Construction of block-shuffled libraries of DNA for evolutionary protein engineering: Y-ligation-based block shuffling

Protein Engineering

Volumn 15, Issue 10, 2003, Pages 843-853

  Kitamura, Koichiro ^a   Kinoshita, Yasunori ^a   Narasaki, Shinsuke ^a   Nemoto, Naoto ^b   Husimi, Yuzuru ^a   Nishigaki, Koichi ^a  

^a SAITAMA UNIVERSITY   (Japan)

^b GenCom Corporation   (Japan)

Author keywords

Block shuffling; Diversity; Evolutionary protein engineering; GFP; Library

Indexed keywords

DNA; GREEN FLUORESCENT PROTEIN; MONOMER; RESTRICTION ENDONUCLEASE;

ARTICLE; BIOENGINEERING; DNA LIBRARY; MOLECULAR CLONING; MOLECULE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN ENGINEERING;

EID: 0037412178     PISSN: 02692139     EISSN: None     Source Type: Journal    
DOI: 10.1093/protein/15.10.843     Document Type: Article

References (56)

1. Abrams, E.S. and Stanton, V.P., Jr. (1992) Methods Enzymol. 212, 71-104.
2. Botstein, D. and Shortle, D. (1985) Science, 229, 1193-1201.
3. Buchholz, C.J., Peng, K.W., Morling, F.J., Zhang, J., Cosset, F.L. and Russell, S.J. (1998) Nat. Biotechnol., 16, 951-954.
4. Cho, G., Keefe, A.D., Liu, R., Wilson, D.S. and Szostak, J.W. (2000) J. Mol. Biol., 297, 309-319.
5. Christians, F.C., Scapozza, L., Crameri, A., Folkers, G. and Stemmer, W.P. (1999) Nat. Biotechnol., 17, 259-264.
6. Conrad, R., Keranen, L.M., Ellington, A.D. and Newton, A.C. (1994) J. Biol. Chem., 51, 32051-3204.
7. Dai, X., De Mesmaeker, A. and Joyce, G.F. (1995) Science, 267, 237-240.
8. Doolittle, R.F. (1995)Annu. Rev. Biochem., 64, 287-314.
9. Dopf, J. and Horiagon, T.M. (1996) Gene, 173, 39-44.
10. Dover, G. (2000) Bioessays, 22, 1153-1159.
11. Eigen, M. and Gardiner, W. (1984) Pure Appl. Chem., 56, 967-978.
12. Ellington, A.D. and Szostak, J.W. (1990) Nature, 346, 818-822.
13. Fedoroff, N.V. (1999) Ann. NY Acad. Sci., 18, 251-264.
14. Gilbert, W. (1986) Nature, 319, 618.
15. Go, M. (1981) Nature, 291, 90-92.
16. Hanes, J. and Pluckthun, A. (1997) Proc. Natl. Acad. Sci. USA, 94, 4937-4942.
17. Husimi, Y., Nishigaki, K., Kinoshita, Y. and Tanaka, T. (1982) Rev. Sci. Instrum., 53, 517-522.
18. Ikemura, T. (1985) Mol. Biol. Evol., 2, 13-34.
19. Illangasekare, M., Sanchez, G., Nickles, T. and Yarus, M. (1995) Science, 267, 643-647.
20. Ito, Y., Suzuki, M. and Husimi, Y. (1999) Biochem. Biophys. Res. Commun., 264, 556-560.
21. Joyce, G.F. and Orgel, L.E. (1999) In Gesteland, R.F. and Atkins, J.F. (eds), The RNA World. Cold Spring Harbor Laboratory Press, New York, pp. 1-26.
22. Jufinke, C., van den Boom, D., Collazo, V., Luchow, A., Jacob, A. and Koster, H. (1997) Anal. Chem., 69, 904-910.
23. Kieke, M.C., Shusta, E.V., Boder, E.T., Teyton, L., Wittrup, K.D. and Kranz, D.M. (1999) Proc. Natl. Acad. Sci. USA, 96, 5651-5656.
24. Kikuchi, M., Ohnishi, K. and Harayama, S. (2000) Gene, 243, 133-137.
25. Kolkman, J.A. and Stemmer, W.P. (2001) Nat. Biotechnol., 19, 423-428.
26. Kondrashov, F.A. and Koonin, E.V. (2001) Hum. Mol. Genet., 10, 2661-2669.
27. Kornberg, A. and Baker, T.A. (1992) In Kornberg, A. and Baker, T.A. (eds), DNA Replication. Repair, Recombination, Transformation, Restriction and Modification. W.H. Freeman and Company, New York, pp. 771-832.
28. Li, W.H., Gu, Z., Wang, H. and Nekrutenko, A. (2001) Nature, 409, 847-849.
29. Lorsch, J.R. and Szostak, J.W. (1994) Biochemistry, 33, 973-982.
30. Mattheakis, L.C., Bhatt, R.R. and Dower, W.J. (1994) Proc. Natl. Acad. Sci. USA, 91, 9022-9026.
31. Mikawa, Y.G., Maruyama, I.N. and Brenner, S. (1996) J. Mol. Biol., 262, 21-30.
32. Nemoto, N., Miyamoto-Sato, E., Husimi, Y. and Yanagawa, H. (1997) FEBS Lett., 414, 405-408.
33. Nishigaki, K., Husimi, Y., Masuda, M., Kaneko, K. and Tanaka, T. (1984) J. Biochem., 95, 627-635.
34. Nishigaki, K., Kinoshita, Y. and Kyono, H. (1995) Chem. Lett., 1995, 131-132.
35. Nishigaki, K., Taguchi, K., Kinoshita, Y., Aita, T. and Husimi, Y. (1999) Mol. Div., 5, 1-4.
36. Nishigaki, K., Saito, A., Takashi, H. and Naimuddin, M. (2000) Nucleic Acids Res., 28, 1879-1884.
37. Parmley, S.E and Smith, G.P. (1989) Adv. Exp. Med. Biol., 251, 215-218.
38. Riechmann, L. and Winter, G. (2000) Proc. Natl. Acad. Sci. USA, 97, 10068-10073.
39. Robertson, D.L. and Joyce, G.F. (1990) Nature, 344, 467-468.
40. Roy, S.W., Nosaka, M., Souza, S.J. and Gilbert, W. (1999) Gene, 238, 85-91.
41. Sambrook, J. and Russell, D.W. (2001a) In Irwin, N. and Janssen, K.A. (eds), Molecular Cloning. Cold Spring Harbor Laboratory Press, New York, pp. 13.40-13.80.
42. Sambrook, J. and Russell, D.W. (2001b) In Irwin, N. and Janssen, K.A. (eds), Molecular Cloning. Cold Spring Harbor Laboratory Press, New York, pp. 4.82-4.85.
43. Sambrook, J. and Russell, D.W. (2001c) In Irwin, N. and Janssen, K.A. (eds), Molecular Cloning. Cold Spring Harbor Laboratory Press, New York, pp. 1.116-1.122.
44. Scott, J.K. and Smith, G.P. (1990) Science, 249, 386-390.
45. Shao, X., Zhao, H,. Giver, L. and Arnold, F.H. (1998) Nucleic Acids Res., 26, 681-683.
46. Shiba, K., Takahashi, Y. and Noda, T. (1997) Proc. Natl. Acad. Sci. USA, 94, 3805-3810.
47. Steger, G. (1994) Nucleic Acids Res., 22, 2760-2768.
48. Stemmer, W.P. (1994) Proc. Natl. Acad. Sci. USA, 91, 10747-10751.
49. Tessier, D.C., Brousseau, R. and Vernet,T. (1986) Anal. Biochem., 158, 171-178.
50. Tsien, R. and Prasher, D. (1998) In Chalfie, M. and Kain, S. (eds), Green Fluorescent Protein: Properties, Applications and Protocols. Wiley-Liss, New York, pp. 97-116.
51. Tsuji, T., Yoshida, K., Satoh, A., Kohno, T., Kobayashi, K. and Yanagawa, H. (1999) J. Mol. Biol., 268, 1581-1596.
52. Tuerk, C. and Gold, L. (1990) Science, 249, 505-510.
53. Voigt, C.A., Kauffman, S. and Wang, Z.G. (2000) Adv. Protein Chem., 55, 79-160.
54. Wakasugi, K., Ishimori, K. and Morishima, I. (1997) Biophys. Chem., 68, 265-273.
55. Wilson, C. and Szostak, J.W. (1995) Nature, 374, 777-782.
56. Wright, M.C. and Joyce, G.F. (1997) Science, 276, 614-617.