Tracking Single Proteins in Live Cells Using Single-Chain Antibody Fragment-Fluorescent Quantum Dot Affinity Pair

Methods in Enzymology

Volumn 475, Issue C, 2010, Pages 61-79

  Iyer, Gopal ^a   Michalet, Xavier ^a   Chang, Yun Pei ^a   Weiss, Shimon ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FLUORESCEIN; HAPTEN; HYBRID PROTEIN; PYRIDINE; QUANTUM DOT; SINGLE CHAIN FRAGMENT VARIABLE ANTIBODY; PROTEIN;

BINDING AFFINITY; BOOK; CELL SURFACE; FLUORESCENCE IMAGING; FLUORESCENCE MICROSCOPY; GENE CONSTRUCT; MAMMAL CELL; NONHUMAN; PRIORITY JOURNAL; PROTEIN DETERMINATION; PROTEIN TARGETING; STOICHIOMETRY; ANIMAL; CELLS; CHEMISTRY; HUMAN; STAINING; ULTRASTRUCTURE;

ANIMALS; CELLS; FLUORESCEIN; HUMANS; PROTEINS; QUANTUM DOTS; SINGLE-CHAIN ANTIBODIES; STAINING AND LABELING;

EID: 77954619528     PISSN: 00766879     EISSN: None     Source Type: Book Series    
DOI: 10.1016/S0076-6879(10)75003-5     Document Type: Chapter

References (48)

1. Andresen M., Schmitz-Salue R., Jakobs S. Short tetracysteine tags to β-tubulin demonstrate the significance of small labels for live cell imaging. Mol Biol. Cell. 2004, 15:5616-5622.
2. Betzig E., Patterson G.H., Sougrat R., Lindwasser O.W., Olenych S., Bonifacino J.S., Davidson M.W., Lippincott-Schwartz J., Hess H.F. Imaging intracellular fluorescent proteins at nanometer resolution. Science 2006, 313:1642-1645.
3. Bhunia A.K., Miller S.C. Labeling tetracysteine-tagged proteins with a SplAsH of color: A modular approach to bis-arsenical fluorophores. Chem. Bio. Chem. 2007, 8:1642-1645.
4. Boder E.T., Wittrup K.D. Yeast surface display for directed evolution of protein expression, affinity, and stability. Meth. Enzymol. 2000, 328:430-444.
5. Boder E.T., Midelfort K.S., Wittrup K.D. Directed evolution of antibody fragments with monovalent femtomolar antigen-binding affinity. Proc. Natl. Acad. Sci. USA 2000, 97:10701-10705.
6. Brichta J., Hnilova M., Viskovic T. Generation of hapten-specific recombinant antibodies: antibody phage display technology: A review. Vet. Med. Czech. 2005, 50:231-252.
7. Bruchez M., Moronne M., Gin P., Weiss S., Alivisatos A.P. Semiconductor nanocrystals as fluorescent biological labels. Science 1998, 281:2013-2016.
8. Carrico I.S., Carlson B.L., Bertozzi C.R. Introducing genetically encoded aldehydes into proteins. Nat. Chem. Biol. 2007, 3:321-322.
9. Chang Y.P., Pinaud F., Antelman J., Weiss S. Tracking bio-molecules in live cells using quantum dots. J. Biophoton 2008, 1:287-298.
10. Chao G., Lau W.L., Hackel B.J., Sazinsky S.L., Lippow S.M., Wittrup K.D. Isolating and engineering human antibodies using yeast surface display. Nat. Protoc. 2006, 1:755-768.
11. Chudakov D.M., Lukyanov S., Lukyanov K.A. Fluorescent proteins as a toolkit for in vivo imaging. Trends Biotechnol. 2005, 23:605-613.
12. Dabbousi R.O., Rodriguez-Viejo J., Mikulec F.V., Heine J.R., Mattoussi H., Ober R., Jensen K.F., Bawendi M.G. (CdSe)ZnS core-shell quantum dots: synthesis and characterization of a size series of highly luminescent nanocrystallites. J. Phys. Chem. B 1997, 101:9463-9475.
13. Dahan M., Levi S., Luccardini C., Rostaing P., Riveau B., Triller A. Diffusion dynamics of glycine receptors revealed by single-quantum dot tracking. Science 2003, 302:442-445.
14. Duckworth B.P., Zhang Z., Hosokawa A., Distefano M.D. Selective labeling of proteins by using protein farnesyltransferase. Chem. Bio. Chem. 2007, 8:98-105.
15. George N., Pick H., Vogel H., Johnsson N., Johnsson K. Specific labeling of cell surface proteins with chemically diverse compounds. J. Am. Chem. Soc. 2004, 126:8896-8897.
16. Giepmans B.N., Adams S.R., Ellisman M.H., Tsien R.Y. The fluorescent toolbox for assessing protein location and function. Science 2006, 312:217-224.
17. Hibino K., Hiroshima M., Takahashi M., Sako Y. Single-molecule imaging of fluorescent proteins expressed in living cells. Meth. Mol. Bio. 2009, 544:451-460.
18. Hoffmann C., Gaietta G., Bünemann M., Adams S.R., Oberdorff-Maass S., Behr B., Vilardaga J.P., Tsien R.Y., Ellisman M.H., Lohse M.J. A FlAsH-based FRET approach to determine G protein - Coupled receptor activation in living cells. Nat. Meth. 2005, 2:171-176.
19. Howarth M., Ting A.Y. Imaging proteins in live mammalian cells with biotin ligase and monovalent streptavidin. Nat. Protocols 2008, 3:534-545.
20. Howarth M., Takao K., Hayashi Y., Ting A.Y. Targeting quantum dots to surface proteins in living cells with biotin ligase. Proc. Natl. Acad. Sci. USA 2005, 102(21):7583-7588.
21. Iyer G., Pinaud F., Tsay J., Weiss S. Solubilization of quantum dots with a recombinant peptide from Escherichia coli. Small 2007, 3:793-798.
22. Iyer G., Michalet X., Chang Y.P., Pinaud F.F., Matyas S.E., Payne G., Weiss S. High affinity scFv-hapten pair as a tool for quantum dot labeling and tracking of single proteins in live cells. Nano Letters 2008, 8:4618-4623.
23. Joo C., Balci H., Ishitsuka Y., Buranachai C., Ha T. Advances in single-molecule fluorescence methods for molecular biology. Ann. Rev. Biochem. 2008, 77:51-76.
24. Kwon G.S., Hadjantonakis A.-K. Eomes::GFP - A tool for live imaging cells of the trophoblast, primitive streak, and telencephalon in the mouse embryo. Genesis 2007, 45:208-217.
25. Lin C.W., Ting A.Y. Transglutaminase-catalyzed site-specific conjugation of small-molecule probes to proteins in vitro and on the surface of living cells. J. Am. Chem. Soc. 2006, 128:4542-4543.
26. Lippincott-Schwartz J., Patterson G. Development and use of fluorescent protein markers in living cells. Science 2003, 300:87-91.
27. Los G.V., Encell L.P., McDougall M.G., Hartzell D.D., Karassina N., Zimprich C., Wood M.G., Learish R., Ohana R.F., Urh M., Simpson D., Mendez J., et al. HaloTag: A novel protein labeling technology for cell imaging and protein analysis. ACS Chem. Biol. 2008, 3(6):373-382.
28. Michalet X., Michalet X., Kapanidis A.N., Laurence T., Pinaud F., Doose S., Pflughoefft M., Weiss S. The power and prospects of fluorescence microscopies and spectroscopies. Ann. Rev. Biophys. Biomol. Struct. 2003, 32:161-182.
29. Michalet X., Pinaud F.F., Bentolila L.A., Tsay J.M., Doose S., Li J.J., Sundaresan G., Wu A.M., Gambhir S.S., Weiss S. Quantum dots for live cells, in vivo imaging, and diagnostics. Science 2005, 307:538-544.
30. Miller L.W., Sable J., Goelet P., Sheetz M.P., Cornish V.W. Methotrexate conjugates: A molecular in vivo protein tag. Angew Chem. Intl. Ed. 2004, 43:1672-1675.
31. Miller L.W., Cai Y., Sheetz M.P., Cornish V.W. In vivo protein labeling with trimethoprim conjugates: a flexible chemical tag. Nat. Meth. 2005, 2:255-257.
32. Murray C.B., Norris D.J., Bawendi M.G. Synthesis and characterization of nearly monodisperse CdE (E=S, Se, Te) semiconductor nanocrystallites. J. Am. Chem. Soc. 1993, 115:8706-8715.
33. Peng X., Schlamp M.C., Kadavanich A.V., Alivisatos A.P. Epitaxial growth of highly luminescent CdSe/CdS core/shell nanocrystals with photostability and electronic accessibility. J. Am. Chem. Soc. 1997, 119:7019-7029.
34. Pinaud F., King D., Moore H.-P., Weiss S. Bioactivation and cell targeting of semiconductor CdSe/ZnS nanocrystals with phytochelatin-related peptides. J. Am. Chem. Soc. 2004, 126:6115-6123.
35. Pinaud F., Michalet X., Iyer G., Margeat E., Moore H.P., Weiss S. Dynamic partitioning of a glycosyl-phosphatidylinositol-anchored protein in glycosphingolipid-rich microdomains imaged by single-quantum dot tracking. Traffic 2009, 10:691-712.
36. Pons T., Mattoussi H. Investigating biological processes at the single molecule level using luminescent quantum dots. Ann. Biomed. Eng. 2009, 37(10):1934-1959.
37. Roullier V., Clarke S., You C., Pinaud F., Gouzer G.G., Schaible D., Marchi-Artzner V., Piehler J., Dahan M. High-affinity labeling and tracking of individual histidine-tagged proteins in live cells using Ni2+ tris-nitrilotriacetic acid quantum dot conjugates. Nano Letters. 2009, 9:1228-1234.
38. Sakaue-Sawano A., Kurokawa H., Morimura T., Hanyu A., Hama H., Osawa H., Kashiwagi S., Fukami K., Miyata T., Miyoshi H., Imamura T., Ogawa M., et al. Visualizing spatiotemporal dynamics of multicellular cell-cycle progression. Cell 2008, 132:487-498.
39. Tsien R.Y. The green fluorescent protein. Annu. Rev. Biochem. 1998, 67:509-544.
40. Villalobos V., Naik S., Piwnica-Worms D. Current state of imaging protein-protein interactions in vivo with genetically encoded reporters. Annu. Rev. Biomed. Eng. 2007, 9:321-349.
41. Wacker S.A., Oswald F., Wiedenmann J., Knöchel W. A green to red photoconvertible protein as an analyzing tool for early vertebrate development. Dev. Dyn. 2007, 236:473-480.
42. Wang T., Tomic S., Gabdoulline R.R., Wade R.C. How optimal are the binding energetics of barnase and barstar?. Biophys. J. 2004, 87:1618-1630.
43. Watanabe T.M., Higuchi H. Stepwise movements in vesicle transport of HER2 by motor proteins in living cells. Biophys. J. 2007, 92:4109-4120.
44. Weber P., Ohlendorf D.H., Wendoloski J.J., Salemme F.R. Structural origins of high-affinity biotin binding to streptavidin. Science 1989, 243:85-88.
45. Wennmalm S., Simon S.M. Studying individual events in biology. Annu. Rev. Biochem. 2007, 76:419-446.
46. Westphal V., Rizzoli S.O., Lauterbach M.A., Kamin D., Jahn R., Hell S.W. Video-rate far-field optical nanoscopy dissects synaptic vesicle movement. Science 2008, 320:246-249.
47. Yu W.W., Qu L., Guo W., Peng X. Experimental determination of the extinction coefficient of CdTe, CdSe, and CdS nanocrystals. Chem. Mater. 2003, 15:2854-2860.
48. Zhou M., Ghosh I. Quantum dots and peptides: A bright future together. Pept. Sci. 2007, 88:325-339.