On-line method for identification of native proteins using pH-gradient SAX chromatography and reversed phase chromatography-mass spectrometry of tryptic peptides

Journal of Liquid Chromatography and Related Technologies

Volumn 31, Issue 10, 2008, Pages 1387-1411

  Tran, Bao Quoc ^a   Pepaj, Miliam ^a   Lundanes, Elsa ^a   Greibrokk, Tyge ^a  

^a UNIVERSITY OF OSLO   (Norway)

Author keywords

Human plasma; Immobilized trypsin; On line tryptic digestion; pH gradient; Strong anion exchange chromatography

Indexed keywords

CHROMATOGRAPHIC ANALYSIS; ION EXCHANGE; MASS SPECTROMETRY; NEGATIVE IONS; PH EFFECTS; PLASMA (HUMAN);

IMMOBILIZED TRYPSIN; ON LINE TRYPTIC DIGESTION; PEPTIDE MASS FINGERPRINT (PMF); PH GRADIENT; PHASE CHROMATOGRAPHY; STRONG ANION EXCHANGE CHROMATOGRAPHY;

PEPTIDES;

PLASMA PROTEIN; TRYPSIN;

ANION EXCHANGE CHROMATOGRAPHY; ARTICLE; ELECTROSPRAY MASS SPECTROMETRY; NONHUMAN; PH; PROTEIN ANALYSIS; REACTOR; REVERSED PHASE LIQUID CHROMATOGRAPHY;

EID: 42449122739     PISSN: 10826076     EISSN: 1520572X     Source Type: Journal    
DOI: 10.1080/10826070802039291     Document Type: Article

References (32)

1. Hu, L.; Ye, M.; Jiang, X.; Feng, S.; Zou, H. Advances in hyphenated analytical techniques for shotgun proteome and peptidome analysis-A review. Anal. Chim. Acta 2007, 598, 193-204.
2. Ye, M.; Jiang, X.; Feng, S.; Tian, R.; Zou, H. Advances in chromatographic techniques and methods in shotgun proteome analysis. TrAC-Trends Anal. Chem. 2007, 26, 80-84.
3. Corthals, G.L.; Wasinger, V.C.; Hochstrasser, D.F.; Sanchez, J.-C. The dynamic range of protein expression: A challenge for proteomic research. Electrophoresis 2000, 21, 1104-1115.
4. Wang, H.; Hanash, S. Multi-dimensional liquid phase based separations in proteomics. J. Chromatogr. B 2003, 787, 11-18.
5. Unger, K.K.; Racaityte, K.; Wagner, K.; Miliotis, T.; Edholm, L.E.; Bischoff, R.; Marko-Varga, G. Is multidimensional high performance liquid chromatography (HPLC) an alternative in protein analysis to 2D gel electrophoresis? J. High Resol. Chromatogr. 2000, 23, 259-265.
6. Ru, Q.C.; Zhu, L.A.; Katenhusen, R.A.; Silberman, J.; Brzeski, H.; Liebman, M.; Shriver, C.D. Exploring human plasma proteome strategies: High efficiency in-solution digestion protocol for multi-dimensional protein identification technology. J. Chromatogr. A 2006, 1111, 175-191.
7. Hervey, W.J.; Strader, M.B.; Hurst, G.B. Comparison of digestion protocols for microgram quantities of enriched protein samples. J. Proteome Res. 2007, 6, 3054-3061.
8. Jeng, J.; Lin, M.-F.; Cheng, F.-Y.; Yeh, C.-S.; Shiea, J. Using high-concentration trypsin-immobilized magnetic nanoparticles for rapid in situ protein digestion at elevated temperature. Rapid Commun. Mass Spectrom. 2007, 21, 3060-3068.
9. Ma, J.; Zhang, L.; Liang, Z.; Zhang, W.; Zhang, Y. Recent advances in immobilized enzymatic reactors and their applications in proteome analysis. Anal. Chim. Acta. in press.
10. Duan, J.; Sun, L.; Liang, Z.; Zhang, J.; Wang, H.; Zhang, L.; Zhang, W.; Zhang, Y. Rapid protein digestion and identification using monolithic enzymatic microreactor coupled with nano-liquid chromatography-electrospray ionization mass spectrometry. J. Chromatogr. A 2006, 1106, 165-174.
11. Li, Y.; Xu, X.; Deng, C.; Yang, P.; Zhang, X. Immobilization of trypsin on superparamagnetic nanoparticles for rapid and effective proteolysis. J. Proteome Res. 2007, 6, 3849-3855.
12. Lim, L.; Tomatsu, M.; Takeuchi, T. Development of an on-line immobilizedenzyme reversed-phase HPLC method for protein digestion and peptide separation. Anal. Bioanal. Chem. 2006, 386, 614-620.
13. Massolini, G.; Calleri, E. Immobilized trypsin systems coupled on-line to separation methods: Recent developments and analytical applications. J. Sep. Sci. 2005, 28, 7-21.
14. Wang, S.; Regnier, F.E. Proteolysis of whole cell extracts with immobilized enzyme columns as part of multidimensional chromatography. J. Chromatogr. A 2001, 913, 429-436.
15. Karty, J.A.; Running, W.E.; Reilly, J.P. Two dimensional liquid phase separations of proteins using online fractionation and concentration between chromatographic dimensions. J. Chromatogr. B 2007, 847, 103-113.
16. Nadler, T.; Blackburn, C.; Mark, J.; Gordon, N.; Regnier, F.E.; Vella, G. Automated proteolytic mapping of proteins. J. Chromatogr. A 1996, 743, 91-98.
17. Hedstrom, M.; Andersson, M.; Galaev, I.Y.; Mattiasson, B. Fast on-column protein digestion with subsequent peptide mapping using tandem mass spectrometry with information dependent acquisition. J. Chromatogr. A 2005, 1080, 117-123.
18. Riggs, L.; Sioma, C.; Regnier, F.E. Automated signature peptide approach for proteomics. J. Chromatogr. A 2001, 924, 359-368.
19. Calleri, E.; Temporini, C.; Perani, E.; Palma, A.D.; Lubda, D.; Mellerio, G.; Sala, A.; Galliano, M.; Caccialanza, G.; Massolini, G. Trypsin-based monolithic bioreactor coupled on-line with LC/MS/MS system for protein digestion and variant identification in standard solutions and serum samples. J. Proteome Res. 2005, 4, 481-490.
20. Canarelli, S.; Fisch, I.; Freitag, R. Hyphenation of multi-dimensional chromatography and mass spectrometry for the at-line-analysis of the integrity of recombinant protein drugs. J. Chromatogr. B 2002, 775, 27-35.
21. Carol, J.; Gorseling, M.C.J.K.; de Jong, C.F.; Lingeman, H.; Kientz, C.E.; van Baar, B.L.M.; Irth, H. Determination of denaturated proteins and biotoxins by on-line size-exclusion chromatography-digestion-liquid chromatography-electrospray mass spectrometry. Anal. Biochem. 2005, 346, 150-157.
22. Pepaj, M.; Holm, A.; Fleckenstein, B.; Lundanes, E.; Greibrokk, T. Fractionation and separation of human salivary proteins by pH-gradient ion exchange and reversed phase chromatography coupled to mass spectrometry. J. Sep. Sci. 2006, 29, 519-528.
23. Tran, Q.B.; Pepaj, M.; Lundanes, E.; Greibrokk, T. The behaviour of reduced, alkylated and native proteins in a pH-gradient LC system. Chromatographia 2007, 66, 709-715.
24. Andersen, T.; Pepaj, M.; Trones, R.; Lundanes, E.; Greibrokk, T. Isoelectric point separation of proteins by capillary pH-gradient ion-exchange chromatography. J. Chromatogr. A 2004, 1025, 217-226.
25. Jana, K.; Bilková, Z.; Foret, F. Chararacterization of a monolithic immobilized trypsin microreactor with on-line coupling to ESI-MS. J. Sep. Sci. 2005, 28, 1675-1684.
26. Gekko, K.; Ohmae, E.; Kameyama, K.; Takagi, T. Acetonitrile-protein interactions: amino acid solubility and preferential solvation. Biochim. Biophys. Acta 1998, 1387, 195-205.
27. Goradia, D.; Cooney, J.; Hodnett, B.K.; Magner, E. Characteristics of a mesoporous silicate immobilized trypsin bioreactor in organic media. Biotechnol. Prog. 2006, 22, 1125-1131.
28. Freije, J.R.; Mulder, P.P.M.F.A.; Werkman, W.; Rieux, L.; Niederlander, H.A.G.; Verpoorte, E.; Bischoff, R. Chemically modified, immobilized trypsin reactor with improved digestion efficiency. J. Proteome Res. 2005, 4, 1805-1813.
29. Strader, M.B.; Tabb, D.L.; Hervey, W.J.; Pan, C.; Hurst, G.B. Efficient and specific trypsin digestion of microgram to nanogram quantities of proteins in organicaqueous solvent. Systems. Anal. Chem. 2006, 78, 125-134.
30. Bunai, K.; Nozaki, M.; Hamano, M.; Ogane, S.; Inoue, T.; Nemoto, T.; Nakanishi, H.; Yamane, K. Proteomic analysis of acrylamide gel separated proteins immobilized on polyvinylidene difluoride membranes following proteolytic digestion in the presence of 80% acetonitrile. Proteomics 2003, 3, 1738-1749.
31. Wilson, S.; Jankowski, M.; Pepaj, M.; Mihailova, A.; Boix, F.; Truyols, G.; Vivo Lundanes, E.; Greibrokk, T. 2D LC separation and determination of bradykinin in rat muscle tissue dialysate with on-line SPE-HILIC-SPE-RP-MS. Chromatographia 2007, 66, 469-474.
32. Wierenga, S.K.; Zocher, M.J.; Mirus, M.M.; Conrads, T.P.; Goshe, M.B.; Veenstra, T.D. A method to evaluate tryptic digestion efficiency for high-throughput proteome analyses. Rapid Commun. Mass Spectrom. 2002, 16, 1404-1408.