Literature DB >> 25733775

Directed Evolution: Past, Present and Future.

Ryan E Cobb1, Ran Chao1, Huimin Zhao2.   

Abstract

Directed evolution, the laboratory process by which biological entities with desired traits are created through iterative rounds of genetic diversification and library screening or selection, has become one of the most useful and widespread tools in basic and applied biology. From its roots in classical strain engineering and adaptive evolution, modern directed evolution came of age twenty years ago with the demonstration of repeated rounds of PCR-driven random mutagenesis and activity screening to improve protein properties. Since then, numerous techniques have been developed that have enabled the evolution of virtually any protein, pathway, network or entire organism of interest. Here we recount some of the major milestones in the history of directed evolution, highlight the most promising recent developments in the field, and discuss the future challenges and opportunities that lie ahead.

Entities:  

Year:  2013        PMID: 25733775      PMCID: PMC4344831          DOI: 10.1002/aic.13995

Source DB:  PubMed          Journal:  AIChE J        ISSN: 0001-1541            Impact factor:   3.993


  67 in total

1.  Genome shuffling leads to rapid phenotypic improvement in bacteria.

Authors:  Ying-Xin Zhang; Kim Perry; Victor A Vinci; Keith Powell; Willem P C Stemmer; Stephen B del Cardayré
Journal:  Nature       Date:  2002-02-07       Impact factor: 49.962

2.  Directed evolution of a genetic circuit.

Authors:  Yohei Yokobayashi; Ron Weiss; Frances H Arnold
Journal:  Proc Natl Acad Sci U S A       Date:  2002-11-25       Impact factor: 11.205

3.  EVOLUTION OF A CATABOLIC PATHWAY IN BACTERIA.

Authors:  S A LERNER; T T WU; E C LIN
Journal:  Science       Date:  1964-12-04       Impact factor: 47.728

Review 4.  Lab on a chip technologies for bioenergy and biosustainability research.

Authors:  Mathias Uhlen; Helene Andersson Svahn
Journal:  Lab Chip       Date:  2011-08-02       Impact factor: 6.799

5.  A de novo protein binding pair by computational design and directed evolution.

Authors:  John Karanicolas; Jacob E Corn; Irwin Chen; Lukasz A Joachimiak; Orly Dym; Sun H Peck; Shira Albeck; Tamar Unger; Wenxin Hu; Gaohua Liu; Scott Delbecq; Gaetano T Montelione; Clint P Spiegel; David R Liu; David Baker
Journal:  Mol Cell       Date:  2011-03-31       Impact factor: 17.970

6.  Reiterative Recombination for the in vivo assembly of libraries of multigene pathways.

Authors:  Laura M Wingler; Virginia W Cornish
Journal:  Proc Natl Acad Sci U S A       Date:  2011-08-26       Impact factor: 11.205

7.  Evolutionary engineering of mixed-sugar utilization by a xylose-fermenting Saccharomyces cerevisiae strain.

Authors:  Marko Kuyper; Maurice J Toirkens; Jasper A Diderich; Aaron A Winkler; Johannes P van Dijken; Jack T Pronk
Journal:  FEMS Yeast Res       Date:  2005-07       Impact factor: 2.796

8.  Molecular evolution by staggered extension process (StEP) in vitro recombination.

Authors:  H Zhao; L Giver; Z Shao; J A Affholter; F H Arnold
Journal:  Nat Biotechnol       Date:  1998-03       Impact factor: 54.908

9.  Programming cells by multiplex genome engineering and accelerated evolution.

Authors:  Harris H Wang; Farren J Isaacs; Peter A Carr; Zachary Z Sun; George Xu; Craig R Forest; George M Church
Journal:  Nature       Date:  2009-07-26       Impact factor: 49.962

10.  DNA assembler, an in vivo genetic method for rapid construction of biochemical pathways.

Authors:  Zengyi Shao; Hua Zhao; Huimin Zhao
Journal:  Nucleic Acids Res       Date:  2008-12-12       Impact factor: 16.971

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  21 in total

1.  Synthetic microbial consortia for biosynthesis and biodegradation: promises and challenges.

Authors:  Shun Che; Yujie Men
Journal:  J Ind Microbiol Biotechnol       Date:  2019-07-05       Impact factor: 3.346

2.  Tools and systems for evolutionary engineering of biomolecules and microorganisms.

Authors:  Sungho Jang; Minsun Kim; Jaeseong Hwang; Gyoo Yeol Jung
Journal:  J Ind Microbiol Biotechnol       Date:  2019-05-27       Impact factor: 3.346

Review 3.  Tailoring Proteins to Re-Evolve Nature: A Short Review.

Authors:  Angelica Jimenez-Rosales; Miriam V Flores-Merino
Journal:  Mol Biotechnol       Date:  2018-12       Impact factor: 2.695

Review 4.  Molecular advances in microbial α-galactosidases: challenges and prospects.

Authors:  Grace Sathyanesan Anisha
Journal:  World J Microbiol Biotechnol       Date:  2022-07-01       Impact factor: 3.312

5.  Switching promotor recognition of phage RNA polymerase in silico along lab-directed evolution path.

Authors:  Chao E; Liqiang Dai; Jin Yu
Journal:  Biophys J       Date:  2022-01-11       Impact factor: 4.033

6.  Towards the directed evolution of protein materials.

Authors:  Anton Kan; Neel S Joshi
Journal:  MRS Commun       Date:  2019-04-08       Impact factor: 2.566

Review 7.  Advances in the directed evolution of proteins.

Authors:  Michael D Lane; Burckhard Seelig
Journal:  Curr Opin Chem Biol       Date:  2014-10-11       Impact factor: 8.822

8.  Directed Evolution Method in Saccharomyces cerevisiae: Mutant Library Creation and Screening.

Authors:  Javier Viña-Gonzalez; David Gonzalez-Perez; Miguel Alcalde
Journal:  J Vis Exp       Date:  2016-04-01       Impact factor: 1.355

9.  Directed Evolution of a Selective and Sensitive Serotonin Sensor via Machine Learning.

Authors:  Elizabeth K Unger; Jacob P Keller; Michael Altermatt; Ruqiang Liang; Aya Matsui; Chunyang Dong; Olivia J Hon; Zi Yao; Junqing Sun; Samba Banala; Meghan E Flanigan; David A Jaffe; Samantha Hartanto; Jane Carlen; Grace O Mizuno; Phillip M Borden; Amol V Shivange; Lindsay P Cameron; Steffen Sinning; Suzanne M Underhill; David E Olson; Susan G Amara; Duncan Temple Lang; Gary Rudnick; Jonathan S Marvin; Luke D Lavis; Henry A Lester; Veronica A Alvarez; Andrew J Fisher; Jennifer A Prescher; Thomas L Kash; Vladimir Yarov-Yarovoy; Viviana Gradinaru; Loren L Looger; Lin Tian
Journal:  Cell       Date:  2020-12-16       Impact factor: 41.582

Review 10.  Protein engineering for natural product biosynthesis and synthetic biology applications.

Authors:  Miles A Calzini; Alexandra A Malico; Melissa M Mitchler; Gavin J Williams
Journal:  Protein Eng Des Sel       Date:  2021-02-15       Impact factor: 1.952

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