Michael M Desai

Summary

Affiliation: Princeton University
Country: USA

Publications

  1. pmc Beneficial mutation selection balance and the effect of linkage on positive selection
    Michael M Desai
    Department of Physics, Harvard University, Cambridge, Massachusetts 02138, USA
    Genetics 176:1759-98. 2007
  2. pmc Evolution can favor antagonistic epistasis
    Michael M Desai
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08544, USA
    Genetics 177:1001-10. 2007
  3. pmc The speed of evolution and maintenance of variation in asexual populations
    Michael M Desai
    Department of Physics, Harvard University, Cambridge, MA 02138, USA
    Curr Biol 17:385-94. 2007
  4. ncbi request reprint Microbial evolution. Global epistasis makes adaptation predictable despite sequence-level stochasticity
    Sergey Kryazhimskiy
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA FAS Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
    Science 344:1519-22. 2014
  5. pmc Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations
    Gregory I Lang
    Lewis Sigler Institute for Integrative Genomics and Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, USA
    Nature 500:571-4. 2013
  6. pmc Dynamic mutation-selection balance as an evolutionary attractor
    Sidhartha Goyal
    Kavli Institute for Theoretical Physics, Department of Physics, University of California, Santa Barbara, CA 93106, USA
    Genetics 191:1309-19. 2012
  7. pmc The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments in yeast
    David Gresham
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA
    PLoS Genet 4:e1000303. 2008
  8. pmc Distortions in genealogies due to purifying selection and recombination
    Lauren E Nicolaisen
    Department of Organismic and Evolutionary Biology, Department of Physics, and Faculty of Arts and Sciences Center for Systems Biology, Harvard University, Cambridge, Massachusetts 02138
    Genetics 195:221-30. 2013
  9. pmc Genetic diversity in the interference selection limit
    Benjamin H Good
    Departments of Organismic and Evolutionary Biology and of Physics, Harvard University, Cambridge, Massachusetts, United States of America FAS Center for Systems Biology, Harvard University, Cambridge, Massachusetts, United States of America
    PLoS Genet 10:e1004222. 2014
  10. pmc Genetic variation and the fate of beneficial mutations in asexual populations
    Gregory I Lang
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08544, USA
    Genetics 188:647-61. 2011

Detail Information

Publications22

  1. pmc Beneficial mutation selection balance and the effect of linkage on positive selection
    Michael M Desai
    Department of Physics, Harvard University, Cambridge, Massachusetts 02138, USA
    Genetics 176:1759-98. 2007
    ..These results imply that mutator phenotypes are less effective in larger asexual populations. They also have consequences for the advantages (or disadvantages) of sex via the Fisher-Muller effect; these are discussed briefly...
  2. pmc Evolution can favor antagonistic epistasis
    Michael M Desai
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08544, USA
    Genetics 177:1001-10. 2007
    ..This suggests that we should not expect synergistic epistasis to be widespread in nature and hence that the mutational deterministic hypothesis for the advantage of sex may not apply widely...
  3. pmc The speed of evolution and maintenance of variation in asexual populations
    Michael M Desai
    Department of Physics, Harvard University, Cambridge, MA 02138, USA
    Curr Biol 17:385-94. 2007
    ..We focus on the effects of such multiple mutations...
  4. ncbi request reprint Microbial evolution. Global epistasis makes adaptation predictable despite sequence-level stochasticity
    Sergey Kryazhimskiy
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA FAS Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
    Science 344:1519-22. 2014
    ..As a consequence, fitness evolution follows a predictable trajectory even though sequence-level adaptation is stochastic. ..
  5. pmc Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations
    Gregory I Lang
    Lewis Sigler Institute for Integrative Genomics and Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, USA
    Nature 500:571-4. 2013
    ....
  6. pmc Dynamic mutation-selection balance as an evolutionary attractor
    Sidhartha Goyal
    Kavli Institute for Theoretical Physics, Department of Physics, University of California, Santa Barbara, CA 93106, USA
    Genetics 191:1309-19. 2012
    ..This may explain the maintenance of mitochondria and other asexual genomes...
  7. pmc The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments in yeast
    David Gresham
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA
    PLoS Genet 4:e1000303. 2008
    ..Thus, in addition to answering basic mechanistic questions about evolutionary mechanisms, our work suggests that experimental evolution can also shed light on the function and regulation of individual metabolic pathways...
  8. pmc Distortions in genealogies due to purifying selection and recombination
    Lauren E Nicolaisen
    Department of Organismic and Evolutionary Biology, Department of Physics, and Faculty of Arts and Sciences Center for Systems Biology, Harvard University, Cambridge, Massachusetts 02138
    Genetics 195:221-30. 2013
    ..We also analyze the effects of a distribution of selection coefficients across the genome. ..
  9. pmc Genetic diversity in the interference selection limit
    Benjamin H Good
    Departments of Organismic and Evolutionary Biology and of Physics, Harvard University, Cambridge, Massachusetts, United States of America FAS Center for Systems Biology, Harvard University, Cambridge, Massachusetts, United States of America
    PLoS Genet 10:e1004222. 2014
    ....
  10. pmc Genetic variation and the fate of beneficial mutations in asexual populations
    Gregory I Lang
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08544, USA
    Genetics 188:647-61. 2011
    ..Rather, underlying "background" genetic variation is quickly generated in our initially clonal populations and plays a crucial role in determining the fate of each individual beneficial mutation in the evolving population...
  11. doi request reprint Fluctuations in fitness distributions and the effects of weak linked selection on sequence evolution
    Benjamin H Good
    Department of Organismic and Evolutionary Biology, Department of Physics, and FAS Center for Systems Biology, Harvard University, United States
    Theor Popul Biol 85:86-102. 2013
    ..This allows us to quantify the stochastic behavior of the fitness distribution and yields exact analytical predictions for the sequence diversity and substitution rate in the limit that selection is weak...
  12. pmc Distribution of fixed beneficial mutations and the rate of adaptation in asexual populations
    Benjamin H Good
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
    Proc Natl Acad Sci U S A 109:4950-5. 2012
    ....
  13. pmc Clonal interference, multiple mutations and adaptation in large asexual populations
    Craig A Fogle
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08544, USA
    Genetics 180:2163-73. 2008
    ..Using our simulations, we are able to explore the limits of validity of both of these approaches, and we explore the complex dynamics in the regimes where neither one is fully applicable...
  14. ncbi request reprint Ploidy controls the success of mutators and nature of mutations during budding yeast evolution
    Dawn A Thompson
    Molecular and Cellular Biology Department, 16 Divinity Ave, Harvard University, Cambridge, MA 02138, USA
    Curr Biol 16:1581-90. 2006
    ..Mismatch repair defective and nonmutator strains were competed during adaptation to four laboratory environments (rich medium, low glucose, high salt, and a nonfermentable carbon source)...
  15. pmc The fates of mutant lineages and the distribution of fitness effects of beneficial mutations in laboratory budding yeast populations
    Evgeni M Frenkel
    Program in Biophysics, Harvard University, Cambridge, Massachusetts 02138
    Genetics 196:1217-26. 2014
    ..Finally, we discuss how our experimental design can serve as a screen for rare, large-effect beneficial mutations. ..
  16. doi request reprint Spatial population expansion promotes the evolution of cooperation in an experimental Prisoner's Dilemma
    J David Van Dyken
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
    Curr Biol 23:919-23. 2013
    ..Our results extend to other species with spatially restricted dispersal undergoing range expansion, including pathogens, invasive species, and humans...
  17. pmc Genetic diversity and the structure of genealogies in rapidly adapting populations
    Michael M Desai
    Department of Organismic and Evolutionary Biology, Department of Physics and FAS Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
    Genetics 193:565-85. 2013
    ....
  18. doi request reprint Population subdivision and adaptation in asexual populations of Saccharomyces cerevisiae
    Sergey Kryazhimskiy
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
    Evolution 66:1931-41. 2012
    ..Thus, exploitation of discovered mutations is more important for adaptation in our system than a thorough exploration of the mutational neighborhood, and increasing subdivision slows adaptation...
  19. pmc The balance between mutators and nonmutators in asexual populations
    Michael M Desai
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
    Genetics 188:997-1014. 2011
    ....
  20. ncbi request reprint A quasispecies on a moving oasis
    Michael M Desai
    Department of Physics, Jefferson Laboratories, Harvard University, 17 Oxford Street, Cambridge, MA 02138, USA
    Theor Popul Biol 67:33-45. 2005
    ..This switching velocity is analogous to the quasispecies mutational error threshold. Above this velocity, the population cannot maintain adaptations to the properties of the oasis...
  21. ncbi request reprint Estimating selection pressures from limited comparative data
    Joshua B Plotkin
    Mol Biol Evol 23:1457-9. 2006
    ..The regression technique does not depend on an underlying population-genetic mechanism. This new approach to estimating selection across a genome should be more powerful and more widely applicable than volatility itself...
  22. ncbi request reprint Codon usage and selection on proteins
    Joshua B Plotkin
    Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA
    J Mol Evol 63:635-53. 2006
    ..We also discuss several confounding factors, neglected by the Fisher-Wright model, that may limit the applicability of volatility in practice...