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A bacterial phytochrome-based optogenetic system controllable with near-infrared light
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The authors implement the near-infrared light-responsive switch module BphP1/PpsR2 and demonstrate its applicability in diverse optogenetic systems, including light-controlled gene expression in vivo in mice. The main advantages of this module are low cytotoxicity and deep tissue penetration of the activating light, and its ability to utilize in eukaryotes (including mammals) an endogenous chromophore biliverdin.
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Kaberniuk, A.A., Shemetov, A.A., Verkhusha, V.V., A bacterial phytochrome-based optogenetic system controllable with near-infrared light. Nat Methods 13 (2016), 591–597 The authors implement the near-infrared light-responsive switch module BphP1/PpsR2 and demonstrate its applicability in diverse optogenetic systems, including light-controlled gene expression in vivo in mice. The main advantages of this module are low cytotoxicity and deep tissue penetration of the activating light, and its ability to utilize in eukaryotes (including mammals) an endogenous chromophore biliverdin.
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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., Optical control of mammalian endogenous transcription and epigenetic states. Nature 500 (2013), 472–476.
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By multidirectional engineering of the VVD photoreceptor, the authors design a new blue-light responsive heterodimerizing switch module, termed Magnets that, in addition to the advantage of being small, has very fast switching kinetics.
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Kawano, F., Suzuki, H., Furuya, A., Sato, M., Engineered pairs of distinct photoswitches for optogenetic control of cellular proteins. Nat Commun, 6, 2015, 6256 By multidirectional engineering of the VVD photoreceptor, the authors design a new blue-light responsive heterodimerizing switch module, termed Magnets that, in addition to the advantage of being small, has very fast switching kinetics.
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Paonessa, F., Criscuolo, S., Sacchetti, S., Amoroso, D., Scarongella, H., Pecoraro Bisogni, F., Carminati, E., Pruzzo, G., Maragliano, L., Cesca, F., et al. Regulation of neural gene transcription by optogenetic inhibition of the RE1-silencing transcription factor. Proc Natl Acad Sci U S A 113 (2016), E91–E100.
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Optogenetic inhibitor of the transcription factor CREB
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Ali, A.M., Reis, J.M., Xia, Y., Rashid, A.J., Mercaldo, V., Walters, B.J., Brechun, K.E., Borisenko, V., Josselyn, S.A., Karanicolas, J., et al. Optogenetic inhibitor of the transcription factor CREB. Chem Biol 22 (2015), 1531–1539.
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The PhyB/PIF3 optogenetic switch is utilized to reversibly control the nuclear transport of proteins. This optogenetic tool was applied for red light-inducible nuclear import of transcription factors to control gene expression both in mammalian cells and zebrafish. The latter is also the first in vivo application of a plant phytochrome-based optogenetic system in vertebrates.
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Beyer, H.M., Juillot, S., Herbst, K., Samodelov, S.L., Müller, K., Schamel, W.W., Römer, W., Schäfer, E., Nagy, F., Strähle, U., et al. Red light-regulated reversible nuclear localization of proteins in mammalian cells and zebrafish. ACS Synth Biol 4 (2015), 951–958 The PhyB/PIF3 optogenetic switch is utilized to reversibly control the nuclear transport of proteins. This optogenetic tool was applied for red light-inducible nuclear import of transcription factors to control gene expression both in mammalian cells and zebrafish. The latter is also the first in vivo application of a plant phytochrome-based optogenetic system in vertebrates.
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The paper presents an elegant minimalistic approach to design light-controlled allosteric protein switches. The design is based on the AsLOV2 domain, strategically integrated into the target protein structure, to achieve reversible switching between the target protein's conformations closely resembling its natural active and natural inactive state in the dark and upon blue light illumination, respectively.
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This is the first study that applies optogenetic approaches to control whole cell organelles, specifically their positioning and transport along either microtubules or actin filaments, in a subcellular spatiotemporal resolution (documented by high-resolution videos).
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This paper utilizes Cry2 to cluster intrinsically disordered regions (IDRs) of RNA/protein body proteins and thus obtain a system for light-controlled generation of intracellular membraneless compartments. The well characterized system is attractive as a tool to study native membraneless organelles as well as cellular protein aggregation pathologies.
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Shin, Y., Berry, J., Pannucci, N., Haataja, M.P., Toettcher, J.E., Brangwynne, C.P., Anderson, P., Kedersha, N., Banerjee, R., Schleicher, E., et al. Spatiotemporal control of intracellular phase transitions using light-activated optoDroplets. Cell 168 (2016), 159–171 This paper utilizes Cry2 to cluster intrinsically disordered regions (IDRs) of RNA/protein body proteins and thus obtain a system for light-controlled generation of intracellular membraneless compartments. The well characterized system is attractive as a tool to study native membraneless organelles as well as cellular protein aggregation pathologies.
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Bear, J.E.6
Kuhlman, B.7
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38
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84964860629
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Subcellular optogenetic activation of Cdc42 controls local and distal signaling to drive immune cell migration
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O'Neill, P.R., Kalyanaraman, V., Gautam, N., Subcellular optogenetic activation of Cdc42 controls local and distal signaling to drive immune cell migration. Mol Biol Cell 27 (2016), 1442–1450.
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(2016)
Mol Biol Cell
, vol.27
, pp. 1442-1450
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O'Neill, P.R.1
Kalyanaraman, V.2
Gautam, N.3
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39
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85002804332
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Plasma membrane association but not midzone recruitment of RhoGEF ECT2 is essential for cytokinesis
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This work employs the optogenetic control of RhoGEF ECT2 localization to elegantly disprove the previous belief that the midzone recruitment of the protein is crucial for cytokinesis.
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Kotýnková, K., Su, K.C., West, S.C., Petronczki, M., Plasma membrane association but not midzone recruitment of RhoGEF ECT2 is essential for cytokinesis. Cell Rep 17 (2016), 2672–2686 This work employs the optogenetic control of RhoGEF ECT2 localization to elegantly disprove the previous belief that the midzone recruitment of the protein is crucial for cytokinesis.
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(2016)
Cell Rep
, vol.17
, pp. 2672-2686
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Kotýnková, K.1
Su, K.C.2
West, S.C.3
Petronczki, M.4
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40
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84992411924
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Optical manipulation of the alpha subunits of heterotrimeric G proteins using photoswitchable dimerization systems
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Yu, G., Onodera, H., Aono, Y., Kawano, F., Ueda, Y., Furuya, A., Suzuki, H., Sato, M., Wettschureck, N., Offermanns, S., et al. Optical manipulation of the alpha subunits of heterotrimeric G proteins using photoswitchable dimerization systems. Sci Rep, 6, 2016, 35777.
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(2016)
Sci Rep
, vol.6
, pp. 35777
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Yu, G.1
Onodera, H.2
Aono, Y.3
Kawano, F.4
Ueda, Y.5
Furuya, A.6
Suzuki, H.7
Sato, M.8
Wettschureck, N.9
Offermanns, S.10
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41
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84908057379
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Manipulation of endogenous kinase activity in living cells using photoswitchable inhibitory peptides
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Yi, J.J., Wang, H., Vilela, M., Danuser, G., Hahn, K.M., Manipulation of endogenous kinase activity in living cells using photoswitchable inhibitory peptides. ACS Synth Biol 3 (2014), 788–795.
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(2014)
ACS Synth Biol
, vol.3
, pp. 788-795
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Yi, J.J.1
Wang, H.2
Vilela, M.3
Danuser, G.4
Hahn, K.M.5
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42
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84947721213
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Light-assisted small-molecule screening against protein kinases
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The authors implement an optogenetically inducible RTK signaling pathway as a platform for all-optical cell-based small-molecule screening, and thus likely sets the ground for the future of optogenetics-assisted high-throughput live-cell screens.
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Inglés-Prieto, Á., Reichhart, E., Muellner, M.K., Nowak, M., Nijman, S.M.B., Grusch, M., Janovjak, H., Light-assisted small-molecule screening against protein kinases. Nat Chem Biol 11 (2015), 952–954 The authors implement an optogenetically inducible RTK signaling pathway as a platform for all-optical cell-based small-molecule screening, and thus likely sets the ground for the future of optogenetics-assisted high-throughput live-cell screens.
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(2015)
Nat Chem Biol
, vol.11
, pp. 952-954
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Inglés-Prieto, Á.1
Reichhart, E.2
Muellner, M.K.3
Nowak, M.4
Nijman, S.M.B.5
Grusch, M.6
Janovjak, H.7
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43
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84970948142
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Optogenetic activation reveals distinct roles of PI(3,4,5)P3 and Akt in adipocyte insulin action
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Xu, Y., Nan, D., Fan, J., Bogan, J.S., Toomre, D., Optogenetic activation reveals distinct roles of PI(3,4,5)P3 and Akt in adipocyte insulin action. J Cell Sci 129 (2016), 2085–2095.
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(2016)
J Cell Sci
, vol.129
, pp. 2085-2095
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Xu, Y.1
Nan, D.2
Fan, J.3
Bogan, J.S.4
Toomre, D.5
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44
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84999851956
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Optogenetic clustering of CNK1 reveals mechanistic insights in RAF and AKT signalling controlling cell fate decisions
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The authors generate a light-controlled CNK1 clustering tool, with which they explore the protein's role in RAF and AKT signaling. Interestingly, they reveal that CNK1 functions as a molecular platform for switching between the two signaling pathways and thus deciding on cell fates.
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Fischer, A., Warscheid, B., Weber, W., Radziwill, G., Optogenetic clustering of CNK1 reveals mechanistic insights in RAF and AKT signalling controlling cell fate decisions. Sci Rep, 6, 2016, 38155 The authors generate a light-controlled CNK1 clustering tool, with which they explore the protein's role in RAF and AKT signaling. Interestingly, they reveal that CNK1 functions as a molecular platform for switching between the two signaling pathways and thus deciding on cell fates.
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(2016)
Sci Rep
, vol.6
, pp. 38155
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Fischer, A.1
Warscheid, B.2
Weber, W.3
Radziwill, G.4
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45
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84942645272
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Optogenetic apoptosis: light-triggered cell death
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Hughes, R.M., Freeman, D.J., Lamb, K.N., Pollet, R.M., Smith, W.J., Lawrence, D.S., Optogenetic apoptosis: light-triggered cell death. Angew Chem Int Ed 54 (2015), 12064–12068.
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(2015)
Angew Chem Int Ed
, vol.54
, pp. 12064-12068
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Hughes, R.M.1
Freeman, D.J.2
Lamb, K.N.3
Pollet, R.M.4
Smith, W.J.5
Lawrence, D.S.6
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46
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84896913524
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Genetically engineered photoinducible homodimerization system with improved dimer-forming efficiency
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Nihongaki, Y., Suzuki, H., Kawano, F., Sato, M., Genetically engineered photoinducible homodimerization system with improved dimer-forming efficiency. ACS Chem Biol 9 (2014), 617–621.
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(2014)
ACS Chem Biol
, vol.9
, pp. 617-621
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Nihongaki, Y.1
Suzuki, H.2
Kawano, F.3
Sato, M.4
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47
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84865279249
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Engineering a photoactivated caspase-7 for rapid induction of apoptosis
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Mills, E., Chen, X., Pham, E., Wong, S., Truong, K., Engineering a photoactivated caspase-7 for rapid induction of apoptosis. ACS Synth Biol 1 (2012), 75–82.
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(2012)
ACS Synth Biol
, vol.1
, pp. 75-82
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Mills, E.1
Chen, X.2
Pham, E.3
Wong, S.4
Truong, K.5
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48
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85010880202
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Optogenetic control of synaptic composition and function
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As a contrast to the classical neuro-optogenetic applications, this curious paper takes on a synthetic biological optogenetic approach to rapidly and locally control the molecular composition of the postsynaptic density (PSD). By light-controlled tuning of the AMPA receptor levels at the PSD, the authors get interesting insights into mechanisms governing the synaptic strength and excitatory postsynaptic potentials.
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Sinnen, B.L., Bowen, A.B., Forte, J.S., Hiester, B.G., Crosby, K.C., Gibson, E.S., Dell'Acqua, M.L., Kennedy, M.J., Optogenetic control of synaptic composition and function. Neuron 93 (2017), 646–660 As a contrast to the classical neuro-optogenetic applications, this curious paper takes on a synthetic biological optogenetic approach to rapidly and locally control the molecular composition of the postsynaptic density (PSD). By light-controlled tuning of the AMPA receptor levels at the PSD, the authors get interesting insights into mechanisms governing the synaptic strength and excitatory postsynaptic potentials.
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(2017)
Neuron
, vol.93
, pp. 646-660
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Sinnen, B.L.1
Bowen, A.B.2
Forte, J.S.3
Hiester, B.G.4
Crosby, K.C.5
Gibson, E.S.6
Dell'Acqua, M.L.7
Kennedy, M.J.8
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49
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84959289498
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Light-controlled intracellular transport in Caenorhabditis elegans
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Harterink, M., van Bergeijk, P., Allier, C., de Haan, B., van den Heuvel, S., Hoogenraad, C.C., Kapitein, L.C., Light-controlled intracellular transport in Caenorhabditis elegans. Curr Biol 26 (2016), R153–R154.
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(2016)
Curr Biol
, vol.26
, pp. R153-R154
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Harterink, M.1
van Bergeijk, P.2
Allier, C.3
de Haan, B.4
van den Heuvel, S.5
Hoogenraad, C.C.6
Kapitein, L.C.7
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50
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84958752628
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Reversible optogenetic control of subcellular protein localization in a live vertebrate embryo
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Buckley, C.E., Moore, R.E., Reade, A., Goldberg, A.R., Weiner, O.D., Clarke, J.D.W., Reversible optogenetic control of subcellular protein localization in a live vertebrate embryo. Dev Cell 36 (2016), 117–126.
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(2016)
Dev Cell
, vol.36
, pp. 117-126
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Buckley, C.E.1
Moore, R.E.2
Reade, A.3
Goldberg, A.R.4
Weiner, O.D.5
Clarke, J.D.W.6
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51
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Reversible optogenetic control of kinase activity during differentiation and embryonic development
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Krishnamurthy, V.V., Khamo, J.S., Mei, W., Turgeon, A.J., Ashraf, H.M., Mondal, P., Patel, D.B., Risner, N., Cho, E.E., Yang, J., et al. Reversible optogenetic control of kinase activity during differentiation and embryonic development. Development 143 (2016), 4085–4094.
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(2016)
Development
, vol.143
, pp. 4085-4094
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Krishnamurthy, V.V.1
Khamo, J.S.2
Mei, W.3
Turgeon, A.J.4
Ashraf, H.M.5
Mondal, P.6
Patel, D.B.7
Risner, N.8
Cho, E.E.9
Yang, J.10
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52
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85010028317
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The spatiotemporal limits of developmental Erk signaling
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Johnson, H.E., Goyal, Y., Pannucci, N.L., Schüpbach, T., Shvartsman, S.Y., Toettcher, J.E., The spatiotemporal limits of developmental Erk signaling. Dev Cell 40 (2017), 185–192.
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(2017)
Dev Cell
, vol.40
, pp. 185-192
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Johnson, H.E.1
Goyal, Y.2
Pannucci, N.L.3
Schüpbach, T.4
Shvartsman, S.Y.5
Toettcher, J.E.6
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53
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84947725851
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An optogenetic method to modulate cell contractility during tissue morphogenesis
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In this exciting study, the authors utilize a light-controlled 5-phosphatase to deplete PIP2 from the plasma membrane and thereby ultimately control the cell contractility during the tissue development of a Drosophila embryo. This optogenetic system reveals mechanisms of tissue invagination, as well as provides insights that could be valuable for light-guided tissue engineering.
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Guglielmi, G., Barry, J.D., Huber, W., De Renzis, S., An optogenetic method to modulate cell contractility during tissue morphogenesis. Dev Cell 35 (2015), 646–660 In this exciting study, the authors utilize a light-controlled 5-phosphatase to deplete PIP2 from the plasma membrane and thereby ultimately control the cell contractility during the tissue development of a Drosophila embryo. This optogenetic system reveals mechanisms of tissue invagination, as well as provides insights that could be valuable for light-guided tissue engineering.
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(2015)
Dev Cell
, vol.35
, pp. 646-660
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Guglielmi, G.1
Barry, J.D.2
Huber, W.3
De Renzis, S.4
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54
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85010040274
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TAEL: a zebrafish-optimized optogenetic gene expression system with fine spatial and temporal control
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Reade, A., Motta-Mena, L.B., Gardner, K.H., Stainier, D.Y., Weiner, O.D., Woo, S., TAEL: a zebrafish-optimized optogenetic gene expression system with fine spatial and temporal control. Development 144 (2016), 345–355.
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(2016)
Development
, vol.144
, pp. 345-355
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Reade, A.1
Motta-Mena, L.B.2
Gardner, K.H.3
Stainier, D.Y.4
Weiner, O.D.5
Woo, S.6
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55
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84989818977
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Optogenetic control of nodal signaling reveals a temporal pattern of nodal signaling regulating cell fate specification during gastrulation
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Sako, K., Pradhan, S.J., Barone, V., Inglés-Prieto, Á., Müller, P., Ruprecht, V., Čapek, D., Galande, S., Janovjak, H., Heisenberg, C.P., Optogenetic control of nodal signaling reveals a temporal pattern of nodal signaling regulating cell fate specification during gastrulation. Cell Rep 16 (2016), 866–877.
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(2016)
Cell Rep
, vol.16
, pp. 866-877
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Sako, K.1
Pradhan, S.J.2
Barone, V.3
Inglés-Prieto, Á.4
Müller, P.5
Ruprecht, V.6
Čapek, D.7
Galande, S.8
Janovjak, H.9
Heisenberg, C.P.10
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56
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84880247596
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Multi-chromatic control of mammalian gene expression and signaling
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Müller, K., Engesser, R., Schulz, S., Steinberg, T., Tomakidi, P., Weber, C.C., Ulm, R., Timmer, J., Zurbriggen, M.D., Weber, W., Multi-chromatic control of mammalian gene expression and signaling. Nucleic Acids Res, 41, 2013, e124.
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(2013)
Nucleic Acids Res
, vol.41
, pp. e124
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Müller, K.1
Engesser, R.2
Schulz, S.3
Steinberg, T.4
Tomakidi, P.5
Weber, C.C.6
Ulm, R.7
Timmer, J.8
Zurbriggen, M.D.9
Weber, W.10
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