Ryohei Yasuda

  • Position:

    Scientific Director

  • Department:

  • Email:

    ryohei.yasuda@mpfi.org

Recent Papers

Functional imaging of nine distinct neuronal populations under a miniscope in freely behaving animals.

Phillips, M. L., Urban, N. T., Salemi, T., Dong, Z., & Yasuda, R. (2026). Functional imaging of nine distinct neuronal populations under a miniscope in freely behaving animals. eLife, 15, RP110277.  

Intellectual disability-causing mutations in KIF11 impair microtubule dynamics and dendritic arborization

Wingfield, J. L., Niese, L., Avchalumov, Y., Liu, X., Grover, R., Nakahata, Y., Raveendra, B. L., Gonzalez-Santiago, A. E., Carter, J. P., Yasuda, R., Yuan, J. X.-J., Diez, S., & Puthanveettil, S. V. (2026). Intellectual disability-causing mutations in KIF11 impair microtubule dynamics and dendritic arborization. Nature Communications, 17(1), 4125.
 

Lack of ADAP1/Centaurin-α1 Ameliorates Cognitive Impairment and Neuropathological Hallmarks in a Mouse Model of Alzheimer’s Disease.

Szatmari, E. M., Moran, C., Cohen, S. J., Bashtovyy, D., Jacob, A., Bunner, W., Phipps, M., Lora, J. C., Stackman, R. W., & Yasuda, R. (2025). Lack of ADAP1/Centaurin-α1 Ameliorates Cognitive Impairment and Neuropathological Hallmarks in a Mouse Model of Alzheimer’s Disease. eNeuro, 12(11).  

Rab10 inactivation promotes AMPAR trafficking and spine enlargement during long-term potentiation.

Wang, J., Nishiyama, J., Parra-Bueno, P., Okaz, E., Oz, G., Liu, X., Watabe, T., Suponitsky-Kroyter, I., McGraw, T. E., Szatmari, E. M., & Yasuda, R. (2025). Rab10 inactivation promotes AMPAR trafficking and spine enlargement during long-term potentiation. eLife, 13, RP103879.
 

BDNF-driven synaptic plasticity requires autocrine matrix metalloproteinase–9 activity.

Legutko, D., Bijoch, L., Olszak, G., Kuźniewska, B., Kalita, K., Yasuda, R., Kaczmarek, L., & Michaluk, P. (2025). BDNF-driven synaptic plasticity requires autocrine matrix metalloproteinase–9 activity. Science Advances, 11(39), eadx2369.  

Mitochondria structurally remodel near synapses to fuel the sustained energy demands of plasticity

Shah, M., Ghosh, I., Pishos, L., Villani, V., Pancani, T., Yasuda, R., Sun, C., Kamasawa, N., & Rangaraju, V. (2025). Mitochondria structurally remodel near synapses to fuel the sustained energy demands of plasticity (p. 2025.08.27.672715). bioRxiv.
 

lncRNA ADEPTR loss-of-function elicits sex-specific behavioral and spine deficits

Chanda, K., Carter, J. P., Nishizono, H., Raveendra, B. L., Brantley, A., Grinman, E., Espadas, I., Lozano-Villada, S., Wingfield, J. L., Wagner, G., Peterson, A., Yasuda, R., & Puthanveettil, S. V. (2025). lncRNA ADEPTR loss-of-function elicits sex-specific behavioral and spine deficits. iScience, 28(8), 113070.
 

Boosting neuronal activity-driven mitochondrial DNA transcription improves cognition in aged mice.

Li, W., Li, J., Li, J., Wei, C., Laviv, T., Dong, M., Lin, J., Calubag, M., Colgan, L. A., Jin, K., Zhou, B., Shen, Y., Li, H., Cui, Y., Gao, Z., Li, T., Hu, H., Yasuda, R., & Ma, H. (2024). Boosting neuronal activity-driven mitochondrial DNA transcription improves cognition in aged mice. Science, 386(6728), eadp6547.
 

Formation of long-term memory without short-term memory revealed by CaMKII inhibition

Shin, M. E., Parra-Bueno, P., & Yasuda, R. (2024). Formation of long-term memory without short-term memory revealed by CaMKII inhibition. Nature Neuroscience, 1–5.
 

Dendritic, delayed, and stochastic CaMKII activation underlies behavioral time scale plasticity in CA1 synapses.

Jain, A., Nakahata, Y., Pancani, T., Watabe, T., Rusina, P., South, K., Adachi, K., Yan, L., Simorowski, N., Furukawa, H., & Yasuda, R. (2024). Dendritic, delayed, stochastic CaMKII activation in behavioural time scale plasticity. Nature, 1–9.
 

Synaptically-targeted long non-coding RNA SLAMR promotes structural plasticity by increasing translation and CaMKII activity

Espadas, I., Wingfield, J. L., Nakahata, Y., Chanda, K., Grinman, E., Ghosh, I., Bauer, K. E., Raveendra, B., Kiebler, M. A., Yasuda, R., Rangaraju, V., & Puthanveettil, S. (2024). Synaptically-targeted long non-coding RNA SLAMR promotes structural plasticity by increasing translation and CaMKII activity. Nature Communications, 15(1), 1–24.
 

Mapping of neuronal and glial primary cilia contactome and connectome in the human cerebral cortex.

Wu, J. Y., Cho, S.-J., Descant, K., Li, P. H., Shapson-Coe, A., Januszewski, M., Berger, D. R., Meyer, C., Casingal, C., Huda, A., Liu, J., Ghashghaei, T., Brenman, M., Jiang, M., Scarborough, J., Pope, A., Jain, V., Stein, J. L., Guo, J., … Anton, E. S. (2024). Mapping of neuronal and glial primary cilia contactome and connectome in the human cerebral cortex. Neuron, 112(1), 41-55.e3. https://doi.org/10.1016/j.neuron.2023.09.032
 

Meta-reinforcement learning via orbitofrontal cortex.

Hattori, R., Hedrick, N. G., Jain, A., Chen, S., You, H., Hattori, M., Choi, J.-H., Lim, B. K., Yasuda, R., & Komiyama, T. (2023). Meta-reinforcement learning via orbitofrontal cortex. Nature Neuroscience.
 

Cell-type-specific plasticity shapes neocortical dynamics for motor learning.

Shouvik Majumder, Koichi Hirokawa, Zidan Yang, Charles R. Gerfen, Lorenzo Fontolan, Sandro Romani, Anant Jain, Ryohei Yasuda, & Hidehiko K. Inagaki. (2023). Cell-type-specific plasticity shapes neocortical dynamics for motor learning. BioRxiv, 2023.08.09.552699.
 

Local autocrine plasticity signaling in single dendritic spines by insulin-like growth factors.

Tu, X., Jain, A., Parra Bueno, P., Decker, H., Liu, X., & Yasuda, R. (2023). Local autocrine plasticity signaling in single dendritic spines by insulin-like growth factors. Science Advances, 9(31), eadg0666.
 

Dual regulation of spine-specific and synapse-to-nucleus signaling by PKCδ during plasticity.

Colgan, L. A., Parra-Bueno P., Holman, H. L., Tu, X., Jain, A., Calubag, M. F., Misler, J. A., Gary, C., Oz, G., Suponitsky-Kroyter, I., Okaz, E., & Yasuda, R. (2023). Dual regulation of spine-specific and synapse-to-nucleus signaling by PKCδ during plasticity. The Journal of Neuroscience, 43 (30) 5432-5447. 

Behavioral and Transcriptome Profiling of Heterozygous Rab10 Knock-Out Mice.

Bunner, W., Wang, J., Cohen, S., Bashtovyy, D., Perry, R., Shookster, D., Landry, T., Harris, E. M., Stackman, R., Tran, T. D., Yasuda, R., & Szatmari, E. M. (2023). Behavioral and Transcriptome Profiling of Heterozygous Rab10 Knock-Out Mice. ENeuro, 10(5), ENEURO.0459-22.2023.
 

CaMKII: A central molecular organizer of synaptic plasticity, learning and memory.

Yasuda, R., Hayashi, Y., & Hell, J. W. (2022). CaMKII: A central molecular organizer of synaptic plasticity, learning and memory. Nature Reviews. Neuroscience.
 

FRET Imaging of Rho GTPase Activity with Red Fluorescent Protein-Based FRET Pairs.

Bajar, B. T., Guan, X., Lam, A., Lin, M. Z., Yasuda, R., Laviv, T., & Chu, J. (2022). FRET Imaging of Rho GTPase Activity with Red Fluorescent Protein-Based FRET Pairs. Methods in Molecular Biology (Clifton, N.J.), 2438, 31–43.
 

Rapid generation of conditional knockout mice using the CRISPR-Cas9 system and electroporation for neuroscience research.

Nishizono, H., Hayano, Y., Nakahata, Y., Ishigaki, Y., & Yasuda, R. (2021). Rapid generation of conditional knockout mice using the CRISPR-Cas9 system and electroporation for neuroscience research. Molecular Brain, 14(1), 148.
 

Rapid Ultrastructural Changes in the PSD and Surrounding Membrane after induction of structural LTP in Single Dendritic Spines.

Sun, Y., Smirnov, M., Kamasawa, N., Yasuda, R. (2021). Rapid Ultrastructural Changes in the PSD and Surrounding Membrane after induction of structural LTP in Single Dendritic Spines. Journal of Neuroscience 41, 33, 7003-7014. 

Imaging neuronal protein signaling dynamics in vivo.

Laviv, T., and Yasuda, R. (2021). Imaging neuronal protein signaling dynamics in vivo. Current Opinion in Neurobiology 69, 68–75. 

Activity-regulated synaptic targeting of lncRNA ADEPTR mediates structural plasticity by localizing Sptn1 and AnkB in dendrites.

Grinman, E., Nakahata, Y., Avchalumov, Y., Espadas, I., Swarnkar, S., Yasuda, R., and Puthanveettil, S.V. (2021). Activity-regulated synaptic targeting of lncRNA ADEPTR mediates structural plasticity by localizing Sptn1 and AnkB in dendrites. Science Advances 7, eabf0605. 

Methodologies and Challenges for CRISPR/Cas9 Mediated Genome Editing of the Mammalian Brain

Nishizono, H., Yasuda, R., and Laviv, T. (2020b). Methodologies and Challenges for CRISPR/Cas9 Mediated Genome Editing of the Mammalian Brain. Front. Genome Ed. 2. 

ADAP1/Centaurin-α1 negatively regulates dendritic spine function and memory formation in the hippocampus.

Szatmari, E., Moran, C., Cohen, S., Jacob, A., Parra-Bueno, P., Kamasawa, N., Guerrero-Given, D., Klein, M., Stackman, R., and Yasuda, R. (2020). ADAP1/Centaurin-α1 negatively regulates dendritic spine function and memory formation in the hippocampus. ENeuro ENEURO.0111-20. 

A distinct talin2 structure directs isoform specificity in cell adhesion. J. Biol. Chem.

Rangarajan, E.S., Primi, M.C., Colgan, L.A., Chinthalapudi, K., Yasuda, R., and Izard, T. (2020). A distinct talin2 structure directs isoform specificity in cell adhesion. J. Biol. Chem. Online ahead of print. 

Correlative Ultrastructural Analysis of Functionally Modulated Synapses Using Automated Tape-Collecting Ultramicrotome and SEM Array Tomography

Sun Y., Thomas C., Mikuni T., Guerrero-Given D., Yasuda R., Kamasawa N. (2020) Correlative Ultrastructural Analysis of Functionally Modulated Synapses Using Automated Tape-Collecting Ultramicrotome and SEM Array Tomography. In: Wacker I., Hummel E., Burgold S., Schröder R. (eds) Volume Microscopy. Neuromethods, vol 155. Humana, New York, NY.  

The NMDA receptor subunit GluN3A regulates synaptic activity-induced and myocyte enhancer factor 2C (MEF2C)-dependent transcription.

Chen, L.-F., Lyons, M.R., Liu, F., Green, M.V., Hedrick, N.G., Williams, A.B., Narayanan, A., Yasuda, R., and West, A.E. (2020). The NMDA receptor subunit GluN3A regulates synaptic activity-induced and myocyte enhancer factor 2C (MEF2C)-dependent transcription. J. Biol. Chem. 295(25):8613-8627. 

Use of Freeze-thawed Embryos for High-efficiency Production of Genetically Modified Mice.

Nishizono, H., Darwish, M., Uosaki, H., Masuyama, N., Seki, M., Abe, H., Yachie, N., and Yasuda, R. (2020). Use of Freeze-thawed Embryos for High-efficiency Production of Genetically Modified Mice. J Vis Exp. 158: e60808. 

Fluorescent sensors for neuronal signaling

O’Banion, C.P., and Yasuda, R. (2020). Fluorescent sensors for neuronal signaling. Current Opinion in Neurobiology 63, 31–41. 

Rac1 is a downstream effector of PKCα in structural synaptic plasticity.

Tu, X., Yasuda, R., and Colgan, L.A. (2020). Rac1 is a downstream effector of PKCα in structural synaptic plasticity. Scientific Reports 10, 1–9.
 

In Vivo Imaging of the Coupling between Neuronal and CREB Activity in the Mouse Brain.

Laviv, T., Scholl, B., Parra-Bueno, P., Foote, B., Zhang, C., Yan, L., Hayano, Y., Chu, J., and Yasuda, R. (2019). In Vivo Imaging of the Coupling between Neuronal and CREB Activity in the Mouse Brain. Neuron. 105, 799-812.e5. 

Imaging Neuronal Signal Transduction Using Multiphoton FRET-FLIM.

Evans, P.R., Yan, L., and Yasuda, R. (2019). Imaging Neuronal Signal Transduction Using Multiphoton FRET-FLIM. In Multiphoton Microscopy, E. Hartveit, ed. (New York, NY: Springer), pp. 111–130.
 

Glycine receptor α4 subunit facilitates the early embryonic development in mice.

Nishizono, H., Darwish, M., Endo, T.A., Uno, K., Abe, H., and Yasuda, R. (2019). Glycine receptor α4 subunit facilitates the early embryonic development in mice. Reproduction 159, 1-8.
 

Longitudinal Two-Photon Imaging of Dorsal Hippocampal CA1 in Live Mice.

Ulivi, A.F., Castello-Waldow, T.P., Weston, G., Yan, L., Yasuda, R., Chen, A., and Attardo, A. (2019). Longitudinal Two-Photon Imaging of Dorsal Hippocampal CA1 in Live Mice. JoVE (Journal of Visualized Experiments) e59598. 

Mechanisms of Ca²⁺/calmodulin-dependent kinase II activation in single dendritic spines.

Chang, J.-Y., Nakahata, Y., Hayano, Y., and Yasuda, R. (2019). Mechanisms of Ca²⁺/calmodulin-dependent kinase II activation in single dendritic spines. Nature Communications 10, 2784. 

Reciprocal Activation within a Kinase-Effector Complex Underlying Persistence of Structural LTP

Saneyoshi, T., Matsuno, H., Suzuki, A., Murakoshi, H., Hedrick, N.G., Agnello, E., O’Connell, R., Stratton, M.M., Yasuda, R., and Hayashi, Y. (2019). Reciprocal Activation within a Kinase-Effector Complex Underlying Persistence of Structural LTP. Neuron 102, 1199-1210.e6.
 

3 - Principle and Application of Fluorescence Lifetime Imaging for Neuroscience: Monitoring Biochemical Signaling in Single Synapses Using Fluorescence Lifetime Imaging.

Yasuda, R. (2019). 3 - Principle and Application of Fluorescence Lifetime Imaging for Neuroscience: Monitoring Biochemical Signaling in Single Synapses Using Fluorescence Lifetime Imaging. In Neurophotonics and Biomedical Spectroscopy, R.R. Alfano, and L. Shi, eds. (Elsevier), pp. 53–64.
 

Somatostatin-Expressing Interneurons Enable and Maintain Learning-Dependent Sequential Activation of Pyramidal Neurons

Adler, A., Zhao, R., Shin, M.E., Yasuda, R., and Gan, W.-B. (2019). Somatostatin-Expressing Interneurons Enable and Maintain Learning-Dependent Sequential Activation of Pyramidal Neurons. Neuron 102, 202-216.e7. 

PKCα integrates spatiotemporally distinct Ca²⁺ and autocrine BDNF signaling to facilitate synaptic plasticity. Nature Neuroscience.

Colgan, L.A., Hu, M., Misler, J.A., Parra-Bueno, P., Moran, C.M., Leitges, M., and Yasuda, R. (2018). PKCα integrates spatiotemporally distinct Ca²⁺ and autocrine BDNF signaling to facilitate synaptic plasticity. Nature Neuroscience. 21, 1027–1037. 

PAM forms an atypical SCF ubiquitin ligase complex that ubiquitinates and degrades NMNAT2.

Desbois, M., Crawley, O., Evans, P.R., Baker, S.T., Masuho, I., Yasuda, R., and Grill, B. (2018). PAM forms an atypical SCF ubiquitin ligase complex that ubiquitinates and degrades NMNAT2. J. Biol. Chem. 293, 13897-13909.
 

An open-source tool for analysis and automatic identification of dendritic spines using machine learning

Smirnov, M.S., Garret, T.R., and Yasuda, R. (2018). An open-source tool for analysis and automatic identification of dendritic spines using machine learning. PLOS ONE. 

RGS14 Restricts Plasticity in Hippocampal CA2 by Limiting Postsynaptic Calcium Signaling.

Evans, P.R., Parra-Bueno, P., Smirnov, M.S., Lustberg, D.J., Dudek, S.M., Hepler, J.R., and Yasuda, R. (2018). RGS14 Restricts Plasticity in Hippocampal CA2 by Limiting Postsynaptic Calcium Signaling. ENeuro ENEURO.0353-17.2018. 

High-speed atomic force microscopy imaging of live mammalian cells.

Shibata, M., Watanabe, H., Uchihashi, T., Ando, T., Yasuda, R. (2017). High-speed atomic force microscopy imaging of live mammalian cells. Biophys. Physicobiol. 14, 127-135.  

Extracellular Remodeling by Lysosomes: An Inside-Out Mechanism of Spine Plasticity.

Evans, P.R., and Yasuda, R. (2017). Extracellular Remodeling by Lysosomes: An Inside-Out Mechanism of Spine Plasticity. Neuron 93, 6–8. 

An optical probe of synaptic plasticity.

Laviv, T., and Yasuda, R. (2017). An optical probe of synaptic plasticity. Nat. Biotechnol. 35, 26-27.  

Biophysics of Biochemical Signaling in Dendritic Spines: Implications in Synaptic Plasticity.

Yasuda, R. (2017). Biophysics of Biochemical Signaling in Dendritic Spines: Implications in Synaptic Plasticity. Biophysical Journal 113, 1-8. 

Virus-Mediated Genome Editing via Homology-Directed Repair in Mitotic and Postmitotic Cells in Mammalian Brain.

Jun Nishiyama, Takayasu Mikuni, and Ryohei Yasuda (2017). Virus-Mediated Genome Editing via Homology-Directed Repair in Mitotic and Postmitotic Cells in Mammalian Brain. Neuron, Advance Online Publication. 

Regulation of Rho GTPase proteins during spine structural plasticity for the control of local dendritic plasticity.

Hedrick, N.G., Yasuda, R. (2017). Regulation of Rho GTPase proteins during spine structural plasticity for the control of local dendritic plasticity. Curr. Opin. Neurobiol. 45, 193-201. 

CaMKII Autophosphorylation Is Necessary for Optimal Integration of Ca2+ Signals during LTP Induction, but Not Maintenance.

Chang, J.-Y., Parra-Bueno, P., Laviv, T., Szatmari, E.M., Lee, S.-J.R., and Yasuda, R. (2017). CaMKII Autophosphorylation Is Necessary for Optimal Integration of Ca2+ Signals during LTP Induction, but Not Maintenance. Neuron 94, 800–808.e4. 

Kinetics of Endogenous CaMKII Required for Synaptic Plasticity Revealed by Optogenetic Kinase Inhibitor.

Murakoshi, H., Shin, M.E., Parra-Bueno, P., Szatmari, E.M., Shibata, A.C.E., Yasuda, R. (2017). Kinetics of Endogenous CaMKII Required for Synaptic Plasticity Revealed by Optogenetic Kinase Inhibitor. Neuron, 94, 37-47. 

Imaging ERK and PKA Activation in Single Dendritic Spines during Structural Plasticity.

Tang, S., and Yasuda, R. (2017). Imaging ERK and PKA Activation in Single Dendritic Spines during Structural Plasticity. Neuron. Online publication. 

Precise small-molecule recognition of a toxic CUG RNA repeat expansion.

Rzuczek, S.G., Colgan, L.A., Nakai, Y., Cameron, M.D., Furling, D., Yasuda, R., and Disney, M.D. (2017). Precise small-molecule recognition of a toxic CUG RNA repeat expansion. Nat. Chem. Biol. 13, 188–193. 

Automated Remote Focusing, Drift Correction, and Photostimulation to Evaluate Structural Plasticity in Dendritic Spines

Smirnov, M.S., Evans, P.R., Garrett, T.R., Yan, L., Yasuda, R. (2017) Automated Remote Focusing, Drift Correction, and Photostimulation to Evaluate
Structural Plasticity in Dendritic Spines. PLoS ONE 12(1): e0170586. 

Imaging signal transduction in dendrites using genetically-encoded fluorescent proteins.

Murakoshi, H., and Yasuda, R. (2016). Imaging signal transduction in dendrites using genetically-encoded fluorescent proteins. In: Dendrite – development and disease, K. Emoto, R. Wong, E. Huang, C. Hoogenraad, Editors, Springer, NY. 

NF1 is a direct G protein effector essential for opioid signaling to Ras in the striatum and reward processing.

Xie, K., Colgan, L.A., Dao, M., Ostrovskaya, O., Muntean, B.S., Orlandi, C., Boye, S.L., Boye, S.E., Sutton, L.P., Shih, C.-C., Li, Y., Xu, B., Smith, R., Yasuda, R., and Martemyanov, K. A. (2016). NF1 is a direct G protein effector essential for opioid signaling to Ras in the striatum and reward processing. Curr. Biol. 26, 2992-3003.  

Simultaneous dual-color fluorescence lifetime imaging with novel red-shifted fluorescent proteins.

Laviv, T., Kim, B.B., Chu, J., Lam, A.J., Lin, M.Z., and Yasuda, R. (2016). Simultaneous dual-color fluorescence lifetime imaging with novel red-shifted fluorescent proteins. Nat Meth. 13, 989–992. 

Rho GTPase complementation underlies BDNF-dependent homo- and heterosynaptic plasticity.

Hedrick, N.G., Harward, S.C., Hall, C.E., Murakoshi, H., McNamara, J.O., and Yasuda, R. (2016). Rho GTPase complementation underlies BDNF-dependent homo- and heterosynaptic plasticity. 538, 104-108. 

Autocrine BDNF–TrkB signalling within a single dendritic spine.

Harward, S.C., Hedrick, N.G., Hall, C.E., Parra-Bueno, P., Milner, T.A., Pan, E., Laviv, T., Hempstead, B.L., Yasuda, R., and McNamara, J.O. (2016). Autocrine BDNF–TrkB signalling within a single dendritic spine. Nature 538, 99-103. 

High-Throughput, High-Resolution Mapping of Protein Localization in Mammalian Brain by In Vivo Genome Editing

Mikuni, T., Nishiyama, J., Sun, Y., Kamasawa, N., and Yasuda, R. (2016). High-Throughput, High-Resolution Mapping of Protein Localization in Mammalian Brain by In Vivo Genome Editing. Cell.165, 1803–1817. 

A bright cyan-excitable orange fluorescent protein facilitates dual-emission microscopy and enhances bioluminescence imaging in vivo.

Chu, J., Oh, Y., Sens, A., Ataie, N., Dana, H., Macklin, J.J., Laviv, T., Welf, E.S., Dean, K.M., Zhang, F., et al. (2016). A bright cyan-excitable orange fluorescent protein facilitates dual-emission microscopy and enhances bioluminescence imaging in vivo. Nat. Biotechnol. 34, 760-767. 

Molecular signaling during plasticity of dendritic spines.

R. Yasuda (2016) Molecular signaling during plasticity of dendritic spines. In: Dendrites, 3rd edition, G. Stuart, N. Spruston, M. Häusser, Editors, Oxford University Press, NY 

Biochemical Computation for Spine Structural Plasticity.

Nishiyama, J., and Yasuda, R. (2015). Biochemical Computation for Spine Structural Plasticity. Neuron 87, 63–75. 

Excitotoxic insult results in a long-lasting activation of CaMKIIα and mitochondrial damage in living hippocampal neurons.

Otmakhov, N., Gorbacheva, E.V., Regmi, S., Yasuda, R., Hudmon, A., and Lisman, J. (2015). Excitotoxic insult results in a long-lasting activation of CaMKIIα and mitochondrial damage in living hippocampal neurons. PLoS ONE 10, e0120881. 

Long-tip high-speed atomic force microscopy for nanometer-scale imaging in live cells.

Shibata, M., Uchihashi, T., Ando, T., and Yasuda, R. (2015). Long-tip high-speed atomic force microscopy for nanometer-scale imaging in live cells. Sci Rep 5, 8724. 

Correlative Ultrastructural Analysis of Functionally Modulated Synapses Using Automatic Tape-Collecting Ultramicrotome - SEM Array Tomography.

Kamasawa, N., Sun, Y., Mikuni, T., Guerrero-Given, D., and Yasuda, R. (2015). Correlative Ultrastructural Analysis of Functionally Modulated Synapses Using Automatic Tape-Collecting Ultramicrotome - SEM Array Tomography. Microscopy and Microanalysis 21, 1271–1272. 

Plasticity of dendritic spines: subcompartmentalization of signaling.

Colgan, L.A., and Yasuda, R. (2014). Plasticity of dendritic spines: subcompartmentalization of signaling. Annu Rev Physiol 76, 365–385. 

Loss of Cdc42 leads to defects in synaptic plasticity and remote memory recall.

Kim, I.H., Wang, H., Soderling, S.H., and Yasuda, R. (2014). Loss of Cdc42 leads to defects in synaptic plasticity and remote memory recall. eLife Sciences 1–16. 

The effect of substrate topography on direct reprogramming of fibroblasts to induced neurons.

Kulangara, K., Adler, A.F., Wang, H., Chellappan, M., Hammett, E., Yasuda, R., and Leong, K.W. (2014). The effect of substrate topography on direct reprogramming of fibroblasts to induced neurons. Biomaterials. 35, 5327-5336. 

Neurofibromin is the major ras inactivator in dendritic spines.

Oliveira, A.F., and Yasuda, R. (2014b). Neurofibromin is the major ras inactivator in dendritic spines. The Journal of Neuroscience  34, 776–783. 

Imaging Signaling Transduction in Single Dendritic Spines.

Hedrick, N., and Yasuda, R. (2013). Imaging Signaling Transduction in Single Dendritic Spines. In Nanoscale Imaging of Synapses, pp. 145–159. 

Long-distance integration of nuclear ERK signaling triggered by activation of a few dendritic spines.

Zhai, S., Ark, E.D., Parra-Bueno, P., and Yasuda, R. (2013). Long-distance integration of nuclear ERK signaling triggered by activation of a few dendritic spines. Science 342, 1107–1111. 

Imaging Signaling Transduction in Single Dendritic Spines. In Nanoscale Imaging of Synapses

Hedrick, N., & Yasuda, R. (2013). Imaging Signaling Transduction in Single Dendritic Spines. In Nanoscale Imaging of Synapses (Vol. 84, pp. 145–159).  

Imaging the activity of Ras superfamily GTPase proteins in small subcellular compartments in neurons.

Oliveira, A.F., and Yasuda, R. (2013). Imaging the activity of Ras superfamily GTPase proteins in small subcellular compartments in neurons. Methods Mol Biol 1071, 109–128. 

Centaurin-alpha1-Ras-Elk-1 signaling at mitochondria mediates beta-amyloid-induced synaptic dysfunction.

Szatmari, E.M., Oliveira, A.F., Sumner, E.J., and Yasuda, R. (2013). Centaurin-alpha1-Ras-Elk-1 signaling at mitochondria mediates beta-amyloid-induced synaptic dysfunction. J Neurosci 33, 5367–5374. 

An improved Ras sensor for highly sensitive and quantitative FRET-FLIM imaging.

Oliveira, A.F., and Yasuda, R. (2013). An improved Ras sensor for highly sensitive and quantitative FRET-FLIM imaging. PloS One 8, e52874. 

Wide-area scanner for high-speed atomic force microscopy.

Watanabe, H., Uchihashi, T., Kobashi, T., Shibata, M., Nishiyama, J., Yasuda, R., and Ando, T. (2013). Wide-area scanner for high-speed atomic force microscopy. Rev Sci Instrum 84, 053702. 

Imaging neural activity using Thy1-GCaMP transgenic mice.

Chen, Q., Cichon, J., Wang, W., Qiu, L., Lee, S.-J.R., Campbell, N.R., Destefino, N., Goard, M.J., Fu, Z., Yasuda, R., et al. (2012). Imaging neural activity using Thy1-GCaMP transgenic mice. Neuron 76, 297–308. 

Studying signal transduction in single dendritic spines.

Yasuda, R. (2012). Studying signal transduction in single dendritic spines. Cold Spring Harb Perspect Biol 4. 

Modified SH2 domain to phototrap and identify phosphotyrosine proteins from subcellular sites within cells.

Uezu, A., Okada, H., Murakoshi, H., del Vescovo, C.D., Yasuda, R., Diviani, D., and Soderling, S.H. (2012). Modified SH2 domain to phototrap and identify phosphotyrosine proteins from subcellular sites within cells. Proc. Natl. Acad. Sci. U.S.A. 109, E2929–E2938. 

Mechanisms of CaMKII action in long-term potentiation.

Lisman, J., Yasuda, R., and Raghavachari, S. (2012). Mechanisms of CaMKII action in long-term potentiation. Nat. Rev. Neurosci. 13, 169–182. 

Postsynaptic signaling during plasticity of dendritic spines.

Murakoshi, H., and Yasuda, R. (2012). Postsynaptic signaling during plasticity of dendritic spines. Trends Neurosci. 35, 135–143. 

Signalling pathways underlying structural plasticity of dendritic spines.

Patterson, M., and Yasuda, R. (2011). Signalling pathways underlying structural plasticity of dendritic spines. Br. J. Pharmacol. 163, 1626–1638. 

TRPV4-mediated calcium influx into human bronchial epithelia upon exposure to diesel exhaust particles.

Li, J., Kanju, P., Patterson, M., Chew, W.-L., Cho, S.-H., Gilmour, I., Oliver, T., Yasuda, R., Ghio, A., Simon, S.A., et al. (2011). TRPV4-mediated calcium influx into human bronchial epithelia upon exposure to diesel exhaust particles. Environ. Health Perspect. 119, 784–793. 

The mechanisms underlying the spatial spreading of signaling activity.

Yasuda, R., and Murakoshi, H. (2011). The mechanisms underlying the spatial spreading of signaling activity. Curr. Opin. Neurobiol. 21, 313–321. 

Local, persistent activation of Rho GTPases during plasticity of single dendritic spines.

Murakoshi, H., Wang, H., and Yasuda, R. (2011). Local, persistent activation of Rho GTPases during plasticity of single dendritic spines. Nature 472, 100–104. 

Impaired NMDA receptor transmission alters striatal synapses and DISC1 protein in an age-dependent manner.

Ramsey, A.J., Milenkovic, M., Oliveira, A.F., Escobedo-Lozoya, Y., Seshadri, S., Salahpour, A., Sawa, A., Yasuda, R., and Caron, M.G. (2011). Impaired NMDA receptor transmission alters striatal synapses and DISC1 protein in an age-dependent manner. Proc. Natl. Acad. Sci. U.S.A. 108, 5795–5800. 

Regulation of the postsynaptic cytoskeleton: roles in development, plasticity, and disorders.

Svitkina, T., Lin, W.-H., Webb, D.J., Yasuda, R., Wayman, G.A., Van Aelst, L., and Soderling, S.H. (2010). Regulation of the postsynaptic cytoskeleton: roles in development, plasticity, and disorders. J. Neurosci. 30, 14937–14942. 

AMPA receptors are exocytosed in stimulated spines and adjacent dendrites in a Ras-ERK-dependent manner during long-term potentiation.

Patterson, M.A., Szatmari, E.M., and Yasuda, R. (2010). AMPA receptors are exocytosed in stimulated spines and adjacent dendrites in a Ras-ERK-dependent manner during long-term potentiation. Proc. Natl. Acad. Sci. U.S.A. 107, 15951–15956. 

Metaplasticity at single glutamatergic synapses.

Lee, M.-C., Yasuda, R., and Ehlers, M.D. (2010). Metaplasticity at single glutamatergic synapses. Neuron 66, 859–870. 

Regional differences in hippocampal calcium handling provide a cellular mechanism for limiting plasticity.

Simons, S.B., Escobedo, Y., Yasuda, R., and Dudek, S.M. (2009). Regional differences in hippocampal calcium handling provide a cellular mechanism for limiting plasticity. Proc. Natl. Acad. Sci. U.S.A. 106, 14080–14084. 

Activation of CaMKII in single dendritic spines during long-term potentiation.

Lee, S.-J.R., Escobedo-Lozoya, Y., Szatmari, E.M., and Yasuda, R. (2009). Activation of CaMKII in single dendritic spines during long-term potentiation. Nature 458, 299–304. 

Spatiotemporal Regulation of Signaling in and out of Dendritic Spines: CaMKII and Ras.

Lee, S.-J.R., and Yasuda, R. (2009). Spatiotemporal Regulation of Signaling in and out of Dendritic Spines: CaMKII and Ras. Open Neurosci J 3, 117–127. 

Action potential-coupled Rho GTPase signaling drives presynaptic plasticity

Shataakshi Dube O'Neil, Bence Rácz, Walter Evan Brown, Yudong Gao, Erik J Soderblom, Ryohei Yasuda, Scott H Soderling (2021) Action potential-coupled Rho GTPase signaling drives presynaptic plasticity eLife 10:e63756
 

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