Recent advances using green and red fluorescent protein variants

Applied Microbiology and Biotechnology

Volumn 77, Issue 1, 2007, Pages 1-12

  Müller Taubenberger, Annette ^a   Anderson, Kurt I ^b  

^a UNIVERSITY OF MUNICH   (Germany)

^b BEATSON INSTITUTE FOR CANCER RESEARCH   (United Kingdom)

Author keywords

BiFC; Fluorescent protein; FRET; GFP; Microscopy; Photoactivation; RFP; Two photon

Indexed keywords

ENERGY TRANSFER; FLUORESCENCE; MICROSCOPIC EXAMINATION;

BIMOLECULAR FLUORESCENCE COMPLEMENTATION (BIFC); FLUORESCENCE RESONANCE ENERGY TRANSFER (FRET); FLUORESCENT PROTEIN; LIVE-CELL IMAGING; PHOTOACTIVATION;

PROTEINS;

GREEN FLUORESCENT PROTEIN; MONOMER; RED FLUORESCENT PROTEIN;

CYTOLOGY; FLUORESCENCE; IMAGING METHOD; MATURATION; MICROSCOPY; PROTEIN;

ANALYTIC METHOD; BIMOLECULAR FLUORESCENCE COMPLEMENTATION; BRIGHTNESS; FLUORESCENCE RESONANCE ENERGY TRANSFER; IN VITRO STUDY; IN VIVO STUDY; MICROSCOPY; NONHUMAN; PROTEIN VARIANT; SHORT SURVEY;

FLUORESCENCE RESONANCE ENERGY TRANSFER; GREEN FLUORESCENT PROTEINS; LUMINESCENT PROTEINS; MICROSCOPY, CONFOCAL; MICROSCOPY, FLUORESCENCE; PHOTOCHEMISTRY;

EID: 35348881503     PISSN: 01757598     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00253-007-1131-5     Document Type: Short Survey

References (109)

1. Anderson KI, Sanderson J, Gerwig S, Peychl J (2006) A new configuration of the Zeiss LSM 510 for simultaneous optical separation of green and red fluorescent protein pairs. Cytometry A 69:920-929
2. Ando R, Hama H, Yamamoto-Hino M, Mizuno H, Miyawaki A (2002) An optical marker based on the UV-induced green-to-red photoconversion of a fluorescent protein. Proc Natl Acad Sci U S A 99:12651-12656
3. Ando R, Mizuno H, Miyawaki A (2004) Regulated fast nucleocytoplasmic shuttling observed by reversible protein highlighting. Science 306:1370-1373
4. Andresen M et al (2005) Structure and mechanism of the reversible photoswitch of a fluorescent protein. Proc Natl Acad Sci U S A 102:13070-13074
5. Aramaki S, Hatta K (2006) Visualizing neurons one-by-one in vivo: optical dissection and reconstruction of neural networks with reversible fluorescent proteins. Dev Dyn 235:2192-2199
6. Baird GS, Zacharias DA, Tsien RY (2000) Biochemistry, mutagenesis, and oligomerization of DsRed, a red fluorescent protein from coral. Proc Natl Acad Sci U S A 97:11984-11989
7. Becker W, Bergmann A, Hink MA, Konig K, Benndorf K, Biskup C (2004) Fluorescence lifetime imaging by time-correlated single-photon counting. Microsc Res Tech 63:58-66
8. Berney C, Danuser G (2003) FRET or no FRET: a quantitative comparison. Biophys J 84:3992-4010
9. Betzig E et al (2006) Imaging intracellular fluorescent proteins at nanometer resolution. Science 313:1642-1645
10. Bevis BJ, Glick BS (2002) Rapidly maturing variants of the Discosoma red fluorescent protein (DsRed). Nat Biotechnol 20:83-87
11. Brejc K et al (1997) Structural basis for dual excitation and photoisomerization of the Aequorea victoria green fluorescent protein. Proc Natl Acad Sci U S A 94:2306-2311
12. Campbell RE et al (2002) A monomeric red fluorescent protein. Proc Natl Acad Sci U S A 99:7877-7882
13. Chalfie M, Tu Y, Euskirchen G, Ward WW, Prasher DC (1994) Green fluorescent protein as a marker for gene expression. Science 263:802-805
14. Chattoraj M, King BA, Bublitz GU, Boxer SG (1996) Ultra-fast excited state dynamics in green fluorescent protein: multiple states and proton transfer. Proc Natl Acad Sci U S A 93:8362-8367
15. Chudakov DM et al (2003) Kindling fluorescent proteins for precise in vivo photolabeling. Nat Biotechnol 21:191-194
16. Chudakov DM, Verkhusha VV, Staroverov DB, Souslova EA, Lukyanov S, Lukyanov KA (2004) Photoswitchable cyan fluorescent protein for protein tracking. Nat Biotechnol 22:1435-1439
17. Chudakov DM, Lukyanov S, Lukyanov KA (2005) Fluorescent proteins as a toolkit for in vivo imaging. Trends Biotechnol 23:605-613
18. Chudakov DM, Chepurnykh TV, Belousov VV, Lukyanov S, Lukyanov KA (2006) Fast and precise protein tracking using repeated reversible photoactivation. Traffic 7:1304-1310
19. Cormier MJ, Lee J, Wampler JE (1975) Bioluminescence: recent advances. Annu Rev Biochem 44:255-272
20. Diez S, Gerisch G, Anderson K, Müller-Taubenberger A, Bretschneider T (2005) Subsecond reorganization of the actin network in cell motility and chemotaxis. Proc Natl Acad Sci U S A 102:7601-7606
21. Dittrich PS, Schafer SP, Schwille P (2005) Characterization of the photoconversion on reaction of the fluorescent protein Kaede on the single-molecule level. Biophys J 89:3446-3455
22. Elder AD, Frank JH, Swartling J, Dai X, Kaminski CF (2006) Calibration of a wide-field frequency-domain fluorescence lifetime microscopy system using light emitting diodes as light sources. J Microsc 224:166-180
23. Fischer M, Haase I, Simmeth E, Gerisch G, Müller-Taubenberger A (2004) A brilliant monomeric red fluorescent protein to visualize cytoskeleton dynamics in Dictyostelium. FEBS Lett 577:227-232
24. Fischer M, Haase I, Wiesner S, Müller-Taubenberger A (2006) Visualizing cytoskeleton dynamics in mammalian cells using a humanized variant of monomeric red fluorescent protein. FEBS Lett 580:2495-2502
25. Ganesan S, Ameer-Beg SM, Ng TT, Vojnovic B, Wouters FS (2006) A dark yellow fluorescent protein (YFP)-based resonance energy-accepting chromoprotein (REACh) for Forster resonance energy transfer with GFP. Proc Natl Acad Sci U S A 103:4089-4094
26. Gerisch G, Müller-Taubenberger A (2003) GFP-fusion proteins as fluorescent reporters to study organelle and cytoskeleton dynamics in chemotaxis and phagocytosis. Methods Enzymol 361:320-337
27. Giepmans BN, Adams SR, Ellisman MH, Tsien RY (2006) The fluorescent toolbox for assessing protein location and function. Science 312:217-224
28. Griesbeck O, Baird GS, Campbell RE, Zacharias DA, Tsien RY (2001) Reducing the environmental sensitivity of yellow fluorescent protein. Mechanism and applications. J Biol Chem 276:29188-29194
29. Gurskaya NG et al (2001) GFP-like chromoproteins as a source of far-red fluorescent proteins. FEBS Lett 507:16-20
30. Gurskaya NG et al (2006) Engineering of a monomeric green-to-red photoactivatable fluorescent protein induced by blue light. Nat Biotechnol 24:461-465
31. Habuchi S et al (2005) Evidence for the isomerization and decarboxylation in the photoconversion of the red fluorescent protein DsRed. J Am Chem Soc 127:8977-8984
32. Habuchi S et al (2006) Photo-induced protonation/deprotonation in the GFP-like fluorescent protein Dronpa: mechanism responsible for the reversible photoswitching. Photochem Photobiol Sci 5:567-576
33. Hadjantonakis AK, Macmaster S, Nagy A (2002) Embryonic stem cells and mice expressing different GFP variants for multiple non-invasive reporter usage within a single animal. BMC Biotechnol 2:11
34. Heim R, Tsien RY (1996) Engineering green fluorescent protein for improved brightness, longer wavelengths and fluorescence resonance energy transfer. Curr Biol 6:178-182
35. Henderson JN, Ai HW, Campbell RE, Remington SJ (2007) Structural basis for reversible photobleaching of a green fluorescent protein homologue. Proc Natl Acad Sci U S A 104:6672-6677
36. Hess ST, Girirajan TP, Mason MD (2006) Ultra-high resolution imaging by fluorescence photoactivation localization microscopy. Biophys J 91:4258-4272
37. Hoffman RM (2005) The multiple uses of fluorescent proteins to visualize cancer in vivo. Nat Rev Cancer 5:796-806
38. Hofmann M, Eggeling C, Jakobs S, Hell SW (2005) Breaking the diffraction barrier in fluorescence microscopy at low light intensities by using reversibly photoswitchable proteins. Proc Natl Acad Sci U S A 102:17565-17569
39. Hosoi H, Mizuno H, Miyawaki A, Tahara T (2006) Competition between energy and proton transfer in ultrafast excited-state dynamics of an oligomeric fluorescent protein red Kaede. J Phys Chem B 110:22853-22860
40. Hu CD, Kerppola TK (2003) Simultaneous visualization of multiple protein interactions in living cells using multicolor fluorescence complementation analysis. Nat Biotechnol 21:539-545
41. Hu CD, Chinenov Y, Kerppola TK (2002) Visualization of interactions among bZIP and Rel family proteins in living cells using bimolecular fluorescence complementation. Mol Cell 9:789-798
42. Jach G, Pesch M, Richter K, Frings S, Uhrig JF (2006) An improved mRFP1 adds red to bimolecular fluorescence complementation. Nat Methods 3:597-600
43. Kao FJ (2004) The use of optical parametric oscillator for harmonic generation and two-photon UV fluorescence microscopy. Microsc Res Tech 63:175-181
44. Keppler A, Arrivoli C, Sironi L, Ellenberg J (2006) Fluorophores for live cell imaging of AGT fusion proteins across the visible spectrum. Biotechniques 41:167-175
45. Kerppola TK (2006) Visualization of molecular interactions by fluorescence complementation. Nat Rev Mol Cell Biol 7:449-456
46. Klar TA, Jakobs S, Dyba M, Egner A, Hell SW (2000) Fluorescence microscopy with diffraction resolution barrier broken by stimulated emission. Proc Natl Acad Sci U S A 97:8206-8210
47. Knop M, Barr F, Riedel CG, Heckel T, Reichel C (2002) Improved version of the red fluorescent protein (drFP583/DsRed/RFP). Biotechniques 33:592-602
48. Koushik SV, Chen H, Thaler C, Puhl HL 3rd, Vogel SS (2006) Cerulean, Venus, and VenusY67C FRET reference standards. Biophys J 91:L99-L101
49. Kremers GJ, Goedhart J, van Munster EB, Gadella TW Jr (2006) Cyan and yellow super fluorescent proteins with improved brightness, protein folding, and FRET Forster radius. Biochemistry 45:6570-6580
50. Link CD et al (2006) Conversion of green fluorescent protein into a toxic, aggregation-prone protein by C-terminal addition of a short peptide. J Biol Chem 281:1808-1816
51. Lippincott-Schwartz J, Snapp E, Kenworthy A (2001) Studying protein dynamics in living cells. Nat Rev Mol Cell Biol 2:444-456
52. Long JZ, Lackan CS, Hadjantonakis AK (2005) Genetic and spectrally distinct in vivo imaging: embryonic stem cells and mice with widespread expression of a monomeric red fluorescent protein. BMC Biotechnol 5:20
53. Luche H, Weber O, Nageswara Rao T, Blum C, Fehling HJ (2007) Faithful activation of an extra-bright red fluorescent protein in "knock-in" Cre-reporter mice ideally suited for lineage tracing studies. Eur J Immunol 37:43-53
54. Lukyanov KA, Chudakov DM, Lukyanov S, Verkhusha VV (2005) Innovation: photoactivatable fluorescent proteins. Nat Rev Mol Cell Biol 6:885-891
55. McAnaney TB, Park ES, Hanson GT, Remington SJ, Boxer SG (2002) Green fluorescent protein variants as ratiometric dual emission pH sensors. 2. Excited-state dynamics. Biochemistry 41:15489-15494
56. Millington M et al (2007) High-precision FLIM-FRET in fixed and living cells reveals heterogeneity in a simple CFP-YFP fusion protein. Biophys Chem 127:155-164
57. Miyawaki A, Griesbeck O, Heim R, Tsien RY (1999) Dynamic and quantitative Ca2+ measurements using improved cameleons. Proc Natl Acad Sci U S A 96:2135-2140
58. Miyawaki A, Sawano A, Kogure T (2003) Lighting up cells: labelling proteins with fluorophores. Nat Cell Biol Suppl. 5:S1-S7
59. Mizuno H et al (2003) Photo-induced peptide cleavage in the green-to-red conversion of a fluorescent protein. Mol Cell 12:1051-1058
60. Morell M, Espargaro A, Aviles FX, Ventura S (2007) Detection of transient protein-protein interactions by bimolecular fluorescence complementation: the Abl-SH3 case. Proteomics 7:1023-1036
61. Müller-Taubenberger A et al (2006) Monomeric red fluorescent protein variants used for imaging studies in different species. Eur J Cell Biol 85:1119-1129
62. Nagai T, Ibata K, Park ES, Kubota M, Mikoshiba K, Miyawaki A (2002) A variant of yellow fluorescent protein with fast and efficient maturation for cell-biological applications. Nat Biotechnol 20:87-90
63. Nienhaus K, Nienhaus GU, Wiedenmann J, Nar H (2005) Structural basis for photo-induced protein cleavage and green-to-red conversion of fluorescent protein EosFP. Proc Natl Acad Sci U S A 102:9156-9159
64. Nienhaus GU et al (2006) Photoconvertible fluorescent protein EosFP: biophysical properties and cell biology applications. Photochem Photobiol 82:351-358
65. Nguyen AW, Daugherty PS (2005) Evolutionary optimization of fluorescent proteins for intracellular FRET. Nat Biotechnol 23:355-360
66. Ormö M, Cubitt AB, Kallio K, Gross LA, Tsien RY, Remington SJ (1996) Crystal structure of the Aequorea victoria green fluorescent protein. Science 273:1392-1395
67. Patterson G, Day RN, Piston D (2001) Fluorescent protein spectra. J Cell Sci 114:837-838
68. Patterson GH, Lippincott-Schwartz J (2002) A photoactivatable GFP for selective photolabeling of proteins and cells. Science 297:1873-1877
69. Pedelacq JD, Cabantous S, Tran T, Terwilliger TC, Waldo GS (2006) Engineering and characterization of a superfolder green fluorescent protein. Nat Biotechnol 24:79-88
70. Pepperkok R, Ellenberg J (2006) High-throughput fluorescence microscopy for systems biology. Nat Rev Mol Cell Biol 7:690-696
71. Peter M et al (2005) Multiphoton-FLIM quantification of the EGFP-mRFP1 FRET pair for localization of membrane receptor-kinase interactions. Biophys J 88:1224-1237
72. Prasher DC, Eckenrode VK, Ward WW, Prendergast FG, Cormier MJ (1992) Primary structure of the Aequorea victoria green-fluorescent protein. Gene 111:229-233
73. Quillin ML et al (2005) Kindling fluorescent protein from Anemonia sulcata: dark-state structure at 1.38 A resolution. Biochemistry 44:5774-5787
74. Remington SJ (2006) Fluorescent proteins: maturation, photochemistry and photophysics. Curr Opin Struct Biol 16:714-721
75. Rizzo MA, Springer GH, Granada B, Piston DW (2004) An improved cyan fluorescent protein variant useful for FRET. Nat Biotechnol 22:445-449
76. Rujano MA et al (2006) Polarised asymmetric inheritance of accumulated protein damage in higher eukaryotes. PLoS Biol 4:e417
77. Sato Y et al (2003) Establishment of Alb-DsRed2 transgenic rat for liver regeneration research. Biochem Biophys Res Commun 311:478-481
78. Schafer SP, Dittrich PS, Petrov EP, Schwille P (2006) Single molecule fluorescence imaging of the photoinduced conversion and bleaching behavior of the fluorescent protein Kaede. Microsc Res Tech 69:210-219
79. Shimozono S, Hosoi H, Mizuno H, Fukano T, Tahara T, Miyawaki A (2006) Concatenation of cyan and yellow fluorescent proteins for efficient resonance energy transfer. Biochemistry 45:6267-6271
80. Shaner NC, Campbell RE, Steinbach PA, Giepmans BN, Palmer AE, Tsien RY (2004) Improved monomeric red, orange and yellow fluorescent proteins derived from Discosoma sp. red fluorescent protein. Nat Biotechnol 22:1567-1572
81. Shaner NC, Steinbach PA, Tsien RY (2005) A guide to choosing fluorescent proteins. Nat Methods 2:905-909
82. Shkrob MA et al (2005) Far-red fluorescent proteins evolved from a blue chromoprotein from Actinia equina. Biochem J 392:649-654
83. Souslova EA, Chudakov DM (2006) Photoswitchable cyan fluorescent protein as a FRET donor. Microsc Res Tech 69:207-209
84. Squire A, Verveer PJ, Bastiaens PI (2000) Multiple frequency fluorescence lifetime imaging microscopy. J Microsc 197:136-149
85. Stefani M, Dobson CM (2003) Protein aggregation and aggregate toxicity: new insights into protein folding, misfolding diseases and biological evolution. J Mol Med 81:678-699
86. Stiel AC et al (2007) 1.8 A bright-state structure of the reversibly switchable fluorescent protein Dronpa guides the generation of fast switching variants. Biochem J 402:35-42
87. Tao W et al (2007) Enhanced green fluorescent protein is a nearly ideal long-term expression tracer for hematopoietic stem cells, whereas DsRed-express fluorescent protein is not. Stem Cells 25:670-678
88. Thaler C, Vogel SS, Ikeda SR, Chen H (2006) Photobleaching of YFP does not produce a CFP-like species that affects FRET measurements. Nat Methods 3:491
89. Tramier M, Zahid M, Mevel JC, Masse MJ, Coppey-Moisan M (2006) Sensitivity of CFP/YFP and GFP/mCherry pairs to donor photobleaching on FRET determination by fluorescence lifetime imaging microscopy in living cells. Microsc Res Tech 69:933-939
90. Tsai TH et al (2006) Biomolecular imaging based on far-red fluorescent protein with a high two-photon excitation action cross section. Opt Lett 31:930-932
91. Tsien RY (1998) The green fluorescent protein. Annu Rev Biochem 67:509-544
92. Tsuji K et al (2006) Dual-color imaging of nuclear-cytoplasmic dynamics, viability, and proliferation of cancer cells in the portal vein area. Cancer Res 66:303-306
93. Tsutsui H, Karasawa S, Shimizu H, Nukina N, Miyawaki A (2005) Semi-rational engineering of a coral fluorescent protein into an efficient highlighter. EMBO Rep 6:233-238
94. Valentin G, Verheggen C, Piolot T, Neel H, Coppey-Moisan M, Bertrand E (2005) Photoconversion of YFP into a CFP-like species during acceptor photobleaching FRET experiments. Nat Methods 2:801
95. van Thor JJ, Gensch T, Hellingwerf KJ, Johnson LN (2002) Phototransformation of green fluorescent protein with UV and visible light leads to decarboxylation of glutamate 222. Nat Struct Biol 9:37-41
96. van Wageningen S, Pennings AH, van der Reijden BA, Boezeman JB, de Lange F, Jansen JH (2006) Isolation of FRET-positive cells using single 408-nm laser flow cytometry. Cytometry A 69:291-298
97. Vintersten K et al (2004) Mouse in red: red fluorescent protein expression in mouse ES cells, embryos, and adult animals. Genesis 40:241-246
98. Vogel SS, Thaler C, Koushik SV (2006) Fanciful FRET. Sci STKE 2006(331):re2
99. Wang L, Jackson WC, Steinbach PA, Tsien RY (2004) Evolution of new nonantibody proteins via iterative somatic hypermutation. Proc Natl Acad Sci U S A 101:16745-16749
100. Wang Y et al (2005) Visualizing the mechanical activation of Src. Nature 434:1040-1045
101. Ward WW, Cormier MJ (1979) An energy transfer protein in coelenterate bioluminescence. Characterization of the Renilla green-fluorescent protein. J Biol Chem 254:781-788
102. Wiedenmann J et al (2004) EosFP, a fluorescent marker protein with UV-inducible green-to-red fluorescence conversion. Proc Natl Acad Sci U S A 101:15905-15910
103. Yamamoto N et al (2004) Cellular dynamics visualized in live cells in vitro and in vivo by differential dual-color nuclear-cytoplasmic fluorescent-protein expression. Cancer Res 64:4251-4256
104. Yamauchi K et al (2005) Real-time in vivo dual-color imaging of intracapillary cancer cell and nucleus deformation and migration. Cancer Res 65:4246-4252
105. Yang TT, Cheng L, Kain SR (1996) Optimized codon usage and chromophore mutations provide enhanced sensitivity with the green fluorescent protein. Nucleic Acids Res 24:4592-4593
106. You X, Nguyen AW, Jabaiah A, Sheff MA, Thorn KS, Daugherty PS (2006) Intracellular protein interaction mapping with FRET hybrids. Proc Natl Acad Sci U S A 103:18458-18463
107. Yurchenko E, Friedman H, Hay V, Peterson A, Piccirillo CA (2007) Ubiquitous expression of mRFP-1 in vivo by site-directed transgenesis. Transgenic Res 16:29-40
108. Zhang J, Campbell RE, Ting AY, Tsien RY (2002) Creating new fluorescent probes for cell biology. Nat Rev Mol Cell Biol 3:906-918
109. Zhang S, Ma C, Chalfie M (2004) Combinatorial marking of cells and organelles with reconstituted fluorescent proteins. Cell 119:137-144