Whole Shotgun Proteomics and Its Role in Mycoremediation

Abstract

In a proteomic study, the identification, expression, structure, function, interaction, and modification of the proteins are used to characterize the protein content of a cell in a particular context. This is fundamental to understand the underlying processes that are occurring in different states of the metabolism. Applying these methods in a remediation strategy allows a comprehensive knowledge of the mechanism used by the bioremediation agent. In this chapter, we describe a detailed workflow of a whole shotgun proteomic study using mass spectrometry applied to obtain information about the proteins involved in a mycoremediation process of a given fungal strain. Specifically, we describe a comparative proteomic approach to be used in a mycoremediation experiment that allows a relative expression analysis between a control fungal strain and the same strain exposed to a xenobiotic.