Literature DB >> 19935669

Exploring protein fitness landscapes by directed evolution.

Philip A Romero1, Frances H Arnold.   

Abstract

Directed evolution circumvents our profound ignorance of how a protein's sequence encodes its function by using iterative rounds of random mutation and artificial selection to discover new and useful proteins. Proteins can be tuned to adapt to new functions or environments by simple adaptive walks involving small numbers of mutations. Directed evolution studies have shown how rapidly some proteins can evolve under strong selection pressures and, because the entire 'fossil record' of evolutionary intermediates is available for detailed study, they have provided new insight into the relationship between sequence and function. Directed evolution has also shown how mutations that are functionally neutral can set the stage for further adaptation.

Entities:  

Mesh:

Substances:

Year:  2009        PMID: 19935669      PMCID: PMC2997618          DOI: 10.1038/nrm2805

Source DB:  PubMed          Journal:  Nat Rev Mol Cell Biol        ISSN: 1471-0072            Impact factor:   94.444


  109 in total

1.  A structural view of evolutionary divergence.

Authors:  B Spiller; A Gershenson; F H Arnold; R C Stevens
Journal:  Proc Natl Acad Sci U S A       Date:  1999-10-26       Impact factor: 11.205

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.  Protein tolerance to random amino acid change.

Authors:  Haiwei H Guo; Juno Choe; Lawrence A Loeb
Journal:  Proc Natl Acad Sci U S A       Date:  2004-06-14       Impact factor: 11.205

4.  Estimating the prevalence of protein sequences adopting functional enzyme folds.

Authors:  Douglas D Axe
Journal:  J Mol Biol       Date:  2004-08-27       Impact factor: 5.469

5.  Thermodynamic prediction of protein neutrality.

Authors:  Jesse D Bloom; Jonathan J Silberg; Claus O Wilke; D Allan Drummond; Christoph Adami; Frances H Arnold
Journal:  Proc Natl Acad Sci U S A       Date:  2005-01-11       Impact factor: 11.205

6.  A diverse family of thermostable cytochrome P450s created by recombination of stabilizing fragments.

Authors:  Yougen Li; D Allan Drummond; Andrew M Sawayama; Christopher D Snow; Jesse D Bloom; Frances H Arnold
Journal:  Nat Biotechnol       Date:  2007-08-26       Impact factor: 54.908

7.  Evolution of model proteins on a foldability landscape.

Authors:  S Govindarajan; R A Goldstein
Journal:  Proteins       Date:  1997-12

8.  Natural selection and the concept of a protein space.

Authors:  J M Smith
Journal:  Nature       Date:  1970-02-07       Impact factor: 49.962

Review 9.  Synthetic gene circuits: design with directed evolution.

Authors:  Eric L Haseltine; Frances H Arnold
Journal:  Annu Rev Biophys Biomol Struct       Date:  2007

10.  Laboratory evolution of a soluble, self-sufficient, highly active alkane hydroxylase.

Authors:  Anton Glieder; Edgardo T Farinas; Frances H Arnold
Journal:  Nat Biotechnol       Date:  2002-10-07       Impact factor: 54.908

View more
  292 in total

1.  Combinatorial reshaping of the Candida antarctica lipase A substrate pocket for enantioselectivity using an extremely condensed library.

Authors:  Anders G Sandström; Ylva Wikmark; Karin Engström; Jonas Nyhlén; Jan-E Bäckvall
Journal:  Proc Natl Acad Sci U S A       Date:  2011-12-16       Impact factor: 11.205

2.  Epistasis can lead to fragmented neutral spaces and contingency in evolution.

Authors:  Steffen Schaper; Iain G Johnston; Ard A Louis
Journal:  Proc Biol Sci       Date:  2011-12-07       Impact factor: 5.349

3.  Biophysical characterization of mutants of Bacillus subtilis lipase evolved for thermostability: factors contributing to increased activity retention.

Authors:  Wojciech Augustyniak; Agnieszka A Brzezinska; Tjaard Pijning; Hans Wienk; Rolf Boelens; Bauke W Dijkstra; Manfred T Reetz
Journal:  Protein Sci       Date:  2012-02-29       Impact factor: 6.725

4.  Surveying the manifold divergence of an entire protein class for statistical clues to underlying biochemical mechanisms.

Authors:  Andrew F Neuwald
Journal:  Stat Appl Genet Mol Biol       Date:  2011-08-04

5.  The future of molecular evolution.

Authors:  Antony M Dean
Journal:  EMBO Rep       Date:  2010-06       Impact factor: 8.807

Review 6.  E Pluribus Unum: 50 Years of Research, Millions of Viruses, and One Goal--Tailored Acceleration of AAV Evolution.

Authors:  Dirk Grimm; Sergei Zolotukhin
Journal:  Mol Ther       Date:  2015-09-21       Impact factor: 11.454

7.  How mutational epistasis impairs predictability in protein evolution and design.

Authors:  Charlotte M Miton; Nobuhiko Tokuriki
Journal:  Protein Sci       Date:  2016-01-22       Impact factor: 6.725

Review 8.  Epistasis in protein evolution.

Authors:  Tyler N Starr; Joseph W Thornton
Journal:  Protein Sci       Date:  2016-02-28       Impact factor: 6.725

Review 9.  Directed polymerase evolution.

Authors:  Tingjian Chen; Floyd E Romesberg
Journal:  FEBS Lett       Date:  2013-11-05       Impact factor: 4.124

10.  Bridging the spectral gap in fluorescent proteins through directed evolution.

Authors:  Paul B Whittredge; Justin W Taraska
Journal:  Chem Biol       Date:  2013-10-24
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.