Modeling single-cell phenotypes links yeast stress acclimation to transcriptional repression and pre-stress cellular states

Author:

Bergen Andrew C1ORCID,Kocik Rachel A1ORCID,Hose James1,McClean Megan N123,Gasch Audrey P134ORCID

Affiliation:

1. Center for Genomic Science Innovation, University of Wisconsin-Madison

2. Department of Biomedical Engineering, University of Wisconsin-Madison

3. University of Wisconsin Carbone Cancer Center, University of Wisconsin School of Medicine and Public Health

4. Department of Medical Genetics, University of Wisconsin-Madison

Abstract

Stress defense and cell growth are inversely related in bulk culture analyses; however, these studies miss substantial cell-to-cell heterogeneity, thus obscuring true phenotypic relationships. Here, we devised a microfluidics system to characterize multiple phenotypes in single yeast cells over time before, during, and after salt stress. The system measured cell and colony size, growth rate, and cell-cycle phase along with nuclear trans-localization of two transcription factors: stress-activated Msn2 that regulates defense genes and Dot6 that represses ribosome biogenesis genes during an active stress response. By tracking cells dynamically, we discovered unexpected discordance between Msn2 and Dot6 behavior that revealed subpopulations of cells with distinct growth properties. Surprisingly, post-stress growth recovery was positively corelated with activation of the Dot6 repressor. In contrast, cells lacking Dot6 displayed slower growth acclimation, even though they grow normally in the absence of stress. We show that wild-type cells with a larger Dot6 response display faster production of Msn2-regulated Ctt1 protein, separable from the contribution of Msn2. These results are consistent with the model that transcriptional repression during acute stress in yeast provides a protective response, likely by redirecting translational capacity to induced transcripts.

Funder

National Science Foundation

Burroughs Wellcome Fund

National Institute of Health and Medical Research

Publisher

eLife Sciences Publications, Ltd

Subject

General Immunology and Microbiology,General Biochemistry, Genetics and Molecular Biology,General Medicine,General Neuroscience

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