Stress-induced expression is enriched for evolutionarily young genes in diverse budding yeasts
Journal article, 2020

The Saccharomycotina subphylum (budding yeasts) spans 400 million years of evolution and includes species that thrive in diverse environments. To study niche-adaptation, we identify changes in gene expression in three divergent yeasts grown in the presence of various stressors. Duplicated and non-conserved genes are significantly more likely to respond to stress than genes that are conserved as single-copy orthologs. Next, we develop a sorting method that considers evolutionary origin and duplication timing to assign an evolutionary age to each gene. Subsequent analysis reveals that genes that emerged in recent evolutionary time are enriched amongst stress-responsive genes for each species. This gene expression pattern suggests that budding yeasts share a stress adaptation mechanism, whereby selective pressure leads to functionalization of young genes to improve growth in adverse conditions. Further characterization of young genes from species that thrive in harsh environments can inform the design of more robust strains for biotechnology.

Systems analysis

Industrial microbiology

Applied microbiology

Author

Tyler Doughty

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Novo Nordisk Foundation Center for Biosustainability

Iván Domenzain Del Castillo Cerecer

Novo Nordisk Foundation Center for Biosustainability

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Aaron Millan-Oropeza

University Paris-Saclay

Noemi Montini

APC Microbiome Ireland

Philip A. de Groot

Delft University of Technology

Rui Pereira

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Novo Nordisk Foundation Center for Biosustainability

Jens B Nielsen

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Novo Nordisk Foundation Center for Biosustainability

Céline Henry

University Paris-Saclay

J. M. Daran

Delft University of Technology

Verena Siewers

Novo Nordisk Foundation Center for Biosustainability

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

John P. Morrissey

APC Microbiome Ireland

Nature Communications

2041-1723 (ISSN)

Vol. 11 1 2144

Subject Categories

Evolutionary Biology

Bioinformatics and Systems Biology

Genetics

DOI

10.1038/s41467-020-16073-3

More information

Latest update

6/18/2020