The DOI matches its Crossref record; 44 of the 44 references it cites were found in a registry or an index.
An optimized optogenetic clustering tool for probing protein interaction and function
Open accessAbstract
The Arabidopsis photoreceptor cryptochrome 2 (CRY2) was previously used as an optogenetic module, allowing spatiotemporal control of cellular processes with light. Here we report the development of a new CRY2-derived optogenetic module, ‘CRY2olig’, which induces rapid, robust, and reversible protein oligomerization in response to light. Using this module, we developed a novel protein interaction assay, Light-Induced Co-clustering, that can be used to interrogate protein interaction dynamics in live cells. In addition to use probing protein interactions, CRY2olig can also be used to induce and reversibly control diverse cellular processes with spatial and temporal resolution. Here we demonstrate disrupting clathrin-mediated endocytosis and promoting Arp2/3-mediated actin polymerization with light. These new CRY2-based approaches expand the growing arsenal of optogenetic strategies to probe cellular function. Protein–protein interactions are fundamental to nearly all molecular and cellular processes. Here Taslimi et al.describe a versatile new optogenetic module that can be used to visualize protein–protein interactions, as well as reversibly control them with light with spatiotemporal resolution.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
A novel genetic system to detect protein–protein interactions
Fields, S., & Song, O.-K. (1989) · Nature · doi:10.1038/340245a0 · Cited by 6,114
Millisecond-timescale, genetically targeted optical control of neural activity
Boyden, E. S., Zhang, F., Bamberg, E., Nagel, G., & Deisseroth, K. (2005) · Nature Neuroscience · doi:10.1038/nn1525 · Cited by 4,861
Phase transitions in the assembly of multivalent signalling proteins
Li, P., Banjade, S., Cheng, H.-C., Kim, S., Chen, B., Guo, L., Llaguno, M., Hollingsworth, J. V., King, D. S., Banani, S. F., et al. (2012) · Nature · doi:10.1038/nature10879 · Cited by 2,550
The development and application of optogenetics
Fenno, L., Yizhar, O., & Deisseroth, K. (2011) · Annual Review of Neuroscience · doi:10.1146/annurev-neuro-061010-113817 · Cited by 1,822
Eukaryotic Stress Granules: The Ins and Outs of Translation
Buchan, J. R., & Parker, R. (2009) · Molecular Cell · doi:10.1016/j.molcel.2009.11.020 · Cited by 1,492
Studying protein dynamics in living cells
Lippincott-Schwartz, J., Snapp, E., & Kenworthy, A. (2001) · Nature Reviews Molecular Cell Biology · doi:10.1038/35073068 · Cited by 1,190
Rapid blue-light–mediated induction of protein interactions in living cells
Kennedy, M. J., Hughes, R. M., Peteya, L. A., Schwartz, J. W., Ehlers, M. D., & Tucker, C. L. (2010) · Nature Methods · doi:10.1038/nmeth.1524 · Cited by 1,120
Self-citationStargazin regulates synaptic targeting of AMPA receptors by two distinct mechanisms
Chen, L., Chetkovich, D. M., Petralia, R. S., Sweeney, N. T., Kawasaki, Y., Wenthold, R. J., Bredt, D. S., & Nicoll, R. A. (2000) · Nature · doi:10.1038/35050030 · Cited by 1,111
AKAP signalling complexes: focal points in space and time
Wong, W., & Scott, J. D. (2004) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm1527 · Cited by 1,073
Banaszynski, L. A., Chen, L.-C., Maynard-Smith, L. A., Ooi, A. G. L., & Wandless, T. J. (2006) · Cell · doi:10.1016/j.cell.2006.07.025 · Cited by 902
Scaffold Proteins: Hubs for Controlling the Flow of Cellular Information
Good, M. C., Zalatan, J. G., & Lim, W. A. (2011) · Science · doi:10.1126/science.1198701 · Cited by 885
Fluorescent protein FRET: the good, the bad and the ugly
Piston, D. W., & Kremers, G.-J. (2007) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2007.08.003 · Cited by 849
Controlling Signal Transduction with Synthetic Ligands
Spencer, D. M., Wandless, T. J., Schreiber, S. L., & Crabtree, G. R. (1993) · Science · doi:10.1126/science.7694365 · Cited by 843
Optical control of mammalian endogenous transcription and epigenetic states
Konermann, S., Brigham, M. D., Trevino, A. E., Hsu, P. D., Heidenreich, M., Cong, L., Platt, R. J., Scott, D. A., Church, G. M., & Zhang, F. (2013) · Nature · doi:10.1038/nature12466 · Cited by 803
Photoexcited CRY2 Interacts with CIB1 to Regulate Transcription and Floral Initiation in Arabidopsis
Liu, H., Yu, X., Li, K., Klejnot, J., Yang, H., Lisiero, D., & Lin, C. (2008) · Science · doi:10.1126/science.1163927 · Cited by 719
Plasticity-induced growth of dendritic spines by exocytic trafficking from recycling endosomes
Park, M., Salgado, J. M., Ostroff, L., Helton, T. D., Robinson, C. G., Harris, K. M., & Ehlers, M. D. (2006) · Neuron · doi:10.1016/j.neuron.2006.09.040 · Cited by 493
Functional interaction of phytochrome B and cryptochrome 2
Más, P., Devlin, P. F., Panda, S., & Kay, S. A. (2000) · Nature · doi:10.1038/35041583 · Cited by 465
Optogenetic protein clustering and signaling activation in mammalian cells
Bugaj, L. J., Choksi, A. T., Mesuda, C. K., Kane, R. S., & Schaffer, D. V. (2013) · Nature Methods · doi:10.1038/nmeth.2360 · Cited by 456
Homer: a link between neural activity and glutamate receptor function
Xiao, B., Cheng Tu, J., & Worley, P. F. (2000) · Current Opinion in Neurobiology · doi:10.1016/s0959-4388(00)00087-8 · Cited by 406
T cell activation by clustered tyrosine kinases
Kolanus, W., Romeo, C., & Seed, B. (1993) · Cell · doi:10.1016/0092-8674(93)90304-9 · Cited by 369
SCHULMAN, H., & GREENGARD, P. (1978) · Nature · doi:10.1038/271478a0 · Cited by 336
Aoki, K., Kumagai, Y., Sakurai, A., Komatsu, N., Fujita, Y., Shionyu, C., & Matsuda, M. (2013) · Molecular Cell · doi:10.1016/j.molcel.2013.09.015 · Cited by 336
Optogenetic control of phosphoinositide metabolism
Idevall-Hagren, O., Dickson, E. J., Hille, B., Toomre, D. K., & De Camilli, P. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1211305109 · Cited by 323
DNA-guided assembly of biosynthetic pathways promotes improved catalytic efficiency
Conrado, R. J., Wu, G. C., Boock, J. T., Xu, H., Chen, S. Y., Lebar, T., Turnšek, J., Tomšič, N., Avbelj, M., Gaber, R., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gkr888 · Cited by 274
Reversible protein inactivation by optogenetic trapping in cells
Lee, S., Park, H., Kyung, T., Kim, N. Y., Kim, S., Kim, J., & Heo, W. D. (2014) · Nature Methods · doi:10.1038/nmeth.2940 · Cited by 217
Kuriu, T., Inoue, A., Bito, H., Sobue, K., & Okabe, S. (2006) · The Journal of Neuroscience · doi:10.1523/jneurosci.0522-06.2006 · Cited by 209
Analysis of receptor oligomerization by FRAP microscopy
Dorsch, S., Klotz, K.-N., Engelhardt, S., Lohse, M. J., & Bünemann, M. (2009) · Nature Methods · doi:10.1038/nmeth.1304 · Cited by 208
Hierarchical Regulation of WASP/WAVE Proteins
Padrick, S. B., Cheng, H.-C., Ismail, A. M., Panchal, S. C., Doolittle, L. K., Kim, S., Skehan, B. M., Umetani, J., Brautigam, C. A., Leong, J. M., et al. (2008) · Molecular Cell · doi:10.1016/j.molcel.2008.10.012 · Cited by 203
Yu, X., Sayegh, R., Maymon, M., Warpeha, K. M., John Klejnot, B., Yang, H., Huang, J. S., Lee, J. S., Kaufman, L. S., & Lin, C. (2009) · The Plant Cell · doi:10.1105/tpc.108.061663 · Cited by 145
Optogenetic control of cell function using engineered photoreceptors
Pathak, G. P., Vrana, J. D., & Tucker, C. L. (2012) · Biology of the Cell · doi:10.1111/boc.201200056 · Cited by 108
Self-citationRivera, G. M., Briceño, C. A., Takeshima, F., Snapper, S. B., & Mayer, B. J. (2004) · Current Biology · doi:10.1016/j.cub.2003.12.033 · Cited by 107
Self-citationCreating Small-Molecule-Dependent Switches to Modulate Biological Functions
Buskirk, A. R., & Liu, D. R. (2005) · Chemistry & Biology · doi:10.1016/j.chembiol.2004.11.012 · Cited by 84
Hopkins, C. R. (1985) · Cell · doi:10.1016/0092-8674(85)90323-x · Cited by 79
Stoichiometry of Nck-dependent actin polymerization in living cells
Ditlev, J. A., Michalski, P. J., Huber, G., Rivera, G. M., Mohler, W. A., Loew, L. M., & Mayer, B. J. (2012) · The Journal of Cell Biology · doi:10.1083/jcb.201111113 · Cited by 79
Self-citationEngineering enzymatic cascades on nanoscale scaffolds
Idan, O., & Hess, H. (2013) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2013.01.003 · Cited by 77
WIP Provides an Essential Link between Nck and N-WASP during Arp2/3-Dependent Actin Polymerization
Donnelly, S. K., Weisswange, I., Zettl, M., & Way, M. (2013) · Current Biology · doi:10.1016/j.cub.2013.04.051 · Cited by 74
Live imaging of multicolor-labeled cells in Drosophila
Boulina, M. E., Samarajeewa, H., Baker, J. D., Kim, M. D., & Chiba, A. (2013) · Development · doi:10.1242/dev.088930 · Cited by 66
Targeted Chemical Disruption of Clathrin Function in Living Cells
Moskowitz, H. S., Heuser, J., McGraw, T. E., & Ryan, T. A. (2003) · Molecular Biology of the Cell · doi:10.1091/mbc.e03-04-0230 · Cited by 62
Interactive proteomics research technologies: recent applications and advances
Petschnigg, J., Snider, J. D., & Štagljar, I. (2010) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2010.09.001 · Cited by 58
Martin, B. R., Deerinck, T. J., Ellisman, M. H., Taylor, S. S., & Tsien, R. Y. (2007) · Chemistry & Biology · doi:10.1016/j.chembiol.2007.07.017 · Cited by 58
Giese, B., Au-Yeung, C.-K., Herrmann, A., Diefenbach, S., Haan, C., Küster, A., Wortmann, S. B., Roderburg, C., Heinrich, P. C., Behrmann, I., et al. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m303347200 · Cited by 49
Visualizing protein partnerships in living cells and organisms
Lowder, M. A., Appelbaum, J., Hobert, E. M., & Schepartz, A. (2011) · Current Opinion in Chemical Biology · doi:10.1016/j.cbpa.2011.10.024 · Cited by 38
Formation of Arabidopsis Cryptochrome 2 Photobodies in Mammalian Nuclei
Ozkan‐Dagliyan, I., Chiou, Y., Ye, R., Hassan, B. H., Öztürk, N., & Sancar, A. (2013) · Journal of Biological Chemistry · doi:10.1074/jbc.m113.493361 · Cited by 38
Lee, K. H., Lee, S., Lee, W.-Y., Yang, H. W., & Heo, W. D. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0911262107 · Cited by 24
Cited by
Spatiotemporal Control of Intracellular Phase Transitions Using Light-Activated optoDroplets
Shin, Y., Berry, J., Pannucci, N., Haataja, M. P., Toettcher, J. E., & Brangwynne, C. P. (2017) · Cell · doi:10.1016/j.cell.2016.11.054 · Cited by 965
Physical principles of intracellular organization via active and passive phase transitions
Berry, J., Brangwynne, C. P., & Haataja, M. (2018) · Reports on Progress in Physics · doi:10.1088/1361-6633/aaa61e · Cited by 452
Protein Phase Separation Provides Long-Term Memory of Transient Spatial Stimuli
Dine, E., Gil, A. A., Uribe, G., Brangwynne, C. P., & Toettcher, J. E. (2018) · Cell Systems · doi:10.1016/j.cels.2018.05.002 · Cited by 182
LADL: light-activated dynamic looping for endogenous gene expression control
Kim, J. H., Rege, M., Valeri, J., Dunagin, M. C., Metzger, A., Titus, K. R., Gilgenast, T. G., Gong, W., Beagan, J. A., Raj, A., et al. (2019) · Nature Methods · doi:10.1038/s41592-019-0436-5 · Cited by 135
Billault-Chaumartin, I., Muriel, O., Michon, L., & Martin, S. G. (2022) · Current Biology · doi:10.1016/j.cub.2022.09.026 · Cited by 17
Metadata
- Authors
- Taslimi, A., Vrana, J. D., Chen, D., Borinskaya, S., Mayer, B. J., Kennedy, M. J., & Tucker, C. L.
- Venue
- Nature Communications
- Published
- 2014-09-18
- Volume
- 5
- Issue
- 1
- Pages
- 4925-4925
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W2055045552
- Cited by
- 386
- References
- 44
- FWCI
- 9.66
- Type
- journal article
- Language
- en
- Open access
- bronze
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.