Submitted to: Springer Verlag
Publication Type: Book / Chapter
Publication Acceptance Date: July 15, 2011
Publication Date: January 4, 2013
Citation: Miernyk, J.A., Johnston, M.L. 2012. Digging deeper into the seed proteome: Pre-fractionation of total proteins. In: Agrawal G.K., Rakwal R. Seed Development: OMICS Technologies Toward Improvement of Seed Quality and Crop Yield. Dordrecht, Netherlands: Springer Verlag. p. 265-278. Technical Abstract: Seeds are a common experimental system for many reasons. Among these they occupy a major niche in agriculture and human nutrition, they are a rich source of critical genetic information, and they are a near-ideal system for the study of phytohormone action or the transition from either dormancy or quiescence to active growth and development. One important component of all of these considerations is occurrence of the very highly abundant seed storage proteins (SSP). While on the one hand the high levels of proteins present in seeds make them attractive subjects, the SSP themselves are anathema to proteomic analyses. Without some sort of pretreatment removal of SSP, they will be virtually the only proteins identified in shotgun proteomic analyses. Herein we describe and compare several methods commonly used to deplete samples of SSP, present the relatively recent application of combinatorial-ligand random-peptide libraries to seed proteomic studies, and speculate briefly on the short-term future.