Evolutionary principles of modular gene regulation in yeasts
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 300 millio...
| Main Authors: | , , , , , , , , , , , , , |
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| Other Authors: | |
| Format: | Article |
| Language: | en_US |
| Published: |
eLife Sciences Publications, Ltd
2014
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| Online Access: | http://hdl.handle.net/1721.1/84965 https://orcid.org/0000-0001-8567-2049 |
| _version_ | 1811090419839139840 |
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| author | Thompson, Dawn A. Roy, Sushmita Chan, Michelle Mei Wah Styczynsky, Mark P. Pfiffner, Jenna French, Courtney Socha, Amanda Thielke, Anne Napolitano, Sara Muller, Paul Kellis, Manolis Konieczka, Jay Wapinski, Ilan Regev, Aviv |
| author2 | Massachusetts Institute of Technology. Computational and Systems Biology Program |
| author_facet | Massachusetts Institute of Technology. Computational and Systems Biology Program Thompson, Dawn A. Roy, Sushmita Chan, Michelle Mei Wah Styczynsky, Mark P. Pfiffner, Jenna French, Courtney Socha, Amanda Thielke, Anne Napolitano, Sara Muller, Paul Kellis, Manolis Konieczka, Jay Wapinski, Ilan Regev, Aviv |
| author_sort | Thompson, Dawn A. |
| collection | MIT |
| description | 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 300 million 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. |
| first_indexed | 2024-09-23T14:45:22Z |
| format | Article |
| id | mit-1721.1/84965 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T14:45:22Z |
| publishDate | 2014 |
| publisher | eLife Sciences Publications, Ltd |
| record_format | dspace |
| spelling | mit-1721.1/849652022-09-29T10:22:37Z Evolutionary principles of modular gene regulation in yeasts Thompson, Dawn A. Roy, Sushmita Chan, Michelle Mei Wah Styczynsky, Mark P. Pfiffner, Jenna French, Courtney Socha, Amanda Thielke, Anne Napolitano, Sara Muller, Paul Kellis, Manolis Konieczka, Jay Wapinski, Ilan Regev, Aviv Massachusetts Institute of Technology. Computational and Systems Biology Program Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory Massachusetts Institute of Technology. Department of Biology Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science Roy, Sushmita Chan, Michelle Mei Wah Kellis, Manolis Regev, Aviv 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 300 million 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. 2014-02-14T19:36:56Z 2014-02-14T19:36:56Z 2013-06 Article http://purl.org/eprint/type/JournalArticle 2050-084X http://hdl.handle.net/1721.1/84965 Thompson, D. A., S. Roy, M. Chan, M. P. Styczynsky, J. Pfiffner, C. French, A. Socha, et al. “Evolutionary principles of modular gene regulation in yeasts.” eLife 2, no. 0 (January 8, 2013): e00603-e00603. https://orcid.org/0000-0001-8567-2049 en_US http://dx.doi.org/10.7554/eLife.00603 eLife Creative Commons Attribution http://creativecommons.org/licenses/by/3.0/ application/pdf eLife Sciences Publications, Ltd Elife |
| spellingShingle | Thompson, Dawn A. Roy, Sushmita Chan, Michelle Mei Wah Styczynsky, Mark P. Pfiffner, Jenna French, Courtney Socha, Amanda Thielke, Anne Napolitano, Sara Muller, Paul Kellis, Manolis Konieczka, Jay Wapinski, Ilan Regev, Aviv Evolutionary principles of modular gene regulation in yeasts |
| title | Evolutionary principles of modular gene regulation in yeasts |
| title_full | Evolutionary principles of modular gene regulation in yeasts |
| title_fullStr | Evolutionary principles of modular gene regulation in yeasts |
| title_full_unstemmed | Evolutionary principles of modular gene regulation in yeasts |
| title_short | Evolutionary principles of modular gene regulation in yeasts |
| title_sort | evolutionary principles of modular gene regulation in yeasts |
| url | http://hdl.handle.net/1721.1/84965 https://orcid.org/0000-0001-8567-2049 |
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