Journal of Molecular Evolution

, Volume 67, Issue 6, pp 621–630 | Cite as

Do Amino Acid Biosynthetic Costs Constrain Protein Evolution in Saccharomyces cerevisiae?

  • Douglas W. Raiford
  • Esley M. HeizerJr
  • Robert V. Miller
  • Hiroshi Akashi
  • Michael L. Raymer
  • Dan E. Krane
Article

Abstract

Prokaryotic organisms preferentially utilize less energetically costly amino acids in highly expressed genes. Studies have shown that the proteome of Saccharomyces cerevisiae also exhibits this behavior, but only in broad terms. This study examines the question of metabolic efficiency as a proteome-shaping force at a finer scale, examining whether trends consistent with cost minimization as an evolutionary force are present independent of protein function and amino acid physicochemical property, and consistently with respect to amino acid biosynthetic costs. Inverse correlations between the average amino acid biosynthetic cost of the protein product and the levels of gene expression in S. cerevisiae are consistent with natural selection to minimize costs. There are, however, patterns of amino acid usage that raise questions about the strength (and possibly the universality) of this selective force in shaping S. cerevisiae’s proteome.

Keywords

Saccharomyces cerevisiae Biosynthetic cost Metabolic efficiency Expressivity Amino acid 

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Copyright information

© Springer Science+Business Media, LLC 2008

Authors and Affiliations

  • Douglas W. Raiford
    • 1
  • Esley M. HeizerJr
    • 2
  • Robert V. Miller
    • 3
  • Hiroshi Akashi
    • 4
  • Michael L. Raymer
    • 5
  • Dan E. Krane
    • 2
  1. 1.Department of Computer Science and EngineeringSouthern Methodist UniversityDallasUSA
  2. 2.Department of Biological SciencesWright State UniversityDaytonUSA
  3. 3.Department of Microbiology and Molecular GeneticsOklahoma State UniversityStillwaterUSA
  4. 4.Department of BiologyPennsylvania State UniversityUniversity ParkUSA
  5. 5.Department of Computer Science and EngineeringWright State UniversityDaytonUSA

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