Proteome-wide quantitative multiplexed profiling of protein expression: Carbon source dependency in S. cerevisiae

ABSTRACT: The global proteomic alterations in the budding yeast Saccharomyces cerevisiae due to differences in carbon sources can be comprehensively examined using mass spectrometry-based multiplexing strategies. Here we investigate changes in the S. cerevisiae proteome resulting from cultures grown in minimal media using galactose, glucose, or raffinose as the carbon source. We used a TMT 9-plex strategy to determine alterations in relative protein abundance due to a particular carbon source, in triplicate, thereby permitting subsequent statistical analyses. We quantified over 4700 proteins across all 9 samples, of which 1003 demonstrated statistically significant differences in abundance in at least one condition. The majority of altered proteins were classified as functioning in metabolic processes and as having cellular origins of plasma membrane and mitochondria. In contrast, proteins remaining relatively unchanged in abundance included those having nucleic acid-related processes, such as transcription and RNA processing. In addition, the comprehensiveness of the dataset enabled the analysis of subsets of functionally-related proteins, such as phosphatases, kinases, and transcription factors. Moreover, alterations in protein abundance levels of full sets of proteins that comprise distinct biological pathways, such as galactose metabolism and the TCA cycle, can be examined collectively. As a resource, these data can be mined further in efforts to understand better the roles of carbon source fermentation in yeast metabolic pathways and potentially utilize observed alterations for industrial applications, such as biofuel feedstock production.

INSTRUMENT(S): Orbitrap Fusion

ORGANISM(S): Saccharomyces Cerevisiae (baker's Yeast)

SUBMITTER: Joao Paulo  

LAB HEAD: Joao A. Paulo

PROVIDER: PXD002875 | Pride | 2016-04-20

REPOSITORIES: Pride