Evolutionary principles of modular gene regulation in yeasts

Dawn A. Thompson; Sushmita Roy; Michelle Chan; Mark P. Styczynsky; Jenna Pfiffner; Courtney French; Amanda Socha; Anne Thielke; Sara Napolitano; Paul Muller; Manolis Kellis; Jay H. Konieczka; Ilan Wapinski; Aviv Regev

doi:10.7554/eLife.00603

Evolutionary principles of modular gene regulation in yeasts

Dawn A. Thompson, Sushmita Roy, Michelle Chan, Mark P. Styczynsky, Jenna Pfiffner, Courtney French, Amanda Socha, Anne Thielke, Sara Napolitano, Paul Muller, Manolis Kellis, Jay H. Konieczka, Ilan Wapinski, Aviv Regev

Research output: Contribution to journal › Article › peer-review

59 Scopus citations

Abstract

Divergence in gene regulation can play a major role in evolution. Here, we used a phylogenetic framework to measure mRNA profiles in 15 yeast species from the phylum Ascomycota and reconstruct the evolution of their modular regulatory programs along a time course of growth on glucose over 1 billion years. We found that modules have diverged proportionally to phylogenetic distance, with prominent changes in gene regulation accompanying changes in lifestyle and ploidy, especially in carbon metabolism. Paralogs have significantly contributed to regulatory divergence, typically within a very short window from their duplication. Paralogs from a whole genome duplication (WGD) event have a uniquely substantial contribution that extends over a longer span. Similar patterns occur when considering the evolution of the heat shock regulatory program measured in eight of the species, suggesting that these are general evolutionary principles.

Original language	English (US)
Article number	e00603
Journal	eLife
Volume	2013
Issue number	2
DOIs	https://doi.org/10.7554/eLife.00603
State	Published - Jun 18 2013
Externally published	Yes

All Science Journal Classification (ASJC) codes

Biochemistry, Genetics and Molecular Biology(all)
Immunology and Microbiology(all)
Neuroscience(all)

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10.7554/eLife.00603

Cite this

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abstract = "Divergence in gene regulation can play a major role in evolution. Here, we used a phylogenetic framework to measure mRNA profiles in 15 yeast species from the phylum Ascomycota and reconstruct the evolution of their modular regulatory programs along a time course of growth on glucose over 1 billion years. We found that modules have diverged proportionally to phylogenetic distance, with prominent changes in gene regulation accompanying changes in lifestyle and ploidy, especially in carbon metabolism. Paralogs have significantly contributed to regulatory divergence, typically within a very short window from their duplication. Paralogs from a whole genome duplication (WGD) event have a uniquely substantial contribution that extends over a longer span. Similar patterns occur when considering the evolution of the heat shock regulatory program measured in eight of the species, suggesting that these are general evolutionary principles.",

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AU - Chan, Michelle

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AU - French, Courtney

AU - Socha, Amanda

AU - Thielke, Anne

AU - Napolitano, Sara

AU - Muller, Paul

AU - Kellis, Manolis

AU - Konieczka, Jay H.

AU - Wapinski, Ilan

AU - Regev, Aviv

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Evolutionary principles of modular gene regulation in yeasts

Abstract

All Science Journal Classification (ASJC) codes

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