Methods for functional proteomic analyses

Methods in Molecular Biology

Volumn 513, Issue , 2009, Pages 93-110

  Rampitsch, Christof ^a   Bykova, Natalia V ^a  

^a Cereal Research Centre   (Canada)

Author keywords

Mass spectrometry; Plant proteomics; Two dimensional electrophoresis

Indexed keywords

VEGETABLE PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; CHEMISTRY; ELECTROSPRAY MASS SPECTROMETRY; GENETICS; ISOLATION AND PURIFICATION; MASS SPECTROMETRY; METHODOLOGY; MOLECULAR GENETICS; PHOSPHORYLATION; PROTEIN PROCESSING; PROTEOMICS; TANDEM MASS SPECTROMETRY; TWO DIMENSIONAL GEL ELECTROPHORESIS; WHEAT;

AMINO ACID SEQUENCE; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; MOLECULAR SEQUENCE DATA; PHOSPHORYLATION; PLANT PROTEINS; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTEOMICS; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; TANDEM MASS SPECTROMETRY; TRITICUM;

EID: 65349127546     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-59745-427-8_6     Document Type: Article

References (25)

1. O'Farrell, P.H. (1975) High resolution two-dimensional electrophoresis of proteins. J. Biol. Chem. 250, 4007-4021.
2. Görg, A., Weiss, W., and Dunn, M.J. (2004) Current two-dimensional electrophoresis technology for proteomics. Proteomics 4, 3665-3685. (Pubitemid 39657447)
3. Damerval, C. (1986) Technical improvements in two-dimensional electrophoresis increases the level of genetic variation detected in wheat seedling proteins. Electrophoresis 7, 52-54.
4. Hurkman, W.J. and Tanaka, C.K. (1986) Solubilization of plant membrane proteins for analysis by two-dimensional electrophoresis. Plant Physiol. 81, 802-806.
5. Saravan, R.S. and Rose, J.K.C. (2004) A critical evaluation of sample extraction techniques for enhanced proteomic analysis of recalcitrant plant tissues. Proteomics 4, 2522-2532. (Pubitemid 39202153)
6. Vâlcu, C.-M. and Schlink, K. (2006) Efficient extraction of proteins from woody plant samples for two-dimensional electrophoresis. Pro-teomics 6, 4166-4175.
7. Westermeier, R. (2001) Electrophoresis in Practice, 3rd Ed. Wiley VCH, Weinheim.
8. Fernando, D.D. (2005) Characterization of pollen tube development in Pinus strobus (Eastern white pine) through proteomic analysis of differentially expressed proteins. Pro-teomics 5, 4917-4926. (Pubitemid 43016910)
9. Laemmli, U.K. (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227, 680-687.
10. Rampitsch, C., Bykova, N.V., Mauthe, W., Yakandawala, N., and Jordan, M. (2006) Phosphoproteomic profiling of wheat callus labelled in vivo. Plant Sci. 171, 488-496. (Pubitemid 44164526)
11. Aebersold, R. and Mann, M. (2003) Mass spectrometry-based proteomics. Nature 422, 198-207. (Pubitemid 36362757)
12. Jensen, O.N., Podtelejnikov, A.V., and Mann, M. (1997) Identification of the components of simple protein mixtures by high-accuracy peptide mass mapping and database searching. Anal. Chem. 69, 4741-4750.
13. Rappsilber, J. and Mann, M. (2002) What does it mean to identify a protein in proteom-ics? Trends Biochem. Sci. 27, 74-78. (Pubitemid 34164322)
14. Standing, K.G. (2003) Peptide and protein de novo sequencing by mass spectrometry. Curr. Opin. Struct. Biol. 13, 595-601. (Pubitemid 37244114)
15. Rampitsch, C., Bykova, N.V., McCallum, B., Beimcik, E., and Ens, W. (2006) Analysis of the wheat and Puccinia triticina (leaf rust) proteomes during a compatible host-pathogen interaction. Proteomics 6, 1897-1907.
16. Shevchenko, A., Chernushevich, I., Ens, W., Standing, K.G., Thomson, B., Wilm, M., et al. (1997) Rapid 'de novo' peptide sequencing by a combination of nanoelectrospray, isotopic labelling and a quadrupole/time-of-flight mass spectrometer. Rapid Commun. Mass Spectrom. 11, 1015-1024. (Pubitemid 27269537)
17. Shevchenko, A., Chernushevich, I., Wilm, M., and Mann, M. (2000) De novo peptide sequencing by nanoelectrospray tandem mass spectrometry using triple quadrupole and quadrupole/time-of-flight instruments. Methods Mol. Biol. 146, 1-16.
18. Bykova, N.V., Rampitsch, C., Krokhin, O., Standing, K.G., and Ens, W. (2006) Determination and characterization of site-specific N-glycosylation using MALDI-Qq-TOF tandem mass spectrometry: case study with a plant protease. Anal. Chem. 78, 1093-1103. (Pubitemid 43271838)
19. Jensen, O.N. (2006) Interpreting the protein language using proteomics. Nat. Rev. 7, 391-403. (Pubitemid 44050093)
20. Bykova, N.V., Egsgaard, H., and Møller, I.M. (2003) Identification of 14 new phosphopro-teins involved in important plant mitochon-drial processes. FEBS Lett. 540, 141-146. (Pubitemid 36398046)
21. Bykova, N.V., Stensballe, A., Egsgaard, H., Jensen, O.N., and Møller, I.M. (2003) Phos-phorylation of formate dehydrogenase in potato tuber mitochondria. J. Biol. Chem. 278, 26021-26030. (Pubitemid 36835369)
22. Shevchenko, A., Wilm, M., Vo r m, O., and Mann, M. (1996) Mass spectrometric sequencing of proteins from silver stained polyacryla-mide gels. Anal. Chem. 68, 850-858.
23. Lapko, V.N., Smith, D.L., and Smith, J.B. (2000) Identification of an artefact in the mass spectrometry of proteins derivatized with iodoacetamide. J. Mass Spectrom. 35, 572-575. (Pubitemid 30215996)
24. Wilm, M., Shevchenko, A., Houthaeve, T., Breit, S., Scheigerer, L., Fotsis, T., and Mann, M. (1996) Femtomole sequencing of proteins from polyacrylamide gels by nanoelectrospray mass spectrometry. Nature 379, 466-469.
25. Stensballe, A., Andersen, S., and Jensen, O.N. (2001) Characterization of phosphoproteins from electrophoretic gels by nano-scale Fe(III) affinity chromatography with off-line mass spectrometry analysis. Proteomics 1, 207-222. (Pubitemid 33586717)