Functional proteome analysis of the banana plant (Musa spp.) using de novo sequence analysis of derivatized peptides

Journal of Proteome Research

Volumn 6, Issue 1, 2007, Pages 70-80

  Samyn, Bart ^a   Sergeant, Kjell ^a   Carpentier, Sebastien ^b   Debyser, Griet ^a   Panis, Bart ^b   Swennen, Rony ^b   Van Beeumen, Jozef ^a  

^a GHENT UNIVERSITY   (Belgium)

^b Laboratory of Tropical Crop Improvement   (Belgium)

Author keywords

Charge derivatization; de novo sequence analysis; Homology based search algorithms; MALDI TOF TOF; Musa

Indexed keywords

ALGORITHM; AMINO ACID SEQUENCE; ARTICLE; BANANA; DERIVATIZATION; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; PRIORITY JOURNAL; PROTEIN ANALYSIS; SEQUENCE ANALYSIS; TWO DIMENSIONAL GEL ELECTROPHORESIS;

ALGORITHMS; AMINO ACID SEQUENCE; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; GENOME, PLANT; GENOTYPE; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; MUSA; PEPTIDES; PLANT PROTEINS; PROTEOME; PROTEOMICS; SEQUENCE ANALYSIS, PROTEIN; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; TRYPSIN;

MUSA;

EID: 33846572285     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr0601943     Document Type: Article

References (46)

1. Perkins, D. N.; Pappin, D. J.; Creasy, D. M.; Cottrell, J. S. Electrophoresis 1999, 20, 3551-3567.
2. Eng, J. K.; McCormack, A. L.; Yates, J. R., III. J. Am. Soc. Mass Spectrom. 1994, 5, 976-989.
3. Shevchenko, A.; Chernushevich, I.; Ens, W.; Standing, K. G.; Thomson, B.; Wilm, M.; Mann, M. Rapid Commun. Mass Spectrom. 1997, 11, 1015-1024.
4. Qin, J.; Herring, C. J.; Zhang, X. L. Rapid Commun. Mass Spectrom. 1998, 12, 209-216.
5. Keough, T.; Youngquist, R. S.; Lacey, M. P. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 7131-7136.
6. Samyn, B.; Debyser, G.; Sergeant, K.; Devreese, B.; Van Beeumen, J. J. Am. Soc. Mass Spectrom. 2004, 15, 1838-1852.
7. Dongre, A. R.; Jones, J. L.; Somogyi, A.; Wysocki, V. H. J. Am. Chem. Soc. 1996, 118, 8365-8374.
8. Keough, T.; Youngquist, R. S.; Lacey, M. P. Anal. Chem. 2003, 75, 156A-165A.
9. Beardsley, R. L.; Reilly, J. P. Anal. Chem. 2002, 74, 1884-1890.
10. Karty, J. A.; Ireland, M. M. E.; Brun, Y. V.; Reilly, J. P. J. Proteome Res. 2002, 1, 325-335.
11. Sergeant, K.; Samyn, B.; Debyser, G.; Van Beeumen, J. Proteomics 2005, 5, 2369-2380.
12. Strosse, H.; Schools, H.; Panis, B.; Andre, E.; Reyniers, K.; Swennen, R. Plant Sci. 2006, 170, 104-112.
13. Carpentier, S.; Witters, E.; Laukens, K.; Deckers, P.; Swennen, R.; Panis, B. Proteomics 2005, 5, 2497-2507.
14. Neuhoff, V.; Arold, N.; Taube, D.; Ehrhardt, W. Electrophoresis 1988, 9, 255-262.
15. Shevchenko, A.; Sunyaev, S.; Loboda, A.; Shevchenko, A.; Bork, P.; Ens, W.; Standing, K. G. Anal. Chem. 2001, 73, 1917-1926.
16. Mackey, A. J.; Haystead, T. A. J.; Pearson, W. R. Mol. Cell. Proteomics 2002, 1, 139-147.
17. Clauser, K. R.; Baker, P. R.; Burlingame, A. L. Anal. Chem. 1999, 71, 2871-2882.
18. Lysak, M. A.; Dolezelova, M.; Horry, J. P.; Swennen, R.; Dolezel, J. Theor. Appl. Genet. 1999, 98, 1344-1350.
19. Swennen, R.; Resales, F. Bananas. Arntzen, C. Encyclopedia of Agricultural Science, Vol. 1, Academic Press: New York, 1994; pp 215-232.
20. Mayfield, J. A.; Fiebig, A.; Johnstone, S. E.; Preuss, D. Science 2001, 292, 2482-2485.
21. Koller, A.; Washburn, M. P.; Lange, B. M.; Andon, N. L.; Deciu, C.; Haynes, P. A.; Hays, L; Schieltz, D.; Ulaszek, R.; Wei, J.; Wolters, D.; Yates J. R., III. Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 11969-11974.
22. Chang, W. W.; Huang, L.; Shen, M.; Webster, C.; Burlingame, A. L.; Roberts, J. K. Plant Physiol. 2000, 122, 295-318.
23. Peltier, J. B.; Friso, G.; Kalume, D. E.; Roepstorff, P.; Nilsson, F.; Adamska, I.; van Wijk, K. J. Plant Cell 2000, 12, 319-341.
24. Amiour, N.; Merlino, M.; Leroy, P.; Branlard, G. Proteomics 2002, 2, 632-641.
25. Agrawal, G. K.; Rakwal, R. Mass Spectrom. Rev. 2006, 25, 1-53.
26. Denby, K.; Gehring, C. Trends Biotechnol. 2005, 23, 547-552.
27. Ali, G. M.; Komatsu, S. J. Proteome Res. 2006, 5, 396-403.
28. Yan, S.-P.; Zhang, Q.-Y.; Tang, Z.-C.; Su, W.-A.; Sun, W.-N. Mol. Cell. Proteomics 2006, 5, 484-496.
29. Boudart, G.; Jamet, E.; Rossignol, M.; Lafitte, C.; Borderies, G.; Jauneau, A.; Esquerré-Tugayé, M.-T.; Pont-Lezica, R. Proteomics 2005, 5, 212-221.
30. Porubleva, L.; Vander Velden, K.; Kothari, S.; Oliver, D. J.; Chitnis, P. R. Electrophoresis 2001, 22, 1724-1738.
31. van Wijk, K. J. Plant Physiol. 2001, 126, 501-508.
32. Liska, A. J.; Shevchenko, A.; Pick, U.; Katz, A. Plant Physiol. 2004, 136, 2806-2817.
33. Liska; A. J., Shevchenko, A. Trends Anal. Chem. 2003, 22, 291-298.
34. Shevchenko, A.; de Sousa, M. M. L.; Waridel, P.; Bittencourt, S. T.; de Sousa, M. V.; Shevchenko, A. J. Proteome Res. 2005, 4, 862-869.
35. Liska, A. J.; Popov, A. V.; Sunyaev, S.; Coughlin, P.; Habermann, B.; Shevchenko, A.; Bork, P.; Karsenti, E.; Shevchenko, A. Proteomics 2004, 4, 2707-2721.
36. Jorge, I.; Navarro, R. M.; Lenz, C.; Ariza, D.; Porras, C.; Jorrin, J. Proteomics 2005, 5, 222-234.
37. Wait, R.; Miller, I.; Eberini, I.; Cairoli, F.; Veronesi, C.; Battocchio, M.; Gemeiner, M.; Gianazza, E. Electrophoresis 2002, 23, 3418-3427.
38. Matis, M.; Zakelj-Mavric, M.; Peter-Katalinic, J. Proteomics 2005, 5, 67-75.
39. Liska, A. J.; Shevchenko, A. Proteomics 2003, 3, 19-28.
40. Yergey, A. L.; Coorssen, J. R.; Backlund, P. S.; Blank, P. S.; Humphrey, G. A.; Zimmerberg, J.; Campbell, J. M.; Vestal, M. L. J. Am. Soc. Mass Spectrom. 2002, 13, 784-791.
41. Raucci, F.; Gabrielli, M.; Novelli, S.; Picariello, G.; Collins, S. H. J. Mass Spectrom. 2005, 40, 475-488.
42. Pashkova, A.; Moskovets, E.; Karger, B. L. Anal. Chem. 2004, 76, 4550-4557.
43. Pashkova, A.; Chen, H.-S.; Rejtar, T.; Zang, X.; Giese, R.; Andreev, V.; Moskovets, E.; Karger, B. L. Anal. Chem. 2005, 77, 2085-2096.
44. Thiellement, H.; Zivy, M.; Plomion, C. J. Chromatogr., B 2002, 782, 137-149.
45. De Vienne, D.; Leonardi, A.; Damerval, C.; Zivy, M. J. Exp. Bot. 1999, 50, 303-309.
46. Zivy, M.; De Vienne, D. Plant Mol. Biol. 2000, 44, 575-580.