1
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Lorca-Cámara A, Blot FGC, Accanto N. Recent advances in light patterned optogenetic photostimulation in freely moving mice. NEUROPHOTONICS 2024; 11:S11508. [PMID: 38404422 PMCID: PMC10885521 DOI: 10.1117/1.nph.11.s1.s11508] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Revised: 01/24/2024] [Accepted: 01/30/2024] [Indexed: 02/27/2024]
Abstract
Optogenetics opened the door to a new era of neuroscience. New optical developments are under way to enable high-resolution neuronal activity imaging and selective photostimulation of neuronal ensembles in freely moving animals. These advancements could allow researchers to interrogate, with cellular precision, functionally relevant neuronal circuits in the framework of naturalistic brain activity. We provide an overview of the current state-of-the-art of imaging and photostimulation in freely moving rodents and present a road map for future optical and engineering developments toward miniaturized microscopes that could reach beyond the currently existing systems.
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Affiliation(s)
| | - François G C Blot
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, Paris, France
| | - Nicolò Accanto
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, Paris, France
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2
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Ding P, Wahn H, Chen FD, Li J, Mu X, Stalmashonak A, Luo X, Lo GQ, Poon JKS, Sacher WD. Photonic neural probe enabled microendoscopes for light-sheet light-field computational fluorescence brain imaging. NEUROPHOTONICS 2024; 11:S11503. [PMID: 38322247 PMCID: PMC10846542 DOI: 10.1117/1.nph.11.s1.s11503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 12/14/2023] [Accepted: 12/20/2023] [Indexed: 02/08/2024]
Abstract
Significance Light-sheet fluorescence microscopy is widely used for high-speed, high-contrast, volumetric imaging. Application of this technique to in vivo brain imaging in non-transparent organisms has been limited by the geometric constraints of conventional light-sheet microscopes, which require orthogonal fluorescence excitation and collection objectives. We have recently demonstrated implantable photonic neural probes that emit addressable light sheets at depth in brain tissue, miniaturizing the excitation optics. Here, we propose a microendoscope consisting of a light-sheet neural probe packaged together with miniaturized fluorescence collection optics based on an image fiber bundle for lensless, light-field, computational fluorescence imaging. Aim Foundry-fabricated, silicon-based, light-sheet neural probes can be packaged together with commercially available image fiber bundles to form microendoscopes for light-sheet light-field fluorescence imaging at depth in brain tissue. Approach Prototype microendoscopes were developed using light-sheet neural probes with five addressable sheets and image fiber bundles. Fluorescence imaging with the microendoscopes was tested with fluorescent beads suspended in agarose and fixed mouse brain tissue. Results Volumetric light-sheet light-field fluorescence imaging was demonstrated using the microendoscopes. Increased imaging depth and enhanced reconstruction accuracy were observed relative to epi-illumination light-field imaging using only a fiber bundle. Conclusions Our work offers a solution toward volumetric fluorescence imaging of brain tissue with a compact size and high contrast. The proof-of-concept demonstrations herein illustrate the operating principles and methods of the imaging approach, providing a foundation for future investigations of photonic neural probe enabled microendoscopes for deep-brain fluorescence imaging in vivo.
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Affiliation(s)
- Peisheng Ding
- Max Planck Institute of Microstructure Physics, Halle, Germany
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
| | - Hannes Wahn
- Max Planck Institute of Microstructure Physics, Halle, Germany
| | - Fu-Der Chen
- Max Planck Institute of Microstructure Physics, Halle, Germany
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, Ontario, Canada
| | - Jianfeng Li
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, Ontario, Canada
| | - Xin Mu
- Max Planck Institute of Microstructure Physics, Halle, Germany
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, Ontario, Canada
| | | | | | | | - Joyce K. S. Poon
- Max Planck Institute of Microstructure Physics, Halle, Germany
- University of Toronto, Department of Electrical and Computer Engineering, Toronto, Ontario, Canada
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, Ontario, Canada
| | - Wesley D. Sacher
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, Ontario, Canada
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3
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Xia F, Rimoli CV, Akemann W, Ventalon C, Bourdieu L, Gigan S, de Aguiar HB. Neurophotonics beyond the surface: unmasking the brain's complexity exploiting optical scattering. NEUROPHOTONICS 2024; 11:S11510. [PMID: 38617592 PMCID: PMC11014413 DOI: 10.1117/1.nph.11.s1.s11510] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/08/2023] [Revised: 03/07/2024] [Accepted: 03/14/2024] [Indexed: 04/16/2024]
Abstract
The intricate nature of the brain necessitates the application of advanced probing techniques to comprehensively study and understand its working mechanisms. Neurophotonics offers minimally invasive methods to probe the brain using optics at cellular and even molecular levels. However, multiple challenges persist, especially concerning imaging depth, field of view, speed, and biocompatibility. A major hindrance to solving these challenges in optics is the scattering nature of the brain. This perspective highlights the potential of complex media optics, a specialized area of study focused on light propagation in materials with intricate heterogeneous optical properties, in advancing and improving neuronal readouts for structural imaging and optical recordings of neuronal activity. Key strategies include wavefront shaping techniques and computational imaging and sensing techniques that exploit scattering properties for enhanced performance. We discuss the potential merger of the two fields as well as potential challenges and perspectives toward longer term in vivo applications.
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Affiliation(s)
- Fei Xia
- Sorbonne Université, Collège de France, Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Paris, France
| | - Caio Vaz Rimoli
- Sorbonne Université, Collège de France, Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Paris, France
- Université PSL, Institut de Biologie de l’ENS, École Normale Supérieure, CNRS, INSERM, Paris, France
| | - Walther Akemann
- Université PSL, Institut de Biologie de l’ENS, École Normale Supérieure, CNRS, INSERM, Paris, France
| | - Cathie Ventalon
- Université PSL, Institut de Biologie de l’ENS, École Normale Supérieure, CNRS, INSERM, Paris, France
| | - Laurent Bourdieu
- Université PSL, Institut de Biologie de l’ENS, École Normale Supérieure, CNRS, INSERM, Paris, France
| | - Sylvain Gigan
- Sorbonne Université, Collège de France, Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Paris, France
| | - Hilton B. de Aguiar
- Sorbonne Université, Collège de France, Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Paris, France
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4
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Casanova JP, Pouget C, Treiber N, Agarwal I, Brimble MA, Vetere G. Threat-dependent scaling of prelimbic dynamics to enhance fear representation. Neuron 2024; 112:2304-2314.e6. [PMID: 38772375 DOI: 10.1016/j.neuron.2024.04.029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 03/01/2024] [Accepted: 04/24/2024] [Indexed: 05/23/2024]
Abstract
Promptly identifying threatening stimuli is crucial for survival. Freezing is a natural behavior displayed by rodents toward potential or actual threats. Although it is known that the prelimbic cortex (PL) is involved in both risk evaluation and in fear and anxiety-like behavior expression, here we explored whether PL neuronal activity can dynamically represent different internal states of the same behavioral output (i.e., freezing). We found that freezing can always be decoded from PL activity at a population level. However, the sudden presentation of a fearful stimulus quickly reshaped the PL to a new neuronal activity state, an effect not observed in other cortical or subcortical regions examined. This shift changed PL freezing representation and is necessary for fear memory expression. Our data reveal the unique role of the PL in detecting threats and internally adjusting to distinguish between different freezing-related states in both unconditioned and conditioned fear representations.
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Affiliation(s)
- José Patricio Casanova
- Cerebral Codes and Circuits Connectivity team, Brain Plasticity Unit, CNRS, ESPCI Paris, PSL Research University, 10 rue Vauquelin, 75005 Paris, France
| | - Clément Pouget
- Cerebral Codes and Circuits Connectivity team, Brain Plasticity Unit, CNRS, ESPCI Paris, PSL Research University, 10 rue Vauquelin, 75005 Paris, France
| | - Nadja Treiber
- Cerebral Codes and Circuits Connectivity team, Brain Plasticity Unit, CNRS, ESPCI Paris, PSL Research University, 10 rue Vauquelin, 75005 Paris, France
| | - Ishaant Agarwal
- Cerebral Codes and Circuits Connectivity team, Brain Plasticity Unit, CNRS, ESPCI Paris, PSL Research University, 10 rue Vauquelin, 75005 Paris, France
| | - Mark Allen Brimble
- Department of Immunology, St. Jude Children's Research Hospital, Memphis, TN 38105, USA
| | - Gisella Vetere
- Cerebral Codes and Circuits Connectivity team, Brain Plasticity Unit, CNRS, ESPCI Paris, PSL Research University, 10 rue Vauquelin, 75005 Paris, France.
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5
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Liao Y, Qin C, Zhang X, Ye J, Xu Z, Zong H, Hu N, Zhang D. A dual-mode, image-enhanced, miniaturized microscopy system for incubator-compatible monitoring of live cells. Talanta 2024; 278:126537. [PMID: 38996561 DOI: 10.1016/j.talanta.2024.126537] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2024] [Revised: 06/26/2024] [Accepted: 07/08/2024] [Indexed: 07/14/2024]
Abstract
Imaging live cells under stable culture conditions is essential to investigate cell physiological activities and proliferation. To achieve this goal, typically, a specialized incubation chamber that creates desired culture conditions needs to be incorporated into a microscopy system to perform cell monitoring. However, such imaging systems are generally large and costly, hampering their wide applications. Recent advances in the field of miniaturized microscopy systems have enabled incubator cell monitoring, providing a hospitable environment for live cells. Although these systems are more cost-effective, they are usually limited in imaging modalities and spatial temporal resolution. Here, we present a dual-mode, image-enhanced, miniaturized microscopy system (termed MiniCube) for direct monitoring of live cells inside incubators. MiniCube enables both bright field imaging and fluorescence imaging with single-cell spatial resolution and sub-second temporal resolution. Moreover, this system can also perform cell monitoring inside the incubator with tunable time scales ranging from a few seconds to days. Meanwhile, automatic cell segmentation and image enhancement are realized by the proposed data analysis pipeline of this system, and the signal-to-noise ratio (SNR) of acquired data is significantly improved using a deep learning based image denoising algorithm. Image data can be acquired with 5 times lower light exposure while maintaining comparable SNR. The versatility of this miniaturized microscopy system lends itself to various applications in biology studies, providing a practical platform and method for studying live cell dynamics within the incubator.
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Affiliation(s)
- Yuheng Liao
- Research Center for Novel Computing Sensing and Intelligent Processing, Zhejiang Laboratory, Hangzhou, 311121, China
| | - Chunlian Qin
- Department of Chemistry, Zhejiang-Israel Joint Laboratory of Self-Assembling Functional Materials, ZJU-Hangzhou Global Scientific and Technological Innovation Center, Zhejiang University, Hangzhou, 310058, China; General Surgery Department, Children's Hospital, Zhejiang University School of Medicine, National Clinical Research Center for Children's Health, Hangzhou, 310052, China
| | - Xiaoyu Zhang
- Research Center for Novel Computing Sensing and Intelligent Processing, Zhejiang Laboratory, Hangzhou, 311121, China
| | - Jing Ye
- Research Center for Novel Computing Sensing and Intelligent Processing, Zhejiang Laboratory, Hangzhou, 311121, China
| | - Zhongyuan Xu
- Research Center for Novel Computing Sensing and Intelligent Processing, Zhejiang Laboratory, Hangzhou, 311121, China
| | - Haotian Zong
- Research Center for Novel Computing Sensing and Intelligent Processing, Zhejiang Laboratory, Hangzhou, 311121, China
| | - Ning Hu
- Department of Chemistry, Zhejiang-Israel Joint Laboratory of Self-Assembling Functional Materials, ZJU-Hangzhou Global Scientific and Technological Innovation Center, Zhejiang University, Hangzhou, 310058, China; General Surgery Department, Children's Hospital, Zhejiang University School of Medicine, National Clinical Research Center for Children's Health, Hangzhou, 310052, China.
| | - Diming Zhang
- Research Center for Novel Computing Sensing and Intelligent Processing, Zhejiang Laboratory, Hangzhou, 311121, China.
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Simoes de Souza FM, Williamson R, McCullough C, Teel A, Futia G, Ma M, True A, Crimaldi JP, Gibson E, Restrepo D. Miniscope Recording Calcium Signals at Hippocampus of Mice Navigating an Odor Plume. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.06.12.598681. [PMID: 38915584 PMCID: PMC11195275 DOI: 10.1101/2024.06.12.598681] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/26/2024]
Abstract
Mice navigate an odor plume with a complex spatiotemporal structure in the dark to find the source of odorants. This article describes a protocol to monitor behavior and record Ca 2+ transients in dorsal CA1 stratum pyramidale neurons in hippocampus (dCA1) in mice navigating an odor plume in a 50 cm x 50 cm x 25 cm odor arena. An epifluorescence miniscope focused through a GRIN lens imaged Ca 2+ transients in dCA1 neurons expressing the calcium sensor GCaMP6f in Thy1-GCaMP6f mice. The paper describes the behavioral protocol to train the mice to perform this odor plume navigation task in an automated odor arena. The methods include a step-by-step procedure for the surgery for GRIN lens implantation and baseplate placement for imaging GCaMP6f in CA1. The article provides information on real-time tracking of the mouse position to automate the start of the trials and delivery of a sugar water reward. In addition, the protocol includes information on using of an interface board to synchronize metadata describing the automation of the odor navigation task and frame times for the miniscope and a digital camera tracking mouse position. Moreover, the methods delineate the pipeline used to process GCaMP6f fluorescence movies by motion correction using NorMCorre followed by identification of regions of interest with EXTRACT. Finally, the paper describes an artificial neural network approach to decode spatial paths from CA1 neural ensemble activity to predict mouse navigation of the odor plume. SUMMARY This protocol describes how to investigate the brain-behavior relationship in hippocampal CA1 in mice navigating an odor plume. This article provides a step-by-step protocol, including the surgery to access imaging of the hippocampus, behavioral training, miniscope GCaMP6f recording and processing of the brain and behavioral data to decode the mouse position from ROI neural activity.
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7
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Dong Z, Feng Y, Diego K, Baggetta AM, Sweis BM, Pennington ZT, Lamsifer SI, Zaki Y, Sangiuliano F, Philipsberg PA, Morales-Rodriguez D, Kircher D, Slesinger P, Shuman T, Aharoni D, Cai DJ. Simultaneous dual-color calcium imaging in freely-behaving mice. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.07.03.601770. [PMID: 39005306 PMCID: PMC11244962 DOI: 10.1101/2024.07.03.601770] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/16/2024]
Abstract
Miniaturized fluorescence microscopes (miniscopes) enable imaging of calcium events from a large population of neurons in freely behaving animals. Traditionally, miniscopes have only been able to record from a single fluorescence wavelength. Here, we present a new open-source dual-channel Miniscope that simultaneously records two wavelengths in freely behaving animals. To enable simultaneous acquisition of two fluorescent wavelengths, we incorporated two CMOS sensors into a single Miniscope. To validate our dual-channel Miniscope, we imaged hippocampal CA1 region that co-expressed a dynamic calcium indicator (GCaMP) and a static nuclear signal (tdTomato) while mice ran on a linear track. Our results suggest that, even when neurons were registered across days using tdTomato signals, hippocampal spatial coding changes over time. In conclusion, our novel dual-channel Miniscope enables imaging of two fluorescence wavelengths with minimal crosstalk between the two channels, opening the doors to a multitude of new experimental possibilities. Teaser Novel open-source dual-channel Miniscope that simultaneously records two wavelengths with minimal crosstalk in freely behaving animals.
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8
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Zhang Y, Yuan L, Zhu Q, Wu J, Nöbauer T, Zhang R, Xiao G, Wang M, Xie H, Guo Z, Dai Q, Vaziri A. A miniaturized mesoscope for the large-scale single-neuron-resolved imaging of neuronal activity in freely behaving mice. Nat Biomed Eng 2024; 8:754-774. [PMID: 38902522 DOI: 10.1038/s41551-024-01226-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2023] [Accepted: 04/03/2024] [Indexed: 06/22/2024]
Abstract
Exploring the relationship between neuronal dynamics and ethologically relevant behaviour involves recording neuronal-population activity using technologies that are compatible with unrestricted animal behaviour. However, head-mounted microscopes that accommodate weight limits to allow for free animal behaviour typically compromise field of view, resolution or depth range, and are susceptible to movement-induced artefacts. Here we report a miniaturized head-mounted fluorescent mesoscope that we systematically optimized for calcium imaging at single-neuron resolution, for increased fields of view and depth of field, and for robustness against motion-generated artefacts. Weighing less than 2.5 g, the mesoscope enabled recordings of neuronal-population activity at up to 16 Hz, with 4 μm resolution over 300 μm depth-of-field across a field of view of 3.6 × 3.6 mm2 in the cortex of freely moving mice. We used the mesoscope to record large-scale neuronal-population activity in socially interacting mice during free exploration and during fear-conditioning experiments, and to investigate neurovascular coupling across multiple cortical regions.
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Affiliation(s)
- Yuanlong Zhang
- Department of Automation, Tsinghua University, Beijing, China
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
| | - Lekang Yuan
- Tsinghua-Berkeley Shenzhen Institute, Tsinghua University, Shenzhen, China
| | - Qiyu Zhu
- School of Medicine, Tsinghua University, Beijing, China
- Tsinghua-Peking Joint Center for Life Sciences, Beijing, China
- IDG/McGovern Institute for Brain Research, Tsinghua University, Beijing, China
| | - Jiamin Wu
- Department of Automation, Tsinghua University, Beijing, China
| | - Tobias Nöbauer
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
| | - Rujin Zhang
- Department of Anesthesiology, the First Medical Center, Chinese PLA General Hospital, Beijing, China
| | - Guihua Xiao
- Department of Automation, Tsinghua University, Beijing, China
| | - Mingrui Wang
- Tsinghua-Berkeley Shenzhen Institute, Tsinghua University, Shenzhen, China
| | - Hao Xie
- Department of Automation, Tsinghua University, Beijing, China
| | - Zengcai Guo
- School of Medicine, Tsinghua University, Beijing, China
- Tsinghua-Peking Joint Center for Life Sciences, Beijing, China
- IDG/McGovern Institute for Brain Research, Tsinghua University, Beijing, China
| | - Qionghai Dai
- Department of Automation, Tsinghua University, Beijing, China.
- IDG/McGovern Institute for Brain Research, Tsinghua University, Beijing, China.
| | - Alipasha Vaziri
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA.
- The Kavli Neural Systems Institute, The Rockefeller University, New York, NY, USA.
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Celinskis D, Black CJ, Murphy J, Barrios-Anderson A, Friedman NG, Shaner NC, Saab CY, Gomez-Ramirez M, Borton DA, Moore CI. Toward a brighter constellation: multiorgan neuroimaging of neural and vascular dynamics in the spinal cord and brain. NEUROPHOTONICS 2024; 11:024209. [PMID: 38725801 PMCID: PMC11079446 DOI: 10.1117/1.nph.11.2.024209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Revised: 03/18/2024] [Accepted: 03/19/2024] [Indexed: 05/12/2024]
Abstract
Significance Pain comprises a complex interaction between motor action and somatosensation that is dependent on dynamic interactions between the brain and spinal cord. This makes understanding pain particularly challenging as it involves rich interactions between many circuits (e.g., neural and vascular) and signaling cascades throughout the body. As such, experimentation on a single region may lead to an incomplete and potentially incorrect understanding of crucial underlying mechanisms. Aim We aimed to develop and validate tools to enable detailed and extended observation of neural and vascular activity in the brain and spinal cord. The first key set of innovations was targeted to developing novel imaging hardware that addresses the many challenges of multisite imaging. The second key set of innovations was targeted to enabling bioluminescent (BL) imaging, as this approach can address limitations of fluorescent microscopy including photobleaching, phototoxicity, and decreased resolution due to scattering of excitation signals. Approach We designed 3D-printed brain and spinal cord implants to enable effective surgical implantations and optical access with wearable miniscopes or an open window (e.g., for one- or two-photon microscopy or optogenetic stimulation). We also tested the viability for BL imaging and developed a novel modified miniscope optimized for these signals (BLmini). Results We describe "universal" implants for acute and chronic simultaneous brain-spinal cord imaging and optical stimulation. We further describe successful imaging of BL signals in both foci and a new miniscope, the "BLmini," which has reduced weight, cost, and form-factor relative to standard wearable miniscopes. Conclusions The combination of 3D-printed implants, advanced imaging tools, and bioluminescence imaging techniques offers a coalition of methods for understanding spinal cord-brain interactions. Our work has the potential for use in future research into neuropathic pain and other sensory disorders and motor behavior.
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Affiliation(s)
- Dmitrijs Celinskis
- Carney Institute for Brain Science, Providence, Rhode Island, United States
| | | | - Jeremy Murphy
- Carney Institute for Brain Science, Providence, Rhode Island, United States
| | | | - Nina G. Friedman
- Carney Institute for Brain Science, Providence, Rhode Island, United States
| | - Nathan C. Shaner
- University of California San Diego, School of Medicine, La Jolla, California, United States
| | - Carl Y. Saab
- Cleveland Clinic Lerner Research Institute, Neurological Institute, Department of Biomedical Engineering, Cleveland, Ohio, United States
| | - Manuel Gomez-Ramirez
- University of Rochester, School of Arts and Sciences, Rochester, New York, United States
| | - David A. Borton
- Carney Institute for Brain Science, Providence, Rhode Island, United States
- Brown University, School of Engineering, Providence, Rhode Island, United States
- Center for Neurorestoration and Neurotechnology, Providence VA Medical Center, Providence, Rhode Island, United States
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10
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Porta-de-la-Riva M, Morales-Curiel LF, Carolina Gonzalez A, Krieg M. Bioluminescence as a functional tool for visualizing and controlling neuronal activity in vivo. NEUROPHOTONICS 2024; 11:024203. [PMID: 38348359 PMCID: PMC10861157 DOI: 10.1117/1.nph.11.2.024203] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/03/2023] [Revised: 01/18/2024] [Accepted: 01/19/2024] [Indexed: 02/15/2024]
Abstract
The use of bioluminescence as a reporter for physiology in neuroscience is as old as the discovery of the calcium-dependent photon emission of aequorin. Over the years, luciferases have been largely replaced by fluorescent reporters, but recently, the field has seen a renaissance of bioluminescent probes, catalyzed by unique developments in imaging technology, bioengineering, and biochemistry to produce luciferases with previously unseen colors and intensity. This is not surprising as the advantages of bioluminescence make luciferases very attractive for noninvasive, longitudinal in vivo observations without the need of an excitation light source. Here, we review how the development of dedicated and specific sensor-luciferases afforded, among others, transcranial imaging of calcium and neurotransmitters, or cellular metabolites and physical quantities such as forces and membrane voltage. Further, the increased versatility and light output of luciferases have paved the way for a new field of functional bioluminescence optogenetics, in which the photon emission of the luciferase is coupled to the gating of a photosensor, e.g., a channelrhodopsin and we review how they have been successfully used to engineer synthetic neuronal connections. Finally, we provide a primer to consider important factors in setting up functional bioluminescence experiments, with a particular focus on the genetic model Caenorhabditis elegans, and discuss the leading challenges that the field needs to overcome to regain a competitive advantage over fluorescence modalities. Together, our paper caters to experienced users of bioluminescence as well as novices who would like to experience the advantages of luciferases in their own hand.
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Affiliation(s)
- Montserrat Porta-de-la-Riva
- ICFO—Institut de Ciències Fotòniques, The Barcelona Institute of Science and Technology, Castelldefels, Barcelona, Spain
| | - Luis-Felipe Morales-Curiel
- ICFO—Institut de Ciències Fotòniques, The Barcelona Institute of Science and Technology, Castelldefels, Barcelona, Spain
| | - Adriana Carolina Gonzalez
- ICFO—Institut de Ciències Fotòniques, The Barcelona Institute of Science and Technology, Castelldefels, Barcelona, Spain
| | - Michael Krieg
- ICFO—Institut de Ciències Fotòniques, The Barcelona Institute of Science and Technology, Castelldefels, Barcelona, Spain
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11
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Xia F, Rimoli CV, Akemann W, Ventalon C, Bourdieu L, Gigan S, de Aguiar HB. Neurophotonics beyond the Surface: Unmasking the Brain's Complexity Exploiting Optical Scattering. ARXIV 2024:arXiv:2403.14809v1. [PMID: 38562443 PMCID: PMC10984001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Indexed: 04/04/2024]
Abstract
The intricate nature of the brain necessitates the application of advanced probing techniques to comprehensively study and understand its working mechanisms. Neurophotonics offers minimally invasive methods to probe the brain using optics at cellular and even molecular levels. However, multiple challenges persist, especially concerning imaging depth, field of view, speed, and biocompatibility. A major hindrance to solving these challenges in optics is the scattering nature of the brain. This perspective highlights the potential of complex media optics, a specialized area of study focused on light propagation in materials with intricate heterogeneous optical properties, in advancing and improving neuronal readouts for structural imaging and optical recordings of neuronal activity. Key strategies include wavefront shaping techniques and computational imaging and sensing techniques that exploit scattering properties for enhanced performance. We discuss the potential merger of the two fields as well as potential challenges and perspectives toward longer term in vivo applications.
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Affiliation(s)
- Fei Xia
- Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Sorbonne Université, Collège de France, 24 rue Lhomond, 75005 Paris, France
| | - Caio Vaz Rimoli
- Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Sorbonne Université, Collège de France, 24 rue Lhomond, 75005 Paris, France
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Walther Akemann
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Cathie Ventalon
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Laurent Bourdieu
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Sylvain Gigan
- Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Sorbonne Université, Collège de France, 24 rue Lhomond, 75005 Paris, France
| | - Hilton B de Aguiar
- Laboratoire Kastler Brossel, ENS-Université PSL, CNRS, Sorbonne Université, Collège de France, 24 rue Lhomond, 75005 Paris, France
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Reis FMCV, Maesta-Pereira S, Ollivier M, Schuette PJ, Sethi E, Miranda BA, Iniguez E, Chakerian M, Vaughn E, Sehgal M, Nguyen DCT, Yuan FTH, Torossian A, Ikebara JM, Kihara AH, Silva AJ, Kao JC, Khakh BS, Adhikari A. Control of feeding by a bottom-up midbrain-subthalamic pathway. Nat Commun 2024; 15:2111. [PMID: 38454000 PMCID: PMC10920831 DOI: 10.1038/s41467-024-46430-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2022] [Accepted: 02/26/2024] [Indexed: 03/09/2024] Open
Abstract
Investigative exploration and foraging leading to food consumption have vital importance, but are not well-understood. Since GABAergic inputs to the lateral and ventrolateral periaqueductal gray (l/vlPAG) control such behaviors, we dissected the role of vgat-expressing GABAergic l/vlPAG cells in exploration, foraging and hunting. Here, we show that in mice vgat l/vlPAG cells encode approach to food and consumption of both live prey and non-prey foods. The activity of these cells is necessary and sufficient for inducing food-seeking leading to subsequent consumption. Activation of vgat l/vlPAG cells produces exploratory foraging and compulsive eating without altering defensive behaviors. Moreover, l/vlPAG vgat cells are bidirectionally interconnected to several feeding, exploration and investigation nodes, including the zona incerta. Remarkably, the vgat l/vlPAG projection to the zona incerta bidirectionally controls approach towards food leading to consumption. These data indicate the PAG is not only a final downstream target of top-down exploration and foraging-related inputs, but that it also influences these behaviors through a bottom-up pathway.
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Affiliation(s)
- Fernando M C V Reis
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
| | - Sandra Maesta-Pereira
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Matthias Ollivier
- Department of Physiology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Peter J Schuette
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Ekayana Sethi
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Blake A Miranda
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Emily Iniguez
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Meghmik Chakerian
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Eric Vaughn
- Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA, 02138, USA
| | - Megha Sehgal
- Department of Neurobiology, University of California, Los Angeles, Los Angeles, USA
| | - Darren C T Nguyen
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Faith T H Yuan
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Anita Torossian
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Juliane M Ikebara
- Centro de Matemática, Computação e Cognição, Universidade Federal do ABC, São Bernardo do Campo, SP, 09606-070, Brazil
| | - Alexandre H Kihara
- Centro de Matemática, Computação e Cognição, Universidade Federal do ABC, São Bernardo do Campo, SP, 09606-070, Brazil
| | - Alcino J Silva
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
- Department of Neurobiology, University of California, Los Angeles, Los Angeles, USA
- Department of Psychiatry & Biobehavioral Sciences, University of California, Los Angeles, Los Angeles, USA
| | - Jonathan C Kao
- Department of Electrical and Computer Engineering, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Baljit S Khakh
- Department of Physiology, University of California, Los Angeles, Los Angeles, CA, 90095, USA
| | - Avishek Adhikari
- Department of Psychology, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
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13
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Tabourin L, Bretzner F, Galstian T. Towards a mini-endoscope design with spatially selective excitation and imaging. BIOMEDICAL OPTICS EXPRESS 2024; 15:1750-1760. [PMID: 38495724 PMCID: PMC10942686 DOI: 10.1364/boe.512124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Revised: 02/06/2024] [Accepted: 02/06/2024] [Indexed: 03/19/2024]
Abstract
We describe a mini-endoscope design that uses a new type of electrically tunable liquid crystal lens array enabling the dynamic increase of spatial resolution by adjusting the working distance in various zones of interest over a relatively large field of view (FoV) without mechanical movement. The characterization of the system is performed by using uniform fluorescent films, fluorescent micro spheres and a tissue sample expressing the fluorescent calcium indicator GCaMP6s. Lateral resolution of up to 2 µm over the FoV between 300 µm - 400 µm is experimentally demonstrated.
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Affiliation(s)
- Loïc Tabourin
- Center for Optics, Photonics and Lasers (COPL), Faculty of Science and Engineering, Department of Physics, Engineering Physics and Optics, Université Laval, Québec, QC G1V 0A6, Canada
- Centre de Recherche du CHU de Québec, CHUL-Neurosciences, 2705 Boul. Laurier, Québec, QC G1V 4G2, Canada
| | - Frédéric Bretzner
- Centre de Recherche du CHU de Québec, CHUL-Neurosciences, 2705 Boul. Laurier, Québec, QC G1V 4G2, Canada
- Faculty of Medicine, Department of Psychiatry and Neurosciences, Université Laval, Québec, QC G1V 0A6, Canada
| | - Tigran Galstian
- Center for Optics, Photonics and Lasers (COPL), Faculty of Science and Engineering, Department of Physics, Engineering Physics and Optics, Université Laval, Québec, QC G1V 0A6, Canada
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14
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Zhu X, Gu L, Li R, Chen L, Chen J, Zhou N, Ren W. MiniMounter: A low-cost miniaturized microscopy development toolkit for image quality control and enhancement. JOURNAL OF BIOPHOTONICS 2024; 17:e202300214. [PMID: 37877307 DOI: 10.1002/jbio.202300214] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2023] [Revised: 08/15/2023] [Accepted: 10/19/2023] [Indexed: 10/26/2023]
Abstract
Head-mounted miniaturized fluorescence microscopy (Miniscope) has emerged as a significant tool in neuroscience, particularly for behavioral studies in awake rodents. However, the challenges of image quality control and standardization persist for both Miniscope users and developers. In this study, we propose a cost-effective and comprehensive toolkit named MiniMounter. This toolkit comprises a hardware platform that offers customized grippers and four-degree-of-freedom adjustment for Miniscope, along with software that integrates displacement control, image quality evaluation, and enhancement of 3D visualization. Our toolkit makes it feasible to accurately characterize Miniscope. Furthermore, MiniMounter enables auto-focusing and 3D imaging for Miniscope prototypes that possess solely a 2D imaging function, as demonstrated in phantom and animal experiments. Overall, the implementation of MiniMounter effectively enhances image quality, reduces the time required for experimental operations and image evaluation, and consequently accelerates the development and research cycle for both users and developers within the Miniscope community.
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Affiliation(s)
- Xinyi Zhu
- School of Information Science and Technology, ShanghaiTech University, Shanghai, China
| | - Liangtao Gu
- School of Information Science and Technology, ShanghaiTech University, Shanghai, China
| | - Rui Li
- iHuman Institute, ShanghaiTech University, Shanghai, China
- School of Life Science and Technology, ShanghaiTech University, Shanghai, China
| | - Liang Chen
- School of Information Science and Technology, ShanghaiTech University, Shanghai, China
| | - Jingying Chen
- School of Information Science and Technology, ShanghaiTech University, Shanghai, China
| | - Ning Zhou
- iHuman Institute, ShanghaiTech University, Shanghai, China
| | - Wuwei Ren
- School of Information Science and Technology, ShanghaiTech University, Shanghai, China
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15
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Xue F, Li F, Zhang KM, Ding L, Wang Y, Zhao X, Xu F, Zhang D, Sun M, Lau PM, Zhu Q, Zhou P, Bi GQ. Multi-region calcium imaging in freely behaving mice with ultra-compact head-mounted fluorescence microscopes. Natl Sci Rev 2024; 11:nwad294. [PMID: 38288367 PMCID: PMC10824555 DOI: 10.1093/nsr/nwad294] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2023] [Revised: 09/26/2023] [Accepted: 11/23/2023] [Indexed: 01/31/2024] Open
Abstract
To investigate the circuit-level neural mechanisms of behavior, simultaneous imaging of neuronal activity in multiple cortical and subcortical regions is highly desired. Miniature head-mounted microscopes offer the capability of calcium imaging in freely behaving animals. However, implanting multiple microscopes on a mouse brain remains challenging due to space constraints and the cumbersome weight of the equipment. Here, we present TINIscope, a Tightly Integrated Neuronal Imaging microscope optimized for electronic and opto-mechanical design. With its compact and lightweight design of 0.43 g, TINIscope enables unprecedented simultaneous imaging of behavior-relevant activity in up to four brain regions in mice. Proof-of-concept experiments with TINIscope recorded over 1000 neurons in four hippocampal subregions and revealed concurrent activity patterns spanning across these regions. Moreover, we explored potential multi-modal experimental designs by integrating additional modules for optogenetics, electrical stimulation or local field potential recordings. Overall, TINIscope represents a timely and indispensable tool for studying the brain-wide interregional coordination that underlies unrestrained behaviors.
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Affiliation(s)
- Feng Xue
- Department of Precision Machinery and Precision Instruments, University of Science and Technology of China, Hefei 230026, China
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei 230026, China
| | - Fei Li
- Interdisciplinary Center for Brain Information, the Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- Faculty of Life and Health Sciences, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Ke-ming Zhang
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei 230026, China
- School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
| | - Lufeng Ding
- Interdisciplinary Center for Brain Information, the Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
| | - Yang Wang
- Institute of Semiconductors, Chinese Academy of Sciences, Beijing 100083, China
| | - Xingtao Zhao
- Department of Modern Life Sciences and Biotecnology, Xiongan Institute of Innovation, Xiongan New Area, Xiongan 071899, China
| | - Fang Xu
- Interdisciplinary Center for Brain Information, the Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- Faculty of Life and Health Sciences, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- Shenzhen-Hong Kong Institute of Brain Science-Shenzhen Fundamental Research Institutions, Shenzhen 518055, China
| | - Danke Zhang
- Interdisciplinary Center for Brain Information, the Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Mingzhai Sun
- Suzhou Institute for Advanced Research, University of Science and Technology of China, Suzhou 215123, China
| | - Pak-Ming Lau
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei 230026, China
- Interdisciplinary Center for Brain Information, the Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
- Shenzhen-Hong Kong Institute of Brain Science-Shenzhen Fundamental Research Institutions, Shenzhen 518055, China
- Institute of Artificial Intelligence, Hefei Comprehensive National Science Center, Hefei 230088, China
| | - Qingyuan Zhu
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei 230026, China
| | - Pengcheng Zhou
- Interdisciplinary Center for Brain Information, the Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- Faculty of Life and Health Sciences, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Guo-Qiang Bi
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei 230026, China
- Interdisciplinary Center for Brain Information, the Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
- School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
- Shenzhen-Hong Kong Institute of Brain Science-Shenzhen Fundamental Research Institutions, Shenzhen 518055, China
- Institute of Artificial Intelligence, Hefei Comprehensive National Science Center, Hefei 230088, China
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16
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Celinskis D, Black CJ, Murphy J, Barrios-Anderson A, Friedman N, Shaner NC, Saab C, Gomez-Ramirez M, Lipscombe D, Borton DA, Moore CI. Towards a Brighter Constellation: Multi-Organ Neuroimaging of Neural and Vascular Dynamics in the Spinal Cord and Brain. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.12.25.573323. [PMID: 38234789 PMCID: PMC10793404 DOI: 10.1101/2023.12.25.573323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2024]
Abstract
Significance Pain is comprised of a complex interaction between motor action and somatosensation that is dependent on dynamic interactions between the brain and spinal cord. This makes understanding pain particularly challenging as it involves rich interactions between many circuits (e.g., neural and vascular) and signaling cascades throughout the body. As such, experimentation on a single region may lead to an incomplete and potentially incorrect understanding of crucial underlying mechanisms. Aim Here, we aimed to develop and validate new tools to enable detailed and extended observation of neural and vascular activity in the brain and spinal cord. The first key set of innovations were targeted to developing novel imaging hardware that addresses the many challenges of multi-site imaging. The second key set of innovations were targeted to enabling bioluminescent imaging, as this approach can address limitations of fluorescent microscopy including photobleaching, phototoxicity and decreased resolution due to scattering of excitation signals. Approach We designed 3D-printed brain and spinal cord implants to enable effective surgical implantations and optical access with wearable miniscopes or an open window (e.g., for one- or two-photon microscopy or optogenetic stimulation). We also tested the viability for bioluminescent imaging, and developed a novel modified miniscope optimized for these signals (BLmini). Results Here, we describe novel 'universal' implants for acute and chronic simultaneous brain-spinal cord imaging and optical stimulation. We further describe successful imaging of bioluminescent signals in both foci, and a new miniscope, the 'BLmini,' which has reduced weight, cost and form-factor relative to standard wearable miniscopes. Conclusions The combination of 3D printed implants, advanced imaging tools, and bioluminescence imaging techniques offers a new coalition of methods for understanding spinal cord-brain interactions. This work has the potential for use in future research into neuropathic pain and other sensory disorders and motor behavior.
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Affiliation(s)
| | | | - Jeremy Murphy
- Carney Institute for Brain Science, Providence, RI, USA
| | | | - Nina Friedman
- Carney Institute for Brain Science, Providence, RI, USA
| | - Nathan C. Shaner
- University of California San Diego School of Medicine, La Jolla, CA, USA
| | - Carl Saab
- Cleveland Clinic Lerner Research Institute, Department of Biomedical Engineering and Neurological Institute, Cleveland, OH, USA
| | | | | | - David A. Borton
- Carney Institute for Brain Science, Providence, RI, USA
- School of Engineering, Brown University, RI, USA
- Center for Neurorestoration and Neurotechnology, Providence VA Medical Center, RI, USA
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17
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Phillips ML, Urban NT, Salemi T, Dong Z, Yasuda R. Functional imaging of nine distinct neuronal populations under a miniscope in freely behaving animals. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.12.13.571122. [PMID: 38168225 PMCID: PMC10760119 DOI: 10.1101/2023.12.13.571122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2024]
Abstract
Head-mounted miniscopes have allowed for functional fluorescence imaging in freely moving animals. However, current capabilities of state-of-the-art technology can record only up to two, spectrally distinct fluorophores. This severely limits the number of cell types identifiable in a functional imaging experiment. Here we present a pipeline that enables the distinction of nine neuronal subtypes from regions defined by behaviorally relevant cells during in vivo GCaMP imaging. These subtypes are identified utilizing unique fluorophores that are co-expressed with GCaMP, unmixed by spectral imaging on a confocal microscope and co-registering these spectral fingerprints with functional data obtained on miniaturized microscopes. This method facilitates detailed analyses of circuit-level encoding of behavior.
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Affiliation(s)
- Mary L. Phillips
- Max Planck Florida Institute for Neuroscience, Jupiter, FL
- ZEISS Research Microscopy Solutions, White Plains, NY
| | | | - Taddeo Salemi
- Max Planck Florida Institute for Neuroscience, Jupiter, FL
| | | | - Ryohei Yasuda
- Max Planck Florida Institute for Neuroscience, Jupiter, FL
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18
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Zhou ZC, Gordon-Fennell A, Piantadosi SC, Ji N, Smith SL, Bruchas MR, Stuber GD. Deep-brain optical recording of neural dynamics during behavior. Neuron 2023; 111:3716-3738. [PMID: 37804833 PMCID: PMC10843303 DOI: 10.1016/j.neuron.2023.09.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2023] [Revised: 08/24/2023] [Accepted: 09/06/2023] [Indexed: 10/09/2023]
Abstract
In vivo fluorescence recording techniques have produced landmark discoveries in neuroscience, providing insight into how single cell and circuit-level computations mediate sensory processing and generate complex behaviors. While much attention has been given to recording from cortical brain regions, deep-brain fluorescence recording is more complex because it requires additional measures to gain optical access to harder to reach brain nuclei. Here we discuss detailed considerations and tradeoffs regarding deep-brain fluorescence recording techniques and provide a comprehensive guide for all major steps involved, from project planning to data analysis. The goal is to impart guidance for new and experienced investigators seeking to use in vivo deep fluorescence optical recordings in awake, behaving rodent models.
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Affiliation(s)
- Zhe Charles Zhou
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA
| | - Adam Gordon-Fennell
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA
| | - Sean C Piantadosi
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA
| | - Na Ji
- Department of Physics, University of California, Berkeley, Berkeley, CA 94720, USA; Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Helen Wills Neuroscience Institute, University of California, Berkeley, Berkeley, CA 94720, USA; Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Spencer LaVere Smith
- Department of Electrical and Computer Engineering, University of California Santa Barbara, Santa Barbara, CA 93106, USA
| | - Michael R Bruchas
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA; Department of Pharmacology, University of Washington, Seattle, WA 98195, USA; Department of Bioengineering, University of Washington, Seattle, WA 98195, USA.
| | - Garret D Stuber
- Department of Anesthesiology and Pain Medicine, University of Washington, Seattle, WA 98195, USA; Center for Neurobiology of Addiction, Pain, and Emotion, University of Washington, Seattle, WA 98195, USA; Department of Pharmacology, University of Washington, Seattle, WA 98195, USA.
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19
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Shekhtmeyster P, Duarte D, Carey EM, Ngo A, Gao G, Olmstead JA, Nelson NA, Nimmerjahn A. Trans-segmental imaging in the spinal cord of behaving mice. Nat Biotechnol 2023; 41:1729-1733. [PMID: 36879007 PMCID: PMC11229418 DOI: 10.1038/s41587-023-01700-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Accepted: 02/01/2023] [Indexed: 03/08/2023]
Abstract
Spinal cord circuits play crucial roles in transmitting pain, but the underlying activity patterns within and across spinal segments in behaving mice have remained elusive. We developed a wearable widefield macroscope with a 7.9-mm2 field of view, ~3- to 4-μm lateral resolution, 2.7-mm working distance and <10-g overall weight and show that highly localized painful mechanical stimuli evoke widespread, coordinated astrocyte excitation across multiple spinal segments.
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Affiliation(s)
- Pavel Shekhtmeyster
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA
- Electrical and Computer Engineering Graduate Program, University of California, San Diego, La Jolla, CA, USA
| | - Daniela Duarte
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA
| | - Erin M Carey
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA
| | - Alexander Ngo
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA
| | - Grace Gao
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA
| | - Jack A Olmstead
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA
- Neurosciences Graduate Program, University of California, San Diego, La Jolla, CA, USA
| | - Nicholas A Nelson
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA
- Biological Sciences Graduate Program, University of California, San Diego, La Jolla, CA, USA
| | - Axel Nimmerjahn
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, USA.
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20
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Gerasimov E, Mitenev A, Pchitskaya E, Chukanov V, Bezprozvanny I. NeuroActivityToolkit-Toolbox for Quantitative Analysis of Miniature Fluorescent Microscopy Data. J Imaging 2023; 9:243. [PMID: 37998090 PMCID: PMC10672520 DOI: 10.3390/jimaging9110243] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 09/26/2023] [Accepted: 09/27/2023] [Indexed: 11/25/2023] Open
Abstract
The visualization of neuronal activity in vivo is an urgent task in modern neuroscience. It allows neurobiologists to obtain a large amount of information about neuronal network architecture and connections between neurons. The miniscope technique might help to determine changes that occurred in the network due to external stimuli and various conditions: processes of learning, stress, epileptic seizures and neurodegenerative diseases. Furthermore, using the miniscope method, functional changes in the early stages of such disorders could be detected. The miniscope has become a modern approach for recording hundreds to thousands of neurons simultaneously in a certain brain area of a freely behaving animal. Nevertheless, the analysis and interpretation of the large recorded data is still a nontrivial task. There are a few well-working algorithms for miniscope data preprocessing and calcium trace extraction. However, software for further high-level quantitative analysis of neuronal calcium signals is not publicly available. NeuroActivityToolkit is a toolbox that provides diverse statistical metrics calculation, reflecting the neuronal network properties such as the number of neuronal activations per minute, amount of simultaneously co-active neurons, etc. In addition, the module for analyzing neuronal pairwise correlations is implemented. Moreover, one can visualize and characterize neuronal network states and detect changes in 2D coordinates using PCA analysis. This toolbox, which is deposited in a public software repository, is accompanied by a detailed tutorial and is highly valuable for the statistical interpretation of miniscope data in a wide range of experimental tasks.
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Affiliation(s)
- Evgenii Gerasimov
- Laboratory of Molecular Neurodegeneration, Peter the Great St. Petersburg Polytechnic University, Khlopina St. 11, 194021 St. Petersburg, Russia
| | - Alexander Mitenev
- Laboratory of Molecular Neurodegeneration, Peter the Great St. Petersburg Polytechnic University, Khlopina St. 11, 194021 St. Petersburg, Russia
| | - Ekaterina Pchitskaya
- Laboratory of Molecular Neurodegeneration, Peter the Great St. Petersburg Polytechnic University, Khlopina St. 11, 194021 St. Petersburg, Russia
| | - Viacheslav Chukanov
- Laboratory of Molecular Neurodegeneration, Peter the Great St. Petersburg Polytechnic University, Khlopina St. 11, 194021 St. Petersburg, Russia
| | - Ilya Bezprozvanny
- Laboratory of Molecular Neurodegeneration, Peter the Great St. Petersburg Polytechnic University, Khlopina St. 11, 194021 St. Petersburg, Russia
- Department of Physiology, UT Southwestern Medical Center at Dallas, Dallas, TX 75390, USA
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21
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Lorca-Cámara A, Blot FGC, Accanto N, Emiliani V. [A two-photon fiberscope for imaging and optogenetic photostimulation of neurons in freely moving mice]. Med Sci (Paris) 2023; 39:815-819. [PMID: 38018920 DOI: 10.1051/medsci/2023150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2023] Open
Affiliation(s)
- Antonio Lorca-Cámara
- Groupe d'ingénierie du front d'onde appliquée à la microscopie, Sorbonne université, Inserm, CNRS, Institut de la vision, Paris, France
| | - François G C Blot
- Groupe d'ingénierie du front d'onde appliquée à la microscopie, Sorbonne université, Inserm, CNRS, Institut de la vision, Paris, France
| | - Nicolò Accanto
- Groupe d'ingénierie du front d'onde appliquée à la microscopie, Sorbonne université, Inserm, CNRS, Institut de la vision, Paris, France
| | - Valentina Emiliani
- Groupe d'ingénierie du front d'onde appliquée à la microscopie, Sorbonne université, Inserm, CNRS, Institut de la vision, Paris, France
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22
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O'Carroll R, Reynolds JP, Al-Roqi M, Aiyegbusi ED, Dooley D. ThermoCyte: an inexpensive open-source temperature control system for in vitro live-cell imaging. ROYAL SOCIETY OPEN SCIENCE 2023; 10:231037. [PMID: 38034122 PMCID: PMC10685113 DOI: 10.1098/rsos.231037] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Accepted: 11/06/2023] [Indexed: 12/02/2023]
Abstract
Live-cell imaging is a common technique in microscopy to investigate dynamic cellular behaviour and permits the accurate and relevant analysis of a wide range of cellular and tissue parameters, such as motility, cell division, wound healing responses and calcium (Ca2+) signalling in cell lines, primary cell cultures and ex vivo preparations. Furthermore, this can occur under many experimental conditions, making live-cell imaging indispensable for biological research. Systems which maintain cells at physiological conditions outside of a CO2 incubator are often bulky, expensive and use proprietary components. Here we present an inexpensive, open-source temperature control system for in vitro live-cell imaging. Our system 'ThermoCyte', which is constructed from standard electronic components, enables precise tuning, control and logging of a temperature 'set point' for imaging cells at physiological temperature. We achieved stable thermal dynamics, with reliable temperature cycling and a standard deviation of 0.42°C over 1 h. Furthermore, the device is modular in nature and is adaptable to the researcher's specific needs. This represents simple, inexpensive and reliable tool for laboratories to carry out custom live-cell imaging protocols, on a standard laboratory bench, at physiological temperature.
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Affiliation(s)
- Ross O'Carroll
- School of Medicine, Health Sciences Centre, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
| | - James P. Reynolds
- School of Medicine, Health Sciences Centre, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
- Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
| | - Mazen Al-Roqi
- School of Medicine, Health Sciences Centre, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
| | - Emmanuelle Damilola Aiyegbusi
- School of Medicine, Health Sciences Centre, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
- Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
| | - Dearbhaile Dooley
- School of Medicine, Health Sciences Centre, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
- Conway Institute of Biomolecular & Biomedical Research, University College Dublin, Belfield, Dublin D04 V1W8, Ireland
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23
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Sullere S, Kunczt A, McGehee DS. A cholinergic circuit that relieves pain despite opioid tolerance. Neuron 2023; 111:3414-3434.e15. [PMID: 37734381 PMCID: PMC10843525 DOI: 10.1016/j.neuron.2023.08.017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2023] [Revised: 04/19/2023] [Accepted: 08/16/2023] [Indexed: 09/23/2023]
Abstract
Chronic pain is a tremendous burden for afflicted individuals and society. Although opioids effectively relieve pain, significant adverse outcomes limit their utility and efficacy. To investigate alternate pain control mechanisms, we explored cholinergic signaling in the ventrolateral periaqueductal gray (vlPAG), a critical nexus for descending pain modulation. Biosensor assays revealed that pain states decreased acetylcholine release in vlPAG. Activation of cholinergic projections from the pedunculopontine tegmentum to vlPAG relieved pain, even in opioid-tolerant conditions, through ⍺7 nicotinic acetylcholine receptors (nAChRs). Activating ⍺7 nAChRs with agonists or stimulating endogenous acetylcholine inhibited vlPAG neuronal activity through Ca2+ and peroxisome proliferator-activated receptor α (PPAR⍺)-dependent signaling. In vivo 2-photon imaging revealed that chronic pain induces aberrant excitability of vlPAG neuronal ensembles and that ⍺7 nAChR-mediated inhibition of these cells relieves pain, even after opioid tolerance. Finally, pain relief through these cholinergic mechanisms was not associated with tolerance, reward, or withdrawal symptoms, highlighting its potential clinical relevance.
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Affiliation(s)
- Shivang Sullere
- Committee on Neurobiology, University of Chicago, Chicago, IL 60637, USA
| | - Alissa Kunczt
- Department of Anesthesia and Critical Care, University of Chicago, Chicago, IL 60637, USA
| | - Daniel S McGehee
- Committee on Neurobiology, University of Chicago, Chicago, IL 60637, USA; Department of Anesthesia and Critical Care, University of Chicago, Chicago, IL 60637, USA.
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24
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Levy ERJ, Carrillo-Segura S, Park EH, Redman WT, Hurtado JR, Chung S, Fenton AA. A manifold neural population code for space in hippocampal coactivity dynamics independent of place fields. Cell Rep 2023; 42:113142. [PMID: 37742193 PMCID: PMC10842170 DOI: 10.1016/j.celrep.2023.113142] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2021] [Revised: 06/14/2023] [Accepted: 08/30/2023] [Indexed: 09/26/2023] Open
Abstract
Hippocampus place cell discharge is temporally unreliable across seconds and days, and place fields are multimodal, suggesting an "ensemble cofiring" spatial coding hypothesis with manifold dynamics that does not require reliable spatial tuning, in contrast to hypotheses based on place field (spatial tuning) stability. We imaged mouse CA1 (cornu ammonis 1) ensembles in two environments across three weeks to evaluate these coding hypotheses. While place fields "remap," being more distinct between than within environments, coactivity relationships generally change less. Decoding location and environment from 1-s ensemble location-specific activity is effective and improves with experience. Decoding environment from cell-pair coactivity relationships is also effective and improves with experience, even after removing place tuning. Discriminating environments from 1-s ensemble coactivity relies crucially on the cells with the most anti-coactive cell-pair relationships because activity is internally organized on a low-dimensional manifold of non-linear coactivity relationships that intermittently reregisters to environments according to the anti-cofiring subpopulation activity.
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Affiliation(s)
| | - Simón Carrillo-Segura
- Center for Neural Science, New York University, New York, NY 10003, USA; Graduate Program in Mechanical and Aerospace Engineering, Tandon School of Engineering, New York University, Brooklyn, NY 11201, USA
| | - Eun Hye Park
- Center for Neural Science, New York University, New York, NY 10003, USA
| | - William Thomas Redman
- Interdepartmental Graduate Program in Dynamical Neuroscience, University of California, Santa Barbara, Santa Barbara, CA 93106, USA
| | | | - SueYeon Chung
- Center for Neural Science, New York University, New York, NY 10003, USA; Flatiron Institute Center for Computational Neuroscience, New York, NY 10010, USA
| | - André Antonio Fenton
- Center for Neural Science, New York University, New York, NY 10003, USA; Neuroscience Institute at the NYU Langone Medical Center, New York, NY 10016, USA.
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25
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Kim SJ, Affan RO, Frostig H, Scott BB, Alexander AS. Advances in cellular resolution microscopy for brain imaging in rats. NEUROPHOTONICS 2023; 10:044304. [PMID: 38076724 PMCID: PMC10704261 DOI: 10.1117/1.nph.10.4.044304] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/05/2023] [Revised: 09/23/2023] [Accepted: 11/07/2023] [Indexed: 02/12/2024]
Abstract
Rats are used in neuroscience research because of their physiological similarities with humans and accessibility as model organisms, trainability, and behavioral repertoire. In particular, rats perform a wide range of sophisticated social, cognitive, motor, and learning behaviors within the contexts of both naturalistic and laboratory environments. Further progress in neuroscience can be facilitated by using advanced imaging methods to measure the complex neural and physiological processes during behavior in rats. However, compared with the mouse, the rat nervous system offers a set of challenges, such as larger brain size, decreased neuron density, and difficulty with head restraint. Here, we review recent advances in in vivo imaging techniques in rats with a special focus on open-source solutions for calcium imaging. Finally, we provide suggestions for both users and developers of in vivo imaging systems for rats.
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Affiliation(s)
- Su Jin Kim
- Johns Hopkins University, Department of Psychological and Brain Sciences, Baltimore, Maryland, United States
| | - Rifqi O. Affan
- Boston University, Center for Systems Neuroscience, Department of Psychological and Brain Sciences, Boston, Massachusetts, United States
- Boston University, Graduate Program in Neuroscience, Boston, Massachusetts, United States
| | - Hadas Frostig
- Boston University, Center for Systems Neuroscience, Department of Psychological and Brain Sciences, Boston, Massachusetts, United States
| | - Benjamin B. Scott
- Boston University, Center for Systems Neuroscience, Department of Psychological and Brain Sciences, Boston, Massachusetts, United States
- Boston University, Neurophotonics Center and Photonics Center, Boston, Massachusetts, United States
| | - Andrew S. Alexander
- University of California Santa Barbara, Department of Psychological and Brain Sciences, Santa Barbara, California, United States
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26
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Greene J, Xue Y, Alido J, Matlock A, Hu G, Kiliç K, Davison I, Tian L. Pupil engineering for extended depth-of-field imaging in a fluorescence miniscope. NEUROPHOTONICS 2023; 10:044302. [PMID: 37215637 PMCID: PMC10197144 DOI: 10.1117/1.nph.10.4.044302] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Revised: 04/12/2023] [Accepted: 04/18/2023] [Indexed: 05/24/2023]
Abstract
Significance Fluorescence head-mounted microscopes, i.e., miniscopes, have emerged as powerful tools to analyze in-vivo neural populations but exhibit a limited depth-of-field (DoF) due to the use of high numerical aperture (NA) gradient refractive index (GRIN) objective lenses. Aim We present extended depth-of-field (EDoF) miniscope, which integrates an optimized thin and lightweight binary diffractive optical element (DOE) onto the GRIN lens of a miniscope to extend the DoF by 2.8× between twin foci in fixed scattering samples. Approach We use a genetic algorithm that considers the GRIN lens' aberration and intensity loss from scattering in a Fourier optics-forward model to optimize a DOE and manufacture the DOE through single-step photolithography. We integrate the DOE into EDoF-Miniscope with a lateral accuracy of 70 μm to produce high-contrast signals without compromising the speed, spatial resolution, size, or weight. Results We characterize the performance of EDoF-Miniscope across 5- and 10-μm fluorescent beads embedded in scattering phantoms and demonstrate that EDoF-Miniscope facilitates deeper interrogations of neuronal populations in a 100-μm-thick mouse brain sample and vessels in a whole mouse brain sample. Conclusions Built from off-the-shelf components and augmented by a customizable DOE, we expect that this low-cost EDoF-Miniscope may find utility in a wide range of neural recording applications.
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Affiliation(s)
- Joseph Greene
- Boston University, Department of Electrical and Computer Engineering, Boston, Massachusetts, United States
| | - Yujia Xue
- Boston University, Department of Electrical and Computer Engineering, Boston, Massachusetts, United States
| | - Jeffrey Alido
- Boston University, Department of Electrical and Computer Engineering, Boston, Massachusetts, United States
| | - Alex Matlock
- Boston University, Department of Electrical and Computer Engineering, Boston, Massachusetts, United States
| | - Guorong Hu
- Boston University, Department of Electrical and Computer Engineering, Boston, Massachusetts, United States
| | - Kivilcim Kiliç
- Boston University, Department of Biomedical Engineering, Boston, Massachusetts, United States
- Boston University, Neurophotonics Center, Boston, Massachusetts, United States
| | - Ian Davison
- Boston University, Neurophotonics Center, Boston, Massachusetts, United States
- Boston University, Department of Biology, Boston, Massachusetts, United States
| | - Lei Tian
- Boston University, Department of Electrical and Computer Engineering, Boston, Massachusetts, United States
- Boston University, Department of Biomedical Engineering, Boston, Massachusetts, United States
- Boston University, Neurophotonics Center, Boston, Massachusetts, United States
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27
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Mu X, Chen FD, Dang KM, Brunk MGK, Li J, Wahn H, Stalmashonak A, Ding P, Luo X, Chua H, Lo GQ, Poon JKS, Sacher WD. Implantable photonic neural probes with 3D-printed microfluidics and applications to uncaging. Front Neurosci 2023; 17:1213265. [PMID: 37521687 PMCID: PMC10373094 DOI: 10.3389/fnins.2023.1213265] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Accepted: 06/13/2023] [Indexed: 08/01/2023] Open
Abstract
Advances in chip-scale photonic-electronic integration are enabling a new generation of foundry-manufacturable implantable silicon neural probes incorporating nanophotonic waveguides and microelectrodes for optogenetic stimulation and electrophysiological recording in neuroscience research. Further extending neural probe functionalities with integrated microfluidics is a direct approach to achieve neurochemical injection and sampling capabilities. In this work, we use two-photon polymerization 3D printing to integrate microfluidic channels onto photonic neural probes, which include silicon nitride nanophotonic waveguides and grating emitters. The customizability of 3D printing enables a unique geometry of microfluidics that conforms to the shape of each neural probe, enabling integration of microfluidics with a variety of existing neural probes while avoiding the complexities of monolithic microfluidics integration. We demonstrate the photonic and fluidic functionalities of the neural probes via fluorescein injection in agarose gel and photoloysis of caged fluorescein in solution and in fixed brain tissue.
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Affiliation(s)
- Xin Mu
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Department of Electrical and Computer Engineering, University of Toronto, Toronto, ON, Canada
| | - Fu-Der Chen
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Department of Electrical and Computer Engineering, University of Toronto, Toronto, ON, Canada
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, ON, Canada
| | - Ka My Dang
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, ON, Canada
| | - Michael G. K. Brunk
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, ON, Canada
| | - Jianfeng Li
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, ON, Canada
| | - Hannes Wahn
- Max Planck Institute of Microstructure Physics, Halle, Germany
| | | | - Peisheng Ding
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Department of Electrical and Computer Engineering, University of Toronto, Toronto, ON, Canada
| | - Xianshu Luo
- Advanced Micro Foundry Pte. Ltd., Singapore, Singapore
| | - Hongyao Chua
- Advanced Micro Foundry Pte. Ltd., Singapore, Singapore
| | - Guo-Qiang Lo
- Advanced Micro Foundry Pte. Ltd., Singapore, Singapore
| | - Joyce K. S. Poon
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Department of Electrical and Computer Engineering, University of Toronto, Toronto, ON, Canada
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, ON, Canada
| | - Wesley D. Sacher
- Max Planck Institute of Microstructure Physics, Halle, Germany
- Max Planck-University of Toronto Centre for Neural Science and Technology, Toronto, ON, Canada
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28
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Scott A, Palmer D, Newell B, Lin I, Cayton CA, Paulson A, Remde P, Richard JM. Ventral Pallidal GABAergic Neuron Calcium Activity Encodes Cue-Driven Reward Seeking and Persists in the Absence of Reward Delivery. J Neurosci 2023; 43:5191-5203. [PMID: 37339880 PMCID: PMC10342224 DOI: 10.1523/jneurosci.0013-23.2023] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2023] [Revised: 06/01/2023] [Accepted: 06/10/2023] [Indexed: 06/22/2023] Open
Abstract
Reward-seeking behavior is often initiated by environmental cues that signal reward availability. This is a necessary behavioral response; however, cue reactivity and reward-seeking behavior can become maladaptive. To better understand how cue-elicited reward seeking becomes maladaptive, it is important to understand the neural circuits involved in assigning appetitive value to rewarding cues and actions. Ventral pallidum (VP) neurons are known to contribute to cue-elicited reward-seeking behavior and have heterogeneous responses in a discriminative stimulus (DS) task. The VP neuronal subtypes and output pathways that encode distinct aspects of the DS task remain unknown. Here, we used an intersectional viral approach with fiber photometry to record bulk calcium activity in VP GABAergic (VP GABA) neurons in male and female rats as they learned and performed the DS task. We found that VP GABA neurons are excited by reward-predictive cues but not neutral cues and that this response develops over time. We also found that this cue-evoked response predicts reward-seeking behavior and that inhibiting this VP GABA activity during cue presentation decreases reward-seeking behavior. Additionally, we found increased VP GABA calcium activity at the time of expected reward delivery, which occurred even on trials when reward was omitted. Together, these findings suggest that VP GABA neurons encode reward expectation, and calcium activity in these neurons encodes the vigor of cue-elicited reward seeking.SIGNIFICANCE STATEMENT VP circuitry is a major driver of cue-evoked behaviors. Previous work has found that VP neurons have heterogenous responses and contributions to reward-seeking behavior. This functional heterogeneity is because of differences of neurochemical subtypes and projections of VP neurons. Understanding the heterogenous responses among and within VP neuronal cell types is a necessary step in further understanding how cue-evoked behavior becomes maladaptive. Our work explores the canonical GABAergic VP neuron and how the calcium activity of these cells encodes components of cue-evoked reward seeking, including the vigor and persistence of reward seeking.
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Affiliation(s)
- Alexandra Scott
- Graduate Program in Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
| | - Dakota Palmer
- Graduate Program in Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
| | - Bailey Newell
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
- Department of Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
| | - Iris Lin
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
- Department of Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
| | - Christelle A Cayton
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
- Department of Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
| | - Anika Paulson
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
- Department of Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
| | - Paige Remde
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
- Department of Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
| | - Jocelyn M Richard
- Medical Discovery Team on Addiction, University of Minnesota, Minneapolis, Minnesota 55455
- Department of Neuroscience, University of Minnesota, Minneapolis, Minnesota 55455
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29
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Feshki M, Martel S, De Koninck Y, Gosselin B. Improving flat fluorescence microscopy in scattering tissue through deep learning strategies. OPTICS EXPRESS 2023; 31:23008-23026. [PMID: 37475396 DOI: 10.1364/oe.489677] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2023] [Accepted: 05/24/2023] [Indexed: 07/22/2023]
Abstract
Intravital microscopy in small animals growingly contributes to the visualization of short- and long-term mammalian biological processes. Miniaturized fluorescence microscopy has revolutionized the observation of live animals' neural circuits. The technology's ability to further miniaturize to improve freely moving experimental settings is limited by its standard lens-based layout. Typical miniature microscope designs contain a stack of heavy and bulky optical components adjusted at relatively long distances. Computational lensless microscopy can overcome this limitation by replacing the lenses with a simple thin mask. Among other critical applications, Flat Fluorescence Microscope (FFM) holds promise to allow for real-time brain circuits imaging in freely moving animals, but recent research reports show that the quality needs to be improved, compared with imaging in clear tissue, for instance. Although promising results were reported with mask-based fluorescence microscopes in clear tissues, the impact of light scattering in biological tissue remains a major challenge. The outstanding performance of deep learning (DL) networks in computational flat cameras and imaging through scattering media studies motivates the development of deep learning models for FFMs. Our holistic ray-tracing and Monte Carlo FFM computational model assisted us in evaluating deep scattering medium imaging with DL techniques. We demonstrate that physics-based DL models combined with the classical reconstruction technique of the alternating direction method of multipliers (ADMM) perform a fast and robust image reconstruction, particularly in the scattering medium. The structural similarity indexes of the reconstructed images in scattering media recordings were increased by up to 20% compared with the prevalent iterative models. We also introduce and discuss the challenges of DL approaches for FFMs under physics-informed supervised and unsupervised learning.
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30
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Kapanaiah SK, Kätzel D. Open-MAC: A low-cost open-source motorized commutator for electro- and opto-physiological recordings in freely moving rodents. HARDWAREX 2023; 14:e00429. [PMID: 37250189 PMCID: PMC10209885 DOI: 10.1016/j.ohx.2023.e00429] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/29/2022] [Revised: 04/09/2023] [Accepted: 05/14/2023] [Indexed: 05/31/2023]
Abstract
In vivo electro- and optophysiology experiments in rodents reveal the neural mechanisms underlying behavior and brain disorders but mostly involve a cable connection between an implant in the animal and an external recording device. Standard tethers with thin cables or non-motorized commutators require constant monitoring and often manual interference to untwist the cable. Motorized commutators offer a solution, but those few that are commercially available are expensive and often not adapted to widely used connector standards of the open-source community like 12-channel SPI. Here we introduce an open-source motorized all-in-one commutator (Open-MAC): a low-cost (240-390 EUR), low-torque motorized commutator that can operate with minimal audible noise in a torque-based mode relying on dual magnetic Hall sensors. It further includes electronics to operate in a torque-free, online pose-estimation-based mode, with future developments. Operation is controlled by an onboard microcontroller (XIAO SAMD21) powered by a USB-C cable or DC power supply. The body and movable parts are 3D-printed. Different Open-MAC versions can support electrophysiology with up to 64 recording channels using the Open-Ephys / IntanTM recording systems as well as miniature endoscope (miniscope) recordings using the UCLA Miniscope v3/4, and can host a fibre for optogenetic modulation.
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31
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Hai R, Shao G, Ware HOT, Jones EH, Sun C. 3D Printing a Low-Cost Miniature Accommodating Optical Microscope. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2023; 35:e2208365. [PMID: 36624569 PMCID: PMC10198847 DOI: 10.1002/adma.202208365] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Revised: 12/03/2022] [Indexed: 05/04/2023]
Abstract
This decade has witnessed the tremendous progress in miniaturizing optical imaging systems. Despite the advancements in 3D printing optical lenses at increasingly smaller dimensions, challenges remain in precisely manufacturing the dimensionally compatible optomechanical components and assembling them into a functional imaging system. To tackle this issue, the use of 3D printing to enable digitalized optomechanical component manufacturing, part-count-reduction design, and the inclusion of passive alignment features is reported here, all for the ease of system assembly. The key optomechanical components of a penny-sized accommodating optical microscope are 3D printed in 50 min at a significantly reduced unit cost near $4. By actuating a built-in voice-coil motor, its accommodating capability is validated to focus on specimens located at different distances, and a focus-stacking function is further utilized to greatly extend depth of field. The microscope can be readily customized and rapidly manufactured to respond to task-specific needs in form factor and optical characteristics.
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Affiliation(s)
- Rihan Hai
- Mechanical Engineering Department, Northwestern University, Evanston, IL, 60208, USA
| | - Guangbin Shao
- Mechanical Engineering Department, Northwestern University, Evanston, IL, 60208, USA
| | - Henry Oliver T Ware
- Mechanical Engineering Department, Northwestern University, Evanston, IL, 60208, USA
| | - Evan Hunter Jones
- Mechanical Engineering Department, Northwestern University, Evanston, IL, 60208, USA
| | - Cheng Sun
- Mechanical Engineering Department, Northwestern University, Evanston, IL, 60208, USA
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32
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Stibůrek M, Ondráčková P, Tučková T, Turtaev S, Šiler M, Pikálek T, Jákl P, Gomes A, Krejčí J, Kolbábková P, Uhlířová H, Čižmár T. 110 μm thin endo-microscope for deep-brain in vivo observations of neuronal connectivity, activity and blood flow dynamics. Nat Commun 2023; 14:1897. [PMID: 37019883 PMCID: PMC10076269 DOI: 10.1038/s41467-023-36889-z] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2022] [Accepted: 02/16/2023] [Indexed: 04/07/2023] Open
Abstract
Light-based in-vivo brain imaging relies on light transport over large distances of highly scattering tissues. Scattering gradually reduces imaging contrast and resolution, making it difficult to reach structures at greater depths even with the use of multiphoton techniques. To reach deeper, minimally invasive endo-microscopy techniques have been established. These most commonly exploit graded-index rod lenses and enable a variety of modalities in head-fixed and freely moving animals. A recently proposed alternative is the use of holographic control of light transport through multimode optical fibres promising much less traumatic application and superior imaging performance. We present a 110 μm thin laser-scanning endo-microscope based on this prospect, enabling in-vivo volumetric imaging throughout the whole depth of the mouse brain. The instrument is equipped with multi-wavelength detection and three-dimensional random access options, and it performs at lateral resolution below 1 μm. We showcase various modes of its application through the observations of fluorescently labelled neurones, their processes and blood vessels. Finally, we demonstrate how to exploit the instrument to monitor calcium signalling of neurones and to measure blood flow velocity in individual vessels at high speeds.
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Affiliation(s)
- Miroslav Stibůrek
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic
| | - Petra Ondráčková
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic
| | - Tereza Tučková
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic
| | - Sergey Turtaev
- Leibniz Institute of Photonic Technology, Albert-Einstein-Straße 9, 07745, Jena, Germany
| | - Martin Šiler
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic
| | - Tomáš Pikálek
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic
| | - Petr Jákl
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic
| | - André Gomes
- Leibniz Institute of Photonic Technology, Albert-Einstein-Straße 9, 07745, Jena, Germany
| | - Jana Krejčí
- Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 612 65, Brno, Czech Republic
| | - Petra Kolbábková
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic
| | - Hana Uhlířová
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic.
| | - Tomáš Čižmár
- Institute of Scientific Instruments of the Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic.
- Leibniz Institute of Photonic Technology, Albert-Einstein-Straße 9, 07745, Jena, Germany.
- Institute of Applied Optics, Friedrich Schiller University Jena, Fröbelstieg 1, 07743, Jena, Germany.
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33
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Akbar L, Castillo VCG, Olorocisimo JP, Ohta Y, Kawahara M, Takehara H, Haruta M, Tashiro H, Sasagawa K, Ohsawa M, Akay YM, Akay M, Ohta J. Multi-Region Microdialysis Imaging Platform Revealed Dorsal Raphe Nucleus Calcium Signaling and Serotonin Dynamics during Nociceptive Pain. Int J Mol Sci 2023; 24:ijms24076654. [PMID: 37047627 PMCID: PMC10094999 DOI: 10.3390/ijms24076654] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2023] [Revised: 03/20/2023] [Accepted: 03/22/2023] [Indexed: 04/05/2023] Open
Abstract
In this research, we combined our ultralight micro-imaging device for calcium imaging with microdialysis to simultaneously visualize neural activity in the dorsal raphe nucleus (DRN) and measure serotonin release in the central nucleus of the amygdala (CeA) and the anterior cingulate cortex (ACC). Using this platform, we observed brain activity following nociception induced by formalin injection in the mouse’s hind paw. Our device showed that DRN fluorescence intensity increased after formalin injection, and the increase was highly correlated with the elevation in serotonin release in both the CeA and ACC. The increase in calcium fluorescence intensity occurred during the acute and inflammatory phases, which suggests the biphasic response of nociceptive pain. Furthermore, we found that the increase in fluorescence intensity was positively correlated with mouse licking behavior. Lastly, we compared the laterality of pain stimulation and found that DRN fluorescence activity was higher for contralateral stimulation. Microdialysis showed that CeA serotonin concentration increased only after contralateral stimulation, while ACC serotonin release responded bilaterally. In conclusion, our study not only revealed the inter-regional serotonergic connection among the DRN, the CeA, and the ACC, but also demonstrated that our device is feasible for multi-site implantation in conjunction with a microdialysis system, allowing the simultaneous multi-modal observation of different regions in the brain.
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Affiliation(s)
- Latiful Akbar
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Virgil Christian Garcia Castillo
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Joshua Philippe Olorocisimo
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Yasumi Ohta
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Mamiko Kawahara
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Hironari Takehara
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Makito Haruta
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Hiroyuki Tashiro
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
- Department of Health Sciences, Faculty of Medical Sciences, Kyushu University, Fukuoka 819-0395, Japan
| | - Kiyotaka Sasagawa
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
| | - Masahiro Ohsawa
- Department of Neuropharmacology, Faculty of Pharmaceutical Sciences, Nagoya City University, Nagoya 467-8601, Japan
| | - Yasemin M. Akay
- Biomedical Engineering Department, University of Houston, 3517 Cullen Blvd, Houston, TX 77204, USA
| | - Metin Akay
- Biomedical Engineering Department, University of Houston, 3517 Cullen Blvd, Houston, TX 77204, USA
| | - Jun Ohta
- Division of Materials Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma 630-0101, Japan
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Toader AC, Regalado JM, Li YR, Terceros A, Yadav N, Kumar S, Satow S, Hollunder F, Bonito-Oliva A, Rajasethupathy P. Anteromedial thalamus gates the selection and stabilization of long-term memories. Cell 2023; 186:1369-1381.e17. [PMID: 37001501 PMCID: PMC10169089 DOI: 10.1016/j.cell.2023.02.024] [Citation(s) in RCA: 12] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2022] [Revised: 10/16/2022] [Accepted: 02/16/2023] [Indexed: 04/03/2023]
Abstract
Memories initially formed in hippocampus gradually stabilize to cortex over weeks-to-months for long-term storage. The mechanistic details of this brain re-organization remain poorly understood. We recorded bulk neural activity in circuits that link hippocampus and cortex as mice performed a memory-guided virtual-reality task over weeks. We identified a prominent and sustained neural correlate of memory in anterior thalamus, whose inhibition substantially disrupted memory consolidation. More strikingly, gain amplification enhanced consolidation of otherwise unconsolidated memories. To gain mechanistic insights, we developed a technology for simultaneous cellular-resolution imaging of hippocampus, thalamus, and cortex throughout consolidation. We found that whereas hippocampus equally encodes multiple memories, the anteromedial thalamus preferentially encodes salient memories, and gradually increases correlations with cortex to facilitate tuning and synchronization of cortical ensembles. We thus identify a thalamo-cortical circuit that gates memory consolidation and propose a mechanism suitable for the selection and stabilization of hippocampal memories into longer-term cortical storage.
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Affiliation(s)
- Andrew C Toader
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Josue M Regalado
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Yan Ran Li
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Andrea Terceros
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Nakul Yadav
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Suraj Kumar
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Sloane Satow
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Florian Hollunder
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Alessandra Bonito-Oliva
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA
| | - Priya Rajasethupathy
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065, USA.
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Ajabi Z, Keinath AT, Wei XX, Brandon MP. Population dynamics of head-direction neurons during drift and reorientation. Nature 2023; 615:892-899. [PMID: 36949190 PMCID: PMC10060160 DOI: 10.1038/s41586-023-05813-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Accepted: 02/03/2023] [Indexed: 03/24/2023]
Abstract
The head direction (HD) system functions as the brain's internal compass1,2, classically formalized as a one-dimensional ring attractor network3,4. In contrast to a globally consistent magnetic compass, the HD system does not have a universal reference frame. Instead, it anchors to local cues, maintaining a stable offset when cues rotate5-8 and drifting in the absence of referents5,8-10. However, questions about the mechanisms that underlie anchoring and drift remain unresolved and are best addressed at the population level. For example, the extent to which the one-dimensional description of population activity holds under conditions of reorientation and drift is unclear. Here we performed population recordings of thalamic HD cells using calcium imaging during controlled rotations of a visual landmark. Across experiments, population activity varied along a second dimension, which we refer to as network gain, especially under circumstances of cue conflict and ambiguity. Activity along this dimension predicted realignment and drift dynamics, including the speed of network realignment. In the dark, network gain maintained a 'memory trace' of the previously displayed landmark. Further experiments demonstrated that the HD network returned to its baseline orientation after brief, but not longer, exposures to a rotated cue. This experience dependence suggests that memory of previous associations between HD neurons and allocentric cues is maintained and influences the internal HD representation. Building on these results, we show that continuous rotation of a visual landmark induced rotation of the HD representation that persisted in darkness, demonstrating experience-dependent recalibration of the HD system. Finally, we propose a computational model to formalize how the neural compass flexibly adapts to changing environmental cues to maintain a reliable representation of HD. These results challenge classical one-dimensional interpretations of the HD system and provide insights into the interactions between this system and the cues to which it anchors.
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Affiliation(s)
- Zaki Ajabi
- Department of Psychiatry, Douglas Hospital Research Centre, McGill University, Verdun, Quebec, Canada.
- Integrated Program in Neuroscience, McGill University, Montreal, Quebec, Canada.
- Department of Neurobiology, Harvard Medical School, Boston, MA, USA.
| | - Alexandra T Keinath
- Department of Psychiatry, Douglas Hospital Research Centre, McGill University, Verdun, Quebec, Canada
| | - Xue-Xin Wei
- Department of Neuroscience, University of Texas at Austin, Austin, TX, USA
- Department of Psychology, University of Texas at Austin, Austin, TX, USA
- Center for Perceptual Systems, University of Texas at Austin, Austin, TX, USA
- Center for Theoretical and Computational Neuroscience, University of Texas at Austin, Austin, TX, USA
| | - Mark P Brandon
- Department of Psychiatry, Douglas Hospital Research Centre, McGill University, Verdun, Quebec, Canada.
- Integrated Program in Neuroscience, McGill University, Montreal, Quebec, Canada.
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Shekhtmeyster P, Carey EM, Duarte D, Ngo A, Gao G, Nelson NA, Clark CL, Nimmerjahn A. Multiplex translaminar imaging in the spinal cord of behaving mice. Nat Commun 2023; 14:1427. [PMID: 36944637 PMCID: PMC10030868 DOI: 10.1038/s41467-023-36959-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2021] [Accepted: 02/24/2023] [Indexed: 03/23/2023] Open
Abstract
While the spinal cord is known to play critical roles in sensorimotor processing, including pain-related signaling, corresponding activity patterns in genetically defined cell types across spinal laminae have remained challenging to investigate. Calcium imaging has enabled cellular activity measurements in behaving rodents but is currently limited to superficial regions. Here, using chronically implanted microprisms, we imaged sensory and motor-evoked activity in regions and at speeds inaccessible by other high-resolution imaging techniques. To enable translaminar imaging in freely behaving animals through implanted microprisms, we additionally developed wearable microscopes with custom-compound microlenses. This system addresses multiple challenges of previous wearable microscopes, including their limited working distance, resolution, contrast, and achromatic range. Using this system, we show that dorsal horn astrocytes in behaving mice show sensorimotor program-dependent and lamina-specific calcium excitation. Additionally, we show that tachykinin precursor 1 (Tac1)-expressing neurons exhibit translaminar activity to acute mechanical pain but not locomotion.
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Affiliation(s)
- Pavel Shekhtmeyster
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
- Electrical and Computer Engineering Graduate Program, University of California, San Diego, La Jolla, CA, 92037, USA
| | - Erin M Carey
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
| | - Daniela Duarte
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
| | - Alexander Ngo
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
| | - Grace Gao
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
| | - Nicholas A Nelson
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
- Biological Sciences Graduate Program, University of California, San Diego, La Jolla, CA, 92037, USA
| | - Charles L Clark
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA
| | - Axel Nimmerjahn
- Waitt Advanced Biophotonics Center, The Salk Institute for Biological Studies, La Jolla, CA, 92037, USA.
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Huerta TS, Haider B, Adamovich-Zeitlin R, Chen AC, Chaudhry S, Zanos TP, Chavan SS, Tracey KJ, Chang EH. Calcium imaging and analysis of the jugular-nodose ganglia enables identification of distinct vagal sensory neuron subsets. J Neural Eng 2023; 20:10.1088/1741-2552/acbe1e. [PMID: 36920156 PMCID: PMC10790314 DOI: 10.1088/1741-2552/acbe1e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2022] [Accepted: 02/22/2023] [Indexed: 03/16/2023]
Abstract
Objective.Sensory nerves of the peripheral nervous system (PNS) transmit afferent signals from the body to the brain. These peripheral nerves are composed of distinct subsets of fibers and associated cell bodies, which reside in peripheral ganglia distributed throughout the viscera and along the spinal cord. The vagus nerve (cranial nerve X) is a complex polymodal nerve that transmits a wide array of sensory information, including signals related to mechanical, chemical, and noxious stimuli. To understand how stimuli applied to the vagus nerve are encoded by vagal sensory neurons in the jugular-nodose ganglia, we developed a framework for micro-endoscopic calcium imaging and analysis.Approach.We developed novel methods forin vivoimaging of the intact jugular-nodose ganglion using a miniature microscope (Miniscope) in transgenic mice with the genetically-encoded calcium indicator GCaMP6f. We adapted the Python-based analysis package Calcium Imaging Analysis (CaImAn) to process the resulting one-photon fluorescence data into calcium transients for subsequent analysis. Random forest classification was then used to identify specific types of neuronal responders.Results.We demonstrate that recordings from the jugular-nodose ganglia can be accomplished through careful surgical dissection and ganglia stabilization. Using a customized acquisition and analysis pipeline, we show that subsets of vagal sensory neurons respond to different chemical stimuli applied to the vagus nerve. Successful classification of the responses with a random forest model indicates that certain calcium transient features, such as amplitude and duration, are important for encoding these stimuli by sensory neurons.Significance.This experimental approach presents a new framework for investigating how individual vagal sensory neurons encode various stimuli on the vagus nerve. Our surgical and analytical approach can be applied to other PNS ganglia in rodents and other small animal species to elucidate previously unexplored roles for peripheral neurons in a diverse set of physiological functions.
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Affiliation(s)
- Tomás S Huerta
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
- Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, United States of America
| | - Bilal Haider
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
| | - Richard Adamovich-Zeitlin
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
- Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, United States of America
| | - Adrian C Chen
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
- Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, United States of America
| | - Saher Chaudhry
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
| | - Theodoros P Zanos
- Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, United States of America
- Institute of Health System Science, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
- Elmezzi Graduate School of Molecular Medicine, Manhasset, NY, United States of America
| | - Sangeeta S Chavan
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
- Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, United States of America
- Elmezzi Graduate School of Molecular Medicine, Manhasset, NY, United States of America
| | - Kevin J Tracey
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
- Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, United States of America
- Elmezzi Graduate School of Molecular Medicine, Manhasset, NY, United States of America
| | - Eric H Chang
- Laboratory for Biomedical Sciences, Institute for Bioelectronic Medicine, Feinstein Institutes for Medical Research, Northwell Health, Manhasset, NY, United States of America
- Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, United States of America
- Elmezzi Graduate School of Molecular Medicine, Manhasset, NY, United States of America
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Tilt in Place Microscopy: a Simple, Low-Cost Solution to Image Neural Responses to Body Rotations. J Neurosci 2023; 43:936-948. [PMID: 36517242 PMCID: PMC9908314 DOI: 10.1523/jneurosci.1736-22.2022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2022] [Revised: 11/23/2022] [Accepted: 12/07/2022] [Indexed: 12/23/2022] Open
Abstract
Animals use information about gravity and other destabilizing forces to balance and navigate through their environment. Measuring how brains respond to these forces requires considerable technical knowledge and/or financial resources. We present a simple alternative-Tilt In Place Microscopy (TIPM), a low-cost and noninvasive way to measure neural activity following rapid changes in body orientation. Here, we used TIPM to study vestibulospinal neurons in larval zebrafish during and immediately after roll tilts. Vestibulospinal neurons responded with reliable increases in activity that varied as a function of ipsilateral tilt amplitude. TIPM differentiated tonic (i.e., sustained tilt) from phasic responses, revealing coarse topography of stimulus sensitivity in the lateral vestibular nucleus. Neuronal variability across repeated sessions was minor relative to trial-to-trial variability, allowing us to use TIPM for longitudinal studies of the same neurons across two developmental time points. There, we observed global increases in response strength and systematic changes in the neural representation of stimulus direction. Our data extend classical characterization of the body tilt representation by vestibulospinal neurons and establish the utility of TIPM to study the neural basis of balance, especially in developing animals.SIGNIFICANCE STATEMENT Vestibular sensation influences everything from navigation to interoception. Here, we detail a straightforward, validated, and nearly universal approach to image how the nervous system senses and responds to body tilts. We use our new method to replicate and expand on past findings of tilt sensing by a conserved population of spinal-projecting vestibular neurons. The simplicity and broad compatibility of our approach will democratize the study of the response of the brain to destabilization, particularly across development.
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Guo C, Wang A, Cheng H, Chen L. New imaging instrument in animal models: Two-photon miniature microscope and large field of view miniature microscope for freely behaving animals. J Neurochem 2023; 164:270-283. [PMID: 36281555 DOI: 10.1111/jnc.15711] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2022] [Revised: 09/19/2022] [Accepted: 10/12/2022] [Indexed: 11/30/2022]
Abstract
Over the past decade, novel optical imaging tools have been developed for imaging neuronal activities along with the evolution of fluorescence indicators with brighter expression and higher sensitivity. Miniature microscopes, as revolutionary approaches, enable the imaging of large populations of neuron ensembles in freely behaving rodents and mammals, which allows exploring the neural basis of behaviors. Recent progress in two-photon miniature microscopes and mesoscale single-photon miniature microscopes further expand those affordable methods to navigate neural activities during naturalistic behaviors. In this review article, two-photon miniature microscopy techniques are summarized historically from the first documented attempt to the latest ones, and comparisons are made. The driving force behind and their potential for neuroscientific inquiries are also discussed. Current progress in terms of the mesoscale, i.e., the large field-of-view miniature microscopy technique, is addressed as well. Then, pipelines for registering single cells from the data of two-photon and large field-of-view miniature microscopes are discussed. Finally, we present the potential evolution of the techniques.
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Affiliation(s)
- Changliang Guo
- Beijing Institute of Collaborative Innovation, Beijing, China.,State Key Laboratory of Membrane Biology, Institute of Molecular Medicine, Peking-Tsinghua Center for Life Sciences, College of Future Technology, Peking University, Beijing, China
| | - Aimin Wang
- School of Electronics, Peking University, Beijing, China.,State Key Laboratory of Advanced Optical Communication System and Networks, Peking University, Beijing, China
| | - Heping Cheng
- State Key Laboratory of Membrane Biology, Institute of Molecular Medicine, Peking-Tsinghua Center for Life Sciences, College of Future Technology, Peking University, Beijing, China.,Research Unit of Mitochondria in Brain Diseases, Chinese Academy of Medical Sciences, PKU-Nanjing Institute of Translational Medicine, Nanjing, China
| | - Liangyi Chen
- State Key Laboratory of Membrane Biology, Institute of Molecular Medicine, Peking-Tsinghua Center for Life Sciences, College of Future Technology, Peking University, Beijing, China.,PKU-IDG/McGovern Institute for Brain Research, Beijing, China.,Beijing Academy of Artificial Intelligence, Beijing, China
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40
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Berigan BR, Wang J, Schulz DJ, Ozden I. Imaging neuro-urodynamics of mouse major pelvic ganglion with a micro-endoscopic approach. J Neurophysiol 2023; 129:479-493. [PMID: 36651910 DOI: 10.1152/jn.00450.2022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
Postganglionic neurons of the autonomic nervous system lie outside of the central nervous system and innervate specific target effectors such as organs or glands. The major pelvic ganglion (MPG) is one such ganglion that plays a significant role in controlling bladder function in rodents. However, because of technical and physical constraints in recording electrophysiological signals from these neurons in vivo, the functional neural activity in MPG is mostly unknown. Transgenic animal models expressing genetically encoded calcium indicators now provide opportunities to monitor the activity of populations of neurons in vivo to overcome these challenges related to traditional electrophysiological methods. However, like many peripheral neurons, the MPG is not conducive to conventional fluorescent microscopy techniques, as it is located in the pelvic cavity, thus limiting robust optical access by benchtop microscopes. Here, we present an endoscopic approach based on a custom miniscope system (UCLA V3) that allows for effective in vivo monitoring of neural activity in the MPG for the first time. We show that our imaging approach can monitor activity of hundreds of MPG neurons simultaneously during the filling and emptying of the bladder in a urethane-anesthetized transgenic mouse line expressing GCaMP6s in cholinergic MPG neurons. By using custom analysis scripts, we isolated the activity of hundreds of individual neurons and show that populations of neurons have distinct phasic activation patterns during sequential bladder filling and voiding events. Our imaging approach can be adapted to record activity from autonomic neurons across different organs and systems in both healthy and disease models.NEW & NOTEWORTHY The functional activity and information processing within autonomic ganglia is mostly unknown because of technical and physical constraints in recording electrophysiological signals from these neurons in vivo. Here, we use a micro-endoscopic approach to measure in vivo functional activity patterns from a population of autonomic neurons controlling bladder function for the first time. This approach can be adapted to record activity from autonomic neurons across different organs and systems in both healthy and disease models.
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Affiliation(s)
- Benton R Berigan
- Chemical and Biomedical Engineering, University of Missouri, Columbia, Missouri, United States.,Division of Biological Sciences, University of Missouri, Columbia, Missouri, United States
| | - Jing Wang
- Chemical and Biomedical Engineering, University of Missouri, Columbia, Missouri, United States
| | - David J Schulz
- Division of Biological Sciences, University of Missouri, Columbia, Missouri, United States
| | - Ilker Ozden
- Chemical and Biomedical Engineering, University of Missouri, Columbia, Missouri, United States
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Wirtshafter HS, Disterhoft JF. Place cells are nonrandomly clustered by field location in CA1 hippocampus. Hippocampus 2023; 33:65-84. [PMID: 36519700 PMCID: PMC9877199 DOI: 10.1002/hipo.23489] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Revised: 11/26/2022] [Accepted: 12/04/2022] [Indexed: 12/23/2022]
Abstract
A challenge in both modern and historic neuroscience has been achieving an understanding of neuron circuits, and determining the computational and organizational principles that underlie these circuits. Deeper understanding of the organization of brain circuits and cell types, including in the hippocampus, is required for advances in behavioral and cognitive neuroscience, as well as for understanding principles governing brain development and evolution. In this manuscript, we pioneer a new method to analyze the spatial clustering of active neurons in the hippocampus. We use calcium imaging and a rewarded navigation task to record from 100 s of place cells in the CA1 of freely moving rats. We then use statistical techniques developed for and in widespread use in geographic mapping studies, global Moran's I, and local Moran's I to demonstrate that cells that code for similar spatial locations tend to form small spatial clusters. We present evidence that this clustering is not the result of artifacts from calcium imaging, and show that these clusters are primarily formed by cells that have place fields around previously rewarded locations. We go on to show that, although cells with similar place fields tend to form clusters, there is no obvious topographic mapping of environmental location onto the hippocampus, such as seen in the visual cortex. Insights into hippocampal organization, as in this study, can elucidate mechanisms underlying motivational behaviors, spatial navigation, and memory formation.
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Affiliation(s)
- Hannah S. Wirtshafter
- Department of Neuroscience, Northwestern University Feinberg School of Medicine, 310 E. Superior St., Morton 5-660, Chicago, IL 60611
| | - John F. Disterhoft
- Department of Neuroscience, Northwestern University Feinberg School of Medicine, 310 E. Superior St., Morton 5-660, Chicago, IL 60611
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42
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Toader AC, Regalado JM, Li YR, Terceros A, Yadav N, Kumar S, Satow S, Hollunder F, Bonito-Oliva A, Rajasethupathy P. Anteromedial Thalamus Gates the Selection & Stabilization of Long-Term Memories. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.01.27.525908. [PMID: 36747720 PMCID: PMC9900928 DOI: 10.1101/2023.01.27.525908] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Memories initially formed in hippocampus gradually stabilize to cortex, over weeks-to-months, for long-term storage. The mechanistic details of this brain re-organization process remain poorly understood. In this study, we developed a virtual-reality based behavioral task and observed neural activity patterns associated with memory reorganization and stabilization over weeks-long timescales. Initial photometry recordings in circuits that link hippocampus and cortex revealed a unique and prominent neural correlate of memory in anterior thalamus that emerged in training and persisted for several weeks. Inhibition of the anteromedial thalamus-to-anterior cingulate cortex projections during training resulted in substantial memory consolidation deficits, and gain amplification more strikingly, was sufficient to enhance consolidation of otherwise unconsolidated memories. To provide mechanistic insights, we developed a new behavioral task where mice form two memories, of which only the more salient memory is consolidated, and also a technology for simultaneous and longitudinal cellular resolution imaging of hippocampus, thalamus, and cortex throughout the consolidation window. We found that whereas hippocampus equally encodes multiple memories, the anteromedial thalamus forms preferential tuning to salient memories, and establishes inter-regional correlations with cortex, that are critical for synchronizing and stabilizing cortical representations at remote time. Indeed, inhibition of this thalamo-cortical circuit while imaging in cortex reveals loss of contextual tuning and ensemble synchrony in anterior cingulate, together with behavioral deficits in remote memory retrieval. We thus identify a thalamo-cortical circuit that gates memory consolidation and propose a mechanism suitable for the selection and stabilization of hippocampal memories into longer term cortical storage.
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Affiliation(s)
- Andrew C. Toader
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Josue M. Regalado
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Yan Ran Li
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Andrea Terceros
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Nakul Yadav
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Suraj Kumar
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Sloane Satow
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Florian Hollunder
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Alessandra Bonito-Oliva
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
| | - Priya Rajasethupathy
- Laboratory of Neural Dynamics & Cognition, The Rockefeller University, New York, NY 10065 USA
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Optogenetic frequency scrambling of hippocampal theta oscillations dissociates working memory retrieval from hippocampal spatiotemporal codes. Nat Commun 2023; 14:410. [PMID: 36697399 PMCID: PMC9877037 DOI: 10.1038/s41467-023-35825-5] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Accepted: 01/03/2023] [Indexed: 01/26/2023] Open
Abstract
The precise temporal coordination of activity in the brain is thought to be fundamental for memory function. Inhibitory neurons in the medial septum provide a prominent source of innervation to the hippocampus and play a major role in controlling hippocampal theta (~8 Hz) oscillations. While pharmacological inhibition of medial septal neurons is known to disrupt memory, the exact role of septal inhibitory neurons in regulating hippocampal representations and memory is not fully understood. Here, we dissociate the role of theta rhythms in spatiotemporal coding and memory using an all-optical interrogation and recording approach. We find that optogenetic frequency scrambling stimulations abolish theta oscillations and modulate a portion of neurons in the hippocampus. Such stimulation decreased episodic and working memory retrieval while leaving hippocampal spatiotemporal codes intact. Our study suggests that theta rhythms play an essential role in memory but may not be necessary for hippocampal spatiotemporal codes.
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Chen Z, Blair GJ, Guo C, Zhou J, Romero-Sosa JL, Izquierdo A, Golshani P, Cong J, Aharoni D, Blair HT. A hardware system for real-time decoding of in vivo calcium imaging data. eLife 2023; 12:78344. [PMID: 36692269 PMCID: PMC9908073 DOI: 10.7554/elife.78344] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Accepted: 01/23/2023] [Indexed: 01/25/2023] Open
Abstract
Epifluorescence miniature microscopes ('miniscopes') are widely used for in vivo calcium imaging of neural population activity. Imaging data are typically collected during a behavioral task and stored for later offline analysis, but emerging techniques for online imaging can support novel closed-loop experiments in which neural population activity is decoded in real time to trigger neurostimulation or sensory feedback. To achieve short feedback latencies, online imaging systems must be optimally designed to maximize computational speed and efficiency while minimizing errors in population decoding. Here we introduce DeCalciOn, an open-source device for real-time imaging and population decoding of in vivo calcium signals that is hardware compatible with all miniscopes that use the UCLA Data Acquisition (DAQ) interface. DeCalciOn performs online motion stabilization, neural enhancement, calcium trace extraction, and decoding of up to 1024 traces per frame at latencies of <50 ms after fluorescence photons arrive at the miniscope image sensor. We show that DeCalciOn can accurately decode the position of rats (n = 12) running on a linear track from calcium fluorescence in the hippocampal CA1 layer, and can categorically classify behaviors performed by rats (n = 2) during an instrumental task from calcium fluorescence in orbitofrontal cortex. DeCalciOn achieves high decoding accuracy at short latencies using innovations such as field-programmable gate array hardware for real-time image processing and contour-free methods to efficiently extract calcium traces from sensor images. In summary, our system offers an affordable plug-and-play solution for real-time calcium imaging experiments in behaving animals.
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Affiliation(s)
- Zhe Chen
- Department of Electrical and Computer Engineering, University of California, Los AngelesLos AngelesUnited States
- Department of Psychology, University of California, Los AngelesLos AngelesUnited States
| | - Garrett J Blair
- Department of Psychology, University of California, Los AngelesLos AngelesUnited States
| | - Changliang Guo
- David Geffen School of Medicine, University of California, Los AngelesLos AngelesUnited States
- Department of Neurology, David Geffen School of Medicine, University of California, Los AngelesLos AngelesUnited States
| | - Jim Zhou
- Department of Electrical and Computer Engineering, University of California, Los AngelesLos AngelesUnited States
| | - Juan-Luis Romero-Sosa
- Department of Psychology, University of California, Los AngelesLos AngelesUnited States
| | - Alicia Izquierdo
- Department of Psychology, University of California, Los AngelesLos AngelesUnited States
- Integrative Center for Learning and Memory, University of California, Los AngelesLos AngelesUnited States
| | - Peyman Golshani
- David Geffen School of Medicine, University of California, Los AngelesLos AngelesUnited States
- Department of Neurology, David Geffen School of Medicine, University of California, Los AngelesLos AngelesUnited States
- Integrative Center for Learning and Memory, University of California, Los AngelesLos AngelesUnited States
| | - Jason Cong
- Department of Electrical and Computer Engineering, University of California, Los AngelesLos AngelesUnited States
| | - Daniel Aharoni
- David Geffen School of Medicine, University of California, Los AngelesLos AngelesUnited States
- Department of Neurology, David Geffen School of Medicine, University of California, Los AngelesLos AngelesUnited States
- Integrative Center for Learning and Memory, University of California, Los AngelesLos AngelesUnited States
| | - Hugh T Blair
- Department of Psychology, University of California, Los AngelesLos AngelesUnited States
- Integrative Center for Learning and Memory, University of California, Los AngelesLos AngelesUnited States
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Accanto N, Blot FGC, Lorca-Cámara A, Zampini V, Bui F, Tourain C, Badt N, Katz O, Emiliani V. A flexible two-photon fiberscope for fast activity imaging and precise optogenetic photostimulation of neurons in freely moving mice. Neuron 2023; 111:176-189.e6. [PMID: 36395773 DOI: 10.1016/j.neuron.2022.10.030] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2021] [Revised: 07/28/2022] [Accepted: 10/19/2022] [Indexed: 11/17/2022]
Abstract
We developed a flexible two-photon microendoscope (2P-FENDO) capable of all-optical brain investigation at near cellular resolution in freely moving mice. The system performs fast two-photon (2P) functional imaging and 2P holographic photostimulation of single and multiple cells using axially confined extended spots. Proof-of-principle experiments were performed in freely moving mice co-expressing jGCaMP7s and the opsin ChRmine in the visual or barrel cortex. On a field of view of 250 μm in diameter, we demonstrated functional imaging at a frame rate of up to 50 Hz and precise photostimulation of selected groups of cells. With the capability to simultaneously image and control defined neuronal networks in freely moving animals, 2P-FENDO will enable a precise investigation of neuronal functions in the brain during naturalistic behaviors.
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Affiliation(s)
- Nicolò Accanto
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, F-75012 Paris, France.
| | - François G C Blot
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, F-75012 Paris, France
| | | | - Valeria Zampini
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, F-75012 Paris, France
| | - Florence Bui
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, F-75012 Paris, France
| | - Christophe Tourain
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, F-75012 Paris, France
| | - Noam Badt
- Department of Applied Physics, Hebrew University of Jerusalem, Jerusalem 9190401, Israel
| | - Ori Katz
- Department of Applied Physics, Hebrew University of Jerusalem, Jerusalem 9190401, Israel
| | - Valentina Emiliani
- Sorbonne Université, INSERM, CNRS, Institut de la Vision, F-75012 Paris, France.
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Abstract
In this series of papers on light microscopy imaging, we have covered the fundamentals of microscopy, super-resolution microscopy, and lightsheet microscopy. This last review covers multi-photon microscopy with a brief reference to intravital imaging and Brainbow labeling. Multi-photon microscopy is often referred to as two-photon microscopy. Indeed, using two-photon microscopy is by far the most common way of imaging thick tissues; however, it is theoretically possible to use a higher number of photons, and three-photon microscopy is possible. Therefore, this review is titled "multi-photon microscopy." Another term for describing multi-photon microscopy is "non-linear" microscopy because fluorescence intensity at the focal spot depends upon the average squared intensity rather than the squared average intensity; hence, non-linear optics (NLO) is an alternative name for multi-photon microscopy. It is this non-linear relationship (or third exponential power in the case of three-photon excitation) that determines the axial optical sectioning capability of multi-photon imaging. In this paper, the necessity for two-photon or multi-photon imaging is explained, and the method of optical sectioning by multi-photon microscopy is described. Advice is also given on what fluorescent markers to use and other practical aspects of imaging thick tissues. The technique of Brainbow imaging is discussed. The review concludes with a description of intravital imaging of the mouse. © 2023 Wiley Periodicals LLC.
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47
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Hart EE, Gardner MPH, Panayi MC, Kahnt T, Schoenbaum G. Calcium activity is a degraded estimate of spikes. Curr Biol 2022; 32:5364-5373.e4. [PMID: 36368324 PMCID: PMC9772124 DOI: 10.1016/j.cub.2022.10.037] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2022] [Revised: 09/20/2022] [Accepted: 10/18/2022] [Indexed: 11/12/2022]
Abstract
Recording action potentials extracellularly during behavior has led to fundamental discoveries regarding neural function-hippocampal neurons respond to locations in space,1 motor cortex neurons encode movement direction,2 and dopamine neurons signal reward prediction errors3-observations undergirding current theories of cognition,4 movement,5 and learning.6 Recently it has become possible to measure calcium flux, an internal cellular signal related to spiking. The ability to image calcium flux in anatomically7,8 or genetically9 identified neurons can extend our knowledge of neural circuit function by allowing activity to be monitored in specific cell types or projections, or in the same neurons across many days. However, while initial studies were grounded in prior unit recording work, it has become fashionable to assume that calcium is identical to spiking, even though the spike-to-fluorescence transformation is nonlinear, noisy, and unpredictable under real-world conditions.10 It remains an open question whether calcium provides a high-fidelity representation of single-unit activity in awake, behaving subjects. Here, we have addressed this question by recording both signals in the lateral orbitofrontal cortex (OFC) of rats during olfactory discrimination learning. Activity in the OFC during olfactory learning has been well-studied in humans,11,12,13,14 nonhuman primates,15,16 and rats,17,18,19,20,21 where it has been shown to signal information about both the sensory properties of odor cues and the rewards they predict. Our single-unit results replicated prior findings, whereas the calcium signal provided only a degraded estimate of the information available in the single-unit spiking, reflecting primarily reward value.
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Affiliation(s)
- Evan E Hart
- National Institute on Drug Abuse Intramural Research Program, 251 Bayview Boulevard, Baltimore, MD 21224, USA
- National Institute of General Medical Sciences, 45 Center Drive, Bethesda, MD 20892, USA
| | - Matthew PH Gardner
- National Institute on Drug Abuse Intramural Research Program, 251 Bayview Boulevard, Baltimore, MD 21224, USA
- Department of Psychology, Concordia University, 7141 Sherbrooke West, Montreal, QC H4B 1R6, CA
| | - Marios C Panayi
- National Institute on Drug Abuse Intramural Research Program, 251 Bayview Boulevard, Baltimore, MD 21224, USA
| | - Thorsten Kahnt
- National Institute on Drug Abuse Intramural Research Program, 251 Bayview Boulevard, Baltimore, MD 21224, USA
| | - Geoffrey Schoenbaum
- National Institute on Drug Abuse Intramural Research Program, 251 Bayview Boulevard, Baltimore, MD 21224, USA
- Department of Anatomy and Neurobiology, University of Maryland School of Medicine, 110 S Paca Street, Baltimore, MD 21201, USA
- Department of Neuroscience, Johns Hopkins School of Medicine, 251 Bayview Boulevard, Baltimore, MD 21224, USA
- Department of Psychiatry, University of Maryland School of Medicine, 110 S Paca Street, Baltimore, MD 21201, USA
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Beacher NJ, Washington KA, Zhang Y, Li Y, Lin DT. GRIN lens applications for studying neurobiology of substance use disorder. ADDICTION NEUROSCIENCE 2022; 4:100049. [PMID: 36531187 PMCID: PMC9757736 DOI: 10.1016/j.addicn.2022.100049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Substance use disorder (SUD) is associated with severe health and social consequences. Continued drug use results in alterations of circuits within the mesolimbic dopamine system. It is critical to observe longitudinal impacts of SUD on neural activity in vivo to identify SUD predispositions, develop pharmaceuticals to prevent overdose, and help people suffering from SUD. However, implicated SUD associated areas are buried in deep brain which makes in vivo observation of neural activity challenging. The gradient index (GRIN) lens can probe these regions in mice and rats. In this short communications review, we will discuss how the GRIN lens can be coupled with other technologies such as miniaturized microscopes, fiberscopes, fMRI, and optogenetics to fully explore in vivo SUD research. Particularly, GRIN lens allows in vivo observation of deep brain regions implicated in SUD, differentiation of genetically distinct neurons, examination of individual cells longitudinally, correlation of neuronal patters with SUD behavior, and manipulation of neural circuits.
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Affiliation(s)
- Nicholas James Beacher
- Intramural Research Program, National Institute on Drug Abuse, National Institutes of Health, Baltimore, MD, United States
| | - Kayden Alecsandre Washington
- 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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Barry J, Peng A, Levine MS, Cepeda C. Calcium imaging: A versatile tool to examine Huntington's disease mechanisms and progression. Front Neurosci 2022; 16:1040113. [PMID: 36408400 PMCID: PMC9669372 DOI: 10.3389/fnins.2022.1040113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Accepted: 10/19/2022] [Indexed: 11/06/2022] Open
Abstract
Huntington's disease (HD) is a fatal, hereditary neurodegenerative disorder that causes chorea, cognitive deficits, and psychiatric symptoms. It is characterized by accumulation of mutant Htt protein, which primarily impacts striatal medium-sized spiny neurons (MSNs), as well as cortical pyramidal neurons (CPNs), causing synapse loss and eventually cell death. Perturbed Ca2+ homeostasis is believed to play a major role in HD, as altered Ca2+ homeostasis often precedes striatal dysfunction and manifestation of HD symptoms. In addition, dysregulation of Ca2+ can cause morphological and functional changes in MSNs and CPNs. Therefore, Ca2+ imaging techniques have the potential of visualizing changes in Ca2+ dynamics and neuronal activity in HD animal models. This minireview focuses on studies using diverse Ca2+ imaging techniques, including two-photon microscopy, fiber photometry, and miniscopes, in combination of Ca2+ indicators to monitor activity of neurons in HD models as the disease progresses. We then discuss the future applications of Ca2+ imaging to visualize disease mechanisms and alterations associated with HD, as well as studies showing how, as a proof-of-concept, Ca2+imaging using miniscopes in freely-behaving animals can help elucidate the differential role of direct and indirect pathway MSNs in HD symptoms.
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50
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Yu L, Noor MS, Kiss ZHT, Murari K. Monitoring stimulus-evoked hemodynamic response during deep brain stimulation with single fiber spectroscopy. JOURNAL OF BIOPHOTONICS 2022; 15:e202200076. [PMID: 36054592 DOI: 10.1002/jbio.202200076] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Revised: 06/30/2022] [Accepted: 07/25/2022] [Indexed: 06/15/2023]
Abstract
Deep brain stimulation (DBS) is a revolutionary treatment for movement disorders. Measuring DBS-induced hemodynamic responses may be useful for surgical guidance of DBS electrode implantation as well as to study the mechanism and assess therapeutic effects of DBS. In this study, we evaluated the performance of a single fiber spectroscopic (SFS) system for measuring hemodynamic response in different cortical layers in a DBS animal model. We showed that SFS is capable of measuring minute relative changes in oxygen saturation and blood volume fraction in-vivo at a sampling rate of 22-33 Hz. During stimulation, blood volume fraction increased, while oxygen saturation showed both increases and decreases at different cortical depths across animals. In addition, we showed the potential of using SFS for measuring other physiological parameters, for example, heart rate, and respiratory rate.
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Affiliation(s)
- Linhui Yu
- Electrical and Software Engineering, University of Calgary, Calgary, Alberta, Canada
- Hotchkiss Brain Institute, University of Calgary, Calgary, Alberta, Canada
| | - M Sohail Noor
- Hotchkiss Brain Institute, University of Calgary, Calgary, Alberta, Canada
- Biomedical Engineering, University of Calgary, Calgary, Alberta, Canada
| | - Zelma H T Kiss
- Hotchkiss Brain Institute, University of Calgary, Calgary, Alberta, Canada
- Department of Clinical Neurosciences, University of Calgary, Calgary, Alberta, Canada
| | - Kartikeya Murari
- Electrical and Software Engineering, University of Calgary, Calgary, Alberta, Canada
- Hotchkiss Brain Institute, University of Calgary, Calgary, Alberta, Canada
- Biomedical Engineering, University of Calgary, Calgary, Alberta, Canada
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