Evolthon: A community endeavor to evolve lab evolution

Sivan Kaminski Strauss; Dvir Schirman; Ghil Jona; Aaron N. Brooks; Aditya M. Kunjapur; Alex N. Nguyen Ba; Alice Flint; Andras Solt; Andreas Mershin; Atray Dixit; Avihu H. Yona; Bálint Csörgő; Bede Phillip Busby; Bianca P. Hennig; Csaba Pál; Daniel Schraivogel; Daniel Schultz; Dav G. Wernick; Deepa Agashe; Dikla Levi; Dmitry Zabezhinsky; Dor Russ; Ehud Sass; Einat Tamar; Elad Herz; Emmanuel D. Levy; George M. Church; Idan Yelin; Iftach Nachman; Jeffrey E. Gerst; Joseph M. Georgeson; Katarzyna P. Adamala; Lars M. Steinmetz; Marc Rübsam; Markus Ralser; Michael Klutstein; Michael M. Desai; Nilima Walunjkar; Ning Yin; Noa Aharon Hefetz; Noah Jakimo; Olga Snitser; Omri Adini; Prashant Kumar; Rachel Soo Hoo Smith; Razi Zeidan; Ronen Hazan; Roni Rak; Roy Kishony; Shannon Johnson; Shira Nouriel; Sibylle C. Vonesch; Simmie Foster; Tal Dagan; Tanita Wein; Thrasyvoulos Karydis; Timothy M. Wannier; Timothy Stiles; Viriana Olin-Sandoval; William F. Mueller; Yinon M. Bar-On; Orna Dahan; Yitzhak Pilpel

doi:10.1371/journal.pbio.3000182

Evolthon: A community endeavor to evolve lab evolution

Sivan Kaminski Strauss, Dvir Schirman, Ghil Jona, Aaron N. Brooks, Aditya M. Kunjapur, Alex N. Nguyen Ba, Alice Flint, Andras Solt, Andreas Mershin, Atray Dixit, Avihu H. Yona, Bálint Csörgő, Bede Phillip Busby, Bianca P. Hennig, Csaba Pál, Daniel Schraivogel, Daniel Schultz, Dav G. Wernick, Deepa Agashe, Dikla LeviDmitry Zabezhinsky, Dor Russ, Ehud Sass, Einat Tamar, Elad Herz, Emmanuel D. Levy, George M. Church, Idan Yelin, Iftach Nachman, Jeffrey E. Gerst, Joseph M. Georgeson, Katarzyna P. Adamala, Lars M. Steinmetz, Marc Rübsam, Markus Ralser, Michael Klutstein, Michael M. Desai, Nilima Walunjkar, Ning Yin, Noa Aharon Hefetz, Noah Jakimo, Olga Snitser, Omri Adini, Prashant Kumar, Rachel Soo Hoo Smith, Razi Zeidan, Ronen Hazan, Roni Rak, Roy Kishony, Shannon Johnson, Shira Nouriel, Sibylle C. Vonesch, Simmie Foster, Tal Dagan, Tanita Wein, Thrasyvoulos Karydis, Timothy M. Wannier, Timothy Stiles, Viriana Olin-Sandoval, William F. Mueller, Yinon M. Bar-On, Orna Dahan, Yitzhak Pilpel

Genetics, Cell Biology and Development (CBS)

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

11 Scopus citations

Abstract

In experimental evolution, scientists evolve organisms in the lab, typically by challenging them to new environmental conditions. How best to evolve a desired trait? Should the challenge be applied abruptly, gradually, periodically, sporadically? Should one apply chemical mutagenesis, and do strains with high innate mutation rate evolve faster? What are eal population sizes of evolving populations? There are endless strategies, beyond those that can be exposed by indivual labs. We therefore arranged a community challenge, Evolthon, in which students and scientists from different labs were asked to evolve Escherichia coli or Saccharomyces cerevisiae for an abiotic stress—low temperature. About 30 participants from around the world explored diverse environmental and genetic regimes of evolution. After a period of evolution in each lab, all strains of each species were competed with one another. In yeast, the most successful strategies were those that used mating, underscoring the importance of sex in evolution. In bacteria, the fittest strain used a strategy based on exploration of different mutation rates. Different strategies displayed variable levels of performance and stability across additional challenges and conditions. This study therefore uncovers principles of effective experimental evolutionary regimens and might prove useful also for biotechnological developments of new strains and for understanding natural strategies in evolutionary arms races between species. Evolthon constitutes a model for community- based scientific exploration that encourages creativity and cooperation.

Original language	English (US)
Article number	e3000182
Journal	PLoS biology
Volume	17
Issue number	3
DOIs	https://doi.org/10.1371/journal.pbio.3000182
State	Published - Mar 2019

Bibliographical note

Publisher Copyright:
© 2019 Kaminski Strauss et al.

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Strauss, S. K., Schirman, D., Jona, G., Brooks, A. N., Kunjapur, A. M., Nguyen Ba, A. N., Flint, A., Solt, A., Mershin, A., Dixit, A., Yona, A. H., Csörgő, B., Busby, B. P., Hennig, B. P., Pál, C., Schraivogel, D., Schultz, D., Wernick, D. G., Agashe, D., ... Pilpel, Y. (2019). Evolthon: A community endeavor to evolve lab evolution. PLoS biology, 17(3), Article e3000182. https://doi.org/10.1371/journal.pbio.3000182

Strauss, SK, Schirman, D, Jona, G, Brooks, AN, Kunjapur, AM, Nguyen Ba, AN, Flint, A, Solt, A, Mershin, A, Dixit, A, Yona, AH, Csörgő, B, Busby, BP, Hennig, BP, Pál, C, Schraivogel, D, Schultz, D, Wernick, DG, Agashe, D, Levi, D, Zabezhinsky, D, Russ, D, Sass, E, Tamar, E, Herz, E, Levy, ED, Church, GM, Yelin, I, Nachman, I, Gerst, JE, Georgeson, JM, Adamala, KP, Steinmetz, LM, Rübsam, M, Ralser, M, Klutstein, M, Desai, MM, Walunjkar, N, Yin, N, Hefetz, NA, Jakimo, N, Snitser, O, Adini, O, Kumar, P, Smith, RSH, Zeidan, R, Hazan, R, Rak, R, Kishony, R, Johnson, S, Nouriel, S, Vonesch, SC, Foster, S, Dagan, T, Wein, T, Karydis, T, Wannier, TM, Stiles, T, Olin-Sandoval, V, Mueller, WF, Bar-On, YM, Dahan, O & Pilpel, Y 2019, 'Evolthon: A community endeavor to evolve lab evolution', PLoS biology, vol. 17, no. 3, e3000182. https://doi.org/10.1371/journal.pbio.3000182

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abstract = "In experimental evolution, scientists evolve organisms in the lab, typically by challenging them to new environmental conditions. How best to evolve a desired trait? Should the challenge be applied abruptly, gradually, periodically, sporadically? Should one apply chemical mutagenesis, and do strains with high innate mutation rate evolve faster? What are eal population sizes of evolving populations? There are endless strategies, beyond those that can be exposed by indivual labs. We therefore arranged a community challenge, Evolthon, in which students and scientists from different labs were asked to evolve Escherichia coli or Saccharomyces cerevisiae for an abiotic stress—low temperature. About 30 participants from around the world explored diverse environmental and genetic regimes of evolution. After a period of evolution in each lab, all strains of each species were competed with one another. In yeast, the most successful strategies were those that used mating, underscoring the importance of sex in evolution. In bacteria, the fittest strain used a strategy based on exploration of different mutation rates. Different strategies displayed variable levels of performance and stability across additional challenges and conditions. This study therefore uncovers principles of effective experimental evolutionary regimens and might prove useful also for biotechnological developments of new strains and for understanding natural strategies in evolutionary arms races between species. Evolthon constitutes a model for community- based scientific exploration that encourages creativity and cooperation.",

author = "Strauss, {Sivan Kaminski} and Dvir Schirman and Ghil Jona and Brooks, {Aaron N.} and Kunjapur, {Aditya M.} and {Nguyen Ba}, {Alex N.} and Alice Flint and Andras Solt and Andreas Mershin and Atray Dixit and Yona, {Avihu H.} and B{\'a}lint Cs{\"o}rg{\H o} and Busby, {Bede Phillip} and Hennig, {Bianca P.} and Csaba P{\'a}l and Daniel Schraivogel and Daniel Schultz and Wernick, {Dav G.} and Deepa Agashe and Dikla Levi and Dmitry Zabezhinsky and Dor Russ and Ehud Sass and Einat Tamar and Elad Herz and Levy, {Emmanuel D.} and Church, {George M.} and Idan Yelin and Iftach Nachman and Gerst, {Jeffrey E.} and Georgeson, {Joseph M.} and Adamala, {Katarzyna P.} and Steinmetz, {Lars M.} and Marc R{\"u}bsam and Markus Ralser and Michael Klutstein and Desai, {Michael M.} and Nilima Walunjkar and Ning Yin and Hefetz, {Noa Aharon} and Noah Jakimo and Olga Snitser and Omri Adini and Prashant Kumar and Smith, {Rachel Soo Hoo} and Razi Zeidan and Ronen Hazan and Roni Rak and Roy Kishony and Shannon Johnson and Shira Nouriel and Vonesch, {Sibylle C.} and Simmie Foster and Tal Dagan and Tanita Wein and Thrasyvoulos Karydis and Wannier, {Timothy M.} and Timothy Stiles and Viriana Olin-Sandoval and Mueller, {William F.} and Bar-On, {Yinon M.} and Orna Dahan and Yitzhak Pilpel",

note = "Publisher Copyright: {\textcopyright} 2019 Kaminski Strauss et al.",

year = "2019",

month = mar,

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AU - Strauss, Sivan Kaminski

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AU - Kunjapur, Aditya M.

AU - Nguyen Ba, Alex N.

AU - Flint, Alice

AU - Solt, Andras

AU - Mershin, Andreas

AU - Dixit, Atray

AU - Yona, Avihu H.

AU - Csörgő, Bálint

AU - Busby, Bede Phillip

AU - Hennig, Bianca P.

AU - Pál, Csaba

AU - Schraivogel, Daniel

AU - Schultz, Daniel

AU - Wernick, Dav G.

AU - Agashe, Deepa

AU - Levi, Dikla

AU - Zabezhinsky, Dmitry

AU - Russ, Dor

AU - Sass, Ehud

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AU - Steinmetz, Lars M.

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AU - Klutstein, Michael

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AU - Hefetz, Noa Aharon

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AU - Snitser, Olga

AU - Adini, Omri

AU - Kumar, Prashant

AU - Smith, Rachel Soo Hoo

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Evolthon: A community endeavor to evolve lab evolution

Abstract

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