Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

Abstract

The field of systems biology is often held back by difficulties in obtaining comprehensive, highquality, quantitative data sets. In this paper, we undertook an interlaboratory effort to generate such a data set for a very large number of cellular components in the yeast Saccharomyces cerevisiae, a widely used model organism that is also used in the production of fuels, chemicals, food ingredients and pharmaceuticals. With the current focus on biofuels and sustainability, there is much interest in harnessing this species as a general cell factory. In this study, we characterized two yeast strains, under two standard growth conditions. We ensured the high quality of the experimental data by evaluating a wide range of sampling and analytical techniques. Here we show significant differences in the maximum specific growth rate and biomass yield between the two strains. on the basis of the integrated analysis of the highthroughput data, we hypothesize that differences in phenotype are due to differences in protein metabolism.

Fast and accurate preparation fatty acid methyl esters by microwave-assisted derivatization in the yeast Saccharomyces cerevisiae

“…This could be confirmed by a recent study (Canelas et al 2010) showing that accurate quantitative analysis of metabolite levels in yeast samples is difficult to obtain, whereas relative metabolite levels can be measured consistently in different laboratories. Several methods used for FAME preparation in yeast originate from Moss et al (1974), which was originally developed for bacterial fatty acid analysis.…”

Laboratory Evolution of a Biotin-Requiring Saccharomyces cerevisiae Strain for Full Biotin Prototrophy and Identification of Causal Mutations

“…To this end, the haploid strain S. cerevisiae CEN.PK113-7D, a popular model for systems biology and metabolic-engineering research (22,(24)(25)(26), was subjected to laboratory evolution in biotin-free medium. Evolved biotin-prototrophic cell lines were further characterized by whole-genome resequencing and by reverse engineering of identified mutations in the parental strain.…”

Metabolic engineering of Saccharomyces cerevisiae: a key cell factory platform for future biorefineries

“…Yeast also serves as an important model eukaryote, and many fundamental studies have therefore been performed on this organism [54]. It was also the first eukaryotic organism to have its genome sequenced and a number of highthroughput studies have been pioneered using this organism as a model [55][56][57] Fig. 1 Illustration of the biorefinery concept and the development time of novel bioprocesses.…”