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Guinto MC, Haruta M, Kurauchi Y, Saigo T, Kurasawa K, Ryu S, Ohta Y, Kawahara M, Takehara H, Tashiro H, Sasagawa K, Katsuki H, Ohta J. Modular head-mounted cortical imaging device for chronic monitoring of intrinsic signals in mice. JOURNAL OF BIOMEDICAL OPTICS 2022; 27:026501. [PMID: 35166087 PMCID: PMC8843356 DOI: 10.1117/1.jbo.27.2.026501] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Accepted: 01/24/2022] [Indexed: 06/14/2023]
Abstract
SIGNIFICANCE Intrinsic optical signals (IOS) generated in the cortical tissue as a result of various interacting metabolic processes are used extensively to elucidate the underlying mechanisms that govern neurovascular coupling. However, current IOS measurements still often rely on bulky, tabletop imaging systems, and there remains a dearth of studies in freely moving subjects. Lightweight, miniature head-mounted imaging devices provide unique opportunities for investigating cortical dynamics in small animals under a variety of naturalistic behavioral settings. AIM The aim of this work was to monitor IOS in the somatosensory cortex of wild-type mice by developing a lightweight, biocompatible imaging device that readily lends itself to animal experiments in freely moving conditions. APPROACH Herein we describe a method for realizing long-term IOS imaging in mice using a 0.54-g, compact, CMOS-based, head-mounted imager. The two-part module, consisting of a tethered sensor plate and a base plate, allows facile assembly prior to imaging sessions and disassembly when the sensor is not in use. LEDs integrated into the device were chosen to illuminate the cortical mantle at two different wavelengths in the visible regime (λcenter: 535 and 625 nm) for monitoring volume- and oxygenation state-dependent changes in the IOS, respectively. To test whether the system can detect robust cortical responses, we recorded sensory-evoked IOS from mechanical stimulation of the hindlimbs (HL) of anesthetized mice in both acute and long-term implantation conditions. RESULTS Cortical IOS recordings in the primary somatosensory cortex hindlimb receptive field (S1HL) of anesthetized mice under green and red LED illumination revealed robust, multiphasic profiles that were time-locked to the mechanical stimulation of the contralateral plantar hindpaw. Similar intrinsic signal profiles observed in S1HL at 40 days postimplantation demonstrated the viability of the approach for long-term imaging. Immunohistochemical analysis showed that the brain tissue did not exhibit appreciable immune response due to the device implantation and operation. A proof-of-principle imaging session in a freely behaving mouse showed minimal locomotor impediment for the animal and also enabled estimation of blood flow speed. CONCLUSIONS We demonstrate the utility of a miniature cortical imaging device for monitoring IOS and related hemodynamic processes in both anesthetized and freely moving mice, cueing potential for applications to some neuroscientific studies of sensation and naturalistic behavior.
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Affiliation(s)
- Mark Christian Guinto
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Makito Haruta
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Yuki Kurauchi
- Kumamoto University, Graduate School of Pharmaceutical Sciences, Department of Chemico-Pharmacological Sciences, Kumamoto, Japan
| | - Taisuke Saigo
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Kazuki Kurasawa
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Sumika Ryu
- Kumamoto University, Graduate School of Pharmaceutical Sciences, Department of Chemico-Pharmacological Sciences, Kumamoto, Japan
| | - Yasumi Ohta
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Mamiko Kawahara
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Hironari Takehara
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Hiroyuki Tashiro
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
- Kyushu University, Division of Medical Technology, Department of Health Sciences, Faculty of Medical Sciences, Fukuoka, Japan
| | - Kiyotaka Sasagawa
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
| | - Hiroshi Katsuki
- Kumamoto University, Graduate School of Pharmaceutical Sciences, Department of Chemico-Pharmacological Sciences, Kumamoto, Japan
| | - Jun Ohta
- Nara Institute of Science and Technology, Graduate School of Science and Technology, Division of Materials Science, Ikoma, Japan
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Taal AJ, Lee C, Choi J, Hellenkamp B, Shepard KL. Toward implantable devices for angle-sensitive, lens-less, multifluorescent, single-photon lifetime imaging in the brain using Fabry-Perot and absorptive color filters. LIGHT, SCIENCE & APPLICATIONS 2022; 11:24. [PMID: 35075116 PMCID: PMC8786868 DOI: 10.1038/s41377-022-00708-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Revised: 12/29/2021] [Accepted: 01/04/2022] [Indexed: 05/17/2023]
Abstract
Implantable image sensors have the potential to revolutionize neuroscience. Due to their small form factor requirements; however, conventional filters and optics cannot be implemented. These limitations obstruct high-resolution imaging of large neural densities. Recent advances in angle-sensitive image sensors and single-photon avalanche diodes have provided a path toward ultrathin lens-less fluorescence imaging, enabling plenoptic sensing by extending sensing capabilities to include photon arrival time and incident angle, thereby providing the opportunity for separability of fluorescence point sources within the context of light-field microscopy (LFM). However, the addition of spectral sensitivity to angle-sensitive LFM reduces imager resolution because each wavelength requires a separate pixel subset. Here, we present a 1024-pixel, 50 µm thick implantable shank-based neural imager with color-filter-grating-based angle-sensitive pixels. This angular-spectral sensitive front end combines a metal-insulator-metal (MIM) Fabry-Perot color filter and diffractive optics to produce the measurement of orthogonal light-field information from two distinct colors within a single photodetector. The result is the ability to add independent color sensing to LFM while doubling the effective pixel density. The implantable imager combines angular-spectral and temporal information to demix and localize multispectral fluorescent targets. In this initial prototype, this is demonstrated with 45 μm diameter fluorescently labeled beads in scattering medium. Fluorescent lifetime imaging is exploited to further aid source separation, in addition to detecting pH through lifetime changes in fluorescent dyes. While these initial fluorescent targets are considerably brighter than fluorescently labeled neurons, further improvements will allow the application of these techniques to in-vivo multifluorescent structural and functional neural imaging.
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Affiliation(s)
- Adriaan J Taal
- Columbia University - Department of Electrical Engineering, 500W. 120th St., Mudd 1310, New York, 10027, NY, USA
| | - Changhyuk Lee
- Columbia University - Department of Electrical Engineering, 500W. 120th St., Mudd 1310, New York, 10027, NY, USA
- Korea Institute of Science and Technology - Brain Science Institute, 5 Hwarang-ro 14-gil, Seongbuk-gu, Seoul, 02792, Republic of Korea
| | - Jaebin Choi
- Columbia University - Department of Electrical Engineering, 500W. 120th St., Mudd 1310, New York, 10027, NY, USA
| | - Björn Hellenkamp
- Columbia University - Department of Electrical Engineering, 500W. 120th St., Mudd 1310, New York, 10027, NY, USA
| | - Kenneth L Shepard
- Columbia University - Department of Electrical Engineering, 500W. 120th St., Mudd 1310, New York, 10027, NY, USA.
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Fluorescence imaging of large-scale neural ensemble dynamics. Cell 2022; 185:9-41. [PMID: 34995519 PMCID: PMC8849612 DOI: 10.1016/j.cell.2021.12.007] [Citation(s) in RCA: 68] [Impact Index Per Article: 34.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Revised: 12/06/2021] [Accepted: 12/07/2021] [Indexed: 12/14/2022]
Abstract
Recent progress in fluorescence imaging allows neuroscientists to observe the dynamics of thousands of individual neurons, identified genetically or by their connectivity, across multiple brain areas and for extended durations in awake behaving mammals. We discuss advances in fluorescent indicators of neural activity, viral and genetic methods to express these indicators, chronic animal preparations for long-term imaging studies, and microscopes to monitor and manipulate the activity of large neural ensembles. Ca2+ imaging studies of neural activity can track brain area interactions and distributed information processing at cellular resolution. Across smaller spatial scales, high-speed voltage imaging reveals the distinctive spiking patterns and coding properties of targeted neuron types. Collectively, these innovations will propel studies of brain function and dovetail with ongoing neuroscience initiatives to identify new neuron types and develop widely applicable, non-human primate models. The optical toolkit's growing sophistication also suggests that "brain observatory" facilities would be useful open resources for future brain-imaging studies.
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Luhmann HJ. Neurophysiology of the Developing Cerebral Cortex: What We Have Learned and What We Need to Know. Front Cell Neurosci 2022; 15:814012. [PMID: 35046777 PMCID: PMC8761895 DOI: 10.3389/fncel.2021.814012] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2021] [Accepted: 12/09/2021] [Indexed: 11/15/2022] Open
Abstract
This review article aims to give a brief summary on the novel technologies, the challenges, our current understanding, and the open questions in the field of the neurophysiology of the developing cerebral cortex in rodents. In the past, in vitro electrophysiological and calcium imaging studies on single neurons provided important insights into the function of cellular and subcellular mechanism during early postnatal development. In the past decade, neuronal activity in large cortical networks was recorded in pre- and neonatal rodents in vivo by the use of novel high-density multi-electrode arrays and genetically encoded calcium indicators. These studies demonstrated a surprisingly rich repertoire of spontaneous cortical and subcortical activity patterns, which are currently not completely understood in their functional roles in early development and their impact on cortical maturation. Technological progress in targeted genetic manipulations, optogenetics, and chemogenetics now allow the experimental manipulation of specific neuronal cell types to elucidate the function of early (transient) cortical circuits and their role in the generation of spontaneous and sensory evoked cortical activity patterns. Large-scale interactions between different cortical areas and subcortical regions, characterization of developmental shifts from synchronized to desynchronized activity patterns, identification of transient circuits and hub neurons, role of electrical activity in the control of glial cell differentiation and function are future key tasks to gain further insights into the neurophysiology of the developing cerebral cortex.
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Affiliation(s)
- Heiko J. Luhmann
- Institute of Physiology, University Medical Center Mainz, Mainz, Germany
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55
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Vickstrom CR, Snarrenberg ST, Friedman V, Liu QS. Application of optogenetics and in vivo imaging approaches for elucidating the neurobiology of addiction. Mol Psychiatry 2022; 27:640-651. [PMID: 34145393 PMCID: PMC9190069 DOI: 10.1038/s41380-021-01181-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Accepted: 05/26/2021] [Indexed: 02/05/2023]
Abstract
The neurobiology of addiction has been an intense topic of investigation for more than 50 years. Over this time, technological innovation in methods for studying brain function rapidly progressed, leading to increasingly sophisticated experimental approaches. To understand how specific brain regions, cell types, and circuits are affected by drugs of abuse and drive behaviors characteristic of addiction, it is necessary both to observe and manipulate neural activity in addiction-related behavioral paradigms. In pursuit of this goal, there have been several key technological advancements in in vivo imaging and neural circuit modulation in recent years, which have shed light on the cellular and circuit mechanisms of addiction. Here we discuss some of these key technologies, including circuit modulation with optogenetics, in vivo imaging with miniaturized single-photon microscopy (miniscope) and fiber photometry, and how the application of these technologies has garnered novel insights into the neurobiology of addiction.
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56
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Custom-Built Operant Conditioning Setup for Calcium Imaging and Cognitive Testing in Freely Moving Mice. eNeuro 2022; 9:ENEURO.0430-21.2022. [PMID: 35105659 PMCID: PMC8856704 DOI: 10.1523/eneuro.0430-21.2022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Revised: 01/11/2022] [Accepted: 01/14/2022] [Indexed: 11/21/2022] Open
Abstract
Operant chambers are widely used in animal research to study cognition, motivation, and learning processes. Paired with the rapidly developing technologies for brain imaging and manipulations of brain activity, operant conditioning chambers are a powerful tool for neuroscience research. The behavioral testing and imaging setups that are commercially available are often quite costly. Here, we present a custom-built operant chamber that can be constructed in a few days by an unexperienced user with relatively inexpensive, widely available materials. The advantages of our operant setup compared with other open-source and closed-source solutions are its relatively low cost, its support of complex behavioral tasks, its user-friendly setup, and its validated functionality with video imaging of behavior and calcium imaging using the UCLA Miniscope. Using this setup, we replicate our previously published findings showing that mice exposed to social defeat stress in adolescence have inhibitory control impairments in the Go/No-Go task when they reach adulthood. We also present calcium imaging data of medial prefrontal cortex (mPFC) neuronal activity acquired during Go/No-Go testing in freely moving mice and show that neuronal population activity increases from day 1 to day 14 of the task. We propose that our operant chamber is a cheaper alternative to its commercially available counterparts and offers a better balance between versatility and user-friendly setup than other open-source alternatives.
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57
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Jun R, Zhang W, Beacher NJ, Zhang Y, Li Y, Lin DT. Dysbindin-1, BDNF, and GABAergic Transmission in Schizophrenia. Front Psychiatry 2022; 13:876749. [PMID: 35815020 PMCID: PMC9258742 DOI: 10.3389/fpsyt.2022.876749] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/15/2022] [Accepted: 05/30/2022] [Indexed: 11/13/2022] Open
Abstract
Schizophrenia is a psychiatric disorder characterized by hallucinations, anhedonia, disordered thinking, and cognitive impairments. Both genetic and environmental factors contribute to schizophrenia. Dysbindin-1 (DTNBP1) and brain-derived neurotrophic factor (BDNF) are both genetic factors associated with schizophrenia. Mice lacking Dtnbp1 showed behavioral deficits similar to human patients suffering from schizophrenia. DTNBP1 plays important functions in synapse formation and maintenance, receptor trafficking, and neurotransmitter release. DTNBP1 is co-assembled with 7 other proteins into a large protein complex, known as the biogenesis of lysosome-related organelles complex-1 (BLOC-1). Large dense-core vesicles (LDCVs) are involved in the secretion of hormones and neuropeptides, including BDNF. BDNF plays important roles in neuronal development, survival, and synaptic plasticity. BDNF is also critical in maintaining GABAergic inhibitory transmission in the brain. Two studies independently showed that DTNBP1 mediated activity-dependent BDNF secretion to maintain inhibitory transmission. Imbalance of excitatory and inhibitory neural activities is thought to contribute to schizophrenia. In this mini-review, we will discuss a potential pathogenetic mechanism for schizophrenia involving DTNBP1, BDNF, and inhibitory transmission. We will also discuss how these processes are interrelated and associated with a higher risk of schizophrenia development.
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Affiliation(s)
- Rachel Jun
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Wen Zhang
- National Institute on Drug Dependence and Beijing Key Laboratory of Drug Dependence, Peking University, Beijing, China
| | - Nicholas J Beacher
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Yan Zhang
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Yun Li
- Department of Zoology and Physiology, University of Wyoming, Laramie, WY, United States
| | - Da-Ting Lin
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
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58
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Bina L, Romano V, Hoogland TM, Bosman LWJ, De Zeeuw CI. Purkinje cells translate subjective salience into readiness to act and choice performance. Cell Rep 2021; 37:110116. [PMID: 34910904 DOI: 10.1016/j.celrep.2021.110116] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Revised: 07/06/2021] [Accepted: 11/19/2021] [Indexed: 11/28/2022] Open
Abstract
The brain selectively allocates attention from a continuous stream of sensory input. This process is typically attributed to computations in distinct regions of the forebrain and midbrain. Here, we explore whether cerebellar Purkinje cells encode information about the selection of sensory inputs and could thereby contribute to non-motor forms of learning. We show that complex spikes of individual Purkinje cells change the sensory modality they encode to reflect changes in the perceived salience of sensory input. Comparisons with mouse models deficient in cerebellar plasticity suggest that changes in complex spike activity instruct potentiation of Purkinje cells simple spike firing, which is required for efficient learning. Our findings suggest that during learning, climbing fibers do not directly guide motor output, but rather contribute to a general readiness to act via changes in simple spike activity, thereby bridging the sequence from non-motor to motor functions.
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Affiliation(s)
- Lorenzo Bina
- Department of Neuroscience, Erasmus MC, Rotterdam 3000 CA, the Netherlands
| | - Vincenzo Romano
- Department of Neuroscience, Erasmus MC, Rotterdam 3000 CA, the Netherlands
| | - Tycho M Hoogland
- Department of Neuroscience, Erasmus MC, Rotterdam 3000 CA, the Netherlands; Netherlands Institute for Neuroscience, Royal Academy of Arts and Sciences, Amsterdam 1105 BA, the Netherlands
| | - Laurens W J Bosman
- Department of Neuroscience, Erasmus MC, Rotterdam 3000 CA, the Netherlands.
| | - Chris I De Zeeuw
- Department of Neuroscience, Erasmus MC, Rotterdam 3000 CA, the Netherlands; Netherlands Institute for Neuroscience, Royal Academy of Arts and Sciences, Amsterdam 1105 BA, the Netherlands.
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59
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Kelmanson IV, Shokhina AG, Kotova DA, Pochechuev MS, Ivanova AD, Kostyuk AI, Panova AS, Borodinova AA, Solotenkov MA, Stepanov EA, Raevskii RI, Moshchenko AA, Pak VV, Ermakova YG, van Belle GJC, Tarabykin V, Balaban PM, Fedotov IV, Fedotov AB, Conrad M, Bogeski I, Katschinski DM, Doeppner TR, Bähr M, Zheltikov AM, Belousov VV, Bilan DS. In vivo dynamics of acidosis and oxidative stress in the acute phase of an ischemic stroke in a rodent model. Redox Biol 2021; 48:102178. [PMID: 34773835 PMCID: PMC8600061 DOI: 10.1016/j.redox.2021.102178] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2021] [Revised: 11/01/2021] [Accepted: 11/02/2021] [Indexed: 02/08/2023] Open
Abstract
Ischemic cerebral stroke is one of the leading causes of death and disability in humans. However, molecular processes underlying the development of this pathology remain poorly understood. There are major gaps in our understanding of metabolic changes that occur in the brain tissue during the early stages of ischemia and reperfusion. In particular, it is generally accepted that both ischemia (I) and reperfusion (R) generate reactive oxygen species (ROS) that cause oxidative stress which is one of the main drivers of the pathology, although ROS generation during I/R was never demonstrated in vivo due to the lack of suitable methods. In the present study, we record for the first time the dynamics of intracellular pH and H2O2 during I/R in cultured neurons and during experimental stroke in rats using the latest generation of genetically encoded biosensors SypHer3s and HyPer7. We detect a buildup of powerful acidosis in the brain tissue that overlaps with the ischemic core from the first seconds of pathogenesis. At the same time, no significant H2O2 generation was found in the acute phase of ischemia/reperfusion. HyPer7 oxidation in the brain was detected only 24 h later. Comparison of in vivo experiments with studies on cultured neurons under I/R demonstrates that the dynamics of metabolic processes in these models significantly differ, suggesting that a cell culture is a poor predictor of metabolic events in vivo.
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Affiliation(s)
- Ilya V Kelmanson
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Laboratory of Experimental Oncology, Pirogov Russian National Research Medical University, 117997, Moscow, Russia
| | - Arina G Shokhina
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Laboratory of Experimental Oncology, Pirogov Russian National Research Medical University, 117997, Moscow, Russia
| | - Daria A Kotova
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia
| | - Matvei S Pochechuev
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, 119992, Russia
| | - Alexandra D Ivanova
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Biological Department, M.V. Lomonosov Moscow State University, Moscow, 119992, Russia
| | - Alexander I Kostyuk
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia
| | - Anastasiya S Panova
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia
| | - Anastasia A Borodinova
- Institute of Higher Nervous Activity and Neurophysiology, Russian Academy of Sciences, Moscow, 117485, Russia
| | - Maxim A Solotenkov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, 119992, Russia
| | - Evgeny A Stepanov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, 119992, Russia; Russian Quantum Center, Skolkovo, Moscow Region, 143025, Russia
| | - Roman I Raevskii
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia
| | - Aleksandr A Moshchenko
- Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, Moscow, 117997, Russia
| | - Valeriy V Pak
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia
| | - Yulia G Ermakova
- European Molecular Biology Laboratory, Heidelberg, 69117, Germany
| | - Gijsbert J C van Belle
- Institute for Cardiovascular Physiology, University Medical Center Göttingen, Georg-August-University, Humboldtallee 23, 37073, Göttingen, Germany
| | - Viktor Tarabykin
- Institute of Cell Biology and Neurobiology, Charité - Universitätsmedizin Berlin, Berlin, 10117, Germany
| | - Pavel M Balaban
- Institute of Higher Nervous Activity and Neurophysiology, Russian Academy of Sciences, Moscow, 117485, Russia
| | - Ilya V Fedotov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, 119992, Russia; Russian Quantum Center, Skolkovo, Moscow Region, 143025, Russia; Kazan Quantum Center, A.N. Tupolev Kazan National Research Technical University, Kazan, 420126, Russia; Department of Physics and Astronomy, Texas A&M University, College Station, TX, 77843, USA
| | - Andrei B Fedotov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, 119992, Russia; Russian Quantum Center, Skolkovo, Moscow Region, 143025, Russia
| | - Marcus Conrad
- Laboratory of Experimental Oncology, Pirogov Russian National Research Medical University, 117997, Moscow, Russia; Helmholtz Zentrum München, Institute of Metabolism and Cell Death, Ingolstädter Landstr. 1, Neuherberg, 85764, Germany
| | - Ivan Bogeski
- Institute for Cardiovascular Physiology, University Medical Center Göttingen, Georg-August-University, Humboldtallee 23, 37073, Göttingen, Germany
| | - Dörthe M Katschinski
- Institute for Cardiovascular Physiology, University Medical Center Göttingen, Georg-August-University, Humboldtallee 23, 37073, Göttingen, Germany
| | - Thorsten R Doeppner
- Department of Neurology, University Medical Center Göttingen, Göttingen, 37075, Germany; Istanbul Medipol University, Research Institute for Health Sciences and Technologies (SABITA), Istanbul, Turkey; Istanbul Medipol University, School of Medicine, Dept. of Physiology, Istanbul, Turkey
| | - Mathias Bähr
- Department of Neurology, University Medical Center Göttingen, Göttingen, 37075, Germany
| | - Aleksei M Zheltikov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, 119992, Russia; Russian Quantum Center, Skolkovo, Moscow Region, 143025, Russia; Kazan Quantum Center, A.N. Tupolev Kazan National Research Technical University, Kazan, 420126, Russia; Department of Physics and Astronomy, Texas A&M University, College Station, TX, 77843, USA
| | - Vsevolod V Belousov
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Laboratory of Experimental Oncology, Pirogov Russian National Research Medical University, 117997, Moscow, Russia; Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, Moscow, 117997, Russia; Institute for Cardiovascular Physiology, University Medical Center Göttingen, Georg-August-University, Humboldtallee 23, 37073, Göttingen, Germany.
| | - Dmitry S Bilan
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Laboratory of Experimental Oncology, Pirogov Russian National Research Medical University, 117997, Moscow, Russia.
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Beacher NJ, Washington KA, Werner CT, Zhang Y, Barbera G, Li Y, Lin DT. Circuit Investigation of Social Interaction and Substance Use Disorder Using Miniscopes. Front Neural Circuits 2021; 15:762441. [PMID: 34675782 PMCID: PMC8523886 DOI: 10.3389/fncir.2021.762441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2021] [Accepted: 09/16/2021] [Indexed: 12/02/2022] Open
Abstract
Substance use disorder (SUD) is comorbid with devastating health issues, social withdrawal, and isolation. Successful clinical treatments for SUD have used social interventions. Neurons can encode drug cues, and drug cues can trigger relapse. It is important to study how the activity in circuits and embedded cell types that encode drug cues develop in SUD. Exploring shared neurobiology between social interaction (SI) and SUD may explain why humans with access to social treatments still experience relapse. However, circuitry remains poorly characterized due to technical challenges in studying the complicated nature of SI and SUD. To understand the neural correlates of SI and SUD, it is important to: (1) identify cell types and circuits associated with SI and SUD, (2) record and manipulate neural activity encoding drug and social rewards over time, (3) monitor unrestrained animal behavior that allows reliable drug self-administration (SA) and SI. Miniaturized fluorescence microscopes (miniscopes) are ideally suited to meet these requirements. They can be used with gradient index (GRIN) lenses to image from deep brain structures implicated in SUD. Miniscopes can be combined with genetically encoded reporters to extract cell-type specific information. In this mini-review, we explore how miniscopes can be leveraged to uncover neural components of SI and SUD and advance potential therapeutic interventions.
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Affiliation(s)
- Nicholas J. Beacher
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Kayden A. Washington
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Craig T. Werner
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
- Department of Pharmacology and Physiology, Oklahoma State University Center for Health Sciences, Tulsa, OK, United States
| | - Yan Zhang
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Giovanni Barbera
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Yun Li
- Department of Zoology and Physiology, University of Wyoming, Laramie, WY, United States
| | - Da-Ting Lin
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
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Markicevic M, Savvateev I, Grimm C, Zerbi V. Emerging imaging methods to study whole-brain function in rodent models. Transl Psychiatry 2021; 11:457. [PMID: 34482367 PMCID: PMC8418612 DOI: 10.1038/s41398-021-01575-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Revised: 08/05/2021] [Accepted: 08/23/2021] [Indexed: 02/07/2023] Open
Abstract
In the past decade, the idea that single populations of neurons support cognition and behavior has gradually given way to the realization that connectivity matters and that complex behavior results from interactions between remote yet anatomically connected areas that form specialized networks. In parallel, innovation in brain imaging techniques has led to the availability of a broad set of imaging tools to characterize the functional organization of complex networks. However, each of these tools poses significant technical challenges and faces limitations, which require careful consideration of their underlying anatomical, physiological, and physical specificity. In this review, we focus on emerging methods for measuring spontaneous or evoked activity in the brain. We discuss methods that can measure large-scale brain activity (directly or indirectly) with a relatively high temporal resolution, from milliseconds to seconds. We further focus on methods designed for studying the mammalian brain in preclinical models, specifically in mice and rats. This field has seen a great deal of innovation in recent years, facilitated by concomitant innovation in gene-editing techniques and the possibility of more invasive recordings. This review aims to give an overview of currently available preclinical imaging methods and an outlook on future developments. This information is suitable for educational purposes and for assisting scientists in choosing the appropriate method for their own research question.
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Affiliation(s)
- Marija Markicevic
- Neural Control of Movement Lab, HEST, ETH Zürich, Zürich, Switzerland
- Neuroscience Center Zurich, University and ETH Zürich, Zürich, Switzerland
| | - Iurii Savvateev
- Neural Control of Movement Lab, HEST, ETH Zürich, Zürich, Switzerland
- Neuroscience Center Zurich, University and ETH Zürich, Zürich, Switzerland
- Decision Neuroscience Lab, HEST, ETH Zürich, Zürich, Switzerland
| | - Christina Grimm
- Neural Control of Movement Lab, HEST, ETH Zürich, Zürich, Switzerland
- Neuroscience Center Zurich, University and ETH Zürich, Zürich, Switzerland
| | - Valerio Zerbi
- Neural Control of Movement Lab, HEST, ETH Zürich, Zürich, Switzerland.
- Neuroscience Center Zurich, University and ETH Zürich, Zürich, Switzerland.
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Bernier LP, Brunner C, Cottarelli A, Balbi M. Location Matters: Navigating Regional Heterogeneity of the Neurovascular Unit. Front Cell Neurosci 2021; 15:696540. [PMID: 34276312 PMCID: PMC8277940 DOI: 10.3389/fncel.2021.696540] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2021] [Accepted: 05/31/2021] [Indexed: 12/27/2022] Open
Abstract
The neurovascular unit (NVU) of the brain is composed of multiple cell types that act synergistically to modify blood flow to locally match the energy demand of neural activity, as well as to maintain the integrity of the blood-brain barrier (BBB). It is becoming increasingly recognized that the functional specialization, as well as the cellular composition of the NVU varies spatially. This heterogeneity is encountered as variations in vascular and perivascular cells along the arteriole-capillary-venule axis, as well as through differences in NVU composition throughout anatomical regions of the brain. Given the wide variations in metabolic demands between brain regions, especially those of gray vs. white matter, the spatial heterogeneity of the NVU is critical to brain function. Here we review recent evidence demonstrating regional specialization of the NVU between brain regions, by focusing on the heterogeneity of its individual cellular components and briefly discussing novel approaches to investigate NVU diversity.
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Affiliation(s)
- Louis-Philippe Bernier
- Djavad Mowafaghian Centre for Brain Health, University of British Columbia, Vancouver, BC, Canada
| | - Clément Brunner
- Neuro-Electronics Research Flanders, Leuven, Belgium.,Vlaams Instituut voor Biotechnologie, Leuven, Belgium.,Interuniversity Microeletronics Centre, Leuven, Belgium.,Department of Neurosciences, KU Leuven, Leuven, Belgium
| | | | - Matilde Balbi
- Queensland Brain Institute, University of Queensland, Brisbane, QLD, Australia
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Rebusi R, Olorocisimo JP, Briones J, Ohta Y, Haruta M, Takehara H, Tashiro H, Sasagawa K, Ohta J. Simultaneous CMOS-Based Imaging of Calcium Signaling of the Central Amygdala and the Dorsal Raphe Nucleus During Nociception in Freely Moving Mice. Front Neurosci 2021; 15:667708. [PMID: 34135728 PMCID: PMC8202083 DOI: 10.3389/fnins.2021.667708] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2021] [Accepted: 04/26/2021] [Indexed: 11/24/2022] Open
Abstract
Fluorescence imaging devices have been indispensable in elucidating the workings of the brain in living animals, including unrestrained, active ones. Various devices are available, each with their own strengths and weaknesses in terms of many factors. We have developed CMOS-based needle-type imaging devices that are small and lightweight enough to be doubly implanted in freely moving mice. The design also allowed angled implantations to avoid critical areas. We demonstrated the utility of the devices by using them on GCaMP6 mice in a formalin test experiment. Simultaneous implantations to the capsular-lateral central amygdala (CeLC) and dorsal raphe nucleus (DRN) were proven to be safe and did not hinder the execution of the study. Analysis of the collected calcium signaling data, supported by behavior data, showed increased activity in both regions as a result of pain stimulation. Thus, we have successfully demonstrated the various advantages of the device in its application in the pain experiment.
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Affiliation(s)
- Romeo Rebusi
- Division of Material Science, Nara Institute of Science and Technology, Ikoma, Japan
| | | | - Jeric Briones
- Division of Information Science, Nara Institute of Science and Technology, Ikoma, Japan.,Advanced Telecommunications Research Institute International, Kyoto, Japan
| | - Yasumi Ohta
- Division of Material Science, Nara Institute of Science and Technology, Ikoma, Japan
| | - Makito Haruta
- Division of Material Science, Nara Institute of Science and Technology, Ikoma, Japan
| | - Hironari Takehara
- Division of Material Science, Nara Institute of Science and Technology, Ikoma, Japan
| | - Hiroyuki Tashiro
- Department of Health Sciences, Faculty of Medical Sciences, Kyusyu University, Fukuoka, Japan
| | - Kiyotaka Sasagawa
- Division of Material Science, Nara Institute of Science and Technology, Ikoma, Japan
| | - Jun Ohta
- Division of Material Science, Nara Institute of Science and Technology, Ikoma, Japan
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64
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Yalcinbas EA, Cazares C, Gremel CM. Call for a more balanced approach to understanding orbital frontal cortex function. Behav Neurosci 2021; 135:255-266. [PMID: 34060878 DOI: 10.1037/bne0000450] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Orbital frontal cortex (OFC) research has historically emphasized the function of this associative cortical area within top-down theoretical frameworks. This approach has largely focused on mapping OFC activity onto human-defined psychological or cognitive constructs and has often led to OFC circuitry bearing the weight of entire theoretical frameworks. New techniques and tools developed in the last decade have made it possible to revisit long-standing basic science questions in neuroscience and answer them with increasing sophistication. We can now study and specify the genetic, molecular, cellular, and circuit architecture of a brain region in much greater detail, which allows us to piece together how they contribute to emergent circuit functions. For instance, adopting such systematic and unbiased bottom-up approaches to elucidating the function of the visual system has paved the way to building a greater understanding of the spectrum of its computational capabilities. In the same vein, we argue that OFC research would benefit from a more balanced approach that also places focus on novel bottom-up investigations into OFC's computational capabilities. Furthermore, we believe that the knowledge gained by employing a more bottom-up approach to investigating OFC function will ultimately allow us to look at OFC's dysfunction in disease through a more nuanced biological lens. (PsycInfo Database Record (c) 2021 APA, all rights reserved).
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Affiliation(s)
- Ege A Yalcinbas
- The Neurosciences Graduate Program, University of California, San Diego
| | - Christian Cazares
- The Neurosciences Graduate Program, University of California, San Diego
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65
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Sacher WD, Chen FD, Moradi-Chameh H, Luo X, Fomenko A, Shah PT, Lordello T, Liu X, Almog IF, Straguzzi JN, Fowler TM, Jung Y, Hu T, Jeong J, Lozano AM, Lo PGQ, Valiante TA, Moreaux LC, Poon JKS, Roukes ML. Implantable photonic neural probes for light-sheet fluorescence brain imaging. NEUROPHOTONICS 2021; 8:025003. [PMID: 33898636 PMCID: PMC8059764 DOI: 10.1117/1.nph.8.2.025003] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2020] [Accepted: 03/04/2021] [Indexed: 05/07/2023]
Abstract
Significance: Light-sheet fluorescence microscopy (LSFM) is a powerful technique for high-speed volumetric functional imaging. However, in typical light-sheet microscopes, the illumination and collection optics impose significant constraints upon the imaging of non-transparent brain tissues. We demonstrate that these constraints can be surmounted using a new class of implantable photonic neural probes. Aim: Mass manufacturable, silicon-based light-sheet photonic neural probes can generate planar patterned illumination at arbitrary depths in brain tissues without any additional micro-optic components. Approach: We develop implantable photonic neural probes that generate light sheets in tissue. The probes were fabricated in a photonics foundry on 200-mm-diameter silicon wafers. The light sheets were characterized in fluorescein and in free space. The probe-enabled imaging approach was tested in fixed, in vitro, and in vivo mouse brain tissues. Imaging tests were also performed using fluorescent beads suspended in agarose. Results: The probes had 5 to 10 addressable sheets and average sheet thicknesses < 16 μ m for propagation distances up to 300 μ m in free space. Imaging areas were as large as ≈ 240 μ m × 490 μ m in brain tissue. Image contrast was enhanced relative to epifluorescence microscopy. Conclusions: The neural probes can lead to new variants of LSFM for deep brain imaging and experiments in freely moving animals.
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Affiliation(s)
- Wesley D. Sacher
- California Institute of Technology, Division of Physics, Mathematics, and Astronomy, Pasadena, California, United States
- Kavli Nanoscience Institute, California Institute of Technology, Pasadena, California, United States
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Address all correspondence to Wesley D. Sacher, ; Michael L. Roukes,
| | - Fu-Der Chen
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
| | - Homeira Moradi-Chameh
- University Health Network, Krembil Research Institute, Division of Clinical and Computational Neuroscience, Toronto, Ontario, Canada
| | | | - Anton Fomenko
- University Health Network, Krembil Research Institute, Division of Clinical and Computational Neuroscience, Toronto, Ontario, Canada
| | - Prajay T. Shah
- University Health Network, Krembil Research Institute, Division of Clinical and Computational Neuroscience, Toronto, Ontario, Canada
| | - Thomas Lordello
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
| | - Xinyu Liu
- California Institute of Technology, Division of Physics, Mathematics, and Astronomy, Pasadena, California, United States
| | - Ilan Felts Almog
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
| | | | - Trevor M. Fowler
- California Institute of Technology, Division of Physics, Mathematics, and Astronomy, Pasadena, California, United States
| | - Youngho Jung
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
- Max Planck Institute of Microstructure Physics, Halle, Germany
| | - Ting Hu
- Agency for Science Technology and Research (A*STAR), Institute of Microelectronics, Singapore
| | - Junho Jeong
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
| | - Andres M. Lozano
- University Health Network, Krembil Research Institute, Division of Clinical and Computational Neuroscience, Toronto, Ontario, Canada
- University of Toronto, Toronto Western Hospital, Division of Neurosurgery, Department of Surgery, Toronto, Ontario, Canada
| | | | - Taufik A. Valiante
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
- University Health Network, Krembil Research Institute, Division of Clinical and Computational Neuroscience, Toronto, Ontario, Canada
- University of Toronto, Toronto Western Hospital, Division of Neurosurgery, Department of Surgery, Toronto, Ontario, Canada
- University of Toronto, Institute of Biomaterials and Biomedical Engineering, Toronto, Ontario, Canada
| | - Laurent C. Moreaux
- California Institute of Technology, Division of Physics, Mathematics, and Astronomy, Pasadena, California, United States
| | - Joyce K. S. Poon
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
- Max Planck Institute of Microstructure Physics, Halle, Germany
| | - Michael L. Roukes
- California Institute of Technology, Division of Physics, Mathematics, and Astronomy, Pasadena, California, United States
- Kavli Nanoscience Institute, California Institute of Technology, Pasadena, California, United States
- Address all correspondence to Wesley D. Sacher, ; Michael L. Roukes,
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66
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Disruption of neonatal Purkinje cell function underlies injury-related learning deficits. Proc Natl Acad Sci U S A 2021; 118:2017876118. [PMID: 33688045 PMCID: PMC7980280 DOI: 10.1073/pnas.2017876118] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
Injury to the cerebellum during late fetal and early postnatal life is associated with long-term motor and cognitive deficits. It is thought that injury at this stage of development results in delayed maturation of neural circuitry, causing altered behavior at later stages. This study identifies the neural basis of locomotor learning deficits in the cerebellum using a clinically relevant model of neonatal brain injury. By combining fiber-optic-enabled Purkinje cell activity measurement during locomotor behavior, we provide evidence for long-term changes in neuronal responses during learning. By artificially reducing Purkinje cell function during the neonatal stage, we observed similarly altered physiological responses as those seen in injury. Our findings indicate that injury-related inhibition of developing Purkinje cells causes long-term locomotor dysfunction. It is hypothesized that perinatal cerebellar injury leads to long-term functional deficits due to circuit dysmaturation. Using a novel integration of GCaMP6f fiber photometry with automated measurement of cerebellar behavior using the ErasmusLadder, we causally link cerebellar injury to altered Purkinje cell responses during maladaptive behavior. Chemogenetic inhibition of neonatal Purkinje cells is sufficient to phenocopy the effects of perinatal cerebellar injury. Our results uncover a direct link between perinatal cerebellar injury and activity-dependent maturation of cerebellar cortex.
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67
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Cai L, Gutruf P. Soft, Wireless and subdermally implantable recording and neuromodulation tools. J Neural Eng 2021; 18. [PMID: 33607646 DOI: 10.1088/1741-2552/abe805] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2020] [Accepted: 02/19/2021] [Indexed: 12/14/2022]
Abstract
Progress in understanding neuronal interaction and circuit behavior of the central and peripheral nervous system strongly relies on the advancement of tools that record and stimulate with high fidelity and specificity. Currently, devices used in exploratory research predominantly utilize cables or tethers to provide pathways for power supply, data communication, stimulus delivery and recording, which constrains the scope and use of such devices. In particular, the tethered connection, mechanical mismatch to surrounding soft tissues and bones frustrate the interface leading to irritation and limitation of motion of the subject, which in the case of fundamental and preclinical studies, impacts naturalistic behaviors of animals and precludes the use in experiments involving social interaction and ethologically relevant three-dimensional environments, limiting the use of current tools to mostly rodents and exclude species such as birds and fish. This review explores the current state-of-the-art in wireless, subdermally implantable tools that quantitively expand capabilities in analysis and perturbation of the central and peripheral nervous system by removing tethers and externalized features of implantable neuromodulation and recording tools. Specifically, the review explores power harvesting strategies, wireless communication schemes, and soft materials and mechanics that enable the creation of such devices and discuss their capabilities in the context of freely-behaving subjects. Highlights of this class of devices includes wireless battery-free and fully implantable operation with capabilities in cell specific recording, multimodal neural stimulation and electrical, optogenetic and pharmacological neuromodulation capabilities. We conclude with discussion on translation of such technologies which promises routes towards broad dissemination.
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Affiliation(s)
- Le Cai
- Biomedical Engineering, University of Arizona, 1230 N Cherry Ave., Tucson, Arizona, 85719, UNITED STATES
| | - Philipp Gutruf
- Biomedical Engineering, University of Arizona, 1230 N Cherry Ave., Tucson, Arizona, 85719, UNITED STATES
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68
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Friedrich J, Giovannucci A, Pnevmatikakis EA. Online analysis of microendoscopic 1-photon calcium imaging data streams. PLoS Comput Biol 2021; 17:e1008565. [PMID: 33507937 PMCID: PMC7842953 DOI: 10.1371/journal.pcbi.1008565] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2020] [Accepted: 11/27/2020] [Indexed: 11/18/2022] Open
Abstract
In vivo calcium imaging through microendoscopic lenses enables imaging of neuronal populations deep within the brains of freely moving animals. Previously, a constrained matrix factorization approach (CNMF-E) has been suggested to extract single-neuronal activity from microendoscopic data. However, this approach relies on offline batch processing of the entire video data and is demanding both in terms of computing and memory requirements. These drawbacks prevent its applicability to the analysis of large datasets and closed-loop experimental settings. Here we address both issues by introducing two different online algorithms for extracting neuronal activity from streaming microendoscopic data. Our first algorithm, OnACID-E, presents an online adaptation of the CNMF-E algorithm, which dramatically reduces its memory and computation requirements. Our second algorithm proposes a convolution-based background model for microendoscopic data that enables even faster (real time) processing. Our approach is modular and can be combined with existing online motion artifact correction and activity deconvolution methods to provide a highly scalable pipeline for microendoscopic data analysis. We apply our algorithms on four previously published typical experimental datasets and show that they yield similar high-quality results as the popular offline approach, but outperform it with regard to computing time and memory requirements. They can be used instead of CNMF-E to process pre-recorded data with boosted speeds and dramatically reduced memory requirements. Further, they newly enable online analysis of live-streaming data even on a laptop. Calcium imaging methods enable researchers to measure the activity of genetically-targeted large-scale neuronal subpopulations. Whereas previous methods required the specimen to be stable, e.g. anesthetized or head-fixed, new brain imaging techniques using microendoscopic lenses and miniaturized microscopes have enabled deep brain imaging in freely moving mice. However, the very large background fluctuations, the inevitable movements and distortions of imaging field, and the extensive spatial overlaps of fluorescent signals complicate the goal of efficiently extracting accurate estimates of neural activity from the observed video data. Further, current activity extraction methods are computationally expensive due to the complex background model and are typically applied to imaging data long after the experiment is complete. Moreover, in some scenarios it is necessary to perform experiments in real-time and closed-loop—analyzing data on-the-fly to guide the next experimental steps or to control feedback –, and this calls for new methods for accurate real-time processing. Here we address both issues by adapting a popular extraction method to operate online and extend it to utilize GPU hardware that enables real time processing. Our algorithms yield similar high-quality results as the original offline approach, but outperform it with regard to computing time and memory requirements. Our results enable faster and scalable analysis, and open the door to new closed-loop experiments in deep brain areas and on freely-moving preparations. Our algorithms can be used for newly enabled real-time analysis of streaming data, as well as swapped in directly to replace the computationally costly offline approach.
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Affiliation(s)
- Johannes Friedrich
- Flatiron Institute, Simons Foundation, New York, New York, United States of America
- * E-mail:
| | - Andrea Giovannucci
- Joint Department of Biomedical Engineering, University of North Carolina at Chapel Hill and North Carolina State University; and UNC Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
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69
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Laing BT, Siemian JN, Sarsfield S, Aponte Y. Fluorescence microendoscopy for in vivo deep-brain imaging of neuronal circuits. J Neurosci Methods 2021; 348:109015. [PMID: 33259847 PMCID: PMC8745022 DOI: 10.1016/j.jneumeth.2020.109015] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2020] [Revised: 11/24/2020] [Accepted: 11/26/2020] [Indexed: 11/16/2022]
Abstract
Imaging neuronal activity in awake, behaving animals has become a groundbreaking method in neuroscience that has rapidly enhanced our understanding of how the brain works. In vivo microendoscopic imaging has enabled researchers to see inside the brains of experimental animals and thus has emerged as a technology fit to answer many experimental questions. By combining microendoscopy with cutting edge targeting strategies and sophisticated analysis tools, neuronal activity patterns that underlie changes in behavior and physiology can be identified. However, new users may find it challenging to understand the techniques and to leverage this technology to best suit their needs. Here we present a background and overview of the necessary components for performing in vivo optical calcium imaging and offer some detailed guidance for current recommended approaches.
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Affiliation(s)
- Brenton T Laing
- Neuronal Circuits and Behavior Unit, National Institute on Drug Abuse Intramural Research Program, National Institutes of Health, Baltimore, MD, 21224-6823, USA
| | - Justin N Siemian
- Neuronal Circuits and Behavior Unit, National Institute on Drug Abuse Intramural Research Program, National Institutes of Health, Baltimore, MD, 21224-6823, USA
| | - Sarah Sarsfield
- Neuronal Circuits and Behavior Unit, National Institute on Drug Abuse Intramural Research Program, National Institutes of Health, Baltimore, MD, 21224-6823, USA
| | - Yeka Aponte
- Neuronal Circuits and Behavior Unit, National Institute on Drug Abuse Intramural Research Program, National Institutes of Health, Baltimore, MD, 21224-6823, USA; The Solomon H. Snyder Department of Neuroscience, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USA.
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70
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Evolution of in vivo dopamine monitoring techniques. Pharmacol Biochem Behav 2020; 200:173078. [PMID: 33278398 DOI: 10.1016/j.pbb.2020.173078] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/15/2020] [Revised: 11/06/2020] [Accepted: 11/18/2020] [Indexed: 01/01/2023]
Abstract
The brain dopamine system is central to numerous behavioral processes, including movement, learning, and motivation. Accordingly, disruptions of this neural system underlie numerous neurological and psychiatric disorders. Current understanding of how dopamine neurotransmission contributes to behavior and its dysfunction has been driven by technological advancements that permit spatiotemporally-defined measurements of dopaminergic signaling in behaving animals. In this review, we will discuss the evolution of in vivo neural monitoring technologies for measuring dopamine neuron function. We focus on the dopamine system for two reasons: (1) the central role of dopamine neurotransmission in normal behavior and disease, and (2) dopamine neuron measurements have long been at the forefront of in vivo neural monitoring technologies. We will provide a brief overview of standard techniques for monitoring dopamine function, including electrophysiology, microdialysis, and voltammetry. Then, we will discuss recent advancements in optical technologies using genetically-encoded fluorescent proteins (GEFPs), including a critical evaluation of their advantages and limitations.
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71
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Pochechuev MS, Solotenkov MA, Fedotov IV, Ivashkina OI, Anokhin KV, Zheltikov AM. Multisite cell- and neural-dynamics-resolving deep brain imaging in freely moving mice with implanted reconnectable fiber bundles. JOURNAL OF BIOPHOTONICS 2020; 13:e202000081. [PMID: 32459884 DOI: 10.1002/jbio.202000081] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/08/2020] [Revised: 05/03/2020] [Accepted: 05/21/2020] [Indexed: 06/11/2023]
Abstract
We demonstrate a reconnectable implantable ultraslim fiber-optic microendoscope that integrates a branching fiber bundle (BFB) with gradient-index fiber lenses, enabling a simultaneous fluorescence imaging of individual cells in distinctly separate brain regions, including brain structures as distant as the neocortex and hippocampus. We show that fluorescence images of individual calcium-indicator-expressing neurons in the brain of freely moving transgenic mice can be recorded, via the implanted BFB probe, in parallel with time- and cell-resolved traces of calcium signaling, thus enabling correlated circuit-dynamics studies at -multiple sites within the brain of freely moving animals.
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Affiliation(s)
- Matvey S Pochechuev
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, Russia
| | - Maxim A Solotenkov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, Russia
| | - Ilya V Fedotov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, Russia
- Department of Physics and Astronomy, Texas A&M University, College Station, Texas, USA
- Russian Quantum Center, Moscow, Russia
- Kazan Quantum Center, A.N.Tupolev Kazan National Research Technical University, Kazan, Russia
- National University of Science and Technology "MISiS", Leninskii pr. 4, Moscow, Russia
| | - Olga I Ivashkina
- Institute for Advanced Brain Studies, Lomonosov Moscow State University, Moscow, Russia
- National Research Center "Kurchatov Institute", Moscow, Russia
- P.K. Anokhin Research Institute of Normal Physiology, Moscow, Russia
| | - Konstantin V Anokhin
- Institute for Advanced Brain Studies, Lomonosov Moscow State University, Moscow, Russia
- P.K. Anokhin Research Institute of Normal Physiology, Moscow, Russia
| | - Aleksei M Zheltikov
- Physics Department, International Laser Center, M.V. Lomonosov Moscow State University, Moscow, Russia
- Department of Physics and Astronomy, Texas A&M University, College Station, Texas, USA
- Russian Quantum Center, Moscow, Russia
- Kazan Quantum Center, A.N.Tupolev Kazan National Research Technical University, Kazan, Russia
- National Research Center "Kurchatov Institute", Moscow, Russia
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72
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Xia F, Kheirbek MA. Circuit-Based Biomarkers for Mood and Anxiety Disorders. Trends Neurosci 2020; 43:902-915. [PMID: 32917408 PMCID: PMC7606349 DOI: 10.1016/j.tins.2020.08.004] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Revised: 07/23/2020] [Accepted: 08/16/2020] [Indexed: 12/11/2022]
Abstract
Mood and anxiety disorders are complex heterogeneous syndromes that manifest in dysfunctions across multiple brain regions, cell types, and circuits. Biomarkers using brain-wide activity patterns in humans have proven useful in distinguishing between disorder subtypes and identifying effective treatments. In order to improve biomarker identification, it is crucial to understand the basic circuitry underpinning brain-wide activity patterns. Leveraging a large repertoire of techniques, animal studies have examined roles of specific cell types and circuits in driving maladaptive behavior. Recent advances in multiregion recording techniques, data-driven analysis approaches, and machine-learning-based behavioral analysis tools can further push the boundary of animal studies and bridge the gap with human studies, to assess how brain-wide activity patterns encode and drive emotional behavior. Together, these efforts will allow identifying more precise biomarkers to enhance diagnosis and treatment.
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Affiliation(s)
- Frances Xia
- Department of Psychiatry and Behavioral Sciences, University of California, San Francisco, San Francisco, CA, USA; Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, USA.
| | - Mazen A Kheirbek
- Department of Psychiatry and Behavioral Sciences, University of California, San Francisco, San Francisco, CA, USA; Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, USA; Neuroscience Graduate Program, University of California, San Francisco, San Francisco, CA, USA.; Kavli Institute for Fundamental Neuroscience, University of California, San Francisco, San Francisco, CA, USA; Center for Integrative Neuroscience, University of California, San Francisco, San Francisco, CA, USA.
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73
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Moreaux LC, Yatsenko D, Sacher WD, Choi J, Lee C, Kubat NJ, Cotton RJ, Boyden ES, Lin MZ, Tian L, Tolias AS, Poon JKS, Shepard KL, Roukes ML. Integrated Neurophotonics: Toward Dense Volumetric Interrogation of Brain Circuit Activity-at Depth and in Real Time. Neuron 2020; 108:66-92. [PMID: 33058767 PMCID: PMC8061790 DOI: 10.1016/j.neuron.2020.09.043] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 08/18/2020] [Accepted: 09/28/2020] [Indexed: 12/17/2022]
Abstract
We propose a new paradigm for dense functional imaging of brain activity to surmount the limitations of present methodologies. We term this approach "integrated neurophotonics"; it combines recent advances in microchip-based integrated photonic and electronic circuitry with those from optogenetics. This approach has the potential to enable lens-less functional imaging from within the brain itself to achieve dense, large-scale stimulation and recording of brain activity with cellular resolution at arbitrary depths. We perform a computational study of several prototype 3D architectures for implantable probe-array modules that are designed to provide fast and dense single-cell resolution (e.g., within a 1-mm3 volume of mouse cortex comprising ∼100,000 neurons). We describe progress toward realizing integrated neurophotonic imaging modules, which can be produced en masse with current semiconductor foundry protocols for chip manufacturing. Implantation of multiple modules can cover extended brain regions.
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Affiliation(s)
- Laurent C Moreaux
- Division of Physics, Mathematics and Astronomy, California Institute of Technology, Pasadena, CA 91125, USA.
| | - Dimitri Yatsenko
- Vathes LLC, Houston, TX 77030, USA; Center for Neuroscience and Artificial Intelligence and Department of Neuroscience, Baylor College of Medicine, Houston, TX 77030, USA
| | - Wesley D Sacher
- Kavli Nanoscience Institute, California Institute of Technology, Pasadena, CA 91125, USA; Division of Engineering and Applied Science, California Institute of Technology, Pasadena, CA 91125, USA; Max Planck Institute for Microstructure Physics, Halle, Germany
| | - Jaebin Choi
- Departments of Electrical Engineering and Biomedical Engineering, Columbia University, New York, NY 10027, USA
| | - Changhyuk Lee
- Departments of Electrical Engineering and Biomedical Engineering, Columbia University, New York, NY 10027, USA; Center for BioMicrosystems, Brain Science Institute, Korea Institute of Science and Technology, Korea
| | - Nicole J Kubat
- Division of Physics, Mathematics and Astronomy, California Institute of Technology, Pasadena, CA 91125, USA
| | - R James Cotton
- Shirley Ryan AbilityLab, Northwestern University, Chicago, IL 60611, USA; Center for Neuroscience and Artificial Intelligence and Department of Neuroscience, Baylor College of Medicine, Houston, TX 77030, USA
| | - Edward S Boyden
- Howard Hughes Medical Institute, Cambridge, MA, USA; McGovern Institute, MIT, Cambridge, USA; Koch Institute, MIT, Cambridge, USA; Departments of Brain and Cognitive Sciences, Media Arts and Sciences, and Biological Engineering, MIT, Cambridge, USA
| | - Michael Z Lin
- Departments of Neurobiology and Bioengineering, Stanford University, Stanford, CA 94305, USA
| | - Lin Tian
- Department of Biochemistry and Molecular Medicine, School of Medicine, University of California, Davis, CA 95616, USA
| | - Andreas S Tolias
- Vathes LLC, Houston, TX 77030, USA; Center for Neuroscience and Artificial Intelligence and Department of Neuroscience, Baylor College of Medicine, Houston, TX 77030, USA; Department of Electrical and Computer Engineering, Rice University, Houston, TX 77005, USA
| | - Joyce K S Poon
- Max Planck Institute for Microstructure Physics, Halle, Germany; Department of Electrical and Computer Engineering, University of Toronto, 10 King's College Rd., Toronto, ON M5S 3G4, Canada
| | - Kenneth L Shepard
- Departments of Electrical Engineering and Biomedical Engineering, Columbia University, New York, NY 10027, USA
| | - Michael L Roukes
- Division of Physics, Mathematics and Astronomy, California Institute of Technology, Pasadena, CA 91125, USA; Kavli Nanoscience Institute, California Institute of Technology, Pasadena, CA 91125, USA; Division of Engineering and Applied Science, California Institute of Technology, Pasadena, CA 91125, USA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA.
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74
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Yanny K, Antipa N, Liberti W, Dehaeck S, Monakhova K, Liu FL, Shen K, Ng R, Waller L. Miniscope3D: optimized single-shot miniature 3D fluorescence microscopy. LIGHT, SCIENCE & APPLICATIONS 2020; 9:171. [PMID: 33082940 PMCID: PMC7532148 DOI: 10.1038/s41377-020-00403-7] [Citation(s) in RCA: 56] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Revised: 09/01/2020] [Accepted: 09/04/2020] [Indexed: 05/19/2023]
Abstract
Miniature fluorescence microscopes are a standard tool in systems biology. However, widefield miniature microscopes capture only 2D information, and modifications that enable 3D capabilities increase the size and weight and have poor resolution outside a narrow depth range. Here, we achieve the 3D capability by replacing the tube lens of a conventional 2D Miniscope with an optimized multifocal phase mask at the objective's aperture stop. Placing the phase mask at the aperture stop significantly reduces the size of the device, and varying the focal lengths enables a uniform resolution across a wide depth range. The phase mask encodes the 3D fluorescence intensity into a single 2D measurement, and the 3D volume is recovered by solving a sparsity-constrained inverse problem. We provide methods for designing and fabricating the phase mask and an efficient forward model that accounts for the field-varying aberrations in miniature objectives. We demonstrate a prototype that is 17 mm tall and weighs 2.5 grams, achieving 2.76 μm lateral, and 15 μm axial resolution across most of the 900 × 700 × 390 μm3 volume at 40 volumes per second. The performance is validated experimentally on resolution targets, dynamic biological samples, and mouse brain tissue. Compared with existing miniature single-shot volume-capture implementations, our system is smaller and lighter and achieves a more than 2× better lateral and axial resolution throughout a 10× larger usable depth range. Our microscope design provides single-shot 3D imaging for applications where a compact platform matters, such as volumetric neural imaging in freely moving animals and 3D motion studies of dynamic samples in incubators and lab-on-a-chip devices.
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Affiliation(s)
- Kyrollos Yanny
- UCB/UCSF Joint Graduate Program in Bioengineering, University of California, Berkeley, CA 94720 USA
| | - Nick Antipa
- Department of Electrical Engineering & Computer Sciences, University of California, Berkeley, CA 94720 USA
| | - William Liberti
- Department of Electrical Engineering & Computer Sciences, University of California, Berkeley, CA 94720 USA
| | - Sam Dehaeck
- TIPs Department, Université libre de Bruxelles (ULB), 1050 Brussels, Belgium
| | - Kristina Monakhova
- Department of Electrical Engineering & Computer Sciences, University of California, Berkeley, CA 94720 USA
| | - Fanglin Linda Liu
- Department of Electrical Engineering & Computer Sciences, University of California, Berkeley, CA 94720 USA
| | - Konlin Shen
- Department of Electrical Engineering & Computer Sciences, University of California, Berkeley, CA 94720 USA
| | - Ren Ng
- Department of Electrical Engineering & Computer Sciences, University of California, Berkeley, CA 94720 USA
| | - Laura Waller
- UCB/UCSF Joint Graduate Program in Bioengineering, University of California, Berkeley, CA 94720 USA
- Department of Electrical Engineering & Computer Sciences, University of California, Berkeley, CA 94720 USA
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75
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Malvaut S, Constantinescu VS, Dehez H, Doric S, Saghatelyan A. Deciphering Brain Function by Miniaturized Fluorescence Microscopy in Freely Behaving Animals. Front Neurosci 2020; 14:819. [PMID: 32848576 PMCID: PMC7432153 DOI: 10.3389/fnins.2020.00819] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Accepted: 07/14/2020] [Indexed: 11/19/2022] Open
Abstract
Animal behavior is regulated by environmental stimuli and is shaped by the activity of neural networks, underscoring the importance of assessing the morpho-functional properties of different populations of cells in freely behaving animals. In recent years, a number of optical tools have been developed to monitor and modulate neuronal and glial activity at the protein, cellular, or network level and have opened up new avenues for studying brain function in freely behaving animals. Tools such as genetically encoded sensors and actuators are now commonly used for studying brain activity and function through their expression in different neuronal ensembles. In parallel, microscopy has also made major progress over the last decades. The advent of miniature microscopes (mini-microscopes also called mini-endoscopes) has become a method of choice for studying brain activity at the cellular and network levels in different brain regions of freely behaving mice. This technique also allows for longitudinal investigations while animals carrying the microscope on their head are performing behavioral tasks. In this review, we will discuss mini-endoscopic imaging and the advantages that these devices offer to research. We will also discuss current limitations of and potential future improvements in mini-endoscopic imaging.
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Affiliation(s)
- Sarah Malvaut
- CERVO Brain Research Center, Quebec City, QC, Canada
- Department of Psychiatry and Neuroscience, Universite Laval, Quebec City, QC, Canada
| | - Vlad-Stefan Constantinescu
- CERVO Brain Research Center, Quebec City, QC, Canada
- Department of Psychiatry and Neuroscience, Universite Laval, Quebec City, QC, Canada
| | | | - Sead Doric
- Doric Lenses Inc., Quebec City, QC, Canada
| | - Armen Saghatelyan
- CERVO Brain Research Center, Quebec City, QC, Canada
- Department of Psychiatry and Neuroscience, Universite Laval, Quebec City, QC, Canada
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76
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Functional interrogation of neural circuits with virally transmitted optogenetic tools. J Neurosci Methods 2020; 345:108905. [PMID: 32795553 DOI: 10.1016/j.jneumeth.2020.108905] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2020] [Revised: 08/03/2020] [Accepted: 08/06/2020] [Indexed: 12/12/2022]
Abstract
The vertebrate brain comprises a plethora of cell types connected by intertwined pathways. Optogenetics enriches the neuroscientific tool set for disentangling these neuronal circuits in a manner which exceeds the spatio-temporal precision of previously existing techniques. Technically, optogenetics can be divided in three types of optical and genetic combinations: (1) it is primarily understood as the manipulation of the activity of genetically modified cells (typically neurons) with light, i.e. optical actuators. (2) A second combination refers to visualizing the activity of genetically modified cells (again typically neurons), i.e. optical sensors. (3) A completely different interpretation of optogenetics refers to the light activated expression of a genetically induced construct. Here, we focus on the first two types of optogenetics, i.e. the optical actuators and sensors in an attempt to give an overview into the topic. We first cover methods to express opsins into neurons and introduce strategies of targeting specific neuronal populations in different animal species. We then summarize combinations of optogenetics with behavioral read out and neuronal imaging. Finally, we give an overview of the current state-of-the-art and an outlook on future perspectives.
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77
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Rynes ML, Ghanbari L, Schulman DS, Linn S, Laroque M, Dominguez J, Navabi ZS, Sherman P, Kodandaramaiah SB. Assembly and operation of an open-source, computer numerical controlled (CNC) robot for performing cranial microsurgical procedures. Nat Protoc 2020; 15:1992-2023. [PMID: 32405052 DOI: 10.1038/s41596-020-0318-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Accepted: 03/03/2020] [Indexed: 12/14/2022]
Abstract
Cranial microsurgery is an essential procedure for accessing the brain through the skull that can be used to introduce neural probes that measure and manipulate neural activity. Neuroscientists have typically used tools such as high-speed drills adapted from dentistry to perform these procedures. As the number of technologies available for neuroscientists has increased, the corresponding cranial microsurgery procedures to deploy them have become more complex. Using a robotic tool that automatically performs these procedures could standardize cranial microsurgeries across neuroscience laboratories and democratize the more challenging procedures. We have recently engineered a robotic surgery platform that utilizes principles of computer numerical control (CNC) machining to perform a wide variety of automated cranial procedures. Here, we describe how to adapt, configure and use an inexpensive desktop CNC mill equipped with a custom-built surface profiler for performing CNC-guided microsurgery on mice. Detailed instructions are provided to utilize this 'Craniobot' for performing circular craniotomies for coverslip implantation, large craniotomies for implanting transparent polymer skulls for cortex-wide imaging access and skull thinning for intact skull imaging. The Craniobot can be set up in <2 weeks using parts that cost <$1,500, and we anticipate that the Craniobot could be easily adapted for use in other small animals.
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Affiliation(s)
- Mathew L Rynes
- Department of Biomedical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA
| | - Leila Ghanbari
- Department of Mechanical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA
| | - Daniel Sousa Schulman
- Department of Mechanical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA
| | - Samantha Linn
- Department of Mechanical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA
| | - Michael Laroque
- Schools of Medicine, University of Minnesota Medical School, Minneapolis, MN, USA
| | - Judith Dominguez
- Department of Mechanical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA
| | - Zahra S Navabi
- Department of Mechanical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA
| | - Peter Sherman
- Department of Mechanical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA
| | - Suhasa B Kodandaramaiah
- Department of Biomedical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA. .,Department of Mechanical Engineering, University of Minnesota Twin Cities, Minneapolis, MN, USA.
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78
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Edwards KA, Hoppa MB, Bosco G. The Photoconvertible Fluorescent Probe, CaMPARI, Labels Active Neurons in Freely-Moving Intact Adult Fruit Flies. Front Neural Circuits 2020; 14:22. [PMID: 32457580 PMCID: PMC7227398 DOI: 10.3389/fncir.2020.00022] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2020] [Accepted: 04/14/2020] [Indexed: 01/27/2023] Open
Abstract
Linking neural circuitry to behavior by mapping active neurons in vivo is a challenge. Both genetically encoded calcium indicators (GECIs) and intermediate early genes (IEGs) have been used to pinpoint active neurons during a stimulus or behavior but have drawbacks such as limiting the movement of the organism, requiring a priori knowledge of the active region or having poor temporal resolution. Calcium-modulated photoactivatable ratiometric integrator (CaMPARI) was engineered to overcome these spatial-temporal challenges. CaMPARI is a photoconvertible protein that only converts from green to red fluorescence in the presence of high calcium concentration and 405 nm light. This allows the experimenter to precisely mark active neurons within defined temporal windows. The photoconversion can then be quantified by taking the ratio of the red fluorescence to the green. CaMPARI promises the ability to trace active neurons during a specific stimulus; however, CaMPARI's uses in adult Drosophila have been limited to photoconversion during fly immobilization. Here, we demonstrate a method that allows photoconversion of multiple freely-moving intact adult flies during a stimulus. Flies were placed in a dish with filter paper wet with acetic acid (pH = 2) or neutralized acetic acid (pH = 7) and exposed to photoconvertible light (60 mW) for 30 min (500 ms on, 200 ms off). Immediately following photoconversion, whole flies were fixed and imaged by confocal microscopy. The red:green ratio was quantified for the DC4 glomerulus, a bundle of neurons expressing Ir64a, an ionotropic receptor that senses acids in the Drosophila antennal lobe. Flies exposed to acetic acid showed 1.3-fold greater photoconversion than flies exposed to neutralized acetic acid. This finding was recapitulated using a more physiological stimulus of apple cider vinegar. These results indicate that CaMPARI can be used to label neurons in intact, freely-moving adult flies and will be useful for identifying the circuitry underlying complex behaviors.
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Affiliation(s)
- Katie A. Edwards
- Department of Molecular and Systems Biology, Geisel School of Medicine, Dartmouth College, Hanover, NH, United States
| | - Michael B. Hoppa
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
| | - Giovanni Bosco
- Department of Molecular and Systems Biology, Geisel School of Medicine, Dartmouth College, Hanover, NH, United States
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79
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Chen Y, Xiong B, Xue Y, Jin X, Greene J, Tian L. Design of a high-resolution light field miniscope for volumetric imaging in scattering tissue. BIOMEDICAL OPTICS EXPRESS 2020; 11:1662-1678. [PMID: 32206434 PMCID: PMC7075622 DOI: 10.1364/boe.384673] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Revised: 02/22/2020] [Accepted: 02/25/2020] [Indexed: 05/05/2023]
Abstract
Integrating light field microscopy techniques with existing miniscope architectures has allowed for volumetric imaging of targeted brain regions in freely moving animals. However, the current design of light field miniscopes is limited by non-uniform resolution and long imaging path length. In an effort to overcome these limitations, this paper proposes an optimized Galilean-mode light field miniscope (Gali-MiniLFM), which achieves a more consistent resolution and a significantly shorter imaging path than its conventional counterparts. In addition, this paper provides a novel framework that incorporates the anticipated aberrations of the proposed Gali-MiniLFM into the point spread function (PSF) modeling. This more accurate PSF model can then be used in 3D reconstruction algorithms to further improve the resolution of the platform. Volumetric imaging in the brain necessitates the consideration of the effects of scattering. We conduct Monte Carlo simulations to demonstrate the robustness of the proposed Gali-MiniLFM for volumetric imaging in scattering tissue.
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Affiliation(s)
- Yanqin Chen
- Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Bo Xiong
- Department of Automation, Tsinghua University, Beijing, 100084, China
| | - Yujia Xue
- Department of Electrical and Computer Engineering, Boston University, Boston, MA 02215, USA
| | - Xin Jin
- Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Joseph Greene
- Department of Electrical and Computer Engineering, Boston University, Boston, MA 02215, USA
| | - Lei Tian
- Department of Electrical and Computer Engineering, Boston University, Boston, MA 02215, USA
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