Fluorescent Protein Biosensor Literature References
Genetically-encoded fluorescent protein biosensors based on the resonance energy transfer (FRET) between fluorescent moieties of different spectral characteristics enable quantitative measurement of intracellular enzyme activities and small molecule concentrations. A biosensor is defined as a detection system that relies on a biomolecule for molecular recognition and a transducer to produce an observable output. In recent years, fluorescent proteins have emerged as one of the best candidates for constructing biosensors having a wide spectrum of activities.
Recommended Literature
- Bastiaens, P. I. H. and Pepperkok, R. Observing proteins in their natural habitat: the living cell. Trends in Biological Science 25: 631-637 (2000).
- Lalonde, S., Ehrhardt, D. W. and Frommer, W. B. Shining light on signaling and metabolic networks by genetically encoded biosensors. Current Opinion in Plant Biology 8: 574-581 (2005).
- Mank, M. and Griesbeck, O. Genetically encoded calcium indicators. Chemical Reviews108: 1550-1564 (2008).
- Miyawaki, A. Innovations in the imaging of brain functions using fluorescent proteins.Neuron 48: 189-199 (2005).
- Griesbeck, O. Fluorescent proteins as sensors for cellular functions. Current Opinion in Neurobiology 14: 636-641 (2004).
- Li, I. T., Pham, E. and Truong, K. Protein biosensors based on the principle of fluorescence resonance energy transfer for monitoring cellular dynamics. Biotechnology Letters 28:1971-1982 (2006).
- Berridge, M. J., Lipp, P. and Bootman, M. D. The versatility and universality of calcium signalling . Nature Reviews Molecular Cell Biology 1: 11-21 (2000).
- Miyawaki, A. Visualization of the spatial and temporal dynamics of intracellular signaling.Developmental Cell 4: 295-305 (2003).
- Miyawaki, A., Mizuno, H., Nagal, T. and Sawano, A. Development of genetically encoded fluorescent indicators for calcium. Methods in Enzymology 360: 202-225 (2003).
- Bizzarri , R., Serresi, M., Luin S. and Beltram, F. Green fluorescent protein based pH indicators for in vivo use: A review. Analytical and Bioanalytical Chemistry 393:1107-1102 (2009).
- Looger, L. L., Lalonde, S. and Frommer, W. B. Genetically encoded FRET sensors for visualizing metabolites with subcellular resolution in living cells. Plant Physiology 138:555-557 (2005).
- VanEngelenburg, S. B. and Palmer, A. E. Fluorescent biosensors of protein function. Current Opinion in Chemical Biology 12: 60-65 (2008).
- Guerrero, G. and Isacoff, E. Y. Genetically encoded optical sensors of neuronal activity and cellular function. Current Opinion in Neurobiology 11: 601-607 (2001).
- Medintz, I. L. Recent progress in developing FRET-based intracellular sensors for the detection of small molecule nutrients and ligands. Trends in Biotechnology 24: 539-542 (2006).
- Zaccolo, M. Use of chimeric fluorescent proteins and fluorescence resonance energy transfer to monitor cellular responses. Circulation Research 94: 866-873 (2004).
- Weijer, C. J. Visualizing signals moving in cells. Science 300: 96-100 (2003).
- Cannon, M. B. and Remington, S. J. Redox-sensitive green fluorescent protein: probes for dynamic intracellular redox responses. A review. Methods in Molecular Biology 476: 51-65 (2008).
- Miyawaki, A. and Tsien, R. Y. Monitoring protein conformations and interactions by fluorescence resonance energy transfer between mutants of green fluorescent protein.Methods in Enzymology 327: 472-500 (2000).
- Piljic, A. and Schultz, C. Simultaneous Recording of Multiple Cellular Events by FRET. ACS Chemical Biology 3: 156-160 (2008).
- Borst, J. W., Nougalli-Tonaco, I., Hink, M. A., van Hoek, A., Immink, R. G. H. and Visser, A. J. W. G. Protein-protein interactions in vivo: use of biosensors based on FRET. Reviews in Fluorescence 2006: 341-357 (2006).
- Schultz, C., Schleifenbaum, A., Goedhart, J. and Gadella Jr., T. W. J. Multiparameter imaging for the analysis of intracellular signaling. ChemBioChem 6: 1323-1330 (2005).
- Allen, M. D., Dipilato, L. M., Ananthanarayanan, B., Newman, R. H., Ni, Q. and Zhang, J.Dynamic visualization of signaling activities in living cells. Science Signaling 1: Issue 37, pt6 (2008).
- Grant, D. M., Zhang, W., McGhee, E. J., Bunney, T. D., Talbot, C. B., Kumar, S., Munro, I., Dunsby, C., Neil, M. A. A., Katan, M. and French, P. M. W. Multiplexed FRET to image multiple signaling events in live cells. Biophysical Journal 95: L69-L71 (2008).
- Palmer, A. E. and Tsien, R. Y. Measuring calcium signaling using genetically targetable fluorescent indicators. Nature Protocols 1: 1057-1065 (2006).
Additional Literature Sources
- Abad, M. F. C., Di Benedetto, G., Magalhaes, P. J., Filippin, L. and Pozzan, T. Mitochondrial pH monitored by a new engineered green fluorescent protein mutant. Journal of Biological Chemistry 279:11521-115289 (2004).
- Akerboom, J., Rivera, J. D. V., Guilbe, M. M. R., Malave, E. C. A., Hernandez, H. H., Tian, L, Hires, S. A., Marvin, J. S., Looger, L. L. and Schreiter, E. R. Crystal structures of the GCaMP calcium sensor reveal the mechanism of fluorescence signal change and aid rational design. Journal of Biological Chemistry 284: 6455-6464 (2009).
- Allen, G. J., Chu, S. P., Schumacher, K., Shimazaki, C. T., Vafeados, D., Kemper, A., Hawke, S. D., Tallman, G., Tsien, R. Y., Harper, J. F., Chory, J. and Schroeder, J. I. Alteration of stimulus-specific guard cell calcium oscillations and stomatal closing in Arabidopsis det3 mutant.Science 289: 2338-2342 (2000).
- Allen, G. J., Kwak, J. M., Chu, S. P., Llopis, J., Tsien, R. Y., Harper, J. F. and Schroeder, J. I. Cameleon calcium indicator reports cytoplasmic calcium dynamics in Arabidopsis guard cells. The Plant Journal 19: 735-747 (1999).
- Altschuh, D., Oncul, S. and Demchenko, A. P. Fluorescence sensing of intermolecular interactions and development of direct molecular biosensors. Journal of Molecular Recognition 19: 459-477 (2006).
- Aoki, T., Imamura, T., Ozaki, H., Ideuchi, H., Tsuchida, S. and Watabe, H. Fluorescence resonant Energy transfer-based assay for DNA-binding protein tagged by green fluorescent protein. Bioscience, Biotechnology, and Biochemistry 70: 1921-1927 (2006).
- Arai, R., Ueda, H., Kitayama, A., Kamiya, N. and Nagamune, T. Design of the linkers which effectively separate domains of a bifunctional fusion protein. Protein Engineering Design and Selection 14: 529-532 (2001).
- Ataka, K. and Pieribone, V. A. A genetically targetable fluorescent probe of channel gating with rapid kinetics. Biophysical Journal 82: 509-516 (2002).
- Awais, M., Sato, M., Sasaki, K. and Umezawa, Y. A genetically encoded fluorescent indicator capable of discriminating estrogen agonists from antagonists in living cells. Analytical Chemistry 76: 2181-2186 (2004).
- Bacskai, B. J., Hochner, B., Mahaut-Smith, M., Adams, S. R., Kaang, B. K., Kandel, E. R. and Tsien, R. Y. Spatially resolved dynamics of cAMP and protein kinase A subunits in aplysia sensory neurons. Science 260: 222-226 (1993).
- Bardet, P. L., Kolahgar, G., Mynett, A., Miguel-Aliaga, I., Briscoe, J., Meier, P. and Vincent, J. P. A fluorescent reporter of caspase activity for live imaging. Proceedings of the National Academy of Sciences (USA) 105: 13901-13905 (2008).
- Bartlett, P. J., Young, K. W., Nahorski, S. R. and Challiss, R. A. J. Single cell analysis and temporal profiling of agonist-mediated inositol 1, 4, 5-trisphosphate, Ca2+, diacylglycerol, and protein kinase C signaling using fluorescent biosensors. Journal of Biological Chemistry 280: 21837-21846 (2005).
- Barondeau, D. P., Kassmann, C. J., Tainer, J. A. and Getzoff, E. D. Structural chemistry of a green fluorescent protein Zn biosensor. Journal of the American Chemical Society 124:3522-3524 (2002).
- Belousov, V. V., Fradkov, A. F., Lukyanov, K. A., Staroverov, D. B., Shakhbazov, K. S., Terskikh, A. V., and Lukyanov, S. Genetically encoded fluorescent indicator for intracellular hydrogen peroxide. Nature Methods 3: 281-286 (2006).
- Billinton, N., Barker, M. G., Michel, C. E., Knight, A. W., Heyer, W. D., Goddard, N. J., Fielden, P. R. and Walmsley, R. M. Development of a green fluorescent protein reporter for a yeast genotoxicity biosensor. Biosensors and Bioelectronics 13: 831-838 (1998).
- Biondi, R. M., Baehler, P. J. Reymond, C. D. and Veron, M. Random insertion of GFP into the cAMP-dependent protein kinase regulatory subunit from Dictyostelim discoideum. Nucleic Acids Research 26: 4946-4952 (1998).
- Bizzarri, R., Arcangeli,C., Arosio, D., Ricci, F., Faraci, P., Cardarelli, F. and Beltram, F. Development of a novel GFP-based ratiometric excitation and emission pH indicator for intracellular studies. Biophysical Journal 90: 3300-3314 (2006).
- Borst, J. W., Laptenok, S. P., Westphal, A. H., Kuhnemuth, R., Hornen, H., Visser, N. V., Kalinin, s., Aker, J., van Hoek, A., Seidel, C. A. M. and Visser, A. J. W. G. Structural changes of yellow cameleon domains observed by quantitative FRET analysis and polarized fluorescence correlation spectroscopy. Biophysical Journal 95: 5399-5411 (2008).
- Brumbaugh, J., Schleifenbaum, A., Gasch, A., Sattler, M. and Schultz, C. A dual parameter FRET probe for measuring PKC and PKA activity in living cells. Journal of the American Chemical Society 128: 24-25 (2006).
- Bunemann, M., Frank, M. and Lohse, M. J. Gi protein activation in intact cells involves subunit rearrangement rather than dissociation. Proceedings of the National Academy of Sciences (USA) 100: 16077-16082 (2003).
- Cabantous, S., Pedelacq, J. D., Mark, B. L., Naranjo, C., Terwilliger, T. C., and Waldo, G. S.Recent advances in GFP folding reporter and split-GFP solubility reporter technologies. Application to improving the folding and solubility of recalcitrant proteins from mycobacterium tuberculosis. Journal of Structural and Functional Genomics 6: 113-119 (2005).
- Cannon, M. B. and Remington, S. J. Re-engineering redox-sensitive green fluorescent protein for improved response rate. Protein Science 15: 45-57 (2006).
- Chan, F. K. M., Siegel, R. M., Zacharias, D., Swofford, R., Holmes, K. L., Tsien, R. Y. and Lenardo, M. J. 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).
- Chapleau, R. R., Blomberg, R., Ford, P.C. and Sagermann, M. Design of a highly specific and noninvasive biosensor suitable for real-time in vivo imaging of mercury (II) uptake. Protein Science 17: 614-622 (2008).
- Chiang, J. J. H. and Truong, K. Using co-cultures expressing fluorescence resonance energy transfer based protein biosensors to simultaneously image caspase-3 and Ca2+signaling. Biotechnology Letters 27: 1219-1227 (2005).
- Chiang, J. J. H. and Truong, K. Computational modeling of a new fluorescent biosensor for caspase proteolytic activity improves dynamic range. IEEE Transactions on Nanobioscience 5: 41-45 (2006).
- Chiu, V. K., Bivona, T., Hach, A., Sajhous, J. B., Silletti, J., Wiener, H., Johnson II, R. L., Cox, A. D. and Phillips, M. R. Ras signaling on the endoplasmic reticulum and the golgi. Nature Cell Biology 4: 343-350 (2002).
- Cognet, L, Groc, L., Lounis, B. and Choquet, D. Multiple routes for glutamate receptor trafficking: surface diffusion and membrane traffic cooperate to bring receptors to synapses. Science Signaling 2006: Issue 327, pe13 (2006).
- De, S., Macara, I. G. and Lannigan, D. A. Novel biosensors for the detection of estrogen receptor ligands. Journal of Steroid Biochemistry and Molecular Biology 96: 235-244 (2005).
- Demaurex, N. and Frieden, M. Measurements of the free luminal ER Ca2+ concentration with targeted "cameleon" fluorescent proteins. Cell Calcium 34: 109-119 (2003).
- Deuschle, K., Okumoto, S., Fehr, M., Looger, L. L., Kozhukh, L. and Frommer, W. B.Construction and optimization of a family of genetically encoded metabolite sensors by semirational protein engineering. Protein Science 14: 2304-2314 (2005).
- Dimitrov, D., He, Y., Mutoh, H., Baker, B. J., Cohen, L., Akemann, W. and Knopfel, T.Engineering and characterization of an enhanced fluorescent protein voltage sensor.PLoS ONE 5: 1-5 (2007).
- DiPilato, L. M., Cheng, X. and Zhang, J. Fluorescent indicators of cAMP and Epac activation reveal differential dynamics of cAMP signaling within discrete subcellular compartments .Proceedings of the National Academy of Sciences (USA) 101: 16513-16518 (2004).
- Doi, N. and Yanagawa, H. Design of generic biosensors based on green fluorescent proteins with allosteric sites by directed evolution. FEBS Letters 453: 305-307 (1999).
- Dooley, C. T., Dore, T. M., Hanson, G. T., Jackson, W. C., Remington, S. J. and Tsien, R. Y.Imaging dynamic redox changes in mammalian cells with green fluorescent protein indicators. Journal of Biological Chemistry 279: 22284-22293 (2004).
- Dunn, T. A., Wang, C. T., Colicos, M. A., Zaccolo, M., DiPilato, L. M., Zhang, J., Tsien, R. Y. and Feller, M. B. Imaging of cAMP levels and protein kinase A activity reveals that retinal waves drive oscillations in second-messenger cascades. Journal of Neuroscience 26: 12807-12815 (2006).
- Eli, P. and Chakrabartty, A. Variants of DsRed fluorescent protein: development of a copper sensor. Protein Science 15: 2442-2447 (2006).
- Emmanouilidou, E., Teschemacher, A. G., Pouli, A. E., Nicholls, L. I., Seward, E. P. and Rutter, G. A. Imaging calcium concentration changes at the secretory vesicle surface with a recombinant targeted cameleon. Current Biology 9: 915-918 (1999).
- Ehrhardt, D. GFP technology for live cell imaging. Current Opinion in Plant Biology 6: 622-628 (2003).
- Erickson, M. G., Alseikhan, B. A., Peterson, B. Z. and Yue, D. T. Preassociation of calmodulin with voltage-gated Ca2+ channels revealed by FRET in single living cells. Neuron 31: 973-985 (2001).
- Erickson, M. G., Moon, D. L. and Yue, D. T., DsRed as a potential FRET partner with CFP and GFP. Biophysical Journal 85: 599-611 (2003).
- Evanko, D. New sensors from old. Nature Methods 5: 756 (2008).
- Evers, T. H., Appelhof, M. A. M., Meijer, E. W. and Merkx, M. His-tags as Zn (II) binding motifs in a protein-based fluorescent sensor. Protein Engineering, Design and Selection 21: 529-536 (2008).
- Fan, G. Y., Fujisaki, H., Miyawaki, A., Tsay, R. K., Tsien, R. Y. and Ellisman, M. H. Video-rate scanning two-photon excitation fluorescence microscopy and ratio imaging with cameleons. Biophysical Journal 76:2412-2420 (1999).
- Fehr, M., Frommer, W. B. and Lalode, S. Visualization of maltose uptake in living yeast cells by fluorescent nanosensors. Proceedings of the National Academy of Sciences (USA) 99:9846-9851 (2002).
- Fehr, M., Lalonde, S., Lager, I., Wolff, M. W. and Frommer, W. B. In vivo imaging of the dynamics of glucose uptake in the cytosol of COS-7 cells by fluorescent nanosensors.Journal of Biological Chemistry 278: 19127-19133 (2003).
- Filippin, L., Abad, M. C., Gastaldello, S., Magalhaes, P. J., Sandona, D. and Pozzan, T. Improved strategies for the delivery of GFP-based Ca2+ sensors into the mitochondrial matrix. Cell Calcium 37: 129-136 (2005).
- Filippin, L., Maalhaes, P. J., DiBenedetto, G. D., Colella, M. and Pozzan, T. Stable interactions between mitochondria and endoplasmic reticulum allow rapid accumulation of calcium in a subpopulation of mitochondria. Journal of Biological Chemistry 40: 39224-39234 (2003).
- Flors, C., Fryer, M. J., Waring, J., Reeder, B., Bechtold, U., Mullineaux, P. M., Nonell, S., Wilson, M. T. and Baker, N. R. Imaging the production of singlet oxygen in vivo using a new fluorescent sensor, singlet oxygen sensor green. Journal of Experimental Botany 57:1725-1734 (2006).
- Fujioka, A., Terai, K., Itoh, R. E., Aoki, K., Nakamura, T., Kuroda, S., Nishida, E. and Matsuda, M. Dynamics of the Ras/ERK MAPK cascade as monitored by fluorescent probes. Journal of Biological Chemistry 281: 8917-8926 (2006).
- Fukano, T., Sawano, A., Ohba, Y., Matsuda, M. and Miyawaki, A. Differential Ras activation between caveolae/raft and non-raft microdomains. Cell Structure and Function 32: 9-15 (2007).
- Fukano, T., Shimozono, S. and Miyawaki, A., Fast dual-excitation ratiometry with light-emitting diodes and high-speed liquid crystal shutters. Biochemical and Biophysical Research Communications 340: 250-255 (2006).
- Gaits, F. and Hahn, K. Shedding light on cell signaling: interpretation of FRET biosensors.Science Signaling 2003: Issue 165, pe3 (2003).
- Galietta, L. J. V., Haggie, P. M. and Verkman, A. S. Green fluorescent protein-based halide indicators with improved chloride and iodide affinities. FEBS Letters 499: 220-224 (2001).
- Gautier, I., Tramier, M., Durieux, C., Coppey, J., Pansu, R. B., Nicolas, J. C., Kemnitz, K. and Coppey-Moisan M. Homo-Fret microscopy in living cells to measure monomer-dimer transition of GFP-tagged proteins. Biophysical Journal 80: 3000-3008 (2001).
- Goodwin, J. S., Drake, K. R., Remmert, C. L. and Kenworthy, A. K. Ras diffusion is sensitive to plasma membrane viscosity. Biophysical Journal 89: 1398-1410 (2005).
- Gorokhovatsky, A., Y., Marchenkov, V. V., Rudenko, N. V., Ivashina, T. V., Ksenzenko, V. N., Burkhardt, N., Semisotnov, G. V., Vinokurov, L. M. and Alakhov, Y. B. Fusion of aequorea Victoria GFP and aequorin provides their Ca2+-induced interaction that results in red shift of GFP absorption and efficient bioluminescence energy transfer. Biochemical and Biophysical Research Communications 320: 703-711 (2004).
- Griesbeck, O., Baird, G.S., Campbell, R. E., Zacharias, D. A. and Tsien, R. Y. Reducing the environmental sensitivity of yellow fluorescent protein. Journal of Biological Chemistry276: 29188-29194 (2001).
- Guerrero, G., Siegel, M. S., Roska, B., Loots, E. and Isacoff, E. Y. Tuning FlaSH: Redesign, of the dynamics, voltage range, and color of the genetically encoded optical sensor of membrane potential. Biophysical Journal 83: 3607-3618 (2002).
- Habuchi, S., Cotlet, M., Hofkens, J., Dirix, G., Michiels, J., Vanderleyden, J., Subramaniam, V. and De Schryver, F. C. Resonance energy transfer in a calcium concentration-dependent cameleon protein. Biophysical Journal 83: 3499-3506 (2002).
- Hahn, K. and Toutchkine, A. Live-cell fluorescent biosensors for activated signaling proteins. Current Opinion in Cell Biology 14: 167-172 (2002).
- Han, W., Li, D. and Levitan, E. S. A new green fluorescent protein construct for localizing and quantifying peptide release. Annals of the New York Academy of Sciences 971: 627-633 (2002).
- Hanson, G. T., Aggeler, R., Oglesbee, D., Cannon, M., Capaldi, R. A., Tsien, R. Y. and Remington, S. J. Investigating mitochondrial redox potential with redox-sensitive green fluorescent protein indicators. Journal of Biological Chemistry 279:13044-13053 (2004).
- Hanson, G. T., McAnaney, T. B., Par,, E. S., Rendell, M. E. P., Yarbrough, D. K., Chu, S., Xi, L., Boxer, S. G., Montrose, M. H. and Remington, S. J. Green fluorescent protein variants as ratiometric dual emission pH sensors. 1. Structural characterization and preliminary application. Biochemistry 41: 15477-15488 (2002).
- Harbeck, M. C., Chepurny, O., Nikolaev, V. O., Lohse, M. J., Holz, G. G. and Roe, M. W. Simultaneous optical measurements of cytosolic Ca2+ and cAMP in single cells. Science Signaling 2006: Issue 353, pl16 (2006).
- Harpur, A. G., Wouters, F. S. and Bastiaens, P. I. H. Imaging FRET between spectrally similar GFP molecules in single cells. Nature Biotechnology 19: 167-169 (2001).
- Harvey, C. D., Ehrhardt, A. G., Cellurale, C., Zhong, H., Yasuda, R., Davis, R. J. and Svoboda, K. A genetically encoded fluorescent sensor of ERK activity. Proceedings of the National Academy of Sciences (USA)105:19264-19269 (2008).
- Heim, N. and Griesbeck, O. Genetically encoded indicators of cellular calcium dynamics based on troponin C and green fluorescent protein. Journal of Biological Chemistry 279:14280-14286 (2004).
- Heim, R. Green fluorescent protein forms for energy transfer. Methods in Enzymology 302:408-423 (1999).
- Heim, R. and Tsien, R. Y. Engineering green fluorescent protein for improved brightness, longer wavelengths and fluorescence resonance energy transfer. Current Biology 6: 178-182 (1996).
- Heinemann, U. and Hahn, M. Circular permutation of polypeptide chains: implications for protein folding and stability. Progress in Biophysics and Molecular Biology 64: 121-143 (1995).
- Hernandez, V. H., Bortolozzi, M., Pertegato, V., Beltramello, M., Giarin, M., Zaccolo, M., Pantano, S. and Mammano, F. Unitary permeability of gap junction channels to second messengers measured by FRET microscopy. Nature Methods 4: 353-358 (2007).
- Hires, S. A., Zhu, Y. and Tsien, R. Y. Optical measurement of synaptic glutamate spillover and reuptake by linker optimized glutamate-sensitive fluorescent reporters. Proceedings of the National Academy of Sciences (USA) 105: 4411-4416 (2008).
- Hoffman, C., Gaietta, G., Bunemann, M., Adams, S. R., Oberdorff-Maass, S., Behr, B., Vilardaga, J. P., Tsien, R. Y., Ellisman, M. H. and Lohse, M. J. A FLAsH-based FRET approach to determine G protein-coupled receptor activation in living cells. Nature Methods 2: 171-176 (2005).
- Hofmann, A., Iwai, H., Hess, S., Pluckthun, A. and Wlodawer, A. Structure of cyclized green fluorescent protein. Acta Crystallographica Section D 58: 1400-1406 (2002).
- Honda, A., Adams, S. R., Sawyer, C. L., Lev-Ram, V., Tsien, R. Y. and Dostmann, W. R. G.Spatiotemporal dynamics of guanosine 3', 5'-cyclic monophosphate revealed by a genetically encoded, fluorescent indicator. Proceedings of the National Academy of Sciences (USA) 98: 2437-2442 (2001).
- Ikeda, M., Sugiyama, T., Wallace, C. S. Gompf, H. S., Yoshioka, T., Miyawaki, A. and Allen, C. N.Circadian dynamics of cytosolic and nuclear Ca2+ in single suprachiasmatic nucleus neurons. Neuron 38: 253-263 (2003).
- Isshiki, M., Ying, Y. S. Fujita, T. and Anderson, R. G. W. A molecular sensor detects signal transduction from caveolae in living cells. Journal of Biological Chemistry 277: 43389-43398 (2002).
- Janetopoulos, C. and Devreotes, P. Monitoring receptor-mediated activation of heterotrimeric G-proteins by fluorescence resonance energy transfer. Methods 27: 366-373 (2002).
- Janetopoulos, C., Jin, T. and Devreotes, P. Receptor-mediated activation of heterotrimeric G-proteins in living cells. Science 291: 2408-2411 (2001).
- Jalink, K. Spying on cGMP with FRET Nature Methods 3: 11-12 (2006).
- Jayaraman, S., Haggie, P., Wachter, R. M., Remington, S. J. and Verkman, A. S. Mechanism and cellular applications of a green fluorescent protein-based halide sensor. Journal of Biological Chemistry 275: 6047-6050 (2000).
- Jensen, K. K., Martini, L and Schwartz, T. W. Enhanced fluorescence resonance energy transfer between spectral variants of green fluorescent protein through zinc-site engineering. Biochemistry 40: 938-945 (2001).
- Jiang, K., Schwarzer, C., Lally, E., Zhang, S., Ruzin, S., Machen, T., Remington, S. J. and Feldman, L. Expression and characterization of a redox-sensing green fluorescent protein (reduction-oxidation-sensitive green fluorescent protein) in Arabidopsis. Plant Physiology141: 397-403 (2006).
- Jones, J. T., Heim, R., Hare, E., Stack, J. and Pollok, B. A. Development and application of a GFP-FRET intracellular caspase assay for drug screening. Journal of Biomolecular Screening 5: 307-317 (2000).
- Jones, J. T., Myers, J. W., Ferrell, Jr., J. E. and Meyer, T. Probing the precision of the mitotic clock with a live-cell fluorescent biosensor. Nature Biotechnology 22: 306-312 (2004).
- Kawai, H., Suzuki, T., Kobayashi, T., Mizuguchi, H., Hayakawa, T. and Kawanishi, T. Simultaneous imaging of initiator/effector caspase activity and mitochondrial membrane potential during cell death in living HeLa cells. Biochimica et Biophysica Acta 1693: 101-110 (2004).
- Kawai, H., Suzuki, T., Kobayashi, T., Sakurai, H., Ohata, H., Honda, K., Momose, K., Namekata, I., Tanaka, H., Shigenobu, K., Nakamura, R., Hayakawa, T. and Kawanishi, T. Simultaneous real-time detection of initiator-and effector-caspase activation by double fluorescence resonance energy transfer analysis. Journal of Pharmacological Sciences 97: 361-368 (2005).
- Kawai, Y., Sato, M. and Umezawa, Y. Single color fluorescent indicators of protein phosphorylation for multicolor imaging of intracellular signal flow dynamics. Analytical Chemistry 76: 6144-6149 (2004).
- Kenworthy, A. K. Imaging protein-protein interaction using fluorescence resonance energy transfer microscopy. Methods 24: 289-296 (2001).
- Kerr, R. Lev-Ram, V., Baird, G., Vincent, P., Tsien, R. Y. and Schafer, W. R. Optical imaging of calcium transients in neurons and pharyngeal muscle of C. elegans. Neuron 26: 583-594 (2000).
- Kleinfeld, D. and Griesbeck, O. From art to engineering: The rise of in vivo mammalian electrophysiology via genetically targeted labeling and nonlinear imaging. PLoS Biology3: 1685-1689 (2005).
- Kneen, M., Farinas, J., Li, Y. and Verkman, A. S. Green fluorescent protein as a noninvasive intracellular pH indicator. Biophysical Journal 74: 1591-1599 (1998).
- Knopfel, T., Diez-Garcia, J., and Akemann, W. Optical probing of neuronal circuit dynamics: genetically encoded versus classical fluorescent sensors. Trends in Neurosciences 29:160-166 (2006).
- Kohler, M., Zaitsev, S. V., Zaitseva, I. I., Leibiger, B., Leibiger, I. B., Turunen, M., Kapelioukh, I. L., Bakkman, L, Appelskok, I. B., de Monvel, J. B., Imreh, G. and Berggren, P. O. On-line monitoring of apoptosis in insulin-secreting cells. Diabetes 52: 2943-2950 (2003).
- Kolossov, V. L., Spring, B. Q., Sokolowski, A., Conour, J. E. Clegg, R. M., Kenis, P. J. A. and Gaskins, H. R. Engineering redox-sensitive linker for genetically encoded FRET-based biosensors. Experimental Biology and Medicine 233: 238-248 (2008).
- Kotlikoff, M. I. Genetically encoded Ca2+ indicators: using genetics and molecular design to understand complex physiology. Journal of Physiology 578: 55-67 (2007).
- Kraynov, V. S., Chamberlain, C., Bokoch, G. M., Schwartz, M. A., Slabaugh, S. and Hahn, K. M. Localized RAC activation dynamics visualized in living cells. Science 290: 333-337 (2000).
- Kuner, T. and Augustine G. J. A genetically encoded ratiometric indicator for chloride: capturing chloride transients in cultured hippocampal neurons. Neuron 27: 447-459 (2000).
- Kunkel, M. T., Ni, Q., Tsien, R. Y., Zhang, J. and Newton, A. C. Spatio-temporal dynamics of protein kinase B/Akt signaling revealed by a genetically encoded fluorescent reporter.Journal of Biological Chemistry 280: 5581-5587 (2005).
- Kunkel, M. T., Toker, A., Tsien, R. Y. and Newton, A. C. Calcium-dependent regulation of protein kinase D revealed by a genetically encoded kinase activity reporter. Journal of Biological Chemistry 282: 6733-6742 (2007).
- Kurokawa, K., Mochizuki, N., Ohba, Y., Mizuno, H., Miyawaki, A. and Matsuda, M. A pair of fluorescent resonance energy transfer-based probes for tyrosine phosphorylation of the CrkII adaptor protein in vivo. Journal of Biological Chemistry 276: 31305-31310 (2001).
- Lager, I., Fehr, M., Frommer, W. B. and Lalonde, S. Development of a fluorescent nanosensor for ribose. FEBS Letters 553: 85-89 (2003).
- Larijani, B., Allen-Baume, V., Morgan, C. P., Li, M. and Cockcroft, S. EGF regulation of PITP dynamics is blocked by inhibitors of phospholipase C and of the Ras-MAP kinase pathway . Current Biology 13: 78-84 (2003).
- Lievens, S. and Tavernier, J. Single protein complex visualization: seeing is believing.Nature Methods 3: 971-972 (2006).
- Lin, C. W., Jao, C. Y. and Ting, A. Y. Genetically encoded fluorescent reporters of histone methylation in living cells. Journal of the American Chemical Society 126: 5982-5983 (2004).
- Lin, C. W. and Ting, A. Y. A genetically encoded fluorescent reporter of histone phosphorylation in living cells. Angewandte Chemie International Edition 43: 2940-2943 (2004).
- Lin, M. Z., Glenn, J. S. and Tsien, R. Y. A drug-controllable tag for visualizing newly synthesized proteins in cells and whole animals. Proceedings of the National Academy of Sciences (USA) 105: 7744-7749 (2008).
- Lissandron, V., Terrin, A., Collini, M., D'alfonso, L., Chirico, G., Pantoano, S. and Zaccolo, M.Improvement of a FRET-based indicator for cAMP by linker design and stabilization of donor-acceptor interaction. Journal of Molecular Biology 354: 546-555 (2005).
- Luo, K. Q., Yu, V. C., Pu, Y. and Chang, D. C. Application of the fluorescence resonance energy transfer method for studying the dynamics of caspase-3 activation during UV-induced apoptosis in living HeLa cells. Biochemical and Biophysical Research Communications 283: 1054-1060 (2001).
- Luo, K. Q., Yu, V. C., Pu, Y. and Chang, D. C. Measuring dynamics of caspase-8 activation in a single living HeLa cell during TNF A-induced apoptosis. Biochemical and Biophysical Research Communications 304:217-222 (2003).
- Mahajan, N. P., Harrison-Shostak, D. C., Michaux, J. and Herman, B. Novel mutant green fluorescent protein protease substrates reveal the activation of specific caspases during apoptosis. Chemistry and Biology 6: 401-409 (1999).
- Mank, M., Reiff, D. F., Heim, N., Friedrich, M. W., Borst, A. and Griesbeck, O. A FRET-based calcium biosensor with fast signal kinetics and high fluorescence change. Biophysical Journal 90: 1790-1796 (2006).
- Mank, M., Santos, A. F., Direnberger, S., Mrsic-Flogel, T. D., Hofer, S. B., Stein, V., Hendel, T., Reiff, D. F., Levelt, C., Borst, A., Bonhoeffer, T., Hubener, M. and Griesbeck, O. A genetically encoded calcium indicator for chronic in vivo two-photon imaging. Nature Methods 5: 805-811 (2008).
- Matsu-ura, T., Michikawa, T., Inoue, T., Miyawaki, A., Yoshida, M. and Mikoshiba, K. Cytosolic inositol 1, 4, 5-trisphosphate dynamics during intracellular calcium oscillations in living cells. Journal of Cell Biology 173: 755-765 (2006).
- Maulucci, G., Labate, V., Mele, M., Panieri, E., Arcovito, G., Galeotti, T., Ostergaard, H., Winther, J. R., De Spirito, M. and Pani, G. High-resolution imaging of redox signaling in live cells through an oxidation-sensitive yellow fluorescent protein. Science Signaling 1: Issue 43, pl3 (2008).
- Mazzola, P. G., Ishii, M., Chau, E., Cholewa, O. and Penna, T. C. V. Stability of green fluorescent protein (GFP) in chlorine solutions of varying pH. Biotechnology Progress 22:1702-1707 (2006).
- McAnaney, T. B., Park, E. S., Hanson, G. T., Remington, S. J. and Boxer, S. G. Green fluorescent protein variants as ratiometric dual emission pH Sensors. 2. excited-state dynamics. Biochemistry 41: 15489-15494 (2002).
- Meyer, T. and Teruel, M. N. Fluorescence imaging of signaling networks. Trends in Cell Biology 13: 101-106 (2003).
- Miesenbock, G., De Angelis, D. A. and Rothman, J. E. Visualizing secretion and synaptic transmission with pH-sensitive green fluorescent proteins. Nature 394: 192-195 (1998).
- Mitra, R. D., Silva, C. M. and Youvan, D. C., Fluorescence resonance energy transfer between blue-emitting and red-shifted excitation derivatives of the green fluorescent protein. Gene 173: 13-17 (1996).
- Miyawaki, A. Fluorescence imaging of physiological activity in complex systems using GFP-based probes. Current Opinion in Neurobiology 13: 591-596 (2003).
- Mochizuki, N., Yamashita, S., Kurokawa, K., Ohba, Y., Nagai, T., Miyawaki, A. and Matsuda, M.Spatio-temporal images of growth-factor-induced activation of Ras and Rap1. Nature 411:1065-1068 (2001).
- Moseyko, N. and Feldman, L. J. Expression of pH-sensitive green fluorescent protein in Arabidopsis thaliana. Plant, Cell and Environment 24: 557-563 (2001).
- Nagai, T. and Miyawaki, A. A high-throughput method for development of FRET-based indicators for proteolysis. Biochemical and Biophysical Research Communications 319:72-77 (2004).
- Nagai, T., Sawano, A., Park, E. S. and Miyawaki, A. Circularly permuted green fluorescent proteins engineered to sense Ca2+. Proceedings of the National Academy of Sciences (USA) 98: 3197-3202 (2001).
- Nagai, T., Yamada, S., Tominaga, T., Ichikawa, M. and Miyawaki, A. Expanded dynamic range of fluorescent indicators for Ca2+ by circularly permuted yellow fluorescent proteins.Proceedings of the National Academy of Sciences (USA) 101: 10554-10559 (2004).
- Nagai, Y., Miyazaki, M., Aoki, R., Zama, T., Inouye, S., Hirose, K., Lino, M. and Hagiwara, M. A fluorescent indicator for visualizing cAMP-induced phosphorylation in vivo. Nature Biotechnology 18: 313-316 (2000).
- Nakabayashi, T., Wang, H. P. Kinjo, M. and Ohta, N. Application of fluorescence lifetime imaging of enhanced green fluorescent protein to intracellular pH measurements.Photochemical and Photobiological Sciences 7: 668-670 (2008).
- Nakai, J., Ohkura, M. and Imoto, K. A high signal-to-noise Ca2+ probe composed of a single green fluorescent protein. Nature Biotechnology 19: 137-141 (2001).
- Nalbant, P., Hodgson, L., Kraynov, V., Toutchkine, A. and Hahn, K. M. Activation of endogenous CDC42 visualized in living cells. Science 305: 1615-1619 (2004).
- Ng, T., Squire, A., Hansra, G., Bornancin, F., Prevostel, C., Hanby, A., Harris, W., Barnes, D., Schmidt, S., Mellor, H., Bastiaens, P. I. H. and Parker, P. J. Imaging protein kinase Ca activation in cells. Science 283: 2085-2089 (1999).
- Nguyen, A. W. and Daugherty, P. S. Evolutionary optimization of fluorescent proteins for intracellular FRET. Nature Biotechnology 23: 355-360 (2005).
- Niethammer, P., Bastiaens, P. and Karsenti, E. Stathmin-tubulin interaction gradients in motile and mitotic cells. Science 303: 1862-1866 (2004).
- Nikolaev, V. O., Bunemann, M., Hein, L, Hannawacker, A. and Lohse, M. J. Novel single chain cAMP sensors for receptor-induced signal propagation. Journal of Biological Chemistry279: 37215-37218 (2004).
- Nikolaev, V. O., Gambaryan, S. and Lohse, M. J. Fluorescent sensors for rapid monitoring of intracellular cGMP. Nature Methods 3: 23-25 (2006).
- Offterdinger, M., Georget, V., Girod, A. and Bastiaens, P. I. H. Imaging phosphorylation dynamics of the epidermal growth factor receptor. Journal of Biological Chemistry 279:36972-36981 (2004).
- Ohashi, T., Galiacy, S. D., Briscoe, G. and Erickson, H. P. An experimental study of GFP-based FRET, with application to intrinsically unstructured proteins. Protein Science 16:1429-1438 (2007).
- Ohkura, M., Matsuzaki, M., Kasai, H., Imoto, K. and Nakai, J. Genetically encoded bright Ca2+probe applicable for dynamic Ca2+ imaging of dendritic spines. Analytical Chemistry 77:5861-5869 (2005).
- Oliveria, S. F., Gomez, L. L. and Dell'Acqua, M. L. Imaging kinase-AKAP79-phosphatase scaffold complexes at the plasma membrane in living cells using FRET microscopy.Journal of Cell Biology 160: 101-112 (2003).
- Onuki, R., Nagasaki, A., Kawasaki, H., Baba, T., Uyeda, T. Q. P. and Taira, K. Confirmation by FRET in individual living cells of the absence of significant amyloid β-mediated caspase 8 activation. Proceedings of the National Academy of Sciences (USA) 99: 14716-14721 (2002).
- Orengo, J. P., Bundman, D. and Cooper, T. A. A bichromatic fluorescent reporter for cell-based screens of alternative splicing. Nucleic Acids Research 34: e148 (2006).
- O'Riordan, T. C., Fitzgerald, K., Ponomarev, G. V., Mackrill, J., Hynes, J., Taylor, C. and Papkovsky, D. B. Sensing intracellular oxygen using near-infrared phosphorescent probes and live-cell fluorescence imaging. American Journal of Physiology 292: R1613-R1620 (2007).
- Ostergaard, H., Henriksen, A., Hansen, F. G. and Winther, J. R. Shedding light on disulfide bond formation: engineering a redox switch in green fluorescent protein. EMBO Journal20: 5853-5862 (2001).
- Ottolia, M., John, S., Ren, X. and Philipson, K. D. Fluorescent Na+ -Ca+ Exchangers. Journal of Biological Chemistry 282: 3695-3701 (2007).
- Ouyang, M., Sun, J., Chien,S. and Wang, Y. Determination of hierarchical relationship of Src and Rac at subcellular locations with FRET biosensors. Proceedings of the National Academy of Sciences (USA) 105: 14353-14358 (2008).
- Ozawa, T. and Umezawa, Y. Detection of protein-protein interactions in vivo based on protein splicing. Current Opinion in Chemical Biology 5: 578-583 (2001).
- Ozawa, T. and Umezawa, Y. Peptide assemblies in living cells. Methods for detecting protein-protein interactions. Supramolecular Chemistry 14: 271-280 (2002).
- Ozawa, T., Kaihara, A., Sato, M., Tachihara, K. and Umezawa, Y. Split luciferase as an optical probe for detecting protein-protein interactions in mammalian cells based on protein splicing. Analytical Chemistry 73: 2516-2521 (2001).
- Ozawa, T., Nogami, S., Sato, M., Ohya, Y. and Umezawa, Y. A fluorescent indicator for detecting protein-protein interactions in vivo based on protein splicing. Analytical Chemistry 72: 5151-5157 (2000).
- Ozawa, T., Sako, Y., Sato, M., Kitamura, T. and Umezawa, Y. A genetic approach to identifying mitochondrial proteins. Nature Biotechnology 21: 287-293 (2003).
- Ozawa, T., Takeuchi, M., Kaihara, A., Sato, M. and Umezawa, Y. Protein splicing-based reconstitution of split green fluorescent protein for monitoring protein-protein interactions in bacteria: improved sensitivity and reduced screening time . Analytical Chemistry 73: 5866-5874 (2001).
- Palmer, A. E., Giacomello, M., Kortemme, T., Hires,S. A., Lev-Ram, V., Baker, D. and Tsien, R. Y.Ca2+ indicators based on computationally redesigned calmodulin-peptide pairs.Chemistry and Biology 13: 521-530 (2006).
- Palmer, A. E., Jin, C., Reed, J. C. and Tsien, R. Y. Bcl-2-mediated alterations in endoplasmic reticulum Ca2+ analyzed with an improved genetically encoded fluorescent sensor.Proceedings of the National Academy of Sciences (USA) 101: 17404-17409 (2004).
- Paster, W., Paar, C., Eckerstorfer, P., Jakober, A., Drbal, K., Schutz, G. J., Sonnleitner, A. and Stockinger, H. Genetically encoded Forster resonance energy transfer sensors for the conformation of the Src family kinase Lck. Journal of Immunology 182: 2160-2167 (2009).
- Periasamy, A. and Day, R. N. FRET imaging of Pit-1 protein interactions in living cells.Journal of Biomedical Optics 3: 154-160 (1998).
- Persechini, A., Lynch, J. A. and Romoser, V. A. Novel fluorescent indicator proteins for monitoring free intracellular Ca2+. Cell Calcium 22: 209-216 (1997).
- Pertz, O. and Hahn, K. M. Designing biosensors for Rho family proteins-deciphering the dynamics of Rho family GRPase activation in living cells. Journal of Cell Science 117:1313-1318 (2004).
- Pertz, O., Hodgson, L., Klemke, R. L. and Hahn, K. M. Spatiotemporal dynamics of RhoA activity in migrating cells. Nature 440: 1069-1072 (2006).
- Pham, E., Chiang, J., Li, I., Shum, W. and Truong, K. A computational tool for designing FRET protein biosensors by rigid-body sampling of their conformational space. Structure15: 515-523 (2007).
- Philips, M. R. Imaging signal transduction in living cells with fluorescent proteins. Science Signaling 2005: Issue 314, tr28 (2005).
- Pollitt, S. K., Pallos, J. Shao, J., Desai, U. A., Ma, A. A. K., Thompson, L. M., Marsh, J. L. and Diamond, M. I. A rapid cellular FRET assay of polyglutamine aggregation identifies a novel inhibitor. Neuron 40: 685-694 (2003).
- Pologruto, T. A., Yasuda, R. and Svoboda, K. Monitoring neural activity and [Ca2+] with genetically encoded Ca2+ indicators. Journal of Neuroscience 24: 9572-9579 (2004).
- Ponsioen, B., Zhao, J., Riedl, J., Zwartkruis, F., van der Krogt, G., Zaccolo, M., Moolenaar, W. H., Bos, J. L. and Jalink, K. Detecting cAMP-induced Epac activation by fluorescence resonance energy transfer: Epac as a novel cAMP indicator EMBO Journal 5: 1176-1180 (2004).
- Pozzan, T., Mongillo, M. and Rudolf, R. Investigating signal transduction with genetically encoded fluorescent probes. European Journal of Biochemistry 270: 2343-2352 (2003).
- Qiao, W., Mooney, M., Bird, A. J., Winge, D. R. and Eide, D. J. Zinc binding to a regulatory zinc-sensing domain monitored in vivo by using FRET. Proceedings of the National Academy of Sciences (USA) 103: 8674-8679 (2006).
- Rehm, M., Dubmann, H., Janicke, R. U., Tavare, J. M., Kogel, D. and Prehn, J. H. M. Single-cell fluorescence resonance energy transfer analysis demonstrates that caspase activation during apoptosis is a rapid process. Journal of Biological Chemistry 277: 24506-24514 (2002).
- Remy, I. and Michnick, S. W. A cDNA library functional screening strategy based on fluorescent protein complementation assays to identify novel components of signaling pathways. Methods 32: 381-388 (2004).
- Rieder, C. L. and Mikhailov, A., The pulse of mitosis. Nature Biotechnology 22: 279-280 (2004).
- Robert, V., Gurlini, P., Tosello, V., Nagai, T., Miyawaki, A., Di Lisa, F. and Pozzan, T. Beat-to-beat oscillations of mitochondrial [Ca2+] in cardiac cells. EMBO Journal 20: 4998-5007 (2001).
- Rochefort, N. L. and Konnerth, A. Genetically encoded Ca2+ sensors come of age. Nature Methods 5: 761- 762 (2008).
- Romoser, V. A., Hinkle, P. M. and Pereschini, A. Detection in living cells of Ca2+ -dependent changes in the fluorescence emission of an indicator composed of two green fluorescent protein variants linked by a calmodulin-binding sequence. Journal of Biological Chemistry272: 13270-13274 (1997).
- Rudolf, R., Mongillo, M., Rizzuto, R. and Pozzan, T. Looking forward to seeing calcium.Nature Reviews 4: 579-586 (2003).
- Sakai, R., Repunte-Canonigo, V., Raj, C. D. and Knopfel, T. Design and characterization of a DNA-encoded, voltage-sensitive fluorescent protein. European Journal of Neuroscience13: 2314-2318 (2001).
- Sankaranarayanan, S., De Angelis, D., Rothman, J. E. and Ryan, T. A. The use of pHluorins for optical measurements of presynaptic activity. Biophysical Journal 79: 2199-2208 (2000).
- Sasaki, K., Sato, M. and Umezawa, Y. Fluorescent Indicators for Akt/Protein kinase B and dynamics of Akt activity visualized in living cells. Journal of Biological Chemistry 278:30945-30951 (2003).
- Sato, M. Imaging molecular events in single living cells. Analytical and Bioanalytical Chemistry 386: 435-443 (2006).
- Sato, M., Hida, N., Ozawa, T. and Umezawa, Y. Fluorescent Indicators for cyclic GMP based on cyclic GMP-dependent protein Kinase Ia and green fluorescent proteins Analytical Chemistry 72: 5918-5924 (2000).
- Sato, M., Ozawa, T., Inukai, K., Asano, T. and Umezawa, Y. Fluorescent indicators for imaging protein phosphorylation in single living cells. Nature Biotechnology 20: 287-294 (2002).
- Sato, M., Ueda, Y., Takagi, T. and Umezawa, Y. Production of TtdlnsP3 at endomembranes is triggered by receptor endocytosis. Nature Cell Biology 5: 1016-1022 (2003).
- Sato, M. and Umezawa, Y. Imaging protein phosphorylation by fluorescence in single living cells. Methods 32: 451-455 (2004).
- Sawano, A., Hama, H., Saito, N. and Miyawaki, A. Multicolor imaging of Ca2+ and protein kinase C signals using novel epifluorescence microscopy. Biophysical Journal 82: 1076-1085 (2002).
- Schleifenbaum, A., Stier, G., Gasch, A., Sattler, M. and Schultz, C. Genetically encoded FRET probe for PKC activity based on pleckstrin. Journal of the American Chemical Society126: 11786-11787 (2004).
- Selvin, P. R. The renaissance of fluorescence resonance energy transfer. Nature Structural and Molecular Biology 7: 730-734 (2000).
- Sheridan, D. L. and Hughes, T. E. A faster way to make GFP-based biosensors: two new transposons for creating multicolored libraries of fluorescent fusion proteins. BMC Biotechnology 4: 41-48 (2004).
- Shetty, R. S., Ramanathan, S., Badr, I. H. A., Wolford, J. L. and Daunert,S. Green fluorescent protein in the design of a living biosensing system for L-Arabinose. Analytical Chemistry71: 763-768 (1999).
- Shimozono, S., Fukano, T., Nagai, T., Kirino, Y., Mizuno, H. and Miyawaki, A. Confocal imaging of subcellular Ca2+ concentrations using a dual-excitation ratiometric indicator based on green fluorescent protein. Science Signaling 2002: Issue 125, pl4 (2002).
- Shimozono, S. and Miyawaki, A. Engineering FRET constructs using CFP and YFP. Methods in Cell Biology 85: 381-393 (2008).
- Shrestha, S. and Deo, S. K. Anthozoa red fluorescent protein in biosensing. Analytical and Bioanalytical Chemistry 386: 515-524 (2006).
- Shyn, S. I., Kerr, R. and Schafer, W. R. Serotonin and Go modulate functional states of neurons and muscles controlling C. elegans egg-laying behavior. Current Biology 13:1910-1915 (2003).
- Siegel, M. S. and Isacoff, E. Y. A genetically encoded optical probe of membrane voltage.Neuron 19: 735-741 (1997).
- Siegel, R. M., Chan, F. K. M., Zacharias, D. A., Swofford, R., Holmes, K. L., Tsien, R. Y. and Lenardo, M. J. Measurement of molecular interactions in living cells by fluorescence resonance energy transfer between variants of the green fluorescent protein. Science Signaling 2000: Issue 38, pl1 (2000).
- Siegel, R. M., Frederiksen, J. K., Zacharias, D. A., Chan, F. K. M., Johnson, M., Lynch, D., Tsien, R. Y. and Lenardo, M. J. Fas preassociation required for apoptosis signaling and dominant inhibition by pathogenic mutations . Science 288: 2354-2357 (2000).
- Sjulson, L and Miesenbock, G. Rational optimization and imaging in vivo of a genetically encoded optical voltage reporter. Journal of Neuroscience 28: 5582-5593 (2008).
- Soh, N., Seto, D., Nakano, K. and Imato, T. Methodology of reversible protein labeling for ratiometric fluorescent measurement. Molecular BioSystems 2: 128-131 (2006).
- Souslova, E. A. and Chudakov, D. M. Genetically encoded intracellular sensors based on fluorescent proteins. Biochemistry (Moscow) 72: 683-697 (2007).
- Sumner, J. P., Westerberg, N. M., Stoddard, A., K., Hurst, T. K., Cramer, M., Thompson, R. B.. Fierke, C. A. and Kopelman, R. DsRed as a highly sensitive, selective, and reversible fluorescence-based biosensor for both Cu+ and Cu2+ ions. Biosensors and Bioelectronics 21: 1302-1308 (2006).
- Suzuki, H., Kerr, R., Bianchi, L., Frokjaer-Jensen, C., Slone, D., Xue, J., Gerstbrein, B., Driscoll, M. and Schafer, W. R. In vivo imaging of C. elegans mechanosensory neurons demonstrates a specific role for the MEC-4 channel in the process of gentle touch sensation. Neuron 39: 1005-1017 (2003).
- Suzuki, M., Ito, Y., Sakata, I., Sakai, T., Husimi, Y. and Douglas, K. T. Caspase-3 sensitive signaling in vivo in apoptotic HeLa cells by chemically engineered intramolecular fluorescence resonance energy transfer mutants of green fluorescent protein.Biochemical and Biophysical Research Communication 330: 454-460 (2005).
- Takahashi, E., Takano, T., Nomura, Y., Okano, S. Nakajima, O. and Sato, M. In vivo oxygen imaging using green fluorescent protein. American Journal of Physiology 291: 781-787 (2006).
- Takao, K., Okamoto, K. I., Nakagawa, T., Neve, R. L., Nagai, T., Miyawaki, A., Hashikawa, T., Kobayashi, S. and Hayashi, Y. Visualization of synaptic Ca2+/calmodulin-dependent protein kinase II activity in living neurons. Journal of Neuroscience 25: 3107-3112 (2005).
- Takemoto, K., Nagai, T., Miyawaki, A. and Miura, M. Spatio-temporal activation of caspase revealed by indicator that is insensitive to environmental effects. Journal of Cell Biology160: 235-243 (2003).
- Tallini, Y. N., Ohkura, M., Choi, B. R., Ji, G., Imoto, K., Doran, R., Lee, J., Plan, P., Wilson, J., Xin, H. B., Sanbe, A., Gulick, J., Mathai, J., Robbins, J., Salama, G., Nakai, J. and Kotlikof, M. I. Imaging cellular signals in the heart in vivo: cardiac expression of the high-signal Ca2+indicator GCaMP2. Proceedings of the National Academy of Sciences (USA)103: 4753-4758 (2006).
- Tanimura, A., Morita, T., Nezu, A., Shitara, A., Hashimoto, N. and Tojyo, Y. Use of fluorescence resonance energy transfer-based biosensors for the quantitative analysis of inositol 1, 4, 5-triphosphate dynamics in calcium oscillations. Journal of Biological Chemistry 284:8910-8917 (2009).
- Tanimura, A., Nezu, A., Morita, T., Turner, R. J. and Tojyo, Y. Fluorescent biosensor for quantitative real-time measurements of inositol 1, 4, 5-triphosphate in single living cells.Journal of Biological Chemistry 279: 38095-38098 (2004).
- Tavare, J. M., Fletcher, L. M. and Welsh, G. I. Using green fluorescent protein to study intracellular signalling. Journal of Endocrinology 170: 297-306 (2001).
- Ting, A. Y., Kain, K. H., Klemke, R. L. and Tsien, R. Y. Genetically encoded fluorescent reporters of protein tyrosine kinase activities in living cells. Proceedings of the National Academy of Sciences (USA) 98: 15003-15008 (2001).
- Topell, S., Hennecke, J. and Glockshuber, R. Circularly permuted variants of the green fluorescent protein. FEBS Letters 457: 283-289 (1999).
- Truong, K. and Ikura, M. The use of FRET imaging microscopy to detect protein-protein interactions and protein conformational changes in vivo. Current Opinion in Structural Biology 11: 573-578 (2001).
- Truong, K., Sawano, A., Mizuno, H., Hama, H. Tong, K. I., Mal, T. K., Miyawaki, A. and Ikura, M. FRET-based in vivo Ca2+ imaging by a new calmodulin-GFP fusion molecule. Nature Structural and Molecular Biology 8: 1069-1073 (2001).
- Tsien, R. Y. and Miyawaki, A. Seeing the machinery of live cells. Science 280: 1954-1955 (1998).
- Tsuruwaka, Y., Konishi, T., Miyawaki, A. and Takagi, M. Real-time monitoring of dynamic intracellular Ca2+ movement during early embryogenesis through expression of yellow cameleon. Zebrafish 4: 253-260 (2007).
- Tsutsui, H., Karasawa, S., Okamura, Y. and Miyawaki, A. Improving membrane voltage measurements using FRET with new fluorescent proteins. Nature Methods 5: 683-685 (2008).
- Tyas, L., Brophy, V. A., Pope, A., Rivett, A. J. and Tavare, J. M. Rapid caspase-3 activation during apoptosis revealed using fluorescence-resonance energy transfer. EMBO Reports1: 266-270 (2000).
- Umezawa, Y. Genetically encoded optical probes for imaging cellular signaling pathways.Biosensors and Bioelectronics 20: 2504-2511 (2005).
- Umezawa, Y. Illuminating molecular processes in living cells Chemistry: An Asian Journal1: 304-312 (2006).
- van der Krogt, G. N. M., Ogink, J., Ponsioen, B. and Jalink, K. A comparison of donor-acceptor pairs for genetically encoded FRET sensors: application to the Epac cAMP sensor as an example. PLoS ONE 3: 1916-1925 (2008).
- van der Wal, J., Habets, R., Varnai, P., Balla, T. and Jalink, K. Monitoring agonist-induced phospholipases C activation in live cells by fluorescence resonance energy transfer.Journal of Biological Chemistry 276: 15337-15344 (2001).
- Verveer, P. J., Wouters, F. S., Reynolds, A. R. and Bastiaens, P. I. H. Quantitative imaging of lateral ErbB1 receptor signal propagation in the plasma membrane. Science 290: 1567-1570 (2000).
- Vilardaga, J. P., Bunemann, M., Krasel, C., Castro, M. and Lohse, M. J. Measurement of the millisecond activation switch of G protein-coupled receptors in living cells. Nature Biotechnology 21: 8007-812 (2003).
- Vinkenborg, J. L., Evers, T. H., Reulen, S. W. A., Meijer, E. W. and Merkx, M. Enhanced sensitivity of FRET-based protease sensors by redesign of the GFP dimerization interface.ChemBioChem 8: 1119-1121 (2007).
- Violin, J. D., Zhang, J., Tsien, R. Y. and Newton, A. C. A genetically encoded fluorescent reporter reveals oscillatory phosphorylation by protein kinase C. Journal of Cell Biology161: 899-909 (2003).
- Wachter, R. M. and Remington, S. J. Sensitivity of the yellow variant of green fluorescent protein to halides and nitrate. Current Biology 9: R628-R629 (1999).
- Wallace, D., J., Borgloh, S. M. Z. A., Astori, S., Yang, Y., Bausen, M., Kugler, S., Palmer, A. E., Tsien, R. Y., Sprengel,R., Kerr, J. N. D., Denk, W. and Hasan, M. T. Single-spike detection in vitro and in vivo with a genetic Ca2+ sensor. Nature Methods 5: 797-804 (2008).
- Wang, F., Chen, T. S., Xing, D., Wang, J. J. and Wu, Y. X., Measuring dynamics of caspase-3 activity in living cells using FRET technique during apoptosis induced by high fluence low-power laser irradiation. Lasers in Surgery and Medicine 36: 2-7 (2005).
- Wang, W., Fang, H., Groom, L, Cheng, A., Zhang, W., Liu, J., Wang, X., Li, K., Han, P., Zheng, M., Yin, J., Wang, W., Mattson, M. P., Kao, J. P. lY., Lakaatta, E. G., Sheu, S. S., Ouyang, K., Chen, J., Dirksen, R. T. and Cheng, H. Superoxide flashes in single mitochondria. Cell 134:279-290 (2008).
- Wang, Y., Botvinick, E. L., Zhao, Y., Berns, M. W., Usami, S., Tsien, R. Y. and Chien, S. Visualizing the mechanical activation of Src. Nature 434: 1040-1045 (2005).
- Ward, M. E., Wu, J. Y. and Rao, Y. Visualization of spatially and temporally regulated N-WASP activity during cytoskeletal reorganization in living cells. Proceedings of the National Academy of Sciences (USA) 101: 970-974 (2004).
- Willoughby, D. and Cooper, D. M. F. Live-cell imaging of cAMP dynamics. Nature Methods 5:29-36 (2008).
- Wolf, A. M., Asoh, S., Ohsawa, I. and Ohta, S. Imaging mitochondrial redox environment and oxidative stress using a redox-sensitive fluorescent protein. Journal of the Nippon Medical School 75: 66-67 (2008).
- Xu, X., Gerard, A. L. V., Huang, B. C. B., Anderson, D. C., Payan, D. G. and Luo, Y. Detection of programmed cell death using fluorescence energy transfer. Nucleic Acids Research 26:2034-2035 (1998).
- Yasuda, R. Imaging spatiotemporal dynamics of neuronal signaling using fluorescence resonance energy transfer and fluorescence lifetime imaging microscopy. Current Opinion in Neurobiology 16: 551-561 (2006).
- Ye, K. and Schultz, J. S. Genetic engineering of an allosterically based glucose indicator protein for continuous glucose monitoring by fluorescence resonance energy transfer.Analytical Chemistry 75: 3451-3459 (2003).
- Yoshizaki, H., Ohba, Y., Kurokawa, K., Itoh, R. E., Nakamura, T., Mochizuki, N., Nagashima, K. and Matsuda, M. Activity of Rho-family GTPases during cell division as visualized with FRET-based probes. Journal of Cell Biology 162: 223-232 (2003).
- Yu, R. and Hinkle, P. M. Rapid turnover of calcium in the endoplasmic reticulum during signaling. Journal of Biological Chemistry 275: 23648-23653 (2000).
- Zaccolo, M., De Giorgi, F., Cho, C. Y., Feng, L., Knapp,T., Negulescu, P. A., Taylor, S.. S., Tsien, R. Y. and Pozzan, T. A genetically encoded, fluorescent indicator for cyclic AMP in living cells. Nature Cell Biology 2: 25-29 (2000).
- Zaccolo, M., Magalhaes, P. and Pozzan,T. Compartmentalisation of cAMP and Ca2+ signals.Current Opinion in Cell Biology 14: 160-166 (2002).
- Zaccolo, M. and Pozzan, T. Imaging signal transduction in living cells with GFP-based probes. IUBMB Life 49: 375-379 (2000).
- Zaccolo, M. and Pozzan, T. Discrete microdomains with high concentration of cAMP in stimulated rat neonatal cardiac myocytes. Science 295: 1711-1715 (2002).
- Zacharias, D. A., Baird, G. S. and Tsien, R. Y. Recent advances in technology for measuring and manipulating cell signals. Current Opinion in Neurobiology 10: 416-421 (2000).
- Zamyatnin Jr, A. A., Solovyev, A. G., Bozhkov, P. V., Valkonen, J. P. T., Morozov, S. Y. and Savenkov, E. Assessment of the integral membrane protein topology in living cells. The Plant Journal 46: 145-154 (2006).
- Zhang, J., Ma, Y., Taylor, S. S. and Tsien, R. Y. Genetically encoded reporters of protein kinase A activity revel impact of substrate tethering. Proceedings of the National Academy of Sciences (USA) 98: 14997-15002 (2001).
- Zhang, S., Ma, C. and Chalfie, M. Combinatorial marking of cells and organelles with reconstituted fluorescent proteins. Cell 119: 137-144 (2004).
- Zhang, Y., Haskins, C., Lopez-Cruzan, M., Zhang, J., Centonze, V. E. and Herman, B. Detection of mitochondrial caspase activity in real time In Situ in live cells. Microscopy and Microanalysis 10: 442-448 (2004).