Construction and analysis of randomized protein-encoding libraries using error-prone PCR

Methods in Molecular Biology

Volumn 996, Issue , 2013, Pages 251-267

  Hanson Manful, Paulina ^a   Patrick, Wayne M ^a,b  

^a MASSEY UNIVERSITY   (New Zealand)

^b UNIVERSITY OF OTAGO   (New Zealand)

Author keywords

Directed evolution; Error prone PCR; GeneMorph II; Library; Mutation spectrum; Mutational bias; Mutazyme II DNA polymerase; PEDEL AA; Random mutagenesis

Indexed keywords

ARTICLE; CONTROLLED STUDY; ERROR PRONE POLYMERASE CHAIN REACTION; EXPRESSION VECTOR; MUTATION RATE; NONHUMAN; PLASMID; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SITE DIRECTED MUTAGENESIS;

EID: 84877130070     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-62703-354-1_15     Document Type: Article

References (17)

1. Turner NJ (2009) Directed evolution drives the next generation of biocatalysts. Nat Chem Biol 5:567-573
2. Jäckel C, Hilvert D (2010) Biocatalysts by evolution. Curr Opin Biotechnol 21:753-759
3. Peisajovich SG, Tawfik DS (2007) Protein engineers turned evolutionists. Nat Methods 4:991-994
4. Lutz S, Patrick WM (2004) Novel methods for directed evolution of enzymes: quality, not quantity. Curr Opin Biotechnol 15:291-297
5. Otten LG, Quax WJ (2005) Directed evolution: Selecting today's biocatalysts. Biomol Eng 22:1-9
6. Arnold FH, Georgiou G (eds) (2003) Directed enzyme evolution: Screening and selection methods. Methods in Molecular Biology, vol 230, Humana Press, Totowa, New Jersey.
7. Leung DW, Chen E, Goeddel DV (1989) A method for random mutagenesis of a de fined DNA segment using a modi fied polymerase chain reaction. Technique 1:11-15
8. Cadwell RC, Joyce GF (1992) Randomization of genes by PCR mutagenesis. PCR Methods Appl 2:28-33
9. Cirino PC, Mayer KM, Umeno D (2003) Generating mutant libraries using error-prone PCR. Methods Mol Biol 231:3-9
10. McCullum EO, Williams BA, Zhang J, Chaput JC (2010) Random mutagenesis by errorprone PCR. Methods Mol Biol 634:103-109
11. Sha fikhani S, Siegel RA, Ferrari E, Schellenberger V (1997) Generation of large libraries of random mutants in Bacillus subtilis by PCR-based plasmid multimerization. Biotechniques 23:304-310
12. Patrick WM, Firth AE, Blackburn JM (2003) User-friendly algorithms for estimating completeness and diversity in randomized proteinencoding libraries. Protein Eng 16:451-457
13. Soo VWC, Hanson-Manful P, Patrick WM (2011) Arti ficial gene ampli fication reveals an abundance of promiscuous resistance determinants in Escherichia coli . Proc Natl Acad Sci USA 108:1484-1489
14. Kitagawa M, Ara T, Arifuzzaman M, Ioka-Nakamichi T, Inamoto E, Toyonaga H, Mori H (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): Unique resources for biological research. DNA Res 12:291-299
15. Firth AE, Patrick WM (2008) GLUE-IT and PEDEL-AA: New programmes for analyzing protein diversity in randomized libraries. Nucleic Acids Res 36:W281- W285
16. Hanahan D, Jessee J, Bloom FR (1991) Plasmid transformation of Escherichia coli and other bacteria. Methods Enzymol 204:63-113
17. Hartman PS (1991) Transillumination can profoundly reduce transformation frequencies. Biotechniques 11:747-748