Proteome allocations change linearly with the specific growth rate of Saccharomyces cerevisiae under glucose limitation
Artikel i vetenskaplig tidskrift, 2022

Saccharomyces cerevisiae is a widely used cell factory; therefore, it is important to understand how it organizes key functional parts when cultured under different conditions. Here, we perform a multiomics analysis of S. cerevisiae by culturing the strain with a wide range of specific growth rates using glucose as the sole limiting nutrient. Under these different conditions, we measure the absolute transcriptome, the absolute proteome, the phosphoproteome, and the metabolome. Most functional protein groups show a linear dependence on the specific growth rate. Proteins engaged in translation show a perfect linear increase with the specific growth rate, while glycolysis and chaperone proteins show a linear decrease under respiratory conditions. Glycolytic enzymes and chaperones, however, show decreased phosphorylation with increasing specific growth rates; at the same time, an overall increased flux through these pathways is observed. Further analysis show that even though mRNA levels do not correlate with protein levels for all individual genes, the transcriptome level of functional groups correlates very well with its corresponding proteome. Finally, using enzyme-constrained genome-scale modeling, we find that enzyme usage plays an important role in controlling flux in amino acid biosynthesis. Understanding how yeast organizes its functional proteome is a fundamental task in systems biology. Here, the authors conduct a multiomics analysis on yeast cells cultured with different growth rates, identifying a linear dependence of the functional proteome on the growth rate.


Jianye Xia

Chalmers, Biologi och bioteknik, Systembiologi

Benjamín José Sánchez

Chalmers, Biologi och bioteknik, Systembiologi

Yu Chen

Chalmers, Biologi och bioteknik, Systembiologi

Kate Campbell

Chalmers, Biologi och bioteknik, Systembiologi

S. Kasvandik

Tartu Ülikool

Jens B Nielsen

Chalmers, Biologi och bioteknik, Systembiologi

Nature Communications

2041-1723 (ISSN) 20411723 (eISSN)

Vol. 13 1 2819


Biokemi och molekylärbiologi

Medicinsk bioteknologi (med inriktning mot cellbiologi (inklusive stamcellsbiologi), molekylärbiologi, mikrobiologi, biokemi eller biofarmaci)

Bioinformatik och systembiologi





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