yang, Z.; Hancock, W. S. Approach to the comprehensive analysis of glycoproteins isolated from human serum using a multi-lectin affinity column J. Chromatogr., A 2004, 1053 (1-2) 79-88
19. Yang, Z.; Hancock, W. S. Monitoring glycosylation pattern changes of glycoproteins using multi-lectin affinity chromatography J. Chromatogr., A 2005, 1070 (1-2) 57-64
20. Kyselova, Z.; Mechref, Y.; Kang, P.; Goetz, J. A.; Dobrolecki, L. E.; Sledge, G. W.; Schnaper, L.; Hickey, R. J.; Malkas, L. H.; Novotny, M. V. Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles Clin. Chem. 2008, 54 (7) 1166-75
21. Abd Hamid, U. M.; Royle, L.; Saldova, R.; Radcliffe, C. M.; Harvey, D. J.; Storr, S. J.; Pardo, M.; Antrobus, R.; Chapman, C. J.; Zitzmann, N.; Robertson, J. F.; Dwek, R. A.; Rudd, P. M. A strategy to reveal potential glycan markers from serum glycoproteins associated with breast cancer progression Glycobiology 2008, 18 (12) 1105-18
22. Batruch, I.; Lecker, I.; Kagedan, D.; Smith, C. R.; Mullen, B. J.; Grober, E.; Lo, K. C.; Diamandis, E. P.; Jarvi, K. A. Proteomic analysis of seminal plasma from normal volunteers and post-vasectomy patients identifies over 2000 proteins and candidate biomarkers of the urogenital system J. Proteome Res. 2011, 10 (3) 941-53
23. Mi, H.; Muruganujan, A.; Thomas, P. D. PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees Nucleic Acids Res. 2013, 41 (Database issue) D377-86
24. Kullolli, M.; Hancock, W. S.; Hincapie, M. Preparation of a high-performance multi-lectin affinity chromatography (HP-M-LAC) adsorbent for the analysis of human plasma glycoproteins J. Sep. Sci. 2008, 31 (14) 2733-9
25. Kanno, A.; Satoh, K.; Masamune, A.; Hirota, M.; Kimura, K.; Umino, J.; Hamada, S.; Satoh, A.; Egawa, S.; Motoi, F.; Unno, M.; Shimosegawa, T. Periostin, secreted from stromal cells, has biphasic effect on cell migration and correlates with the epithelial to mesenchymal transition of human pancreatic cancer cells Int. J. Cancer 2008, 122 (12) 2707-18
26. Baril, P.; Gangeswaran, R.; Mahon, P. C.; Caulee, K.; Kocher, H. M.; Harada, T.; Zhu, M.; Kalthoff, H.; Crnogorac-Jurcevic, T.; Lemoine, N. R. Periostin promotes invasiveness and resistance of pancreatic cancer cells to hypoxia-induced cell death: role of the beta4 integrin and the PI3k pathway Oncogene 2007, 26 (14) 2082-94
27. Kudo, Y.; Siriwardena, B. S.; Hatano, H.; Ogawa, I.; Takata, T. Periostin: novel diagnostic and therapeutic target for cancer Histol. Histopathol. 2007, 22 (10) 1167-74
28. Zhang, Y.; Zhang, G.; Li, J.; Tao, Q.; Tang, W. The expression analysis of periostin in human breast cancer J. Surg. Res. 2010, 160 (1) 102-6
29. Ouyang, G.; Liu, M.; Ruan, K.; Song, G.; Mao, Y.; Bao, S. Upregulated expression of periostin by hypoxia in non-small-cell lung cancer cells promotes cell survival via the Akt/PKB pathway Cancer Lett. 2009, 281 (2) 213-9
30. Hui, D. Y.; Hayakawa, K.; Oizumi, J. Lipoamidase activity in normal and mutagenized pancreatic cholesterol esterase (bile salt-stimulated lipase) Biochem. J. 1993, 291 (Pt 1) 65-9
31. Raeder, H.; Johansson, S.; Holm, P. I.; Haldorsen, I. S.; Mas, E.; Sbarra, V.; Nermoen, I.; Eide, S. A.; Grevle, L.; Bjorkhaug, L.; Sagen, J. V.; Aksnes, L.; Sovik, O.; Lombardo, D.; Molven, A.; Njolstad, P. R. Mutations in the CEL VNTR cause a syndrome of diabetes and pancreatic exocrine dysfunction Nat. Genet. 2006, 38 (1) 54-62
32. Mechref, Y.; Chen, P.; Novotny, M. V. Structural characterization of the N-linked oligosaccharides in bile salt-stimulated lipase originated from human breast milk Glycobiology 1999, 9 (3) 227-34
33. Ke, E.; Patel, B. B.; Liu, T.; Li, X. M.; Haluszka, O.; Hoffman, J. P.; Ehya, H.; Young, N. A.; Watson, J. C.; Weinberg, D. S.; Nguyen, M. T.; Cohen, S. J.; Meropol, N. J.; Litwin, S.; Tokar, J. L.; Yeung, A. T. Proteomic analyses of pancreatic cyst fluids Pancreas 2009, 38 (2) e33-42
34. Chuang, H. Y.; Rassenti, L.; Salcedo, M.; Licon, K.; Kohlmann, A.; Haferlach, T.; Foa, R.; Ideker, T.; Kipps, T. J. Subnetwork-based analysis of chronic lymphocytic leukemia identifies pathways that associate with disease progression Blood 2012, 120 (13) 2639-49
35. Lee, E.; Chuang, H. Y.; Kim, J. W.; Ideker, T.; Lee, D. Inferring pathway activity toward precise disease classification PLoS Comput. Biol. 2008, 4 (11) e1000217
36. Lessner, D. J. An unconventional pathway for reduction of CO2 to methane in CO-grown Methanosarcina acetivorans revealed by proteomics Proc. Natl. Acad. Sci. U. S. A. 2006, 103 (47) 17921-6
37. Zhang, E. Y.; Cristofanilli, M.; Robertson, F.; Reuben, J. M.; Mu, Z.; Beavis, R. C.; Im, H.; Snyder, M.; Hofree, M.; Ideker, T.; Omenn, G. S.; Fanayan, S.; Jeong, S. K.; Paik, Y. K.; Zhang, A. F.; Wu, S. L.; Hancock, W. S. Genome Wide Proteomics of ERBB2 and EGFR and Other Oncogenic Pathways in Inflammatory Breast Cancer J. Proteome Res. 2013, 12 (6) 2805-17
38. Wu, C.; Zhu, J.; Zhang, X. Integrating gene expression and protein-protein interaction network to prioritize cancer-associated genes BMC Bioinf. 2012, 13, 182
39. Kauraniemi, P.; Barlund, M.; Monni, O.; Kallioniemi, A. New amplified and highly expressed genes discovered in the ERBB2 amplicon in breast cancer by cDNA microarrays Cancer Res. 2001, 61 (22) 8235-40
40. Greenbaum, D.; Colangelo, C.; Williams, K.; Gerstein, M. Comparing protein abundance and mRNA expression levels on a genomic scale Genome Biol. 2003, 4 (9) 117
41. Ke, E.; Patel, B. B.; Liu, T.; Li, X.-M.; Haluszka, O.; Hoffman, J. P.; Ehya, H.; Young, N. A.; Watson, J. C.; Weinberg, D. S.; Nguyen, M. T.; Cohen, S. J.; Meropol, N. J.; Litwin, S.; Tokar, J. L.; Yeung, A. T. Proteomic Analyses of Pancreatic Cyst Fluids Pancreas 2009, 38 (2) e33-e42
42. Abbott, K. L.; Aoki, K.; Lim, J. M.; Porterfield, M.; Johnson, R.; O'Regan, R. M.; Wells, L.; Tiemeyer, M.; Pierce, M. Targeted glycoproteomic identification of biomarkers for human breast carcinoma J. Proteome Res. 2008, 7 (4) 1470-80
43. Kosanam, H.; Makawita, S.; Judd, B.; Newman, A.; Diamandis, E. P. Mining the malignant ascites proteome for pancreatic cancer biomarkers Proteomics 2011, 11 (23) 4551-8
44. Orchekowski, R.; Hamelinck, D.; Li, L.; Gliwa, E.; vanBrocklin, M.; Marrero, J. A.; Vande Woude, G. F.; Feng, Z.; Brand, R.; Haab, B. B. Antibody microarray profiling reveals individual and combined serum proteins associated with pancreatic cancer Cancer Res. 2005, 65 (23) 11193-202