Literature DB >> 9092645

Optimization of DNA shuffling for high fidelity recombination.

H Zhao1, F H Arnold.   

Abstract

A convenient 'DNA shuffling' protocol for random recombination of homologous genes in vitro with a very low rate of associated point mutagenesis (0.05%) is described. In addition, the mutagenesis rate can be controlled over a wide range by the inclusion of Mn2+or Mg2+during DNase I digestion, by choice of DNA polymerase used during gene reassembly as well as how the genes are prepared for shuffling (PCR amplification versus restriction enzyme digestion of plasmid DNA). These protocols should be useful for in vitro protein evolution, for DNA based computing and for structure-function studies of evolutionarily related genes.

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Year:  1997        PMID： 9092645      PMCID： PMC146579          DOI： 10.1093/nar/25.6.1307

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  9 in total

1.  Improved green fluorescent protein by molecular evolution using DNA shuffling.

Authors:  A Crameri; E A Whitehorn; E Tate; W P Stemmer
Journal:  Nat Biotechnol       Date:  1996-03       Impact factor: 54.908

2.  Tuning the activity of an enzyme for unusual environments: sequential random mutagenesis of subtilisin E for catalysis in dimethylformamide.

Authors:  K Chen; F H Arnold
Journal:  Proc Natl Acad Sci U S A       Date:  1993-06-15       Impact factor: 11.205

3.  Random recombination of antibody single chain Fv sequences after fragmentation with DNaseI in the presence of Mn2+.

Authors:  I A Lorimer; I Pastan
Journal:  Nucleic Acids Res       Date:  1995-08-11       Impact factor: 16.971

4.  Rapid evolution of a protein in vitro by DNA shuffling.

Authors:  W P Stemmer
Journal:  Nature       Date:  1994-08-04       Impact factor: 49.962

5.  On the fidelity of DNA replication. The accuracy of T4 DNA polymerases in copying phi X174 DNA in vitro.

Authors:  T A Kunkel; L A Loeb; M F Goodman
Journal:  J Biol Chem       Date:  1984-02-10       Impact factor: 5.157

6.  Fidelity of DNA polymerases in DNA amplification.

Authors:  P Keohavong; W G Thilly
Journal:  Proc Natl Acad Sci U S A       Date:  1989-12       Impact factor: 11.205

7.  DNA shuffling by random fragmentation and reassembly: in vitro recombination for molecular evolution.

Authors:  W P Stemmer
Journal:  Proc Natl Acad Sci U S A       Date:  1994-10-25       Impact factor: 11.205

8.  Directed evolution of a para-nitrobenzyl esterase for aqueous-organic solvents.

Authors:  J C Moore; F H Arnold
Journal:  Nat Biotechnol       Date:  1996-04       Impact factor: 54.908

9.  High fidelity DNA synthesis by the Thermus aquaticus DNA polymerase.

Authors:  K A Eckert; T A Kunkel
Journal:  Nucleic Acids Res       Date:  1990-07-11       Impact factor: 16.971
  9 in total
  50 in total

1.  Bacterial cell surface display of an enzyme library for selective screening of improved cellulase variants.

Authors:  Y S Kim; H C Jung; J G Pan
Journal:  Appl Environ Microbiol       Date:  2000-02       Impact factor: 4.792

2.  Quantitative analysis of the effect of the mutation frequency on the affinity maturation of single chain Fv antibodies.

Authors:  P S Daugherty; G Chen; B L Iverson; G Georgiou
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-29       Impact factor: 11.205

Review 3.  Improving the quality of industrially important enzymes by directed evolution.

Authors:  R R Chirumamilla; R Muralidhar; R Marchant; P Nigam
Journal:  Mol Cell Biochem       Date:  2001-08       Impact factor: 3.396

4.  Computational and experimental analysis of DNA shuffling.

Authors:  Narendra Maheshri; David V Schaffer
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-07       Impact factor: 11.205

5.  Construction of DNA-shuffled and incrementally truncated libraries by a mutagenic and unidirectional reassembly method: changing from a substrate specificity of phospholipase to that of lipase.

Authors:  Jae Kwang Song; Bora Chung; Young Hak Oh; Joon Shick Rhee
Journal:  Appl Environ Microbiol       Date:  2002-12       Impact factor: 4.792

6.  High efficiency family shuffling based on multi-step PCR and in vivo DNA recombination in yeast: statistical and functional analysis of a combinatorial library between human cytochrome P450 1A1 and 1A2.

Authors:  V Abécassis; D Pompon; G Truan
Journal:  Nucleic Acids Res       Date:  2000-10-15       Impact factor: 16.971

7.  Changing the recognition specificity of a DNA-methyltransferase by in vitro evolution.

Authors:  Edit Tímár; Gergely Groma; Antal Kiss; Pál Venetianer
Journal:  Nucleic Acids Res       Date:  2004-07-25       Impact factor: 16.971

8.  A novel plant vacuolar Na+/H+ antiporter gene evolved by DNA shuffling confers improved salt tolerance in yeast.

Authors:  Kai Xu; Hui Zhang; Eduardo Blumwald; Tao Xia
Journal:  J Biol Chem       Date:  2010-05-10       Impact factor: 5.157

Review 9.  Laboratory-directed protein evolution.

Authors:  Ling Yuan; Itzhak Kurek; James English; Robert Keenan
Journal:  Microbiol Mol Biol Rev       Date:  2005-09       Impact factor: 11.056

10.  Directed evolution of Methanococcus jannaschii citramalate synthase for biosynthesis of 1-propanol and 1-butanol by Escherichia coli.

Authors:  Shota Atsumi; James C Liao
Journal:  Appl Environ Microbiol       Date:  2008-10-24       Impact factor: 4.792
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