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Imaging proteins inside cells with fluorescent tags
Open accessAbstract
Watching biological molecules provides clues to their function and regulation. Some of the most powerful methods of labeling proteins for imaging use genetically encoded fluorescent fusion tags. There are four standard genetic methods of covalently tagging a protein with a fluorescent probe for cellular imaging. These use I) auto-fluorescent proteins, II) self-labeling enzymes, III) enzymes that catalyze the attachment of a probe to a target sequence, and IV) biarsenical dyes that target tetracysteine motifs. Each of these techniques has advantages and disadvantages. In this review, we cover new developments in these methods and discuss practical considerations for their use in imaging proteins inside living cells.
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Cites
Shaner, N. C., Campbell, R. E., Steinbach, P. A., Giepmans, B. N. G., Palmer, A. E., & Tsien, R. Y. (2004) · Nature Biotechnology · doi:10.1038/nbt1037 · Cited by 4,619
A guide to choosing fluorescent proteins
Shaner, N. C., Steinbach, P. A., & Tsien, R. Y. (2005) · Nature Methods · doi:10.1038/nmeth819 · Cited by 2,840
Nagai, T., Ibata, K., Park, E. S., Kubota, M., Mikoshiba, K., & Miyawaki, A. (2002) · Nature Biotechnology · doi:10.1038/nbt0102-87 · Cited by 2,753
A monomeric red fluorescent protein
Campbell, R. E., Tour, O., Palmer, A. E., Steinbach, P. A., Baird, G. S., Zacharias, D. A., & Tsien, R. Y. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.082243699 · Cited by 2,365
Engineering and characterization of a superfolder green fluorescent protein
Pédelacq, J.-D., Cabantous, S., Tran, T., Terwilliger, T. C., & Waldo, G. S. (2006) · Nature Biotechnology · doi:10.1038/nbt1172 · Cited by 2,291
Crystal Structure of the Aequorea victoria Green Fluorescent Protein
Ormö, M., Cubitt, A. B., Kallio, K., Gross, L. A., Tsien, R. Y., & Remington, S. J. (1996) · Science · doi:10.1126/science.273.5280.1392 · Cited by 2,242
Partitioning of Lipid-Modified Monomeric GFPs into Membrane Microdomains of Live Cells
Zacharias, D. A., Violin, J. D., Newton, A. C., & Tsien, R. Y. (2002) · Science · doi:10.1126/science.1068539 · Cited by 2,235
A general method for the covalent labeling of fusion proteins with small molecules in vivo
Keppler, A., Gendreizig, S., Gronemeyer, T., Pick, H., Vogel, H., & Johnsson, K. (2003) · Nature Biotechnology · doi:10.1038/nbt765 · Cited by 1,956
Huston, J. S., Levinson, D., Mudgett-Hunter, M., Tai, M. S., Novotný, J., Margolies, M. N., Ridge, R. J., Bruccoleri, R. E., Haber, E., & Crea, R. (1988) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.85.16.5879 · Cited by 1,593
Nanoscale architecture of integrin-based cell adhesions
Kanchanawong, P., Shtengel, G., Pasapera, A. M., Ramko, E. B., Davidson, M. W., Hess, H. F., & Waterman, C. M. (2010) · Nature · doi:10.1038/nature09621 · Cited by 1,567
Specific Covalent Labeling of Recombinant Protein Molecules Inside Live Cells
Griffin, B. A., Adams, S. R., & Tsien, R. Y. (1998) · Science · doi:10.1126/science.281.5374.269 · Cited by 1,549
Fluorescent Proteins and Their Applications in Imaging Living Cells and Tissues
Chudakov, D. M., Matz, M. V., Lukyanov, S., & Lukyanov, K. A. (2010) · Physiological Reviews · doi:10.1152/physrev.00038.2009 · Cited by 1,375
Bright Ideas for Chemical Biology
Lavis, L. D., & Raines, R. T. (2008) · ACS Chemical Biology · doi:10.1021/cb700248m · Cited by 1,290
An Engineered Protein Tag for Multiprotein Labeling in Living Cells
Gautier, A., Juillerat, A., Heinis, C., Corrêa, I. R., Kindermann, M., Beaufils, F., & Johnsson, K. (2008) · Chemistry & Biology · doi:10.1016/j.chembiol.2008.01.007 · Cited by 1,087
Reducing the Environmental Sensitivity of Yellow Fluorescent Protein
Griesbeck, O., Baird, G. S., Campbell, R. E., Zacharias, D. A., & Tsien, R. Y. (2001) · Journal of Biological Chemistry · doi:10.1074/jbc.m102815200 · Cited by 1,023
Adams, S. R., Campbell, R. E., Gross, L. A., Martin, B. R., Walkup, G. K., Yao, Y., Llopis, J., & Tsien, R. Y. (2002) · Journal of the American Chemical Society · doi:10.1021/ja017687n · Cited by 927
Multicolor and Electron Microscopic Imaging of Connexin Trafficking
Gaietta, G., Deerinck, T. J., Adams, S. R., Bouwer, J., Tour, O., Laird, D. W., Sosinsky, G. E., Tsien, R. Y., & Ellisman, M. H. (2002) · Science · doi:10.1126/science.1068793 · Cited by 907
Interferometric fluorescent super-resolution microscopy resolves 3D cellular ultrastructure
Shtengel, G., Galbraith, J. A., Galbraith, C. G., Lippincott-Schwartz, J., Gillette, J. M., Manley, S., Sougrat, R., Waterman, C. M., Kanchanawong, P., Davidson, M. W., et al. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0813131106 · Cited by 888
The fluorescent protein palette: tools for cellular imaging
Day, R. N., & Davidson, M. W. (2009) · Chemical Society Reviews · doi:10.1039/b901966a · Cited by 810
Advances in fluorescent protein technology
Shaner, N. C., Patterson, G. H., & Davidson, M. W. (2007) · Journal of Cell Science · doi:10.1242/jcs.005801 · Cited by 787
A High Precision Survey of the Molecular Dynamics of Mammalian Clathrin-Mediated Endocytosis
Taylor, M. J., Perrais, D., & Merrifield, C. J. (2011) · PLoS Biology · doi:10.1371/journal.pbio.1000604 · Cited by 754
Fast, three-dimensional super-resolution imaging of live cells
Jones, S. A., Shim, S.-H., He, J., & Zhuang, X. (2011) · Nature Methods · doi:10.1038/nmeth.1605 · Cited by 752
Green Fluorescent Protein as a Noninvasive Intracellular pH Indicator
Kneen, M., Farinas, J., Li, Y., & Verkman, A. S. (1998) · Biophysical Journal · doi:10.1016/s0006-3495(98)77870-1 · Cited by 712
Mammalian Expression of Infrared Fluorescent Proteins Engineered from a Bacterial Phytochrome
Shu, X., Royant, A., Lin, M. Z., Aguilera, T. A., Lev-Ram, V., Steinbach, P. A., & Tsien, R. Y. (2009) · Science · doi:10.1126/science.1168683 · Cited by 675
Single-Molecule Analysis of Dynein Processivity and Stepping Behavior
Reck-Peterson, S. L., Yildiz, A., Carter, A. P., Gennerich, A., Zhang, N., & Vale, R. D. (2006) · Cell · doi:10.1016/j.cell.2006.05.046 · Cited by 635
Autofluorescence of viable cultured mammalian cells.
Aubin, J. E. (1979) · Journal of Histochemistry & Cytochemistry · doi:10.1177/27.1.220325 · Cited by 555
Superresolution Imaging using Single-Molecule Localization
Patterson, G., Davidson, M., Manley, S., & Lippincott-Schwartz, J. (2010) · Annual Review of Physical Chemistry · doi:10.1146/annurev.physchem.012809.103444 · Cited by 527
Systematic Comparison of Constitutive Promoters and the Doxycycline-Inducible Promoter
Qin, J. Y., Zhang, L., Clift, K. L., Hulur, I., Xiang, A. P., Ren, B.-Z., & Lahn, B. T. (2010) · PLoS ONE · doi:10.1371/journal.pone.0010611 · Cited by 524
Novel Chromophores and Buried Charges Control Color in mFruits ,
Shu, X., Shaner, N. C., Yarbrough, C. A., Tsien, R. Y., & Remington, S. J. (2006) · Biochemistry · doi:10.1021/bi060773l · Cited by 491
Single-Molecule Speckle Analysis of Actin Filament Turnover in Lamellipodia
Watanabe, N., & Mitchison, T. J. (2002) · Science · doi:10.1126/science.1067470 · Cited by 483
A FlAsH-based FRET approach to determine G protein–coupled receptor activation in living cells
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. (2005) · Nature Methods · doi:10.1038/nmeth742 · Cited by 481
Crystallographic analysis of the catalytic mechanism of haloalkane dehalogenase
Verschueren, K. H. G., Seljée, F., Rozeboom, H. J., Kalk, K. H., & Dijkstra, B. W. (1993) · Nature · doi:10.1038/363693a0 · Cited by 467
Martin, B. R., Giepmans, B. N. G., Adams, S. R., & Tsien, R. Y. (2005) · Nature Biotechnology · doi:10.1038/nbt1136 · Cited by 421
Cellular autofluorescence--is it due to flavins?
Benson, R. C., Meyer, R. A., Zaruba, M. E., & McKhann, G. M. (1979) · Journal of Histochemistry & Cytochemistry · doi:10.1177/27.1.438504 · Cited by 414
In vivo protein labeling with trimethoprim conjugates: a flexible chemical tag
Miller, L. W., Cai, Y., Sheetz, M. P., & Cornish, V. W. (2005) · Nature Methods · doi:10.1038/nmeth749 · Cited by 323
Specific Labeling of Cell Surface Proteins with Chemically Diverse Compounds
George, N., Pick, H., Vogel, H., Johnsson, N., & Johnsson, K. (2004) · Journal of the American Chemical Society · doi:10.1021/ja048396s · Cited by 320
A New Wave of Cellular Imaging
Toomre, D., & Bewersdorf, J. (2010) · Annual Review of Cell and Developmental Biology · doi:10.1146/annurev-cellbio-100109-104048 · Cited by 319
Genetically encoded biosensors based on engineered fluorescent proteins
Frommer, W. B., Davidson, M. W., & Campbell, R. E. (2009) · Chemical Society Reviews · doi:10.1039/b907749a · Cited by 319
Photoactivatable fluorescent proteins for diffraction-limited and super-resolution imaging
Lippincott-Schwartz, J., & Patterson, G. H. (2009) · Trends in Cell Biology · doi:10.1016/j.tcb.2009.09.003 · Cited by 316
Juillerat, A., Gronemeyer, T., Keppler, A., Gendreizig, S., Pick, H., Vogel, H., & Johnsson, K. (2003) · Chemistry & Biology · doi:10.1016/s1074-5521(03)00068-1 · Cited by 313
Conversion of Red Fluorescent Protein into a Bright Blue Probe
Subach, O. M., Gundorov, I. S., Yoshimura, M., Subach, F. V., Zhang, J., Grüenwald, D., Souslova, E. A., Chudakov, D. M., & Verkhusha, V. V. (2008) · Chemistry & Biology · doi:10.1016/j.chembiol.2008.08.006 · Cited by 303
Building and breeding molecules to spy on cells and tumors
Tsien, R. Y. (2005) · FEBS Letters · doi:10.1016/j.febslet.2004.11.025 · Cited by 295
A fluorophore ligase for site-specific protein labeling inside living cells
Uttamapinant, C., White, K. A., Baruah, H., Thompson, S., Fernández-Suárez, M., Puthenveetil, S., & Ting, A. Y. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0914067107 · Cited by 292
Fluorescent proteins at a glance
Kremers, G.-J., Gilbert, S. G., Cranfill, P. J., Davidson, M. W., & Piston, D. W. (2011) · Journal of Cell Science · doi:10.1242/jcs.072744 · Cited by 272
Markwardt, M. L., Kremers, G.-J., Kraft, C. A., Ray, K., Cranfill, P. J. C., Wilson, K. A., Day, R. N., Wachter, R. M., Davidson, M. W., & Rizzo, M. A. (2011) · PLoS ONE · doi:10.1371/journal.pone.0017896 · Cited by 267
The photoreversible fluorescent protein iLOV outperforms GFP as a reporter of plant virus infection
Chapman, S., Faulkner, C., Kaiserli, E., Garcia-Mata, C., Savenkov, E. I., Roberts, A. G., Oparka, K. J., & Christie, J. M. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0807551105 · Cited by 262
Autofluorescent Proteins with Excitation in the Optical Window for Intravital Imaging in Mammals
Lin, M. Z., McKeown, M. R., Ng, H.-L., Aguilera, T. A., Shaner, N. C., Campbell, R. E., Adams, S. R., Gross, L. A., Ma, W., Alber, T., et al. (2009) · Chemistry & Biology · doi:10.1016/j.chembiol.2009.10.009 · Cited by 256
Live-cell dSTORM with SNAP-tag fusion proteins
Klein, T., Löschberger, A., Proppert, S., Wolter, S., van de Linde, S., & Sauer, M. (2011) · Nature Methods · doi:10.1038/nmeth0111-7b · Cited by 250
Imaging proteins in live mammalian cells with biotin ligase and monovalent streptavidin
Howarth, M., & Ting, A. Y. (2008) · Nature Protocols · doi:10.1038/nprot.2008.20 · Cited by 248
Fluorescent labeling of recombinant proteins in living cells with FlAsH
Albert Griffin, B., Adams, S. R., Jones, J., & Tsien, R. Y. (2000) · Methods in Enzymology · doi:10.1016/s0076-6879(00)27302-3 · Cited by 232
Rapid and efficient clathrin-mediated endocytosis revealed in genome-edited mammalian cells
Doyon, J. B., Zeitler, B., Cheng, J., Cheng, A. T., Cherone, J. M., Santiago, Y., Lee, A. H., Vo, T. D., Doyon, Y., Miller, J. C., et al. (2011) · Nature Cell Biology · doi:10.1038/ncb2175 · Cited by 231
The HaloTag™: A Novel Technology for Cell Imaging and Protein Analysis
Los, G. V., & Wood, K. (2006) · High Content Screening · doi:10.1385/1-59745-217-3:195 · Cited by 228
Jakobs, S., Subramaniam, V., Schönle, A., Jovin, T. M., & Hell, S. W. (2000) · FEBS Letters · doi:10.1016/s0014-5793(00)01896-2 · Cited by 176
A strategy for the generation of non‐aggregating mutants of Anthozoa fluorescent proteins
Yanushevich, Y. G., Staroverov, D. B., Savitsky, A. P., Fradkov, A. F., Gurskaya, N. G., Bulina, M. E., Lukyanov, K. A., & Lukyanov, S. A. (2002) · FEBS Letters · doi:10.1016/s0014-5793(01)03263-x · Cited by 161
Haloalkane Dehalogenases: Structure of a Rhodococcus Enzyme,
Newman, J., Peat, T. S., Richard, R., Kan, L., Swanson, P. E., Affholter, J. A., Holmes, I. H., Schindler, J. F., Unkefer, C. J., & Terwilliger, T. C. (1999) · Biochemistry · doi:10.1021/bi9913855 · Cited by 159
Štroffeková, K., Proenza, C., & Beam, K. G. (2001) · Pflügers Archiv - European Journal of Physiology · doi:10.1007/s004240100619 · Cited by 155
Johnson, H. W., & Schell, M. J. (2009) · Molecular Biology of the Cell · doi:10.1091/mbc.e09-01-0083 · Cited by 155
Stabilizing role of glutamic acid 222 in the structure of Enhanced Green Fluorescent Protein
Royant, A., & Noirclerc‐Savoye, M. (2011) · Journal of Structural Biology · doi:10.1016/j.jsb.2011.02.004 · Cited by 141
Syntaxin clusters assemble reversibly at sites of secretory granules in live cells
Barg, S., Knowles, M. K., Chen, X., Midorikawa, M., & Almers, W. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1014823107 · Cited by 140
Surveying polypeptide and protein domain conformation and association with FlAsH and ReAsH
Luedtke, N. W., Dexter, R. J., Fried, D. B., et al. (2007) · Nature Chemical Biology · doi:10.1038/nchembio.2007.49 · Cited by 138
Adams, S., & Tsien, R. Y. (2008) · Nature Protocols · doi:10.1038/nprot.2008.144 · Cited by 122
Engineered fluorescent proteins: innovations and applications
Davidson, M. W., & Campbell, R. E. (2009) · Nature Methods · doi:10.1038/nmeth1009-713 · Cited by 119
Presence of closely spaced protein thiols on the surface of mammalian cells
Donoghue, N., Yam, P. T., Jiang, X., et al. (2000) · Protein Science · doi:10.1110/ps.9.12.2436 · Cited by 119
Deer, J. R., & Allison, D. S. (2004) · Biotechnology progress (Print) · doi:10.1021/bp034383r · Cited by 117
Fluorescence Applications in Molecular Neurobiology
Taraska, J. W., & Zagotta, W. N. (2010) · Neuron · doi:10.1016/j.neuron.2010.02.002 · Cited by 94
Self-citationDeletion mapping of the Aequorea victoria green fluorescent protein
Dopf, J., & Horiagon, T. M. (1996) · Gene · doi:10.1016/0378-1119(95)00692-3 · Cited by 86
GFP expression in muscle cells impairs actin-myosin interactions: implications for cell therapy
Agbulut, O., Coirault, C., Niederländer, N. J., Huet, A., Vicart, P., Hagège, A. A., Pucéat, M., & Menasché, P. (2006) · Nature Methods · doi:10.1038/nmeth0506-331 · Cited by 85
STED Nanoscopy in Living Cells Using Fluorogen Activating Proteins
Fitzpatrick, J. A. J., Yan, Q., Sieber, J. J., Dyba, M., Schwarz, U., Szent-Györgyi, C., Woolford, C. A., Berget, P. B., Waggoner, A. S., & Bruchez, M. P. (2009) · Bioconjugate Chemistry · doi:10.1021/bc900249e · Cited by 85
Properties of a single-chain antibody containing different linker peptides
Alfthan, K., Takkinen, K., Sizmann, D., Söderlund, H., & Teeri, T. T. (1995) · Protein Engineering Design and Selection · doi:10.1093/protein/8.7.725 · Cited by 82
Clyne, P. J., Brotman, J. S., Sweeney, S. T., & Davis, G. W. (2003) · Genetics · doi:10.1093/genetics/165.3.1433 · Cited by 81
Selective labeling of proteins with chemical probes in living cells.
Lin, M., & Wang, L. (2008) · Physiology · doi:10.1152/physiol.00007.2008 · Cited by 78
Surveying Protein Structure and Function Using Bis-Arsenical Small Molecules
Scheck, R. A., & Schepartz, A. (2011) · Accounts of Chemical Research · doi:10.1021/ar2001028 · Cited by 68
Fluorescent Cargo Proteins in Pancreatic β-Cells: Design Determines Secretion Kinetics at Exocytosis
Michael, D. J., Geng, X., Cawley, N. X., Loh, Y. P., Rhodes, C. J., Drain, P., & Chow, R. H. (2004) · Biophysical Journal · doi:10.1529/biophysj.104.052175 · Cited by 66
Hairpin Structure of a Biarsenical−Tetracysteine Motif Determined by NMR Spectroscopy
Madani, F., Lind, J., Damberg, P., Adams, S., Tsien, R. Y., & Gräslund, A. (2009) · Journal of the American Chemical Society · doi:10.1021/ja809315x · Cited by 64
Generation of Functional Fluorescent BK Channels by Random Insertion of GFP Variants
Giráldez, T., Hughes, T. E., & Sigworth, F. J. (2005) · The Journal of General Physiology · doi:10.1085/jgp.200509368 · Cited by 63
Structural dynamics in the gating ring of cyclic nucleotide–gated ion channels
Taraska, J. W., & Zagotta, W. N. (2007) · Nature Structural & Molecular Biology · doi:10.1038/nsmb1281 · Cited by 58
Self-citationPre-Unfolding Resonant Oscillations of Single Green Fluorescent Protein Molecules
Baldini, G., Cannone, F., & Chirico, G. G. (2005) · Science · doi:10.1126/science.1115001 · Cited by 56
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Metadata
- Authors
- Crivat, G., & Taraska, J. W.
- Venue
- Trends in Biotechnology
- Publisher
- Elsevier BV
- Published
- 2012-01
- Volume
- 30
- Issue
- 1
- Pages
- 8-16
- ISSN
- 0167-7799 (ISSN-L)
- OpenAlex
- W1985283191
- Cited by
- 291
- References
- 77
- FWCI
- 1.48
- Type
- journal article
- Language
- en
- Open access
- green
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