Mutagenic Organized Recombination Process by Homologous IN vivo Grouping (MORPHING) for directed enzyme evolution

• Published in: PloS one 2014-03, Vol.9 (3), p.e90919
• Main Authors: Gonzalez-Perez, David, Molina-Espeja, Patricia, Garcia-Ruiz, Eva, Alcalde, Miguel
• Format: Article
• Language: English
• Subjects: Amino Acid Sequence; Amino acids; Baking yeast; Biological evolution; Biology; Case studies; Colorimetry; Deoxyribonucleic acid; Directed evolution; Directed Molecular Evolution - methods; DNA; E coli; Engineering; Enzymes; Escherichia coli; Evolution; Evolution & development; Genes; Genetic Engineering; Genetic research; Half-Life; Harnesses; Homologous recombination; Homologous Recombination - genetics; Homology; Hydrogen peroxide; Hydrogen Peroxide - metabolism; In vivo methods and tests; Methods; Models, Molecular; Molecular Sequence Data; Morphing; Mutagenesis; Mutagenesis, Site-Directed - methods; Mutation; Mutation - genetics; Oxidation-Reduction; Peroxidase; Peroxidase - metabolism; Pleurotus - enzymology; Pleurotus eryngii; Polymerase Chain Reaction; Proteins; Saccharomyces cerevisiae; Saccharomyces cerevisiae - genetics; Segments; Studies; Synthetic biology; Yeast
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0090919

Approaches that depend on directed evolution require reliable methods to generate DNA diversity so that mutant libraries can focus on specific target regions. We took advantage of the high frequency of homologous DNA recombination in Saccharomyces cerevisiae to develop a strategy for domain mutagenesis aimed at introducing and in vivo recombining random mutations in defined segments of DNA. Mutagenic Organized Recombination Process by Homologous IN vivo Grouping (MORPHING) is a one-pot random mutagenic method for short protein regions that harnesses the in vivo recombination apparatus of yeast. Using this approach, libraries can be prepared with different mutational loads in DNA segments of less than 30 amino acids so that they can be assembled into the remaining unaltered DNA regions in vivo with high fidelity. As a proof of concept, we present two eukaryotic-ligninolytic enzyme case studies: i) the enhancement of the oxidative stability of a H2O2-sensitive versatile peroxidase by independent evolution of three distinct protein segments (Leu28-Gly57, Leu149-Ala174 and Ile199-Leu268); and ii) the heterologous functional expression of an unspecific peroxygenase by exclusive evolution of its native 43-residue signal sequence.