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Molecular evidence for an ancient duplication of the entire yeast genome

Author

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  • Kenneth H. Wolfe

    (University of Dublin, Trinity College)

  • Denis C. Shields

    (University of Dublin, Trinity College)

Abstract

Gene duplication is an important source of evolutionary novelty1,2. Most duplications are of just a single gene, but Ohno1 proposed that whole-genome duplication (polyploidy) is an important evolutionary mechanism. Many duplicate genes have been found in Saccharomyces cerevisiae, and these often seem to be phenotypically redundant3,4,5,6,7. Here we show that the arrangement of duplicated genes in the S. cerevisiae genome is consistent with Ohno's hypothesis. We propose a model in which this species is a degenerate tetraploid resulting from a whole-genome duplication that occurred after the divergence of Saccharomyces from Kluyveromyces. Only a small fraction of the genes were subsequently retained in duplicate (most were deleted), and gene order was rearranged by many reciprocal translocations between chromosomes. Protein pairs derived from this duplication event make up 13% of all yeast proteins, and include pairs of transcription factors, protein kinases, myosins, cyclins and pheromones. Tetraploidy may have facilitated the evolution of anaerobic fermentation in Saccharomyces.

Suggested Citation

  • Kenneth H. Wolfe & Denis C. Shields, 1997. "Molecular evidence for an ancient duplication of the entire yeast genome," Nature, Nature, vol. 387(6634), pages 708-713, June.
    • Handle: RePEc:nat:nature:v:387:y:1997:i:6634:d:10.1038_42711
    DOI: 10.1038/42711
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    Cited by:

    1. Anthony K. Redmond & Dearbhaile Casey & Manu Kumar Gundappa & Daniel J. Macqueen & Aoife McLysaght, 2023. "Independent rediploidization masks shared whole genome duplication in the sturgeon-paddlefish ancestor," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    2. Eduardo Vieira de Souza & Angie L. Bookout & Christopher A. Barnes & Brendan Miller & Pablo Machado & Luiz A. Basso & Cristiano V. Bizarro & Alan Saghatelian, 2024. "Rp3: Ribosome profiling-assisted proteogenomics improves coverage and confidence during microprotein discovery," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    3. Colizza, Vittoria & Flammini, Alessandro & Maritan, Amos & Vespignani, Alessandro, 2005. "Characterization and modeling of protein–protein interaction networks," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 352(1), pages 1-27.
    4. Lit-Hsin Loo & Danai Laksameethanasan & Yi-Ling Tung, 2014. "Quantitative Protein Localization Signatures Reveal an Association between Spatial and Functional Divergences of Proteins," PLOS Computational Biology, Public Library of Science, vol. 10(3), pages 1-17, March.
    5. Tsonis, Anastasios A & Heller, Fred L & Tsonis, Panagiotis A, 2002. "Probing the linearity and nonlinearity in DNA sequences," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 312(3), pages 458-468.
    6. Ricard V. Solé & Romualdo Pastor-Satorras & Eric D. Smith & Thomas Kepler, 2001. "A Model of Large-Scale Proteome Evolution," Working Papers 01-08-041, Santa Fe Institute.
    7. Andreas Wagner, 2001. "The Yeast Protein Interaction Network Evolves Rapidly and Contains Few Redundant Duplicate Genes," Working Papers 01-04-022, Santa Fe Institute.

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