Abstract
Monitoring electrical activities of the neuronal circuits in the brain is pivotal both to understanding the brain and to interfacing the brain. While electrical methodologies have traditionally made significant contributions to neuroscience and neuroengineering, optical approaches are evolving rapidly, hastened by the recent introduction of optogenetic neuronal indicators in combination with novel photonics. In this chapter, we review topics on the optical recording of neuronal activity, highlighting how molecular tools and optical devices are seamlessly integrated to readout the neural dynamics in behaving animals. These methods are revolutionizing our understanding of how neuronal circuits process information.
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References
Abdelfattah AS et al (2019) Bright and photostable chemigenetic indicators for extended in vivo voltage imaging. Science 365:699–704. https://doi.org/10.1126/science.aav6416
Botcherby EJ et al (2012) Aberration-free three-dimensional multiphoton imaging of neuronal activity at kHz rates. Proc Natl Acad Sci U S A 109:2919–2924. https://doi.org/10.1073/pnas.1111662109
Bouchard MB et al (2015) Swept confocally-aligned planar excitation (SCAPE) microscopy for high speed volumetric imaging of behaving organisms. Nat Photonics 9:113–119. https://doi.org/10.1038/nphoton.2014.323
Cao G et al (2013) Genetically targeted optical electrophysiology in intact neural circuits. Cell 154:904–913. https://doi.org/10.1016/j.cell.2013.07.027
Chen TW et al (2013) Ultrasensitive fluorescent proteins for imaging neuronal activity. Nature 499:295–300. https://doi.org/10.1038/nature12354
Dana H et al (2016) Sensitive red protein calcium indicators for imaging neural activity. elife 5. https://doi.org/10.7554/eLife.12727
Dana H et al (2019) High-performance calcium sensors for imaging activity in neuronal populations and microcompartments. Nat Methods 16:649–657. https://doi.org/10.1038/s41592-019-0435-6
Freeman J et al (2014) Mapping brain activity at scale with cluster computing. Nat Methods 11:941–950. https://doi.org/10.1038/nmeth.3041
Ghosh KK et al (2011) Miniaturized integration of a fluorescence microscope. Nat Methods 8:871–878. https://doi.org/10.1038/nmeth.1694
Giovannucci A et al (2019) CaImAn an open source tool for scalable calcium imaging data analysis. elife 8. https://doi.org/10.7554/eLife.38173
Inoue M et al (2019) Rational engineering of XCaMPs, a multicolor GECI suite for in vivo imaging of complex brain circuit dynamics. Cell 177:1346–1360.e24. https://doi.org/10.1016/j.cell.2019.04.007
Jing M et al (2018) A genetically encoded fluorescent acetylcholine indicator for in vitro and in vivo studies. Nat Biotechnol 36:726–737. https://doi.org/10.1038/nbt.4184
Kannan M et al (2018) Fast, in vivo voltage imaging using a red fluorescent indicator. Nat Methods 15:1108–1116. https://doi.org/10.1038/s41592-018-0188-7
Kazemipour A et al (2019) Kilohertz frame-rate two-photon tomography. Nat Methods 16:778–786. https://doi.org/10.1038/s41592-019-0493-9
Lu R et al (2017) Video-rate volumetric functional imaging of the brain at synaptic resolution. Nat Neurosci 20:620–628. https://doi.org/10.1038/nn.4516
Marius Pachitariu CS, Dipoppa M, Schröder S, Rossi LF, Dalgleish H, Carandini M, Harris KD (2017) Suite2p: beyond 10,000 neurons with standard two photon microscopy. bioRxiv. https://doi.org/10.1101/061507
Marvin JS et al (2018) Stability, affinity, and chromatic variants of the glutamate sensor iGluSnFR. Nat Methods 15:936–939. https://doi.org/10.1038/s41592-018-0171-3
Marvin JS et al (2019) A genetically encoded fluorescent sensor for in vivo imaging of GABA. Nat Methods 16:763–770. https://doi.org/10.1038/s41592-019-0471-2
Nadella KM et al (2016) Random-access scanning microscopy for 3D imaging in awake behaving animals. Nat Methods 13:1001–1004. https://doi.org/10.1038/nmeth.4033
Patriarchi T et al (2018) Ultrafast neuronal imaging of dopamine dynamics with designed genetically encoded sensors. Science 360. https://doi.org/10.1126/science.aat4422
Piatkevich KD et al (2019) Population imaging of neural activity in awake behaving mice. Nature 574:413. https://doi.org/10.1038/s41586-019-1641-1
Pnevmatikakis EA et al (2016) Simultaneous denoising, deconvolution, and demixing of calcium imaging data. Neuron 89:285–299. https://doi.org/10.1016/j.neuron.2015.11.037
Power RM, Huisken J (2017) A guide to light-sheet fluorescence microscopy for multiscale imaging. Nat Methods 14:360–373. https://doi.org/10.1038/nmeth.4224
Prevedel R et al (2014) Simultaneous whole-animal 3D imaging of neuronal activity using light-field microscopy. Nat Methods 11:727–730. https://doi.org/10.1038/nmeth.2964
Prevedel R et al (2016) Fast volumetric calcium imaging across multiple cortical layers using sculpted light. Nat Methods 13:1021–1028. https://doi.org/10.1038/nmeth.4040
Skocek O et al (2018) High-speed volumetric imaging of neuronal activity in freely moving rodents. Nat Methods 15:429–432. https://doi.org/10.1038/s41592-018-0008-0
Sofroniew NJ, Flickinger D, King J, Svoboda K (2016) A large field of view two-photon mesoscope with subcellular resolution for in vivo imaging. elife 5. https://doi.org/10.7554/eLife.14472
Song A et al (2017) Volumetric two-photon imaging of neurons using stereoscopy (vTwINS). Nat Methods 14:420–426. https://doi.org/10.1038/nmeth.4226
Sun Y et al (2017) Neural signatures of dynamic stimulus selection in Drosophila. Nat Neurosci 20:1104–1113. https://doi.org/10.1038/nn.4581
Sun F et al (2018) A genetically encoded fluorescent sensor enables rapid and specific detection of dopamine in flies, fish, and mice. Cell 174:481–496.e419. https://doi.org/10.1016/j.cell.2018.06.042
Vladimirov N et al (2018) Brain-wide circuit interrogation at the cellular level guided by online analysis of neuronal function. Nat Methods 15:1117–1125. https://doi.org/10.1038/s41592-018-0221-x
Weisenburger S et al (2019) Volumetric Ca(2+) imaging in the mouse brain using hybrid multiplexed sculpted light microscopy. Cell 177:1050–1066.e1014. https://doi.org/10.1016/j.cell.2019.03.011
Yang HH et al (2016a) Subcellular imaging of voltage and calcium signals reveals neural processing in vivo. Cell 166:245–257. https://doi.org/10.1016/j.cell.2016.05.031
Yang W et al (2016b) Simultaneous multi-plane imaging of neural circuits. Neuron 89:269–284. https://doi.org/10.1016/j.neuron.2015.12.012
Zong W et al (2017) Fast high-resolution miniature two-photon microscopy for brain imaging in freely behaving mice. Nat Methods 14:713–719. https://doi.org/10.1038/nmeth.4305
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Lv, Q., Chen, D., Ning, J., Zhang, X., Sun, Y. (2020). Optical Interfacing of Neuronal Activity. In: Sawan, M. (eds) Handbook of Biochips. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-6623-9_37-1
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DOI: https://doi.org/10.1007/978-1-4614-6623-9_37-1
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