Identifying Protein Complexes by Affinity Purification and Mass Spectrometry Analysis in the Rice Blast Fungus

Methods in Molecular Biology

Volumn 722, Issue , 2011, Pages 157-166

  Liu, Wende ^b   Iliuk, Anton ^b   Tao, Andy ^b   Ding, Shengli ^a  

^a PURDUE UNIVERSITY   (United States)

^b NONE

Author keywords

Epitope tagging; Interactome; Magnaporthe oryzae; Protein interaction; Proteomics

Indexed keywords

EPITOPE; FUNGAL PROTEIN; MULTIPROTEIN COMPLEX;

AFFINITY CHROMATOGRAPHY; AFFINITY LABELING; ARTICLE; CHEMISTRY; GENETICS; GROWTH, DEVELOPMENT AND AGING; MAGNAPORTHE; METABOLISM; METHODOLOGY; MICROBIOLOGY; PLANT DISEASE; PROTEIN ANALYSIS; PROTEOMICS; RICE; TANDEM MASS SPECTROMETRY;

AFFINITY LABELS; CHROMATOGRAPHY, AFFINITY; EPITOPES; FUNGAL PROTEINS; MAGNAPORTHE; MULTIPROTEIN COMPLEXES; ORYZA SATIVA; PLANT DISEASES; PROTEIN INTERACTION MAPPING; PROTEOMICS; TANDEM MASS SPECTROMETRY;

EID: 80053098274     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-040-9_11     Document Type: Chapter

References (17)

1. Ford, T. L., Cooley, J. T., and Christou, P. (1994) Current status for gene transfer into rice utilizing variety-independent delivery systems. In Rice Blast Disease. Ziegler, R.S., Leong, S.A., and Teng, P.S., (eds). Wallingford, UK: CAB International, pp. 195–208.
2. Talbot, N. J. (2003) On the trail of a cereal killer: Exploring the biology of Magnaporthe grisea. Annu. Rev. Microbiol. 57, 177–202.
3. Xu, J. R., Zhao, X., and Dean, R. A. (2007) From genes to genomes: A new paradigm for studying fungal pathogenesis in Magnaporthe oryzae. Adv. Genet. 57, 175–218.
4. Ebbole, D. J. (2007) Magnaporthe as a model for understanding host-pathogen interactions. Annu. Rev. Phytopathol. 45, 437–456.
5. Li, L., Ding, S. L., Sharon, A., Orbach, M., and Xu, J. R. (2007). Mir1 is Highly Upregulated and Localized to Nuclei During Infectious Hyphal Growth in the Rice Blast Fungus. Mol. Plant-Microbe Interact. 20, 448–458.
6. Betts, M. F., Tucker, S. L., Galadima, N., Meng, Y., Patel, G., Li, L., Donofrio, N., Floyd, A., Nolin, S., Brown, D., Mandel, M. A., Mitchell, T. K., Xu, J. R., Dean, R. A., Farman, M. L., and Orbach, M. J. (2007). Development of a high throughput transformation system for insertional mutagenesis in Magnaporthe oryzae. Fungal Genet. Biol. 44, 1035–1049.
7. Valent, B., and Chumley, F. G. (1991). Molecular Genetic Analysis of the Rice Blast Fungus, Magnaporthe grisea. Annu. Rev. Phytopathol. 29, 443–467.
8. Gavin, A. C., Aloy, P., Grandi, P., Krause, R., Boesche, M., et al., (2006). Proteome survey reveals modularity of the yeast cell machinery. Nature 440, 631–636.
9. Krogan, N. J., Cagney, G., Yu, H., Zhong, G., Guo, X., et al., (2006). Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 440, 637–643.
10. Ho, Y., Gruhler, A., Heilbut, A., Bader, G. D., Moore, L., et al., (2002). Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415, 180–183.
11. Liu, W. D., Ding, S. L., and Xu, J. R. The Set3 complex regulates penetration and infectious growth in Magnaporthe grisea. Fungal Genet. Newsl. 58S, 557.
12. Bruno, K. S., Tenjo, F., Li, L., Hamer, J. E., and Xu, J. R. (2004). Cellular localization and role of kinase activity of PMK1 in Magnaporthe grisea. Eukaryotic Cell 3, 1525–1532.
13. Dean, R. A., Talbot, N. J., Ebbole, D. J., Farman, M. L., Mitchell, T. K., et al., (2005). The genome sequence of the rice blast fungus Magnaporthe grisea. Nature 434, 980–986.
14. Yu, Y. Q., Gilar, M., Lee, P. J., Bouvier, E. S. P., and Gebler, J. C. (2003) Enzyme-friendly, mass spectrometry-compatible surfactant for in-solution enzymatic digestion of proteins. Anal. Chem. 75, 6023–6028.
15. Tao, W. A., Wollscheid, B., O’Brien, R., Eng, J., Li, X., Bodenmiller, B., Watts, J., Hood, L., and Aebersold, R. (2005) Quantitative phosphoproteome analysis using a dendrimer conjugation chemistry and mass spectrometry. Nature Methods 2, 591–598.
16. Benjamini, Y., and Hochberg, Y. (1995) Controlling the false discovery rate – a practical and powerful approach to multiple testing. J. Royal Stat. So. Ser. B-Method. 57, 289–300.
17. Pijnappel, W. W, Schaft, D., Roguev, A., Shevchenko, A., Tekotte, H., Wilm, M., Rigaut, G., Séraphin, B., Aasland, R., and Stewart, A. F. (2001). The Saccharomyces cerevisiae SET3 complex includes two histone deacetylases, Hos2 and Hst1, and is a meiotic-specific repressor of the sporulation gene program. Genes Dev. 22, 2991–3004.