Principles of two-photon excitation microscopy and its applications to neuroscience
Open accessAbstract
The brain is complex and dynamic. The spatial scales of interest to the neurobiologist range from individual synapses (approximately 1 microm) to neural circuits (centimeters); the timescales range from the flickering of channels (less than a millisecond) to long-term memory (years). Remarkably, fluorescence microscopy has the potential to revolutionize research on all of these spatial and temporal scales. Two-photon excitation (2PE) laser scanning microscopy allows high-resolution and high-sensitivity fluorescence microscopy in intact neural tissue, which is hostile to traditional forms of microscopy. Over the last 10 years, applications of 2PE, including microscopy and photostimulation, have contributed to our understanding of a broad array of neurobiological phenomena, including the dynamics of single channels in individual synapses and the functional organization of cortical maps. Here we review the principles of 2PE microscopy, highlight recent applications, discuss its limitations, and point to areas for future research and development.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Two-photon microscopy rapidly became the method of choice for deep tissue imaging and has even enabled intravital brain imaging in mice.
“Two-photon microscopy rapidly became the method of choice for deep tissue imaging and has even enabled intravital brain imaging in mice (Svoboda and Yasuda, 2006).”
From Barriers in the brain: resolving dendritic spine morphology and compartmentalization (2014) · cites this paper as Svoboda and Yasuda, 2006
Cites
Resting microglial cells are highly dynamic surveillants of brain parenchyma in vivo
Nimmerjahn, A., Kirchhoff, F., & Helmchen, F. (2005) · Science · doi:10.1126/science.1110647 · Cited by 5,827 · see citing works
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 · see citing works
ATP mediates rapid microglial response to local brain injury in vivo
Davalos, D., Grutzendler, J., Yang, G., Kim, J. V., Zuo, Y., Jung, S., Littman, D. R., Dustin, M. L., & Gan, W.-B. (2005) · Nature Neuroscience · doi:10.1038/nn1472 · Cited by 3,913 · see citing works
Structural basis of long-term potentiation in single dendritic spines
Matsuzaki, M., Honkura, N., Ellis-Davies, G. C. R., & Kasai, H. (2004) · Nature · doi:10.1038/nature02617 · Cited by 2,500 · see citing works
A gene expression atlas of the central nervous system based on bacterial artificial chromosomes
Gong, S., Zheng, C., Doughty, M. L., Losos, K., Didkovsky, N., Schambra, U. B., Nowak, N. J., Joyner, A., Leblanc, G., Hatten, M. E., et al. (2003) · Nature · doi:10.1038/nature02033 · Cited by 2,108 · see citing works
Matsuzaki, M., Ellis-Davies, G. C. R., Nemoto, T., Miyashita, Y., Iino, M., & Kasai, H. (2001) · Nature Neuroscience · doi:10.1038/nn736 · Cited by 1,563 · see citing works
Long-term dendritic spine stability in the adult cortex
Grutzendler, J., Kasthuri, N., & Gan, W.-B. (2002) · Nature · doi:10.1038/nature01276 · Cited by 1,198 · see citing works
Functional regeneration after laser axotomy
Yanik, M. F., Cinar, H., Cinar, H. N., Chisholm, A. D., Jin, Y., & Ben-Yakar, A. (2004) · Nature · doi:10.1038/432822a · Cited by 598 · see citing works
Ca2+ buffering and action potential-evoked Ca2+ signaling in dendrites of pyramidal neurons
Helmchen, F., Imoto, K., & Sakmann, B. (1996) · Biophysical Journal · doi:10.1016/s0006-3495(96)79653-4 · Cited by 559 · see citing works
Spires, T. L., Meyer-Luehmann, M., Stern, E. A., McLean, P. J., Skoch, J., Nguyen, P. T., Bacskai, B. J., & Hyman, B. T. (2005) · The Journal of Neuroscience · doi:10.1523/jneurosci.1879-05.2005 · Cited by 550 · see citing works
Highly Nonlinear Photodamage in Two-Photon Fluorescence Microscopy
Hopt, A., & Neher, E. (2001) · Biophysical Journal · doi:10.1016/s0006-3495(01)76173-5 · Cited by 442 · see citing works
Cell type-specific structural plasticity of axonal branches and boutons in the adult neocortex
De Paola, V., Holtmaat, A., Knott, G., Song, S., Wilbrecht, L., Caroni, P., & Svoboda, K. (2006) · Neuron · doi:10.1016/j.neuron.2006.02.017 · Cited by 419 · see citing works
Self-citationEstimating Intracellular Calcium Concentrations and Buffering without Wavelength Ratioing
Maravall, M., Mainen, Z. F., Sabatini, B. L., & Svoboda, K. (2000) · Biophysical Journal · doi:10.1016/s0006-3495(00)76809-3 · Cited by 416 · see citing works
Self-citationAxons and synaptic boutons are highly dynamic in adult visual cortex
Stettler, D. D., Yamahachi, H., Li, W., Denk, W., & Gilbert, C. D. (2006) · Neuron · doi:10.1016/j.neuron.2006.02.018 · Cited by 256 · see citing works
Lang, C., Barco, A., Zablow, L., Kandel, E. R., Siegelbaum, S. A., & Zakharenko, S. S. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0407581101 · Cited by 245 · see citing works
Dynamic remodeling of dendritic arbors in GABAergic interneurons of adult visual cortex
Lee, W.-C. A., Huang, H., Feng, G., Sanes, J. R., Brown, E. N., So, P. T., & Nedivi, E. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0040029 · Cited by 239 · see citing works
Dendritic stability in the adult olfactory bulb
Mizrahi, A., & Katz, L. C. (2003) · Nature Neuroscience · doi:10.1038/nn1133 · Cited by 161 · see citing works
Goldberg, J. H., Lacefield, C. O., & Yuste, R. (2004) · The Journal of Physiology · doi:10.1113/jphysiol.2004.064519 · Cited by 107 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Experience-dependent structural synaptic plasticity in the mammalian brain
Holtmaat, A., & Svoboda, K. (2009) · Nature Reviews Neuroscience · doi:10.1038/nrn2699 · Cited by 1,934 · see citing works
Self-citationAI in Medical Imaging Informatics: Current Challenges and Future Directions
Panayides, A. S., Amini, A., Filipovic, N. D., Sharma, A., Tsaftaris, S. A., Young, A., Foran, D., Do, N., Golemati, S., Kurc, T., et al. (2020) · IEEE Journal of Biomedical and Health Informatics · doi:10.1109/jbhi.2020.2991043 · Cited by 713 · see citing works
Locally dynamic synaptic learning rules in pyramidal neuron dendrites
Harvey, C. D., & Svoboda, K. (2007) · Nature · doi:10.1038/nature06416 · Cited by 625 · see citing works
Self-citationRapid Neocortical Dynamics: Cellular and Network Mechanisms
Haider, B., & McCormick, D. A. (2009) · Neuron · doi:10.1016/j.neuron.2009.04.008 · Cited by 441 · see citing works
Dendritic Spine Loss and Synaptic Alterations in Alzheimer’s Disease
Knobloch, M., & Mansuy, I. M. (2008) · Molecular Neurobiology · doi:10.1007/s12035-008-8018-z · Cited by 296 · see citing works
Dendritic spines: from structure to in vivo function
Rochefort, N. L., & Konnerth, A. (2012) · The EMBO Reports · doi:10.1038/embor.2012.102 · Cited by 299 · see citing works
Two-photon excitation STED microscopy
Moneron, G., & Hell, S. W. (2009) · Optics Express · doi:10.1364/oe.17.014567 · Cited by 238 · see citing works
Kozai, T. D. Y., Vazquez, A. L., Weaver, C. L., Kim, S.-G., & Cui, X. T. (2012) · Journal of Neural Engineering · doi:10.1088/1741-2560/9/6/066001 · Cited by 215 · see citing works
Multiscale optical Ca2+ imaging of tonal organization in mouse auditory cortex
Issa, J. B., Haeffele, B. D., Agarwal, A., Bergles, D. E., Young, E. D., & Yue, D. T. (2014) · Neuron · doi:10.1016/j.neuron.2014.07.009 · Cited by 188 · see citing works
Neurovascular Dysfunction in Vascular Dementia, Alzheimer's and Atherosclerosis
Shabir, O., Berwick, J., & Francis, S. E. (2018) · BMC Neuroscience · doi:10.1186/s12868-018-0465-5 · Cited by 191 · see citing works
Molecular genetics and imaging technologies for circuit-based neuroanatomy
Arenkiel, B. R., & Ehlers, M. D. (2009) · Nature · doi:10.1038/nature08536 · Cited by 78 · see citing works
Imaging neuromodulators with high spatiotemporal resolution using genetically encoded indicators
Patriarchi, T., Cho, J. R., Merten, K., Marley, A., Broussard, G. J., Liang, R., Williams, J., Nimmerjahn, A., von Zastrow, M., Gradinaru, V., et al. (2019) · Nature Protocols · doi:10.1038/s41596-019-0239-2 · Cited by 66 · see citing works
Barriers in the brain: resolving dendritic spine morphology and compartmentalization
Adrian, M., Kusters, R., Wierenga, C. J., Storm, C., Hoogenraad, C. C., & Kapitein, L. C. (2014) · Frontiers in Neuroanatomy · doi:10.3389/fnana.2014.00142 · Cited by 62 · see citing works
“Two-photon microscopy rapidly became the method of choice for deep tissue imaging and has even enabled intravital brain imaging in mice (Svoboda and Yasuda, 2006).”
Two-Photon Microscopy: Shedding Light on the Chemistry of Vision
Imanishi, Y., Lodowski, K. H., & Koutalos, Y. (2007) · Biochemistry · doi:10.1021/bi701055g · Cited by 58 · see citing works
Surface Enhanced Spatially Offset Raman Spectroscopy Detection of Neurochemicals Through the Skull
Moody, A. S., Baghernejad, P. C., Webb, K. R., & Sharma, B. (2017) · Analytical Chemistry · doi:10.1021/acs.analchem.7b00985 · Cited by 56 · see citing works
Visualization of Retinoid Storage and Trafficking by Two-Photon Microscopy
Imanishi, Y., & Palczewski, K. (2010) · Methods in Molecular Biology · doi:10.1007/978-1-60327-325-1_14 · Cited by 16 · see citing works
Form and function in systems neuroscience
Kristan, W. B., & Katz, P. (2006) · Current Biology · doi:10.1016/j.cub.2006.08.079 · Cited by 13 · see citing works
- Authors
- Svoboda, K., & Yasuda, R.
- Affiliations
- Howard Hughes Medical Institute (US)
- Duke Medical Center (US)
- Corresponding author
- Svoboda, Karel
- Yasuda, Ryohei
- Venue
- Neuron
- Publisher
- Elsevier BV
- Published
- 2006-06
- Volume
- 50
- Issue
- 6
- Pages
- 823-839
- ISSN
- 0896-6273 (ISSN-L)
- OpenAlex
- W2041060053
- Cited by
- 1,027
- References
- 18
- Citations by year
- 2026: 30 · 2025: 54 · 2024: 44 · 2023: 43 · 2022: 65 · 2021: 51 · 2020: 56 · 2019: 75 · 2018: 75 · 2017: 67 · 2016: 60 · 2015: 51 · 2014: 48 · 2013: 35 · 2012: 65
- FWCI
- 3.87
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- www.elsevier.com/tdm/userlicense/1.0/ (tdm)
- www.elsevier.com/legal/tdmrep-license (tdm)
- www.elsevier.com/open-access/userlicense/1.0/ (vor, 2639 d)
- doi.org/10.15223/policy-017 (stm-asf)
- doi.org/10.15223/policy-037 (stm-asf)
- doi.org/10.15223/policy-012 (stm-asf)
- doi.org/10.15223/policy-029 (stm-asf)
- doi.org/10.15223/policy-004 (stm-asf)
- Locations
- Neuron (publishedVersion)
- PubMed (publishedVersion)
- Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory) (acceptedVersion)
- Funders
- Burroughs Wellcome Fund
- Dana Foundation
- National Institutes of Health
- Howard Hughes Medical Institute
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Biophysics › Advanced Fluorescence Microscopy Techniques
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
- Physical Sciences › Engineering › Biomedical Engineering › Nonlinear Optical Materials Studies
- Keywords
- two-photon microscopy, laser scanning microscopy, fluorescence microscopy, photostimulation, synapses, cortical maps, neural circuits
- MeSH terms
- Animals, Humans, Neurosciences, Microscopy, Confocal, Microscopy, Fluorescence, Multiphoton, Photobleaching
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