Title
Comparative analysis of transcriptome and fitness profiles reveals general and condition-specific cellular functions involved in adaptation to environmental change in Saccharomyces cerevisiae
Author
Zakrzewska, A.
Boorsma, A.
Beek, A.T.
Hageman, J.A.
Westerhuis, J.A.
Hellingwerf, K.J.
Brul, S.
Klis, F.M.
Smits, G.J.
TNO Kwaliteit van Leven
Publication year
2010
Abstract
The transcriptional responses of yeast cells to a wide variety of stress conditions have been studied extensively. In addition, deletion mutant collections have been widely used to measure the combined effect of gene loss and stress on growth (fitness). Here we present a comparative analysis of 1,095 publicly available transcription and genome-wide fitness profiles in yeast, from different laboratories and experimental platforms. We analyzed these data, using T-profiler, to describe the correlation in behavior of a priori defined functional groups. Two-mode clustering analysis of the fitness T-profiles revealed that functional groups involved in regulating ribosome biogenesis and translation offer general stress resistance. These groups are closely related to growth rate and nutrient availability. General stress sensitivity was found in deletion mutant groups functioning in intracellular vesicular transport, actin cytoskeleton organization, and cell polarity, indicating that they play an key role in maintaining yeast adaptability. Analysis of the phenotypic and transcriptional variability of our a priori defined functional groups showed that the quantitative effect on fitness of both resistant and sensitive groups is highly condition-dependent. Finally, we discuss the implications of our results for combinatorial drug design. © 2010, Mary Ann Liebert, Inc. 2010.
Subject
Health
Biomedical Research
actin
transcriptome
adaptation
article
biogenesis
cell function
cell polarity
cytoskeleton
environmental stress
fungal genome
gene cluster
gene deletion
genetic transcription
nonhuman
nutrient availability
oxidative stress
phenotype
priority journal
ribosome
Saccharomyces cerevisiae
yeast cell
To reference this document use:
http://resolver.tudelft.nl/uuid:ee9dd4f5-5395-4340-99da-03a8cb87e5d9
TNO identifier
425183
ISSN
1536-2310
Source
OMICS A Journal of Integrative Biology, 14 (5), 603-614
Document type
article