Directed evolution of homing endonuclease I-SceI with altered sequence specificity

Protein Engineering, Design and Selection

Volumn 22, Issue 4, 2009, Pages 249-256

  Chen, Zhilei ^a,d   Wen, Fei ^b   Sun, Ning ^a   Zhao, Huimin ^a,b,c  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

^b UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

^c United States of America   (United States)

^d Department of Electrical and Computer Engineering   (United States)

Author keywords

Directed evolution; DNA modifying enzymes; Gene targeting; Homing endonuclease; Protein engineering

Indexed keywords

DIRECTED EVOLUTION; DNA MODIFYING ENZYMES; GENE TARGETING; HOMING ENDONUCLEASE; PROTEIN ENGINEERING;

BIOCHEMICAL ENGINEERING; CATALYSTS; DNA; ENZYMES; GENES; GENETIC ENGINEERING; NUCLEIC ACIDS;

DNA SEQUENCES;

ENDONUCLEASE;

ARTICLE; COMPARATIVE STUDY; DNA CLEAVAGE; DNA SEQUENCE; ENZYME ACTIVITY; ENZYME SPECIFICITY; GENE TARGETING; IN VIVO STUDY; MUTAGENESIS; MUTANT; PRIORITY JOURNAL; PROTEIN DETERMINATION; PROTEIN ENGINEERING; PROTEIN ISOLATION; SURVIVAL RATE; WILD TYPE;

BASE SEQUENCE; COMPUTER SIMULATION; DEOXYRIBONUCLEASES, TYPE II SITE-SPECIFIC; DIRECTED MOLECULAR EVOLUTION; DNA; DNA CLEAVAGE; ESCHERICHIA COLI; MODELS, MOLECULAR; PROTEIN ENGINEERING; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE ALIGNMENT; SUBSTRATE SPECIFICITY;

EID: 65349107366     PISSN: 17410126     EISSN: 17410134     Source Type: Journal    
DOI: 10.1093/protein/gzp001     Document Type: Article

References (38)

1. Arnould,S., Perez,C., Cabaniols,J.P., Smith,J., Gouble,A., Grizot,S., Epinat,J.C., Duclert,A., Duchateau,P. and Paques,F. (2007) J. Mol. Biol., 371, 49-65.
2. Chen,Z. and Zhao,H. (2005a) Nucleic Acids Res., 33, e154.
3. Chen,Z. and Zhao,H. (2005b) J. Mol. Biol., 348, 1273-1282.
4. Chen,Z., Katzenellenbogen,B.S., Katzenellenbogen,J.A. and Zhao,H. (2004) J. Biol. Chem., 279, 33855-33864.
5. Chevalier,B.S., Kortemme,T., Chadsey,M.S., Baker,D., Monnat,R.J. and Stoddard,B.L. (2002) Mol. Cell., 10, 895-905.
6. Chockalingam,K., Chen,Z., Katzenellenbogen,J.A. and Zhao,H. (2005) Proc. Natl Acad. Sci. USA, 102, 5691-5696.
7. Choulika,A., Perrin,A., Dujon,B. and Nicolas,J.F. (1995) Mol. Cell. Biol., 15, 1968-1973.
8. Cohen-Tannoudji,M., Robine,S., Choulika,A., Pinto,D., El Marjou,F., Babinet,C., Louvard,D. and Jaisser,F. (1998) Mol. Cell. Biol., 18, 1444-1448.
9. Colleaux,L., D'Auriol,L., Galibert,F. and Dujon,B. (1988) Proc. Natl Acad. Sci. USA, 85, 6022-6026.
10. Datsenko,K.A. and Wanner,B.L. (2000) Proc. Natl Acad. Sci. USA, 97, 6640-6645.
11. Donoho,G., Jasin,M. and Berg,P. (1998) Mol. Cell. Biol., 18, 4070-4078.
12. Dower,W.J., Miller,J.F. and Ragsdale,C.W. (1988) Nucleic Acids Res., 16, 6127-6145.
13. Doyon,J.B., Pattanayak,V., Meyer,C.B. and Liu,D.R. (2006) J. Am. Chem. Soc., 128, 2477-2484.
14. Dujon,B. (1989) Gene, 82, 91-114.
15. Epinat,J.C., Arnould,S., Chames,P., Rochaix,P., Desfontaines,D., Puzin,C., Patin,A., Zanghellini,A., Paques,F. and Lacroix,E. (2003) Nucleic Acids Res., 31, 2952-2962.
16. Glover,D.J., Lipps,H.J. and Jans,D.A. (2005) Nat. Rev. Genet., 6, 299-310.
17. Gruen,M., Chang,K., Serbanescu,I. and Liu,D.R. (2002) Nucleic Acids Res., 30, e29.
18. Jasin,M. (1996) Trends Genet., 12, 224-228.
19. Johnson,R.D. and Jasin,M. (2001) Biochem. Soc. Trans., 29, 196-201.
20. Kang,Y., Durfee,T., Glasner,J.D., Qiu,Y., Frisch,D., Winterberg,K.M. and Blattner,F.R. (2004) J. Bacteriol., 186, 4921 -4930.
21. Kerem,B., Rommens,J.M., Buchanan,J.A., Markiewicz,D., Cox,T.K., Chakravarti,A., Buchwald,M. and Tsui,L.C. (1989) Science, 245, 1073-1080.
22. Kim,Y.G., Cha,J. and Chandrasegaran,S. (1996) Proc. Natl Acad. Sci. USA, 93, 1156-1160.
23. Lessard,I.A., Pratt,S.D., McCafferty,D.G., Bussiere,D.E., Hutchins,C., Wanner,B.L., Katz,L. and Walsh,C.T. (1998) Chem. Biol., 5, 489-504.
24. Mani,M., Smith,J., Kandavelou,K., Berg,J.M. and Chandrasegaran,S. (2005) Biochem. Biophys. Res. Commun., 334, 1191 -1197.
25. Miller,D.G., Petek,L.M. and Russell,D.W. (2003) Mol. Cell. Biol., 23, 3550-3557.
26. Moure,C.M., Gimble,F.S. and Quiocho,F.A. (2003) J. Mol. Biol., 334, 685-695.
27. Porteus,M.H. and Baltimore,D. (2003) Science, 300, 763.
28. Rosen,L.E., Morrison,H.A., Masri,S., Brown,M.J., Springstubb,B., Sussman,D., Stoddard,B.L. and Seligman,L.M. (2006) Nucleic Acids Res., 34, 4791 -4800.
29. Rouet,P., Smih,F. and Jasin,M. (1994) Mol. Cell. Biol., 14, 8096-8106.
30. Sarkar,G. and Sommer,S.S. (1990) Biotechniques, 8, 404-407.
31. Seligman,L.M., Chisholm,K.M., Chevalier,B.S., Chadsey,M.S., Edwards,S.T., Savage,J.H. and Veillet,A.L. (2002) Nucleic Acids Res., 30, 3870-3879.
32. Smih,F., Rouet,P., Romanienko,P.J. and Jasin,M. (1995) Nucleic Acids Res., 23, 5012-5019.
33. Smith,J., et al. (2006) Nucleic Acids Res., 34, e149.
34. Steuer,S., Pingoud,V., Pingoud,A. and Wende,W. (2004) Chembiochemistry, 5, 206-213.
35. Storici,F., Durham,C.L., Gordenin,D.A. and Resnick,M.A. (2003) Proc. Natl Acad. Sci. USA, 100, 14994-14999.
36. Sussman,D., Chadsey,M., Fauce,S., Engel,A., Bruett,A., Monnat,R. Jr, Stoddard,B.L. and Seligman,L.M. (2004) J. Mol. Biol., 342, 31-41.
37. Tzfira,T., Frankman,L.R., Vaidya,M. and Citovsky,V. (2003) Plant. Physiol., 133, 1011-1023.
38. Zhao,H., Moore,J.C., Volkov,A.A. and Arnold,F.H. (1999) Manual of Industrial Microbiology and Biotechnology, 2nd edn. American Society for Microbiology Press, Washington, D.C.