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Local fitness landscape of the green fluorescent protein

Author

Listed:
  • Karen S. Sarkisyan

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Nizhny Novgorod State Medical Academy
    Central European Institute of Technology, Masaryk University
    Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology)

  • Dmitry A. Bolotin

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Central European Institute of Technology, Masaryk University)

  • Margarita V. Meer

    (Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF))

  • Dinara R. Usmanova

    (Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF)
    Moscow Institute of Physics and Technology)

  • Alexander S. Mishin

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Nizhny Novgorod State Medical Academy)

  • George V. Sharonov

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Faculty of Medicine, Moscow State University)

  • Dmitry N. Ivankov

    (Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF)
    Laboratory of Protein Physics, Institute of Protein Research of the Russian Academy of Sciences)

  • Nina G. Bozhanova

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry)

  • Mikhail S. Baranov

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Pirogov Russian National Research Medical University)

  • Onuralp Soylemez

    (Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF))

  • Natalya S. Bogatyreva

    (Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF)
    Laboratory of Protein Physics, Institute of Protein Research of the Russian Academy of Sciences)

  • Peter K. Vlasov

    (Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF))

  • Evgeny S. Egorov

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry)

  • Maria D. Logacheva

    (Pirogov Russian National Research Medical University
    A. A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences
    Moscow State University)

  • Alexey S. Kondrashov

    (Moscow State University
    University of Michigan)

  • Dmitry M. Chudakov

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Central European Institute of Technology, Masaryk University)

  • Ekaterina V. Putintseva

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Central European Institute of Technology, Masaryk University)

  • Ilgar Z. Mamedov

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Central European Institute of Technology, Masaryk University)

  • Dan S. Tawfik

    (Weizmann Institute of Science)

  • Konstantin A. Lukyanov

    (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
    Nizhny Novgorod State Medical Academy)

  • Fyodor A. Kondrashov

    (Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology
    Universitat Pompeu Fabra (UPF)
    Institució Catalana de Recerca i Estudis Avançats (ICREA))

Abstract

Comprehensive genotype–phenotype mapping of the green fluorescent protein shows that the local fitness peak is narrow, shaped by a high prevalence of epistatic interactions, providing for the loss of fluorescence when the joint effect of mutations exceeds a threshold.

Suggested Citation

  • Karen S. Sarkisyan & Dmitry A. Bolotin & Margarita V. Meer & Dinara R. Usmanova & Alexander S. Mishin & George V. Sharonov & Dmitry N. Ivankov & Nina G. Bozhanova & Mikhail S. Baranov & Onuralp Soylem, 2016. "Local fitness landscape of the green fluorescent protein," Nature, Nature, vol. 533(7603), pages 397-401, May.
    • Handle: RePEc:nat:nature:v:533:y:2016:i:7603:d:10.1038_nature17995
    DOI: 10.1038/nature17995
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    Citations

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    Cited by:

    1. Avichai Tendler & Anat Zimmer & Avi Mayo & Uri Alon, 2019. "Noise-precision tradeoff in predicting combinations of mutations and drugs," PLOS Computational Biology, Public Library of Science, vol. 15(5), pages 1-17, May.
    2. Miller, Craig R. & Van Leuven, James T. & Wichman, Holly A. & Joyce, Paul, 2018. "Selecting among three basic fitness landscape models: Additive, multiplicative and stickbreaking," Theoretical Population Biology, Elsevier, vol. 122(C), pages 97-109.
    3. Alicia Sanchez-Gorostiaga & Djordje Bajić & Melisa L Osborne & Juan F Poyatos & Alvaro Sanchez, 2019. "High-order interactions distort the functional landscape of microbial consortia," PLOS Biology, Public Library of Science, vol. 17(12), pages 1-34, December.

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