Restriction enzyme-free mutagenesis via the light regulation of DNA polymerization

Nucleic Acids Research

Volumn 37, Issue 8, 2009, Pages

  Young, Douglas D ^a   Lusic, Hrvoje ^a   Lively, Mark O ^a   Deiters, Alexander ^a  

^a NORTH CAROLINA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CONTROLLED STUDY; DNA POLYMORPHISM; DNA STRAND; DNA SYNTHESIS; GENE DELETION; GENE LOCATION; GENE STRUCTURE; LIGHT STRESS; METHODOLOGY; MUTAGENESIS; PHOTOCHEMISTRY; PLASMID; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RESTRICTION MAPPING; BIOSYNTHESIS; CHEMISTRY; DNA TEMPLATE; METABOLISM; MOLECULAR CLONING; POINT MUTATION; RADIATION EXPOSURE; SITE DIRECTED MUTAGENESIS; ULTRAVIOLET RADIATION;

1,3 BENZODIOXOLE DERIVATIVE; DNA; DNA DIRECTED DNA POLYMERASE; NUCLEOSIDE; PRIMER DNA; RESTRICTION ENDONUCLEASE;

BENZODIOXOLES; CLONING, MOLECULAR; DNA; DNA PRIMERS; DNA RESTRICTION ENZYMES; DNA-DIRECTED DNA POLYMERASE; MUTAGENESIS; MUTAGENESIS, SITE-DIRECTED; NUCLEOSIDES; POINT MUTATION; POLYMERASE CHAIN REACTION; SEQUENCE DELETION; TEMPLATES, GENETIC; ULTRAVIOLET RAYS;

EID: 66049090107     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkp150     Document Type: Article

References (29)

1. Ling,M.M. and Robinson,B.H. (1997) Approaches to DNA mutagenesis: An overview. Anal. Biochem., 254, 157-178.
2. Shen,B. (2002) PCR approaches to DNA mutagenesis and recombination. An overview. Methods Mol. Biol., 192, 167-174.
3. Hubscher,U., Maga,G. and Spadari,S. (2002) Eukaryotic DNA polymerases. Annu. Rev. Biochem., 71, 133-163.
4. Nagashima,J., Minezaki,S., Obika,S., Imanishi,T., Kuwahara,M. and Sawai,H. (2007) Polymerisation of a DNA strand using oligo-DNA template with modified bases, sugars and phosphates. Nucleic Acids Symp. Ser. 51, 55-56.
5. O'Connor,D. and Stohrer,G. (1985) Site-specifically modified oligodeoxyribonucleotides as templates for Escherichia coli DNA polymerase I. Proc. Natl Acad. Sci. USA, 82, 2325-2329.
6. Tang,X. and Dmochowski,I.J. (2007) Regulating gene expression with light-activated oligonucleotides. Mol. Biosyst., 3, 100-110.
7. Young,D.D. and Deiters,A. (2007) Photochemical control of biological processes. Org. Biomol. Chem., 5, 999-1005.
8. Mayer,G. and Heckel,A. (2006) Biologically active molecules with a "light switch". Angew. Chem. Int. Ed. Engl., 45, 4900-4921.
9. Lawrence,D.S. (2005) The preparation and in vivo applications of caged peptides and proteins. Curr. Opin. Chem. Biol., 9, 570-575.
10. Curley,K. and Lawrence,D.S. (1999) Caged regulators of signaling pathways. Pharmacol. Ther., 82, 347-354.
11. Adams,S.R. and Tsien,R.Y. (1993) Controlling cell chemistry with caged compounds. Annu. Rev. Physiol., 55, 755-784.
12. Lusic,H., Lively,M.O. and Deiters,A. (2008) Light-activated deoxyguanosine: Photochemical regulation of peroxidase activity. Mol. Biosyst., 4, 508-511.
13. Lusic,H., Young,D.D., Lively,M.O. and Deiters,A. (2007) Photochemical DNA activation. Org. Lett., 9, 1903-1906.
14. Lusic,H. and Deiters,A. (2006) A new photocaging group for aromatic N-heterocycles. Synthesis-Stuttgart, 8, 2147-2150.
15. Young,D.D., Edwards,W.F., Lusic,H., Lively,M.O. and Deiters,A. (2008) Light-triggered polymerase chain reaction. Chem. Commun., 4, 462-464.
16. Tanaka,K., Katada,H., Shigi,N., Kuzuya,A. and Komiyama,M. (2008) Site-selective blocking of PCR by a caged nucleotide leading to direct creation of desired sticky ends in the products. Chembiochem, 9 2120-2126.
17. Tang,X., Richards,J.L., Peritz,A.E. and Dmochowski,I.J. (2005) Photoregulation of DNA polymerase I (Klenow) with caged fluorescent oligodeoxynucleotides. Bioorg. Med. Chem. Lett., 15, 5303-5306.
18. Mattila,P., Korpela,J., Tenkanen,T. and Pitkanen,K. (1991) Fidelity of DNA synthesis by the Thermococcus litoralis DNA polymerase - an extremely heat stable enzyme with proofreading activity. Nucleic Acids Res., 19, 4967-4973.
19. Kunkel,T.A., Loeb,L.A. and Goodman,M.F. (1984) On the fidelity of DNA replication. The accuracy of T4 DNA polymerases in copying phi X174 DNA in vitro. J. Biol. Chem., 259, 1539-1545.
20. Brautigam,C.A. and Steitz,T.A. (1998) Structural and functional insights provided by crystal structures of DNA polymerases and their substrate complexes. Curr. Opin. Struct. Biol., 8, 54-63.
21. Hogg,M., Wallace,S.S. and Doublie,S. (2005) Bumps in the road: How replicative DNA polymerases see DNA damage. Curr. Opin. Struct. Biol. 15, 86-93.
22. Hsu,E.C., Sarangi,F., Iorio,C., Sidhu,M.S., Udem,S.A., Dillehay,D.L., Xu,W., Rota,P.A., Bellini,W.J. and Richardson,C.D. (1998) A single amino acid change in the hemagglutinin protein of measles virus determines its ability to bind CD46 and reveals another receptor on marmoset B cells. J. Virol., 72, 2905-2916.
23. Kunkel,T.A. (1985) Rapid and efficient site-specific mutagenesis without phenotypic selection. Proc. Natl Acad. Sci. USA, 82, 488-492.
24. Taylor,J.W., Ott,J. and Eckstein,F. (1985) The rapid generation of oligonucleotide-directed mutations at high frequency using phosphorothioate-modified DNA. Nucleic Acids Res., 13, 8765-8785.
25. Weiner,M.P., Costa,G.L., Schoettlin,W., Cline,J., Mathur,E. and Bauer,J.C. (1994) Site-directed mutagenesis of doublestranded DNA by the polymerase chain reaction. Gene, 151, 119-123.
26. Chiu,J., March,P.E., Lee,R. and Tillett,D. (2004) Site-directed, Ligase-Independent Mutagenesis (SLIM): A single-tube methodology approaching 100% efficiency in 4 h. Nucleic Acids Res., 32, e174.
27. Tillett,D. and Neilan,B.A. (1999) Enzyme-free cloning: A rapid method to clone PCR products independent of vector restriction enzyme sites. Nucleic Acids Res., 27, e26.
28. Ailenberg,M. and Silverman,M. (1997) Site-directed mutagenesis using a PCR-based staggered re-annealing method without restriction enzymes. BioTechniques, 22, 624-626, 628, 630.
29. Young,D.D., Lusic,H., Lively,M.O., Yoder,J.A. and Deiters,A. (2008) Gene silencing in mammalian cells with light-activated antisense agents. Chembiochem, 9, 2937-2940.