Evolutionary optimization of fluorescent proteins for intracellular FRET

Nature Biotechnology

Volumn 23, Issue 3, 2005, Pages 355-360

  Nguyen, Annalee W ^a   Daugherty, Patrick S ^a  

^a University of California at Santa Barbara   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ENERGY TRANSFER; FLUORESCENCE; IMAGING TECHNIQUES; RESONANCE;

BINDING INTERACTIONS; FLUORESCENT PROTEINS; FÖRSTER RESONACE ENERGY TRANSFER (FRET); MOLECULAR IMAGING;

PROTEINS;

AMINO ACID; CASPASE 3; CYAN FLUORESCENT PROTEIN; YELLOW FLUORESCENT PROTEIN; BACTERIAL PROTEIN; GREEN FLUORESCENT PROTEIN; HYBRID PROTEIN; PHOTOPROTEIN; YELLOW FLUORESCENT PROTEIN, BACTERIA;

ANIMAL CELL; APOPTOSIS; ARTICLE; ENZYME ACTIVITY; FLUORESCENCE; FLUORESCENCE RESONANCE ENERGY TRANSFER; GENE EXPRESSION; MAMMAL CELL; MOLECULAR DYNAMICS; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROTEIN PURIFICATION; EVALUATION; GENETICS; LETTER; METABOLISM; METHODOLOGY; MOLECULAR EVOLUTION; PROTEIN ENGINEERING;

ANIMALIA; MAMMALIA; TRIXIS;

BACTERIAL PROTEINS; EVOLUTION, MOLECULAR; FLUORESCENCE RESONANCE ENERGY TRANSFER; GREEN FLUORESCENT PROTEINS; LUMINESCENT PROTEINS; PROTEIN ENGINEERING; RECOMBINANT FUSION PROTEINS;

EID: 21444436724     PISSN: 10870156     EISSN: None     Source Type: Journal    
DOI: 10.1038/nbt1066     Document Type: Article

References (29)

1. Tsien, R.Y. The green fluorescent protein. Annu. Rev. Biochem. 67, 509-544 (1998).
2. 2+ based on green fluorescent proteins and calmodulin. Nature 388, 882-887 (1997).
3. Chan, F.K. et al. Fluorescence resonance energy transfer analysis of cell surface receptor interactions and signaling using spectral variants of the green fluorescent protein. Cytometry 44, 361-368 (2001).
4. Jones, J., Heim, R., Hare, E., Stack, J. & Pollok, B.A. Development and application of a GFP-FRET intracellular caspase assay for drug screening. J. Biomol. Screen. 5, 307-318 (2000).
5. Rizzo, M.A., Springer, G.H., Granada, B. & Piston, D.W. An improved cyan fluorescent protein variant useful for FRET. Nat. Biotechnol. 22, 445-449 (2004).
6. Jensen, K.K., Martini, L. & Schwartz, T.W. Enhanced fluorescence resonance energy transfer between spectral variants of green fluorescent protein through zinc-site engineering. Biochemistry 40, 938-945 (2001).
7. Van Der Meer, B.W., Coker, G. & Chen, S.Y.S. Resonance Energy Transfer Theory and Data (VCH Publishers, New York, 1994).
8. Pollok, B.A. & Heim, R. Using GFP in FRET-based applications. Trends Cell Biol. 9, 57-60 (1999).
9. Campbell, R.E. et al. A monomeric red fluorescent protein. Proc. Natl. Acad. Sci. USA 99, 7877-7882 (2002).
10. Nagai, T. et al. A variant of yellow fluorescent protein with fast and efficient maturation for cell-biological applications. Nat. Biotechnol. 20, 87-90 (2002).
11. Rekas, A., Alattia, J.R., Nagai, T., Miyawaki, A. & Ikura, M. Crystal structure of venus, a yellow fluorescent protein with improved maturation and reduced environmental sensitivity. J. Biol. Chem. 277, 50573-50578 (2002).
12. Voigt, C.A., Kauffman, S. & Wang, Z.G. Rational evolutionary design: the theory of in vitro protein evolution. Adv. Protein Chem. 55, 79-160 (2000).
13. Heim, R. & Tsien, R.Y. Engineering green fluorescent protein for improved brightness, longer wavelengths and fluorescence resonance energy transfer. Curr. Biol. 6, 178-182 (1996).
14. Lakowicz, J.R. Principles of fluorescence spectroscopy, edn. 2 (Kluwer Academic/Plenum Publishers, New York, 1999).
15. Georgiou, G. Analysis of large libraries of protein mutants using flow cytometry. Adv. Protein Chem. 55, 293-315 (2000).
16. Boder, E.T. & Wittrup, K.D. Optimal screening of surface-displayed polypeptide libraries. Biotechnol. Progr. 14, 55-62 (1998).
17. Xu, X. et al. Detection of programmed cell death using fluorescence energy transfer. Nucleic Acids Res. 26, 2034-2035 (1998).
18. Takemoto, K., Nagai, T., Miyawaki, A. & Miura, M. Spatio-temporal activation of caspase revealed by indicator that is insensitive to environmental effects. J. Cell Biol. 160, 235-243 (2003).
19. He, L. et al. Flow cytometric measurement of fluorescence (Forster) resonance energy transfer from cyan fluorescent protein to yellow fluorescent protein using single-laser excitation at 458 nm. Cytometry 53, 39-54 (2003).
20. Ness, J.E. et al. Synthetic shuffling expands functional protein diversity by allowing amino acids to recombine independently. Nat. Biotechnol. 20, 1251-1255 (2002).
21. Besserte, P.M., Mena, M.A., Nguyen, A.W. & Daugherty, P.S. Construction of designed protein libraries using gene assembly mutagenesis. in Directed Evolution Library Creation Methods and Protocols, vol. 231 (eds. Arnold, F.H. & Georgiou, G.) 29-37, (Humana Press, Totowa, 2003).
22. Shapiro, H.M. & Perlmutter, N.G. Violet laser diodes as light sources for cytometry. Cytometry 44, 133-136 (2001).
23. Stemmer, W.P., Crameri, A., Ha, K.D., Brennan, T.M. & Heyneker, H.L. Single-step assembly of a gene and entire plasmid from large numbers of oligodeoxyribonucleotides. Gene 164, 49-53 (1995).
24. Guzman, L.M., Belin, D., Carson, M.J. & Beckwith, J. Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter. J. Bacteriol. 177, 4121-4130 (1995).
25. Fromant, M., Blanquet, S. & Plateau, P. Direct random mutagenesis of gene-sized DNA fragments using polymerase chain reaction. Anal. Biochem. 224, 347-353 (1995).
26. Miyazaki, K. & Takenouchi, M. Creating random mutagenesis libraries using megaprimer PCR of whole plasmid. Biotechniques 33, 1033-1038 (2002).
27. Reid, E.G. & Flynn, G.C. Chromophore formation in green fluorescent protein. Biochemistry 36, 6786-6791 (1997).
28. Miller, A.D., Miller, D.G., Garcia, J.V. & Lynch, C.M. Use of retroviral vectors for gene transfer and expression. Methods Enzymol. 217, 581-599 (1993).
29. Miller, A.D. & Rosman, G.J. Improved retroviral vectors for gene transfer and expression. Biotechniques 7, 980-990 (1989).