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Mutational robustness changes during long-term adaptation in laboratory budding yeast populations

View ORCID ProfileMilo S. Johnson, View ORCID ProfileMichael M. Desai
doi: https://doi.org/10.1101/2021.12.17.473185
Milo S. Johnson
1Department of Organismic and Evolutionary Biology, Center for Mathematical and Statistical Analysis of Biology, Harvard University, Cambridge MA 02138
2Quantitative Biology Initiative, Center for Mathematical and Statistical Analysis of Biology, Harvard University, Cambridge MA 02138
3NSF-Simons Center for Mathematical and Statistical Analysis of Biology, Harvard University, Cambridge MA 02138
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  • For correspondence: [email protected] [email protected]
Michael M. Desai
1Department of Organismic and Evolutionary Biology, Center for Mathematical and Statistical Analysis of Biology, Harvard University, Cambridge MA 02138
2Quantitative Biology Initiative, Center for Mathematical and Statistical Analysis of Biology, Harvard University, Cambridge MA 02138
3NSF-Simons Center for Mathematical and Statistical Analysis of Biology, Harvard University, Cambridge MA 02138
4Department of Physics, Harvard University, Cambridge MA 02138
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  • For correspondence: [email protected] [email protected]
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Abstract

As an adapting population traverses the fitness landscape, its local neighborhood (i.e., the collection of fitness effects of single-step mutations) can change shape because of interactions with mutations acquired during evolution. These changes to the distribution of fitness effects can affect both the rate of adaptation and the accumulation of deleterious mutations. However, while numerous models of fitness landscapes have been proposed in the literature, empirical data on how this distribution changes during evolution remains limited. In this study, we directly measure how the fitness landscape neighborhood changes during laboratory adaptation. Using a barcode-based mutagenesis system, we measure the fitness effects of 91 specific gene disruption mutations in genetic backgrounds spanning 8,000-10,000 generations of evolution in two constant environments. We find that the mean of the distribution of fitness effects decreases in one environment, indicating a reduction in mutational robustness, but does not change in the other. We show that these distribution-level patterns result from biases in variable patterns of epistasis at the level of individual mutations, including fitness-correlated and idiosyncratic epistasis.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://github.com/mjohnson11/VTn_pipeline

  • https://www.ncbi.nlm.nih.gov/sra?term=SRP351176

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted December 20, 2021.
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Mutational robustness changes during long-term adaptation in laboratory budding yeast populations
Milo S. Johnson, Michael M. Desai
bioRxiv 2021.12.17.473185; doi: https://doi.org/10.1101/2021.12.17.473185
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Mutational robustness changes during long-term adaptation in laboratory budding yeast populations
Milo S. Johnson, Michael M. Desai
bioRxiv 2021.12.17.473185; doi: https://doi.org/10.1101/2021.12.17.473185

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