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The interplay of additivity, dominance, and epistasis on fitness in a diploid yeast cross

Author

Listed:
  • Takeshi Matsui

    (Joint Initiative for Metrology in Biology
    SLAC National Accelerator Laboratory
    Stanford University School of Medicine)

  • Martin N. Mullis

    (University of Southern California
    Twist Bioscience, 681 Gateway Blvd)

  • Kevin R. Roy

    (Joint Initiative for Metrology in Biology
    Stanford University School of Medicine
    Stanford University)

  • Joseph J. Hale

    (University of Southern California)

  • Rachel Schell

    (University of Southern California)

  • Sasha F. Levy

    (Joint Initiative for Metrology in Biology
    SLAC National Accelerator Laboratory
    Stanford University School of Medicine)

  • Ian M. Ehrenreich

    (University of Southern California)

Abstract

In diploid species, genetic loci can show additive, dominance, and epistatic effects. To characterize the contributions of these different types of genetic effects to heritable traits, we use a double barcoding system to generate and phenotype a panel of ~200,000 diploid yeast strains that can be partitioned into hundreds of interrelated families. This experiment enables the detection of thousands of epistatic loci, many whose effects vary across families. Here, we show traits are largely specified by a small number of hub loci with major additive and dominance effects, and pervasive epistasis. Genetic background commonly influences both the additive and dominance effects of loci, with multiple modifiers typically involved. The most prominent dominance modifier in our data is the mating locus, which has no effect on its own. Our findings show that the interplay between additivity, dominance, and epistasis underlies a complex genotype-to-phenotype map in diploids.

Suggested Citation

  • Takeshi Matsui & Martin N. Mullis & Kevin R. Roy & Joseph J. Hale & Rachel Schell & Sasha F. Levy & Ian M. Ehrenreich, 2022. "The interplay of additivity, dominance, and epistasis on fitness in a diploid yeast cross," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-29111-z
    DOI: 10.1038/s41467-022-29111-z
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    References listed on IDEAS

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