Application of an improved proteomics method for abundant protein cleanup: molecular and genomic mechanisms study in plant defense.

ABSTRACT: High abundance proteins like ribulose-1,5-bisphosphate carboxylase oxygenase (Rubisco) impose a consistent challenge for the whole proteome characterization using shot-gun proteomics. To address this challenge, we developed and evaluated Polyethyleneimine Assisted Rubisco Cleanup (PARC) as a new method by combining both abundant protein removal and fractionation. The new approach was applied to a plant insect interaction study to validate the platform and investigate mechanisms for plant defense against herbivorous insects. Our results indicated that PARC can effectively remove Rubisco, improve the protein identification, and discover almost three times more differentially regulated proteins. The significantly enhanced shot-gun proteomics performance was translated into in-depth proteomic

SUBMITTER: Zhang Y 

PROVIDER: S-EPMC3820953 | biostudies-literature | 2013 Nov

REPOSITORIES: biostudies-literature