Interactomes Yeast

Ito, T., Chiba, T., Ozawa, R., Yoshida, M., Hattori, M., and Sakaki, Y. (2001). A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc. Natl. Acad. Sci. USA 98, 4569-4574. 

Figure 28.1 A small segment of the yeast interactome. The spheres represent proteins and the interconnecting lines are identified protein interactions. Many proteins are seen to interact with one or two other proteins, but some can have over a dozen other interacting partners.

Gandhi, T.K., Zhong, J., Mathivanan, S., Karthick, L., Chandrika, K.N., Mohan, S.S., Sharma, S., Pinkert, S., Nagaraju, S., Perias-wamy, B., et al, (2006) Analysis of the Human Protein Interactome and Comparison with Yeast, Worm and Fly Interaction Datasets. Nat Genet, 38, 285-293. 

Ito T, Ota K, Kubota H et al (2002) Roles for the two-hybrid system in exploration of the yeast protein interactome. Mol Cell Proteomics 1 561-566... 

MIPS mips.gsf.de/services/ppi No restriction Comprehensive coverage for the yeast and mammalian interactome Pagel et al. (2005)... 

Biirkle, L., Dinkel, M., Auerbach, D. and Stagljar, I. (2005) A GPCR interactome a comprehensive membrane protein interaction map of Human G-protein coupled receptors using the membrane-based yeast two-hybrid approach. Mol. Cell. Proteomics 4 (Suppl. 1), S45. 

Parrish JR, Gulyas KD, Finley RE Jr. Yeast two-hybrid contributions to interactome mapping. Curr. Opin. Biotechnol. 2006 17 387-393. 

Zhu H, Klemic IF, Chang S, Bertone P, Casamayor A, Klemic KG, Smith D, Gerstein M, Reed MA, Snyder M. Analysis of yeast protein kinases using protein chips. Nat. Genet. 2000 26 283-289. Horiuchi KY, Wang Y, Diamond SL, Ma H. Microarrays for the functional analysis of the chemical-kinase interactome. J. Biomol. Screen. 2006 11 48-56. 

TAP involves a couple of cycles of purification of interacting proteins based on their affinity to another molecule bound to a matrix and the subsequent identification of interacting proteins by mass spectrometry. This is a high-throughput method, but it cannot detect weak transient interactions because such proteins with weak interactions get separated during the steps of affinity purification. The TAP method has been used to establish the interactomes or protein networks in many organisms, including yeast. A brief description of this method is presented next. 

The PPI maps of many eukaryotic organisms have been investigated. Several model organisms including flies yeast, fly, worms, and humans interactomes, have been mapped extensively. Some of these are described in this section. 

Causier, B. 2004. Studing the interactome with the yeast two-hybrid system and mass spectrometry. Mass Spectrom. Rev. 23, 350-367. 

Goll, J. and P. Uetz. 2006. The elusive yeast interactome. Genome Biol. 7, 1-8. 

Valente, A. X. C. N. and M. E. Cusick. 2006. Yeast protein interactome topology provides framework for coordinated-functionality. Nucleic Acids Res. 34, 2812-2819. 

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