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Enzymes, Directed Evolution

Frances H. Arnold, Patrick L. Wintrode

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Abstract

Introduction Why Directed Evolution? The Limitations of Nature's Biocatalysts Present Insurmountable Challenges to Rational Design Extending Natural Diversity by Laboratory Evolution Choosing an Evolutionary Strategy Good Problems for Directed Enzyme Evolution Methods of Directed Evolution Methods for Generating Genetic Diversity Searching for Improved Enzymes Extracting Useful Information from the Results of Evolution Examples of Directed Evolution Applications Evolution of Lipases with High Activity in Detergent Solutions Evolution of an Esterase for Deprotection of p-Nitrobenzyl Esters and Enhanced Thermostability Evolution of Herpes Simplex Virus Thymidine Kinase for Gene Therapy Evolution of Biphenyl Dioxygenases for Bioremediation of PCBs Acknowledgments Bibliography Keywords: biocatalysis; catalyst improvement; DNA shuffling; high-throughput screening; protein engineering; random mutagenesis; recombination; selection

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Introduction Why Directed Evolution? The Limitations of Nature's Biocatalysts Present Insurmountable Challenges to Rational Design Extending Natural Diversity by Laboratory Evolution Choosing an Evolutionary Strategy Good Problems for Directed Enzyme Evolution Methods of Directed Evolution Methods for Generating Genetic Diversity Searching for Improved Enzymes Extracting Useful Information from the Results of Evolution Examples of Directed Evolution Applications Evolution of Lipases with High Activity in Detergent Solutions Evolution of an Esterase for Deprotection of p-Nitrobenzyl Esters and Enhanced Thermostability Evolution of Herpes Simplex Virus Thymidine Kinase for Gene Therapy Evolution of Biphenyl Dioxygenases for Bioremediation of PCBs Acknowledgments Bibliography Keywords: biocatalysis; catalyst improvement; DNA shuffling; high-throughput screening; protein engineering; random mutagenesis; recombination; selection

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Introduction Why Directed Evolution? The Limitations of Nature's Biocatalysts Present Insurmountable Challenges to Rational Design Extending Natural Diversity by Laboratory Evolution Choosing an Evolutionary Strategy Good Problems for Directed Enzyme Evolution Methods of Directed Evolution Methods for Generating Genetic Diversity Searching for Improved Enzymes Extracting Useful Information from the Results of Evolution Examples of Directed Evolution Applications Evolution of Lipases with High Activity in Detergent Solutions Evolution of an Esterase for Deprotection of p-Nitrobenzyl Esters and Enhanced Thermostability Evolution of Herpes Simplex Virus Thymidine Kinase for Gene Therapy Evolution of Biphenyl Dioxygenases for Bioremediation of PCBs Acknowledgments Bibliography Keywords: biocatalysis; catalyst improvement; DNA shuffling; high-throughput screening; protein engineering; random mutagenesis; recombination; selection

Key concepts: Enzyme, Computational biology, Biology, Evolutionary biology, Genetics, Biochemistry

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