Approaching absolute quantification in yeast datasets

This study emerged in the framework of the European Project CHASSY that focused on yeast strain with industrial interest.

The goal of this study was to determine the most suitable technique to quantify in absolute terms the maximum number of yeast proteins cultivated in five industrial conditions (standard, pH stress, low temperature, osmotic stress and anaerobic cultures). To do so, we evaluated the performance of seven different quantification methods, based either on spectral counting (SC) or extracted-ion chromatogram (XIC). We also compared the accuracy and reproducibility of two strategies for transforming relative abundance into absolute abundance: a UPS2-based strategy and the total protein approach (TPA).

Overall, we generated 70 datasets that containing the abundance of yeast proteins expressed in fmol. Hopefully, this work will contribute to improve metabolic modeling engineering in budding yeast.

The proposed techniques could also be employed in fundamental research looking at the metabolic dynamics of microbes, plants, and other organisms.

# mass spec #  R #  proteomics #  yeast