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Liu J, Zhang R, Shang C, Zhang Y, Feng Y, Pan L, Xu B, Hyeon T, Bu W, Shi J, Du J. Near-Infrared Voltage Nanosensors Enable Real-Time Imaging of Neuronal Activities in Mice and Zebrafish. J Am Chem Soc 2020; 142:7858-7867. [PMID: 32259437 DOI: 10.1021/jacs.0c01025] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Optical voltage sensors with the ability to monitor neuronal activities are invaluable tools for studying information processing of the brain. However, the current genetically encoded voltage indicators usually require high-power visible light for excitation and are limited to genetically addressable model animals. Here, we report a near-infrared (NIR)-excited nongenetic voltage nanosensor that achieves stable recording of neuronal membrane potential in intact animals. The nanosensor is composed of a Förster resonance energy transfer (FRET) pair, the outer membrane-anchored upconversion nanoparticle (UCNP), and the membrane-embedded dipicrylamine (DPA). The negative charge of DPA allows membrane potential fluctuation to affect the distance between the DPA and UCNP, therefore changing the FRET efficiency. Consequently, the emission intensity of the nanosensor can report the membrane potential. Using the nanosensor, we monitor not only electrically evoked changes in the membrane potential of cultured cells but also sensory responses of neurons in intact zebrafish and brain state-modulated subthreshold activities of cortical neurons in intact mice.
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Affiliation(s)
- Jianan Liu
- Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Shanghai Research Center for Brain Science and Brain-Inspired Intelligence, Chinese Academy of Sciences, Shanghai 200031, China.,State Key Laboratory of High Performance Ceramics and Superfine Microstructure, Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai 200050, China.,Center for Nanoparticle Research, Institute for Basic Science (IBS), Seoul 08826, Republic of Korea.,School of Chemical and Biological Engineering, and Institute of Chemical Processes, Seoul National University, Seoul 08826, Republic of Korea.,School of Future Technology, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Rongwei Zhang
- Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Shanghai Research Center for Brain Science and Brain-Inspired Intelligence, Chinese Academy of Sciences, Shanghai 200031, China.,School of Future Technology, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Chunfeng Shang
- Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Shanghai Research Center for Brain Science and Brain-Inspired Intelligence, Chinese Academy of Sciences, Shanghai 200031, China.,School of Future Technology, University of Chinese Academy of Sciences, Beijing 100049, China.,Brain Disease and Cognitive Science Research Center, Shenzhen Key Laboratory of Affective and Social Cognitive Science, Shenzhen University, Shenzhen 518060, China.,Shenzhen Institute of Neuroscience, Shenzhen 518057, China.,Guangdong-Hong Kong-Macao Greater Bay Area Center for Brain Science and Brain-Inspired Intelligence, Guangzhou 510515, China
| | - Yu Zhang
- Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Shanghai Research Center for Brain Science and Brain-Inspired Intelligence, Chinese Academy of Sciences, Shanghai 200031, China.,School of Future Technology, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yun Feng
- Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Shanghai Research Center for Brain Science and Brain-Inspired Intelligence, Chinese Academy of Sciences, Shanghai 200031, China
| | - Limin Pan
- State Key Laboratory of High Performance Ceramics and Superfine Microstructure, Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai 200050, China
| | - Bing Xu
- Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Shanghai Research Center for Brain Science and Brain-Inspired Intelligence, Chinese Academy of Sciences, Shanghai 200031, China.,School of Future Technology, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Taeghwan Hyeon
- Center for Nanoparticle Research, Institute for Basic Science (IBS), Seoul 08826, Republic of Korea.,School of Chemical and Biological Engineering, and Institute of Chemical Processes, Seoul National University, Seoul 08826, Republic of Korea
| | - Wenbo Bu
- State Key Laboratory of High Performance Ceramics and Superfine Microstructure, Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai 200050, China.,Shanghai Key Laboratory of Green Chemistry and Chemical Processes, School of Chemistry and Molecular Engineering, East China Normal University, Shanghai 200062, China
| | - Jianlin Shi
- State Key Laboratory of High Performance Ceramics and Superfine Microstructure, Shanghai Institute of Ceramics, Chinese Academy of Sciences, Shanghai 200050, China
| | - Jiulin Du
- Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Shanghai Research Center for Brain Science and Brain-Inspired Intelligence, Chinese Academy of Sciences, Shanghai 200031, China.,School of Future Technology, University of Chinese Academy of Sciences, Beijing 100049, China.,ShanghaiTech University, Shanghai 200031, China
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152
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Wang P, Velagapudi R, Kong C, Rodriguiz RM, Wetsel WC, Yang T, Berger M, Gelbard HA, Colton CA, Terrando N. Neurovascular and immune mechanisms that regulate postoperative delirium superimposed on dementia. Alzheimers Dement 2020; 16:734-749. [PMID: 32291962 PMCID: PMC7317948 DOI: 10.1002/alz.12064] [Citation(s) in RCA: 64] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2019] [Revised: 12/04/2019] [Accepted: 01/03/2020] [Indexed: 12/14/2022]
Abstract
Objective The present work evaluates the relationship between postoperative immune and neurovascular changes and the pathogenesis of surgery‐induced delirium superimposed on dementia. Background and rationale Postoperative delirium is a common complication in many older adults and in patients with dementia including Alzheimer's disease (AD). The course of delirium can be particularly debilitating, while its pathophysiology remains poorly defined. Historical evolution As of 2019, an estimated 5.8 million people of all ages have been diagnosed with AD, 97% of whom are >65 years of age. Each year, many of these patients require surgery. However, anesthesia and surgery can increase the risk for further cognitive decline. Surgery triggers neuroinflammation both in animal models and in humans, and a failure to resolve this inflammatory state may contribute to perioperative neurocognitive disorders as well as neurodegenerative pathology. Updated hypothesis We propose an immunovascular hypothesis whereby dysregulated innate immunity negatively affects the blood‐brain interface, which triggers delirium and thereby exacerbates AD neuropathology. Early experimental data We have developed a translational model to study delirium superimposed on dementia in APPSwDI/mNos2−/− AD mice (CVN‐AD) after orthopedic surgery. At 12 months of age, CVN‐AD showed distinct neuroimmune and vascular impairments after surgery, including acute microgliosis and amyloid‐β deposition. These changes correlated with attention deficits, a core feature of delirium‐like behavior. Future experiments and validation studies Future research should determine the extent to which prevention of surgery‐induced microgliosis and/or neurovascular unit dysfunction can prevent or ameliorate postoperative memory and attention deficits in animal models. Translational human studies should evaluate perioperative indices of innate immunity and neurovascular integrity and assess their potential link to perioperative neurocognitive disorders. Major challenges for the hypothesis Understanding the complex relationships between delirium and dementia will require mechanistic studies aimed at evaluating the role of postoperative neuroinflammation and blood‐brain barrier changes in the setting of pre‐existing neurodegenerative and/or aging‐related pathology. Linkage to other major theories Non‐resolving inflammation with vascular disease that leads to cognitive impairments and dementia is increasingly important in risk stratification for AD in the aging population. The interdependence of these factors with surgery‐induced neuroinflammation and cognitive dysfunction is also becoming apparent, providing a strong platform for assessing the relationship between postoperative delirium and longer term cognitive dysfunction in older adults.
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Affiliation(s)
- Ping Wang
- Department of Anesthesiology, Duke University Medical Center, Durham, North Carolina, USA
| | - Ravikanth Velagapudi
- Department of Anesthesiology, Duke University Medical Center, Durham, North Carolina, USA
| | - Cuicui Kong
- Department of Anesthesiology, Duke University Medical Center, Durham, North Carolina, USA
| | - Ramona M Rodriguiz
- Department of Psychiatry and Behavioral Sciences, Mouse Behavioral and Neuroendocrine Analysis Core Facility, Duke University Medical Center, Durham, North Carolina, USA
| | - William C Wetsel
- Department of Psychiatry and Behavioral Sciences, Mouse Behavioral and Neuroendocrine Analysis Core Facility, Duke University Medical Center, Durham, North Carolina, USA.,Departments of Neurobiology and Cell Biology, Duke University Medical Center, Durham, North Carolina, USA
| | - Ting Yang
- Department of Medicine, Division of Nephrology, Duke University Medical Center, Durham, North Carolina, USA
| | - Miles Berger
- Department of Anesthesiology, Duke University Medical Center, Durham, North Carolina, USA
| | - Harris A Gelbard
- Center for Neurotherapeutics Discovery, University of Rochester Medical Center, Rochester, New York, USA
| | - Carol A Colton
- Department of Neurology, Duke University Medical Center, Durham, North Carolina, USA
| | - Niccolò Terrando
- Department of Anesthesiology, Duke University Medical Center, Durham, North Carolina, USA
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153
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Hackett MJ, Hollings A, Caine S, Bewer BE, Alaverdashvili M, Takechi R, Mamo JCL, Jones MWM, de Jonge MD, Paterson PG, Pickering IJ, George GN. Elemental characterisation of the pyramidal neuron layer within the rat and mouse hippocampus. Metallomics 2020; 11:151-165. [PMID: 30398510 DOI: 10.1039/c8mt00230d] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
A unique combination of sensitivity, resolution, and penetration make X-ray fluorescence imaging (XFI) ideally suited to investigate trace elemental distributions in the biological context. XFI has gained widespread use as an analytical technique in the biological sciences, and in particular enables exciting new avenues of research in the field of neuroscience. In this study, elemental mapping by XFI was applied to characterise the elemental content within neuronal cell layers of hippocampal sub-regions of mice and rats. Although classical histochemical methods for metal detection exist, such approaches are typically limited to qualitative analysis. Specifically, histochemical methods are not uniformly sensitive to all chemical forms of a metal, often displaying variable sensitivity to specific "pools" or chemical forms of a metal. In addition, histochemical methods require fixation and extensive chemical treatment of samples, creating the strong likelihood for metal redistribution, leaching, or contamination. Direct quantitative elemental mapping of total elemental pools, in situ within ex vivo tissue sections, without the need for chemical fixation or addition of staining reagents is not possible with traditional histochemical methods; however, such a capability, which is provided by XFI, can offer an enormous analytical advantage. The results we report herein demonstrate the analytical advantage of XFI elemental mapping for direct, label-free metal quantification, in situ within ex vivo brain tissue sections. Specifically, we definitively characterise for the first time, the abundance of Fe within the pyramidal cell layers of the hippocampus. Localisation of Fe to this cell layer is not reproducibly achieved with classical Perls histochemical Fe stains. The ability of XFI to directly quantify neuronal elemental (P, S, Cl, K, Ca, Fe, Cu, Zn) distributions, revealed unique profiles of Fe and Zn within anatomical sub-regions of the hippocampus i.e., cornu ammonis 1, 2 or 3 (CA1, CA2 or CA3) sub-regions. Interestingly, our study reveals a unique Fe gradient across neuron populations within the non-degenerating and pathology free rat hippocampus, which curiously mirrors the pattern of region-specific vulnerability of the hippocampus that has previously been established to occur in various neurodegenerative diseases.
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Affiliation(s)
- M J Hackett
- Curtin Institute for Functional Molecules and Interfaces, School of Molecular and Life Sciences, Curtin University, GPOBox U1987, Bentley, WA 6845, Australia.
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154
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Charles AS, Falk B, Turner N, Pereira TD, Tward D, Pedigo BD, Chung J, Burns R, Ghosh SS, Kebschull JM, Silversmith W, Vogelstein JT. Toward Community-Driven Big Open Brain Science: Open Big Data and Tools for Structure, Function, and Genetics. Annu Rev Neurosci 2020; 43:441-464. [PMID: 32283996 DOI: 10.1146/annurev-neuro-100119-110036] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
As acquiring bigger data becomes easier in experimental brain science, computational and statistical brain science must achieve similar advances to fully capitalize on these data. Tackling these problems will benefit from a more explicit and concerted effort to work together. Specifically, brain science can be further democratized by harnessing the power of community-driven tools, which both are built by and benefit from many different people with different backgrounds and expertise. This perspective can be applied across modalities and scales and enables collaborations across previously siloed communities.
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Affiliation(s)
- Adam S Charles
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA; .,Institute for Computational Medicine, Kavli Neuroscience Discovery Institute, and Center for Imaging Science, Johns Hopkins University, Baltimore, Maryland 21218, USA
| | - Benjamin Falk
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA;
| | - Nicholas Turner
- Department of Computer Science, Princeton University, Princeton, New Jersey 08540, USA
| | - Talmo D Pereira
- Princeton Neuroscience Institute, Princeton University, Princeton, New Jersey 08540, USA
| | - Daniel Tward
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA;
| | - Benjamin D Pedigo
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA;
| | - Jaewon Chung
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA;
| | - Randal Burns
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA;
| | - Satrajit S Ghosh
- McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.,Department of Otolaryngology-Head and Neck Surgery, Harvard Medical School, Boston, Massachusetts 02115, USA
| | - Justus M Kebschull
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA; .,Stanford University, Palo Alto, California 94305, USA
| | - William Silversmith
- Princeton Neuroscience Institute, Princeton University, Princeton, New Jersey 08540, USA
| | - Joshua T Vogelstein
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA; .,Institute for Computational Medicine, Kavli Neuroscience Discovery Institute, and Center for Imaging Science, Johns Hopkins University, Baltimore, Maryland 21218, USA
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155
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Liu J, Li F, Wang Y, Pan L, Lin P, Zhang B, Zheng Y, Xu Y, Liao H, Ko G, Fei F, Xu C, Du Y, Shin K, Kim D, Jang SS, Chung HJ, Tian H, Wang Q, Guo W, Nam JM, Chen Z, Hyeon T, Ling D. A sensitive and specific nanosensor for monitoring extracellular potassium levels in the brain. NATURE NANOTECHNOLOGY 2020; 15:321-330. [PMID: 32042163 DOI: 10.1038/s41565-020-0634-4] [Citation(s) in RCA: 63] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2019] [Accepted: 01/06/2020] [Indexed: 06/10/2023]
Abstract
Extracellular potassium concentration affects the membrane potential of neurons, and, thus, neuronal activity. Indeed, alterations of potassium levels can be related to neurological disorders, such as epilepsy and Alzheimer's disease, and, therefore, selectively detecting extracellular potassium would allow the monitoring of disease. However, currently available optical reporters are not capable of detecting small changes in potassium, in particular, in freely moving animals. Furthermore, they are susceptible to interference from sodium ions. Here, we report a highly sensitive and specific potassium nanosensor that can monitor potassium changes in the brain of freely moving mice undergoing epileptic seizures. An optical potassium indicator is embedded in mesoporous silica nanoparticles, which are shielded by an ultrathin layer of a potassium-permeable membrane, which prevents diffusion of other cations and allows the specific capturing of potassium ions. The shielded nanosensor enables the spatial mapping of potassium ion release in the hippocampus of freely moving mice.
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Affiliation(s)
- Jianan Liu
- Center for Nanoparticle Research, Institute for Basic Science (IBS), Seoul, Republic of Korea
- School of Chemical and Biological Engineering, and Institute of Chemical Processes, Seoul National University, Seoul, Republic of Korea
| | - Fangyuan Li
- College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China
- Hangzhou Institute of Innovative Medicine, College of Pharmaceutical Science, Zhejiang University, Hangzhou, China
- Key Laboratory of Biomedical Engineering of the Ministry of Education, College of Biomedical Engineering & Instrument Science, Zhejiang University, Hangzhou, China
| | - Yi Wang
- Key Laboratory of Medical Neurobiology of the Ministry of Health of China, Department of Pharmacology, School of Medicine, Zhejiang University, Hangzhou, China
| | - Limin Pan
- Department of Chemistry, Seoul National University, Seoul, Republic of Korea
| | - Peihua Lin
- College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China
- Hangzhou Institute of Innovative Medicine, College of Pharmaceutical Science, Zhejiang University, Hangzhou, China
| | - Bo Zhang
- Department of Chemistry, Zhejiang University, Hangzhou, China
| | - Yanrong Zheng
- Key Laboratory of Medical Neurobiology of the Ministry of Health of China, Department of Pharmacology, School of Medicine, Zhejiang University, Hangzhou, China
| | - Yingwei Xu
- Key Laboratory of Medical Neurobiology of the Ministry of Health of China, Department of Pharmacology, School of Medicine, Zhejiang University, Hangzhou, China
| | - Hongwei Liao
- College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China
- Hangzhou Institute of Innovative Medicine, College of Pharmaceutical Science, Zhejiang University, Hangzhou, China
| | - Giho Ko
- Center for Nanoparticle Research, Institute for Basic Science (IBS), Seoul, Republic of Korea
- School of Chemical and Biological Engineering, and Institute of Chemical Processes, Seoul National University, Seoul, Republic of Korea
| | - Fan Fei
- Key Laboratory of Medical Neurobiology of the Ministry of Health of China, Department of Pharmacology, School of Medicine, Zhejiang University, Hangzhou, China
| | - Cenglin Xu
- Key Laboratory of Medical Neurobiology of the Ministry of Health of China, Department of Pharmacology, School of Medicine, Zhejiang University, Hangzhou, China
| | - Yang Du
- College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China
- Hangzhou Institute of Innovative Medicine, College of Pharmaceutical Science, Zhejiang University, Hangzhou, China
| | - Kwangsoo Shin
- Center for Nanoparticle Research, Institute for Basic Science (IBS), Seoul, Republic of Korea
- School of Chemical and Biological Engineering, and Institute of Chemical Processes, Seoul National University, Seoul, Republic of Korea
| | - Dokyoon Kim
- Center for Nanoparticle Research, Institute for Basic Science (IBS), Seoul, Republic of Korea
- Department of Bionano Engineering and Bionanotechnology, Hanyang University, Ansan, Republic of Korea
| | - Sung-Soo Jang
- Department of Molecular and Integrative Physiology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Hee Jung Chung
- Department of Molecular and Integrative Physiology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - He Tian
- Center of Electron Microscope, State Key Laboratory of Silicon Material, School of Material Science and Engineering, Zhejiang University, Hangzhou, China
| | - Qi Wang
- Department of Chemistry, Zhejiang University, Hangzhou, China
| | - Wei Guo
- CAS Key Laboratory of Bio-Inspired Materials and Interfacial Science, Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Beijing, China
| | - Jwa-Min Nam
- Department of Chemistry, Seoul National University, Seoul, Republic of Korea
| | - Zhong Chen
- College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China.
- Key Laboratory of Medical Neurobiology of the Ministry of Health of China, Department of Pharmacology, School of Medicine, Zhejiang University, Hangzhou, China.
| | - Taeghwan Hyeon
- Center for Nanoparticle Research, Institute for Basic Science (IBS), Seoul, Republic of Korea.
- School of Chemical and Biological Engineering, and Institute of Chemical Processes, Seoul National University, Seoul, Republic of Korea.
| | - Daishun Ling
- College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China.
- Hangzhou Institute of Innovative Medicine, College of Pharmaceutical Science, Zhejiang University, Hangzhou, China.
- Key Laboratory of Biomedical Engineering of the Ministry of Education, College of Biomedical Engineering & Instrument Science, Zhejiang University, Hangzhou, China.
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156
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Zhou H, Cai R, Quan T, Liu S, Li S, Huang Q, Ertürk A, Zeng S. 3D high resolution generative deep-learning network for fluorescence microscopy imaging. OPTICS LETTERS 2020; 45:1695-1698. [PMID: 32235976 DOI: 10.1364/ol.387486] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Accepted: 02/02/2020] [Indexed: 06/11/2023]
Abstract
Microscopic fluorescence imaging serves as a basic tool in many research areas including biology, medicine, and chemistry. With the help of optical clearing, large volume imaging of a mouse brain and even a whole body has been enabled. However, constrained by the physical principles of optical imaging, volume imaging has to balance imaging resolution and speed. Here, we develop a new, to the best of our knowledge, 3D deep learning network based on a dual generative adversarial network (dual-GAN) framework for recovering high-resolution (HR) volume images from high speed acquired low-resolution (LR) volume images. The proposed method does not require a precise image registration process and meanwhile guarantees the predicted HR volume image faithful to its corresponding LR volume image. The results demonstrated that our method can recover ${20} {\times} /1.0\text-{\rm NA}$20×/1.0-NA volume images from coarsely registered ${5} {\times} /0.16\text-{\rm NA}$5×/0.16-NA volume images collected by light-sheet microscopy. This method would provide great potential in applications which require high resolution volume imaging.
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157
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Lloyd-Lewis B. Multidimensional Imaging of Mammary Gland Development: A Window Into Breast Form and Function. Front Cell Dev Biol 2020; 8:203. [PMID: 32296702 PMCID: PMC7138012 DOI: 10.3389/fcell.2020.00203] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Accepted: 03/09/2020] [Indexed: 12/14/2022] Open
Abstract
An in-depth appreciation of organ form and function relies on the ability to image intact tissues across multiple scales. Difficulties associated with imaging deep within organs, however, can preclude high-resolution multidimensional imaging of live and fixed tissues. This is particularly challenging in the mammary gland, where the epithelium lies deeply encased within a stromal matrix. Recent advances in deep-tissue and live imaging methodologies are increasingly facilitating the visualization of complex cellular structures within their native environment. Alongside, refinements in optical tissue clearing and immunostaining methods are enabling 3D fluorescence imaging of whole organs at unprecedented resolutions. Collectively, these methods are illuminating the dynamic biological processes underlying tissue morphogenesis, homeostasis, and disease. This review provides a snapshot of the current and state-of-the-art multidimensional imaging techniques applied to the postnatal mammary gland, illustrating how these approaches have revealed important new insights into mammary gland ductal development and lactation. Continual evolution of multidimensional image acquisition and analysis methods will undoubtedly offer further insights into mammary gland biology that promises to shed new light on the perturbations leading to breast cancer.
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Affiliation(s)
- Bethan Lloyd-Lewis
- School of Cellular and Molecular Medicine, Biomedical Sciences Building, University of Bristol, Bristol, United Kingdom
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158
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Callara AL, Magliaro C, Ahluwalia A, Vanello N. A Smart Region-Growing Algorithm for Single-Neuron Segmentation From Confocal and 2-Photon Datasets. Front Neuroinform 2020; 14:9. [PMID: 32256332 PMCID: PMC7090132 DOI: 10.3389/fninf.2020.00009] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2019] [Accepted: 02/26/2020] [Indexed: 12/13/2022] Open
Abstract
Accurately digitizing the brain at the micro-scale is crucial for investigating brain structure-function relationships and documenting morphological alterations due to neuropathies. Here we present a new Smart Region Growing algorithm (SmRG) for the segmentation of single neurons in their intricate 3D arrangement within the brain. Its Region Growing procedure is based on a homogeneity predicate determined by describing the pixel intensity statistics of confocal acquisitions with a mixture model, enabling an accurate reconstruction of complex 3D cellular structures from high-resolution images of neural tissue. The algorithm's outcome is a 3D matrix of logical values identifying the voxels belonging to the segmented structure, thus providing additional useful volumetric information on neurons. To highlight the algorithm's full potential, we compared its performance in terms of accuracy, reproducibility, precision and robustness of 3D neuron reconstructions based on microscopic data from different brain locations and imaging protocols against both manual and state-of-the-art reconstruction tools.
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Affiliation(s)
| | - Chiara Magliaro
- Research Center “E. Piaggio” - University of Pisa, Pisa, Italy
| | - Arti Ahluwalia
- Research Center “E. Piaggio” - University of Pisa, Pisa, Italy
- Dipartimento di Ingegneria dell’Informazione, University of Pisa, Pisa, Italy
| | - Nicola Vanello
- Research Center “E. Piaggio” - University of Pisa, Pisa, Italy
- Dipartimento di Ingegneria dell’Informazione, University of Pisa, Pisa, Italy
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159
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Novel imaging and related techniques for studies of diseases of the central nervous system: a review. Cell Tissue Res 2020; 380:415-424. [PMID: 32072308 DOI: 10.1007/s00441-020-03183-z] [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: 02/21/2019] [Accepted: 01/29/2020] [Indexed: 10/25/2022]
Abstract
Imaging technologies for the analysis of the central nervous system are rapidly developing. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry imaging, tracer-based magnetic resonance imaging, CLARITY technology and optogenetics can be used to visualize small molecules in brain tissues, the interstitial system of the brain and neuronal circuits in whole-brain samples. These tools serve as powerful technical means to explore the mechanisms underlying disease models and to evaluate the effects of drugs. Here, we review the constituting principles of these imaging techniques and describe their applications in the field of neuroscience.
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160
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Ye Y, Dinh Duong TA, Saito K, Shinmyo Y, Ichikawa Y, Higashide T, Kagami K, Fujiwara H, Sugiyama K, Kawasaki H. Visualization of the Retina in Intact Eyes of Mice and Ferrets Using a Tissue Clearing Method. Transl Vis Sci Technol 2020; 9:1. [PMID: 32704421 PMCID: PMC7347279 DOI: 10.1167/tvst.9.3.1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
Purpose Visualization of specific cells and structures in intact organs would greatly facilitate our knowledge about pathological changes; therefore, a tissue clearing method applicable to the intact eye may be valuable. Here we report a novel imaging method for the retina using the hyperhydration-based tissue clearing technique CUBIC (Clear, Unobstructed Brain/Body Imaging Cocktails and Computational Analysis). Methods Eyes of Institute of Cancer Research (ICR) mice, C57BL/6 mice, and normally pigmented sable ferrets (Mustela putorius furo) were used. Intact eyes were subjected to CUBIC, melanin bleaching with H2O2, and immunostaining. Images of the retina in intact eyes were taken using epifluorescence microscopes and confocal microscopes. Results The combination of melanin bleaching and CUBIC efficiently made the eyes of C57BL/6 mice transparent. By combining melanin bleaching, CUBIC, and immunostaining, we succeeded in visualization of retinal structures from the outside of the intact eyes of mice. Furthermore, we found that our methods were applicable not only to mouse eyes but also to ferret eyes, which are much larger than those of mice. Conclusions Our method was useful for visualizing specific cells and structures in the retina of intact eyes with single-cell resolution without making tissue sections. Translational Relevance This simple and efficient method can be applicable to various rodent models, including those associated with glaucoma or myopia, and will facilitate evaluating the effects of novel therapy for relevant eye diseases by visualizing changes from the retina to the sclera at both molecular and macroscopic levels simultaneously in a whole-eye preparation.
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Affiliation(s)
- Yunyan Ye
- Department of Medical Neuroscience, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan.,Department of Ophthalmology, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Tung Anh Dinh Duong
- Department of Medical Neuroscience, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan.,Pediatrics Department, Hai Phong University of Medicine and Pharmacy, Hai Phong, Vietnam
| | - Kengo Saito
- Department of Medical Neuroscience, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Yohei Shinmyo
- Department of Medical Neuroscience, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Yoshie Ichikawa
- Department of Medical Neuroscience, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Tomomi Higashide
- Department of Ophthalmology, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Kyosuke Kagami
- Department of Obstetrics and Gynecology, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Hiroshi Fujiwara
- Department of Obstetrics and Gynecology, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Kazuhisa Sugiyama
- Department of Ophthalmology, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
| | - Hiroshi Kawasaki
- Department of Medical Neuroscience, Graduate School of Medical Sciences, Kanazawa University, Ishikawa, Japan
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161
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Němec P, Osten P. The evolution of brain structure captured in stereotyped cell count and cell type distributions. Curr Opin Neurobiol 2020; 60:176-183. [PMID: 31945723 PMCID: PMC7191610 DOI: 10.1016/j.conb.2019.12.005] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2019] [Revised: 12/23/2019] [Accepted: 12/24/2019] [Indexed: 12/13/2022]
Abstract
The stereotyped features of brain structure, such as the distribution, morphology and connectivity of neuronal cell types across brain areas, are those most likely to explain the remarkable capacity of the brain to process information and govern behaviors. Recent advances in anatomical methods, including the simple but versatile isotropic fractionator and several whole-brain labeling, clearing and microscopy methods, have opened the door to an exciting new era in comparative brain anatomy, one that has the potential to transform our understanding of the brain structure-function relationship by representing the evolution of brain complexity in quantitative anatomical features shared across species and species-specific or clade-specific. Here we discuss these methods and their application to mapping brain cell count and cell type distributions-two particularly powerful neural correlates of vertebrate cognitive and behavioral capabilities.
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Affiliation(s)
- Pavel Němec
- Department of Zoology, Faculty of Science, Charles University, Vinicna 7, 12844 Prague, Czech Republic.
| | - Pavel Osten
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11743, USA.
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162
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Hernández JM, Buisson A, Wang I, Vial JC. Improved optical slicing by stimulated emission depletion light sheet microscopy. BIOMEDICAL OPTICS EXPRESS 2020; 11:660-671. [PMID: 32206391 PMCID: PMC7041452 DOI: 10.1364/boe.379646] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Revised: 12/17/2019] [Accepted: 12/18/2019] [Indexed: 06/10/2023]
Abstract
Three-dimensional microscopy is mandatory for biological investigation. We describe a stimulated emission depletion selective plane illumination microscope (STED-SPIM) that provides both ease of implementation and an efficient optical slicing. This self-aligned system is based on a single diode-pumped solid-state laser and phase masks made of simple cover glass. A three-fold reduction of the light sheet thickness is achieved together with an enhancement of the sheet uniformity. This method is validated by using fluorescent microspheres and thick slices of fixed and clarified mouse brain to provide an enhanced imaging of Alzheimer's disease models.
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Affiliation(s)
- José Martínez Hernández
- Univ. Grenoble Alpes, Inserm, U1216, Grenoble Institut Neurosciences, 38000 Grenoble, France
| | - Alain Buisson
- Univ. Grenoble Alpes, Inserm, U1216, Grenoble Institut Neurosciences, 38000 Grenoble, France
| | - Irène Wang
- Univ. Grenoble Alpes, CNRS, Laboratoire Interdisciplinaire de Physique, 38000 Grenoble, France
| | - Jean-Claude Vial
- Univ. Grenoble Alpes, CNRS, Laboratoire Interdisciplinaire de Physique, 38000 Grenoble, France
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163
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Wang ZM, Wei PH, Shan Y, Han M, Zhang M, Liu H, Gao JH, Lu J. Identifying and characterizing projections from the subthalamic nucleus to the cerebellum in humans. Neuroimage 2020; 210:116573. [PMID: 31968232 DOI: 10.1016/j.neuroimage.2020.116573] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2019] [Revised: 01/17/2020] [Accepted: 01/17/2020] [Indexed: 12/31/2022] Open
Abstract
A connection between the subthalamic nucleus (STN) and the cerebellum which has been shown to exist in non-human primates, was recently identified in humans. However, its anatomical features, network properties and function have yet to be elucidated in humans. In the present study, we quantified the STN-cerebellum pathway in humans and explored its function based on structural observations. Anatomical features and asymmetry index (AI) were explored using high definition fiber tractography data of 30 individuals from the Massachusetts General Hospital - Human Connectome Project adult diffusion database. Pearson's correlation analysis was performed to determine the interrelationship between the subdivisions of the STN-cerebellum and the global cortical-STN connections. The pathway was visualized bilaterally in all the subjects. Typically, after setting out from the STN, the STN-cerebellum projections incorporated into the nearby corticopontine tracts, passing through the cerebral peduncle, mediated by the pontine nucleus and then connecting in two opposite directions to join the bilateral middle cerebellar peduncle. On the group averaged level, 78.03% and 62.54% of fibers from the right and left STN respectively, distributed to Crus I in the cerebellum, part of the remaining fibers projected to Crus II, with most of the fibers crossing contralaterally. According to the AI evaluation, 60% of the participants were right STN dominant, 23% were left STN dominant, and 17% were relatively symmetric. Pearson's correlation analysis further indicated that the number of pathways from mesial Brodmann area 8 to the STN (hyperdirect pathway associated with decision making) was positively correlated with the number of fibers from the right STN to Crus I. The insertion and termination, the right-side dominance, and the positive correlation with the hyperdirect pathway all suggest that the STN-cerebellum pathway might be involved in decision-making processes.
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Affiliation(s)
- Zhen-Ming Wang
- Department of Radiology, Xuanwu Hospital, Capital Medical University, Beijing, 100053, China; Beijing Key Laboratory of Magnetic Resonance Imaging and Brain Informatics, Beijing, 100053, China
| | - Peng-Hu Wei
- Department of Neurosurgery, Xuanwu Hospital, Capital Medical University, Beijing, 100053, China
| | - Yi Shan
- Department of Radiology, Xuanwu Hospital, Capital Medical University, Beijing, 100053, China; Beijing Key Laboratory of Magnetic Resonance Imaging and Brain Informatics, Beijing, 100053, China
| | - Meizhen Han
- Center for MRI Research, Peking University, Beijing, China
| | - Miao Zhang
- Department of Radiology, Xuanwu Hospital, Capital Medical University, Beijing, 100053, China; Beijing Key Laboratory of Magnetic Resonance Imaging and Brain Informatics, Beijing, 100053, China
| | - Hesheng Liu
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital, Harvard Medical School, Charlestown, MA, USA
| | - Jia-Hong Gao
- Center for MRI Research, Peking University, Beijing, China.
| | - Jie Lu
- Department of Radiology, Xuanwu Hospital, Capital Medical University, Beijing, 100053, China; Beijing Key Laboratory of Magnetic Resonance Imaging and Brain Informatics, Beijing, 100053, China; Department of Nuclear Medicine, Xuanwu Hospital, Capital Medical University, Beijing, 100053, China.
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164
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Brain-wide functional architecture remodeling by alcohol dependence and abstinence. Proc Natl Acad Sci U S A 2020; 117:2149-2159. [PMID: 31937658 DOI: 10.1073/pnas.1909915117] [Citation(s) in RCA: 58] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
Abstract
Alcohol abuse and alcohol dependence are key factors in the development of alcohol use disorder, which is a pervasive societal problem with substantial economic, medical, and psychiatric consequences. Although our understanding of the neurocircuitry that underlies alcohol use has improved, novel brain regions that are involved in alcohol use and novel biomarkers of alcohol use need to be identified. The present study used a single-cell whole-brain imaging approach to 1) assess whether abstinence from alcohol in an animal model of alcohol dependence alters the functional architecture of brain activity and modularity, 2) validate our current knowledge of the neurocircuitry of alcohol abstinence, and 3) discover brain regions that may be involved in alcohol use. Alcohol abstinence resulted in the whole-brain reorganization of functional architecture in mice and a pronounced decrease in modularity that was not observed in nondependent moderate drinkers. Structuring of the alcohol abstinence network revealed three major brain modules: 1) extended amygdala module, 2) midbrain striatal module, and 3) cortico-hippocampo-thalamic module, reminiscent of the three-stage theory. Many hub brain regions that control this network were identified, including several that have been previously overlooked in alcohol research. These results identify brain targets for future research and demonstrate that alcohol use and dependence remodel brain-wide functional architecture to decrease modularity. Further studies are needed to determine whether the changes in coactivation and modularity that are associated with alcohol abstinence are causal features of alcohol dependence or a consequence of excessive drinking and alcohol exposure.
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165
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Guo J, Artur C, Womack T, Eriksen JL, Mayerich D. Multiplex protein-specific microscopy with ultraviolet surface excitation. BIOMEDICAL OPTICS EXPRESS 2020; 11:99-108. [PMID: 32010503 PMCID: PMC6968765 DOI: 10.1364/boe.11.000099] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2019] [Revised: 11/27/2019] [Accepted: 11/30/2019] [Indexed: 06/01/2023]
Abstract
Immunohistochemical techniques, such as immunofluorescence (IF) staining, enable microscopic imaging of local protein expression within tissue samples. Molecular profiling enabled by IF is critical to understanding pathogenesis and is often involved in complex diagnoses. A recent innovation, known as microscopy with ultraviolet surface excitation (MUSE), uses deep ultraviolet (≈280 nm) illumination to excite labels at the tissue surface, providing equivalent images without fixation, embedding, and sectioning. However, MUSE has not yet been integrated into traditional IF pipelines. This limits its application in more complex diagnoses that rely on protein-specific markers. This paper aims to broaden the applicability of MUSE to multiplex immunohistochemistry using quantum dot nanoparticles. We demonstrate the advantages of quantum dot labels for protein-specific MUSE imaging on both paraffin-embedded and intact tissue, significantly expanding MUSE applicability to protein-specific applications. Furthermore, with recent innovations in three-dimensional ultraviolet fluorescence microscopy, this opens the door to three-dimensional IF imaging with quantum dots using ultraviolet excitation.
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Affiliation(s)
- Jiaming Guo
- University of Houston, Department of Electrical and Computer Engineering, Houston, TX 77004, USA
- These authors contributed equally to this work
| | - Camille Artur
- University of Houston, Department of Electrical and Computer Engineering, Houston, TX 77004, USA
- These authors contributed equally to this work
| | - Tasha Womack
- University of Houston, Department of Pharmacology, Houston, TX 77004, USA
| | - Jason L. Eriksen
- University of Houston, Department of Pharmacology, Houston, TX 77004, USA
| | - David Mayerich
- University of Houston, Department of Electrical and Computer Engineering, Houston, TX 77004, USA
- University of Houston, NSF I/UCRC BRAIN Center, Houston, TX 77004, USA
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166
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Yang E, Kim JY, Yang SH, Lee E, Sun W, Lee HW, Kim H. Three-Dimensional Analysis of Mouse Habenula Subnuclei Reveals Reduced Volume and Gene Expression in the Lipopolysaccharide-mediated Depression Model. Exp Neurobiol 2019; 28:709-719. [PMID: 31902158 PMCID: PMC6946114 DOI: 10.5607/en.2019.28.6.709] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Revised: 11/25/2019] [Accepted: 11/27/2019] [Indexed: 12/12/2022] Open
Abstract
The habenula (Hb) is small but important brain structure, anatomically and functionally links the forebrain with the midbrain to modulate various neuropsychiatric functions associated with drug addiction and emotion-associated dysfunctions. Several reports suggested that the dysfunction of Hb-related functions affected the Hb structurally and functionally. However, the technical limitation has awaited the solid conclusion of whether Hb change due to depression is likely to occur in certain subnuclei of the Hb. To probe this possibility, we developed 3-dimensional reconstruction methods for the high-resolution volumetric analysis of Hb and the mRNA levels at the given volume in normal or lipopolysaccharide (LPS)-mediated mouse model of depression. Notably, we discovered that the volume reduction was prominent in medial Hb but not in lateral Hb after LPS treatments. On the other hand, the RNA expression levels of known Hb regional markers such as Tac1 (dorsal part of medial Hb), ChAT (ventral part of medial Hb), and Tacr1 (medial and lateral Hb) were all decreased in all Hb subnuclei in LPS-injected mice. Accordingly, accurate volumetry with marker labeling was not feasible. Collectively, these established 3D analyses of mouse Hb successfully and precisely determine the volume-based changes of small brain structure, which should be applicable in a wider range of mouse models or pathological specimens.
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Affiliation(s)
- Esther Yang
- Department of Anatomy, College of Medicine, Korea University, Seoul 02841, Korea
| | - Jin Yong Kim
- Department of Anatomy, College of Medicine, Korea University, Seoul 02841, Korea
| | - Soo Hyun Yang
- Department of Anatomy, College of Medicine, Korea University, Seoul 02841, Korea
| | - Eunsoo Lee
- Department of Anatomy, College of Medicine, Korea University, Seoul 02841, Korea
| | - Woong Sun
- Department of Anatomy, College of Medicine, Korea University, Seoul 02841, Korea
| | - Hyun Woo Lee
- Department of Anatomy, College of Medicine, Korea University, Seoul 02841, Korea
| | - Hyun Kim
- Department of Anatomy, College of Medicine, Korea University, Seoul 02841, Korea
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167
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Abstract
Neuroinflammation has become a key hallmark of neurological complications including perioperative pathologies such as postoperative delirium and longer-lasting postoperative cognitive dysfunction. Dysregulated inflammation and neuronal injury are emerging from clinical studies as key features of perioperative neurocognitive disorders. These findings are paralleled by a growing body of preclinical investigations aimed at better understanding how surgery and anesthesia affect the central nervous system and possibly contribute to cognitive decline. Herein, we review the role of postoperative neuroinflammation and underlying mechanisms in immune-to-brain signaling after peripheral surgery.
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Affiliation(s)
- Saraswathi Subramaniyan
- From the Center for Translational Pain Medicine, Department of Anesthe siology, Duke University Medical Center, Durham, North Carolina
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168
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Zhang GH, Nelson DR. Eigenvalue repulsion and eigenvector localization in sparse non-Hermitian random matrices. Phys Rev E 2019; 100:052315. [PMID: 31870007 DOI: 10.1103/physreve.100.052315] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2019] [Indexed: 11/07/2022]
Abstract
Complex networks with directed, local interactions are ubiquitous in nature and often occur with probabilistic connections due to both intrinsic stochasticity and disordered environments. Sparse non-Hermitian random matrices arise naturally in this context and are key to describing statistical properties of the nonequilibrium dynamics that emerges from interactions within the network structure. Here we study one-dimensional (1D) spatial structures and focus on sparse non-Hermitian random matrices in the spirit of tight-binding models in solid state physics. We first investigate two-point eigenvalue correlations in the complex plane for sparse non-Hermitian random matrices using methods developed for the statistical mechanics of inhomogeneous two-dimensional interacting particles. We find that eigenvalue repulsion in the complex plane directly correlates with eigenvector delocalization. In addition, for 1D chains and rings with both disordered nearest-neighbor connections and self-interactions, the self-interaction disorder tends to decorrelate eigenvalues and localize eigenvectors more than simple hopping disorder. However, remarkable resistance to eigenvector localization by disorder is provided by large cycles, such as those embodied in 1D periodic boundary conditions under strong directional bias. The directional bias also spatially separates the left and right eigenvectors, leading to interesting dynamics in excitation and response. These phenomena have important implications for asymmetric random networks and highlight a need for mathematical tools to describe and understand them analytically.
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Affiliation(s)
- Grace H Zhang
- Department of Physics, Harvard University, Cambridge, Massachusetts 02138, USA
| | - David R Nelson
- Department of Physics, Harvard University, Cambridge, Massachusetts 02138, USA
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169
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Abstract
Across zoonotic pathogens, RNA viruses are responsible for disproportionate levels of human disease, suffering, and death. Neurotropic RNA viruses (e.g., rabies, Japanese and Eastern Equine Encephalitis, Ebola, West Nile, Powassan) infect the brain and spinal cord, causing meningitis, encephalitis, microcephaly, and Guillain-Barré syndrome. Mechanistic data explaining the molecular mechanisms of these diseases are lacking, and the enclosure of the central nervous system and the associated meninges in bone complicates access for diagnosis, clinical treatment, and research. Here, we discuss new tissue models, imaging methods, and molecular techniques that are changing research aimed at understanding the pathogenesis of neurotropic RNA viruses.
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Affiliation(s)
- Jenna Antonucci
- Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Lee Gehrke
- Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- Department of Microbiology, Harvard Medical School, Boston, Massachusetts 02115, United States
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170
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Velagapudi R, Subramaniyan S, Xiong C, Porkka F, Rodriguiz RM, Wetsel WC, Terrando N. Orthopedic Surgery Triggers Attention Deficits in a Delirium-Like Mouse Model. Front Immunol 2019; 10:2675. [PMID: 31911786 PMCID: PMC6918861 DOI: 10.3389/fimmu.2019.02675] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2019] [Accepted: 10/30/2019] [Indexed: 01/15/2023] Open
Abstract
Postoperative delirium is a frequent and debilitating complication, especially amongst high risk procedures such as orthopedic surgery, and its pathogenesis remains unclear. Inattention is often reported in the clinical diagnosis of delirium, however limited attempts have been made to study this cognitive domain in preclinical models. Here we implemented the 5-choice serial reaction time task (5-CSRTT) to evaluate attention in a clinically relevant mouse model following orthopedic surgery. The 5-CSRTT showed a time-dependent impairment in the number of responses made by the mice acutely after orthopedic surgery, with maximum impairment at 24 h and returning to pre-surgical performance by day 5. Similarly, the latency to the response was also delayed during this time period but returned to pre-surgical levels within several days. While correct responses decreased following surgery, the accuracy of the response (e.g., selection of the correct nose-poke) remained relatively unchanged. In a separate cohort we evaluated neuroinflammation and blood-brain barrier (BBB) dysfunction using clarified brain tissue with light-sheet microscopy. CLARITY revealed significant changes in microglial morphology and impaired astrocytic-tight junction interactions using high-resolution 3D reconstructions of the neurovascular unit. Deposition of IgG, fibrinogen, and autophagy markers (TFEB and LAMP1) were also altered in the hippocampus 24 h after surgery. Together, these results provide translational evidence for the role of peripheral surgery contributing to delirium-like behavior and disrupted neuroimmunity in adult mice.
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Affiliation(s)
- Ravikanth Velagapudi
- Department of Anesthesiology, Center for Translational Pain Medicine, Duke University Medical Center, Durham, NC, United States
| | - Saraswathi Subramaniyan
- Department of Anesthesiology, Center for Translational Pain Medicine, Duke University Medical Center, Durham, NC, United States
| | - Chao Xiong
- Department of Anesthesiology, Center for Translational Pain Medicine, Duke University Medical Center, Durham, NC, United States
| | - Fiona Porkka
- Department of Psychiatry and Behavioral Sciences, Mouse Behavioral and Neuroendocrine Analysis Core Facility, Duke University Medical Center, Durham, NC, United States
| | - Ramona M. Rodriguiz
- Department of Psychiatry and Behavioral Sciences, Mouse Behavioral and Neuroendocrine Analysis Core Facility, Duke University Medical Center, Durham, NC, United States
| | - William C. Wetsel
- Department of Psychiatry and Behavioral Sciences, Mouse Behavioral and Neuroendocrine Analysis Core Facility, Duke University Medical Center, Durham, NC, United States
- Departments of Neurobiology and Cell Biology, Duke University Medical Center, Durham, NC, United States
| | - Niccolò Terrando
- Department of Anesthesiology, Center for Translational Pain Medicine, Duke University Medical Center, Durham, NC, United States
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171
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Mullapudi ST, Boezio GLM, Rossi A, Marass M, Matsuoka RL, Matsuda H, Helker CSM, Yang YHC, Stainier DYR. Disruption of the pancreatic vasculature in zebrafish affects islet architecture and function. Development 2019; 146:dev.173674. [PMID: 31597659 DOI: 10.1242/dev.173674] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Accepted: 10/03/2019] [Indexed: 12/14/2022]
Abstract
A dense local vascular network is crucial for pancreatic endocrine cells to sense metabolites and secrete hormones, and understanding the interactions between the vasculature and the islets may allow for therapeutic modulation in disease conditions. Using live imaging in two models of vascular disruption in zebrafish, we identified two distinct roles for the pancreatic vasculature. At larval stages, expression of a dominant negative version of Vegfaa (dnVegfaa) in β-cells led to vascular and endocrine cell disruption with a minor impairment in β-cell function. In contrast, expression of a soluble isoform of Vegf receptor 1 (sFlt1) in β-cells blocked the formation of the pancreatic vasculature and drastically stunted glucose response, although islet architecture was not affected. Notably, these effects of dnVegfaa or sFlt1 were not observed in animals lacking vegfaa, vegfab, kdrl, kdr or flt1 function, indicating that they interfere with multiple ligands and/or receptors. In adults, disrupted islet architecture persisted in dnVegfaa-expressing animals, whereas sFlt1-expressing animals displayed large sheets of β-cells along their pancreatic ducts, accompanied by impaired glucose tolerance in both models. Thus, our study reveals novel roles for the vasculature in patterning and function of the islet.
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Affiliation(s)
- Sri Teja Mullapudi
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Giulia L M Boezio
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Andrea Rossi
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Michele Marass
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Ryota L Matsuoka
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Hiroki Matsuda
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Christian S M Helker
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Yu Hsuan Carol Yang
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
| | - Didier Y R Stainier
- Department of Developmental Genetics, Max Planck Institute for Heart and Lung Research, 61231 Bad Nauheim, Germany
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172
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Foster DS, Nguyen AT, Chinta M, Salhotra A, Jones RE, Mascharak S, Titan AL, Ransom RC, da Silva OL, Foley E, Briger E, Longaker MT. A Clearing Technique to Enhance Endogenous Fluorophores in Skin and Soft Tissue. Sci Rep 2019; 9:15791. [PMID: 31673001 PMCID: PMC6823366 DOI: 10.1038/s41598-019-50359-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2019] [Accepted: 09/06/2019] [Indexed: 12/26/2022] Open
Abstract
Fluorescent proteins are used extensively in transgenic animal models to label and study specific cell and tissue types. Expression of these proteins can be imaged and analyzed using fluorescent and confocal microscopy. Conventional confocal microscopes cannot penetrate through tissue more than 4–6 μm thick. Tissue clearing procedures overcome this challenge by rendering thick specimens into translucent tissue. However, most tissue clearing techniques do not satisfactorily preserve expression of endogenous fluorophores. Using simple adjustments to the BABB (Benzoic Acid Benzyl Benzoate) clearing methodology, preservation of fluorophore expression can be maintained. Modified BABB tissue clearing is a reliable technique to clear skin and soft tissue specimens for the study of dermal biology, wound healing and fibrotic pathologies.
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Affiliation(s)
- Deshka S Foster
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA.,Department of Surgery, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Alan T Nguyen
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Malini Chinta
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Ankit Salhotra
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - R Ellen Jones
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Shamik Mascharak
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Ashley L Titan
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA.,Department of Surgery, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - R Chase Ransom
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Oscar L da Silva
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Eliza Foley
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Emma Briger
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA
| | - Michael T Longaker
- Hagey Laboratory for Pediatric Regenerative Medicine, Stanford University School of Medicine, Stanford, CA, 94305, USA. .,Department of Surgery, Stanford University School of Medicine, Stanford, CA, 94305, USA.
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173
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Mang A, Gholami A, Davatzikos C, Biros G. CLAIRE: A DISTRIBUTED-MEMORY SOLVER FOR CONSTRAINED LARGE DEFORMATION DIFFEOMORPHIC IMAGE REGISTRATION. SIAM JOURNAL ON SCIENTIFIC COMPUTING : A PUBLICATION OF THE SOCIETY FOR INDUSTRIAL AND APPLIED MATHEMATICS 2019; 41:C548-C584. [PMID: 34650324 PMCID: PMC8513530 DOI: 10.1137/18m1207818] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
With this work we release CLAIRE, a distributed-memory implementation of an effective solver for constrained large deformation diifeomorphic image registration problems in three dimensions. We consider an optimal control formulation. We invert for a stationary velocity field that parameterizes the deformation map. Our solver is based on a globalized, preconditioned, inexact reduced space Gauss‒Newton‒Krylov scheme. We exploit state-of-the-art techniques in scientific computing to develop an eifective solver that scales to thousands of distributed memory nodes on high-end clusters. We present the formulation, discuss algorithmic features, describe the software package, and introduce an improved preconditioner for the reduced space Hessian to speed up the convergence of our solver. We test registration performance on synthetic and real data. We Demonstrate registration accuracy on several neuroimaging datasets. We compare the performance of our scheme against diiferent flavors of the Demons algorithm for diifeomorphic image registration. We study convergence of our preconditioner and our overall algorithm. We report scalability results on state-of-the-art supercomputing platforms. We Demonstrate that we can solve registration problems for clinically relevant data sizes in two to four minutes on a standard compute node with 20 cores, attaining excellent data fidelity. With the present work we achieve a speedup of (on average) 5× with a peak performance of up to 17× compared to our former work.
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Affiliation(s)
- Andreas Mang
- Department of Mathematics, University of Houston, Houston, TX 77204-5008
| | - Amir Gholami
- Department of Electrical Engineering and Computer Sciences, University of California, Berkeley, CA 94720-1770
| | - Christos Davatzikos
- Center for Biomedical Image Computing and Analytics, Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104-2643
| | - George Biros
- Oden Institute for Computational Engineering and Sciences, University of Texas at Austin, Austin, TX 78712-1229
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174
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Sauvage M, Kitsukawa T, Atucha E. Single-cell memory trace imaging with immediate-early genes. J Neurosci Methods 2019; 326:108368. [DOI: 10.1016/j.jneumeth.2019.108368] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Revised: 07/15/2019] [Accepted: 07/17/2019] [Indexed: 11/29/2022]
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175
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Voleti V, Patel KB, Li W, Perez Campos C, Bharadwaj S, Yu H, Ford C, Casper MJ, Yan RW, Liang W, Wen C, Kimura KD, Targoff KL, Hillman EMC. Real-time volumetric microscopy of in vivo dynamics and large-scale samples with SCAPE 2.0. Nat Methods 2019; 16:1054-1062. [PMID: 31562489 PMCID: PMC6885017 DOI: 10.1038/s41592-019-0579-4] [Citation(s) in RCA: 156] [Impact Index Per Article: 31.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2019] [Accepted: 08/19/2019] [Indexed: 11/25/2022]
Abstract
The limited per-pixel bandwidth of most microscopy methods requires compromises between field of view, sampling density and imaging speed. This limitation constrains studies involving complex motion or fast cellular signaling, and presents a major bottleneck for high-throughput structural imaging. Here, we combine high-speed intensified camera technology with a versatile, reconfigurable and dramatically improved Swept, Confocally Aligned Planar Excitation (SCAPE) microscope design that can achieve high-resolution volumetric imaging at over 300 volumes per second and over 1.2 GHz pixel rates. We demonstrate near-isotropic sampling in freely moving Caenorhabditis elegans, and analyze real-time blood flow and calcium dynamics in the beating zebrafish heart. The same system also permits high-throughput structural imaging of mounted, intact, cleared and expanded samples. SCAPE 2.0's significantly lower photodamage compared to point-scanning techniques is also confirmed. Our results demonstrate that SCAPE 2.0 is a powerful, yet accessible imaging platform for myriad emerging high-speed dynamic and high-throughput volumetric microscopy applications.
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Affiliation(s)
- Venkatakaushik Voleti
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Kripa B Patel
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Wenze Li
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Citlali Perez Campos
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Srinidhi Bharadwaj
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Hang Yu
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Caitlin Ford
- Department of Pediatrics, College of Physicians & Surgeons, Columbia University, New York, NY, USA
| | - Malte J Casper
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Richard Wenwei Yan
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Wenxuan Liang
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Chentao Wen
- Graduate School of Natural Sciences, Nagoya City University, Nagoya, Japan
| | - Koutarou D Kimura
- Graduate School of Natural Sciences, Nagoya City University, Nagoya, Japan
- Center for Advanced Intelligence Project, RIKEN, Tokyo, Japan
| | - Kimara L Targoff
- Department of Pediatrics, College of Physicians & Surgeons, Columbia University, New York, NY, USA
| | - Elizabeth M C Hillman
- Laboratory for Functional Optical Imaging, Department of Biomedical Engineering, Columbia University, New York, NY, USA.
- Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA.
- Department of Radiology, Columbia University Medical Center and New York-Presbyterian Hospital New York, New York, NY, USA.
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176
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Georgiadis M, Schroeter A, Gao Z, Guizar-Sicairos M, Novikov DS, Fieremans E, Rudin M. Retrieving neuronal orientations using 3D scanning SAXS and comparison with diffusion MRI. Neuroimage 2019; 204:116214. [PMID: 31568873 DOI: 10.1016/j.neuroimage.2019.116214] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2019] [Revised: 09/06/2019] [Accepted: 09/18/2019] [Indexed: 01/08/2023] Open
Abstract
While diffusion MRI (dMRI) is currently the method of choice to non-invasively probe tissue microstructure and study structural connectivity in the brain, its spatial resolution is limited and its results need structural validation. Current ex vivo methods employed to provide 3D fiber orientations have limitations, including tissue-distorting sample preparation, small field of view or inability to quantify 3D fiber orientation distributions. 3D fiber orientation in tissue sections can be obtained from 3D scanning small-angle X-ray scattering (3D sSAXS) by analyzing the anisotropy of scattering signals. Here we adapt the 3D sSAXS method for use in brain tissue, exploiting the high sensitivity of the SAXS signal to the ordered molecular structure of myelin. We extend the characterization of anisotropy from vectors to tensors, employ the Funk-Radon-Transform for converting scattering information to real space fiber orientations, and demonstrate the feasibility of the method in thin sections of mouse brain with minimal sample preparation. We obtain a second rank tensor representing the fiber orientation distribution function (fODF) for every voxel, thereby generating fODF maps. Finally, we illustrate the potential of 3D sSAXS by comparing the result with diffusion MRI fiber orientations in the same mouse brain. We show a remarkably good correspondence, considering the orthogonality of the two methods, i.e. the different physical processes underlying the two signals. 3D sSAXS can serve as validation method for microstructural MRI, and can provide novel microstructural insights for the nervous system, given the method's orthogonality to dMRI, high sensitivity to myelin sheath's orientation and abundance, and the possibility to extract myelin-specific signal and to perform micrometer-resolution scanning.
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Affiliation(s)
- Marios Georgiadis
- Institute for Biomedical Engineering, ETH Zurich, Zurich, Switzerland; Center for Biomedical Imaging, Department of Radiology, New York University School of Medicine, USA; Department of Radiology, Stanford Medicine, USA.
| | - Aileen Schroeter
- Institute for Biomedical Engineering, ETH Zurich, Zurich, Switzerland
| | - Zirui Gao
- Institute for Biomedical Engineering, ETH Zurich, Zurich, Switzerland; Paul Scherrer Institute, Villigen, Switzerland
| | | | - Dmitry S Novikov
- Center for Biomedical Imaging, Department of Radiology, New York University School of Medicine, USA
| | - Els Fieremans
- Center for Biomedical Imaging, Department of Radiology, New York University School of Medicine, USA
| | - Markus Rudin
- Institute for Biomedical Engineering, ETH Zurich, Zurich, Switzerland; Institute of Pharmacology and Toxicology, University of Zurich, Zurich, Switzerland
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177
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Abstract
When neuroscience’s focus moves from molecular and cellular level to systems level, information technology mixes in and cultivates a new branch neuroinformatics. Especially under the investments of brain initiatives all around the world, brain atlases and connectomics are identified as the substructure to understand the brain. We think it is time to call for a potential interdisciplinary subject, brainsmatics, referring to brain-wide spatial informatics science and emphasizing on precise positioning information affiliated to brain-wide connectome, genome, proteome, transcriptome, metabolome, etc. Brainsmatics methodology includes tracing, surveying, visualizing, and analyzing brain-wide spatial information. Among all imaging techniques, optical imaging is the most appropriate solution to achieve whole-brain connectome in consistent single-neuron resolution. This review aims to introduce contributions of optical imaging to brainsmatics studies, especially the major strategies applied in tracing and surveying processes. After discussions on the state-of-the-art technology, the development objectives of optical imaging in brainsmatics field are suggested. We call for a global contribution to the brainsmatics field from all related communities such as neuroscientists, biologists, engineers, programmers, chemists, mathematicians, physicists, clinicians, pharmacists, etc. As the leading approach, optical imaging will, in turn, benefit from the prosperous development of brainsmatics.
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178
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Zach P, Mrzílková J, Pala J, Uttl L, Kútna V, Musil V, Sommerová B, Tůma P. New Design of the Electrophoretic Part of CLARITY Technology for Confocal Light Microscopy of Rat and Human Brains. Brain Sci 2019; 9:E218. [PMID: 31470513 PMCID: PMC6770398 DOI: 10.3390/brainsci9090218] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2019] [Revised: 08/15/2019] [Accepted: 08/28/2019] [Indexed: 12/17/2022] Open
Abstract
BACKGROUND CLARITY is a method of rendering postmortem brain tissue transparent using acrylamide-based hydrogels so that this tissue could be further used for immunohistochemistry, molecular biology, or gross anatomical studies. Published papers using the CLARITY method have included studies on human brains suffering from Alzheimer's disease using mouse spinal cords as animal models for multiple sclerosis. METHODS We modified the original design of the Chung CLARITY system by altering the electrophoretic flow-through cell, the shape of the platinum electrophoresis electrodes and their positions, as well as the cooling and recirculation system, so that it provided a greater effect and can be used in any laboratory. RESULTS The adapted CLARITY system is assembled from basic laboratory components, in contrast to the original design. The modified CLARITY system was tested both on rat brain stained with a rabbit polyclonal anti-Iba-1 for microglial cells and on human nucleus accumbens stained with parvalbumin and tyrosine hydroxylase for visualization of specific neurons by confocal laser scanning microscopy. CONCLUSIONS Our design has the advantage of simplicity, functional robustness, and minimal requirement for specialized additional items for the construction of the CLARITY apparatus.
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Affiliation(s)
- Petr Zach
- Department of Anatomy, Third Faculty of Medicine, Charles University, Ruská 87, 100 00 Prague 10, Czech Republic
- National Institute of Mental Health, Topolová 748, 250 67 Klecany, Czech Republic
| | - Jana Mrzílková
- Department of Anatomy, Third Faculty of Medicine, Charles University, Ruská 87, 100 00 Prague 10, Czech Republic
| | - Jan Pala
- National Institute of Mental Health, Topolová 748, 250 67 Klecany, Czech Republic
- Department of Pathophysiology, Third Faculty of Medicine, Charles University, Ruská 87, 100 00 Prague 10, Czech Republic
| | - Libor Uttl
- National Institute of Mental Health, Topolová 748, 250 67 Klecany, Czech Republic
| | - Viera Kútna
- National Institute of Mental Health, Topolová 748, 250 67 Klecany, Czech Republic
| | - Vladimír Musil
- Centre of Scientific Information, Third Faculty of Medicine, Charles University, Ruská 87, 100 00 Prague 10, Czech Republic
| | - Blanka Sommerová
- Department of Hygiene, Third Faculty of Medicine, Charles University, Ruská 87, 100 00 Prague 10, Czech Republic
| | - Petr Tůma
- Department of Hygiene, Third Faculty of Medicine, Charles University, Ruská 87, 100 00 Prague 10, Czech Republic.
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179
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Li S, Quan T, Zhou H, Huang Q, Guan T, Chen Y, Xu C, Kang H, Li A, Fu L, Luo Q, Gong H, Zeng S. Brain-Wide Shape Reconstruction of a Traced Neuron Using the Convex Image Segmentation Method. Neuroinformatics 2019; 18:199-218. [PMID: 31396858 DOI: 10.1007/s12021-019-09434-x] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Neuronal shape reconstruction is a helpful technique for establishing neuron identity, inferring neuronal connections, mapping neuronal circuits, and so on. Advances in optical imaging techniques have enabled data collection that includes the shape of a neuron across the whole brain, considerably extending the scope of neuronal anatomy. However, such datasets often include many fuzzy neurites and many crossover regions that neurites are closely attached, which make neuronal shape reconstruction more challenging. In this study, we proposed a convex image segmentation model for neuronal shape reconstruction that segments a neurite into cross sections along its traced skeleton. Both the sparse nature of gradient images and the rule that fuzzy neurites usually have a small radius are utilized to improve neuronal shape reconstruction in regions with fuzzy neurites. Because the model is closely related to the traced skeleton point, we can use this relationship for identifying neurite with crossover regions. We demonstrated the performance of our model on various datasets, including those with fuzzy neurites and neurites with crossover regions, and we verified that our model could robustly reconstruct the neuron shape on a brain-wide scale.
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Affiliation(s)
- Shiwei Li
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Tingwei Quan
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China. .,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China. .,School of Mathematics and Economics, Hubei University of Education, Wuhan, 430205, Hubei, China.
| | - Hang Zhou
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Qing Huang
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Tao Guan
- School of Computer Science and Technology, Huazhong University of Science and Technology, Wuhan, China
| | - Yijun Chen
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Cheng Xu
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Hongtao Kang
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Anan Li
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Ling Fu
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Qingming Luo
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Hui Gong
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Shaoqun Zeng
- Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China.,MoE Key Laboratory for Biomedical Photonics, Collaborative Innovation Center for Biomedical Engineering, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
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180
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Magdoom KN, Brown A, Rey J, Mareci TH, King MA, Sarntinoranont M. MRI of Whole Rat Brain Perivascular Network Reveals Role for Ventricles in Brain Waste Clearance. Sci Rep 2019; 9:11480. [PMID: 31391474 PMCID: PMC6685961 DOI: 10.1038/s41598-019-44938-1] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2019] [Accepted: 05/02/2019] [Indexed: 12/13/2022] Open
Abstract
Investigating the mechanisms by which metabolic wastes are cleared from nervous tissue is important for understanding natural function and the pathophysiology of several neurological disorders including Alzheimer's disease. Recent evidence suggests clearance may be the function of annular spaces around cerebral blood vessels, called perivascular spaces (PVS), through which cerebrospinal fluid (CSF) is transported from the subarachnoid space into brain parenchyma to exchange with interstitial fluid (also known as the glymphatic system). In this work, an MRI-based methodology was developed to reconstruct the PVS network in whole rat brain to better elucidate both PVS uptake and clearance pathways. MR visible tracer (Gd-albumin) was infused in vivo into the CSF-filled lateral ventricle followed by ex vivo high-resolution MR imaging at 17.6 T with an image voxel volume two orders of magnitude smaller than previously reported. Imaged tracer distribution patterns were reconstructed to obtain a more complete brain PVS network. Several PVS connections were repeatedly highlighted across different animals, and new PVS connections between ventricles and different parts of the brain parenchyma were revealed suggesting a possible role for the ventricles as a source or sink for solutes in the brain. In the future, this methodology may be applied to understand changes in the PVS network with disease.
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Affiliation(s)
- Kulam Najmudeen Magdoom
- Department of Mechanical and Aerospace Engineering, University of Florida, Gainesville, FL, USA
| | - Alec Brown
- Department of Biochemistry and Molecular Biology, University of Florida, Gainesville, FL, USA
| | - Julian Rey
- Department of Mechanical and Aerospace Engineering, University of Florida, Gainesville, FL, USA
| | - Thomas H Mareci
- Department of Biochemistry and Molecular Biology, University of Florida, Gainesville, FL, USA
| | - Michael A King
- Department of Pharmacology and Therapeutics, University of Florida, Gainesville, FL, USA.,Department of Veterans Affairs Medical Center, Gainesville, FL, USA
| | - Malisa Sarntinoranont
- Department of Mechanical and Aerospace Engineering, University of Florida, Gainesville, FL, USA.
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181
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Mortazavi F, Stankiewicz AJ, Zhdanova IV. Looking through Brains with Fast Passive CLARITY: Zebrafish, Rodents, Non-human Primates and Humans. Bio Protoc 2019; 9:e3321. [PMID: 33654828 DOI: 10.21769/bioprotoc.3321] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2019] [Revised: 07/24/2019] [Accepted: 07/16/2019] [Indexed: 12/18/2022] Open
Abstract
Recently developed CLARITY (Clear Lipid-exchanged Acrylamide-hybridized Rigid Imaging/Immunostaining/In situ-hybridization-compatible Tis-sue-hYdrogel) technique renders the tissue transparent by removing lipids in the tissue, while preserving and stabilizing the cellular and subcellular structures. This provides effective penetration of diverse labeling probes, from primary and secondary antibodies to complementary DNA and RNA strands. Followed by high-resolution 3D imaging of neuronal cells and their projections in thick sections, tissue blocks, whole brains, or whole animals, CLARITY allows for superior quantitative analysis of neuronal tissue. Here, we provide our detailed protocol for PACT (Passive Clarity Technique) in brain tissue of diverse species, including human, non-human primate, rodents, and zebrafish. We describe the six principal steps: (1) Tissue fixation and preparation, (2) Passive lipid removal, (3) Immuno-labeling, (4) Optical clearing, (5) Imaging, (6) 3D visualization and quantification.
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Affiliation(s)
- Farzad Mortazavi
- Department of Anatomy and Neurobiology, Boston University School of Medicine, Boston, MA 02118, USA
| | - Alexander J Stankiewicz
- Department of Physics, University of Connecticut, Storrs, Connecticut 06269, USA.,Department of Preclinical Research, BioChron LLC, Worcester, Massachusetts 01605, USA
| | - Irina V Zhdanova
- Department of Preclinical Research, BioChron LLC, Worcester, Massachusetts 01605, USA
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182
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Frankel RD. Orthogonal beam ballistic backscatter stimulated Raman microscopy. OPTICS EXPRESS 2019; 27:22770-22786. [PMID: 31510563 DOI: 10.1364/oe.27.022770] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2019] [Accepted: 07/11/2019] [Indexed: 06/10/2023]
Abstract
When the axial gain length of a stimulated Raman microscope is less than about 40% of the emission wavelength significant dipole-like ballistic backscatter will occur. Here we analyze a scanning microscope configured with orthogonal water dipping pump and probe objectives that satisfies this criterion. The pump beam focus may be a Gaussian spot or a droplet Bessel beam which minimizes the secondary Bessel beam lobes and provides multiple simultaneous pump focal spot regions. Radial and linearly polarized pump beams enable backscattered polarized signals along both transverse axes of the probe beam. Low level Mie backscatter is the primary photon noise source which should enable rapid sub-wavelength resolution 3-dimensional imaging of label-free Raman contrast for in-vivo pathology, as well as, imaging physiologic concentrations of Raman labelled metabolites and drugs.
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183
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Zheng T, Feng Z, Wang X, Jiang T, Jin R, Zhao P, Luo T, Gong H, Luo Q, Yuan J. Review of micro-optical sectioning tomography (MOST): technology and applications for whole-brain optical imaging [Invited]. BIOMEDICAL OPTICS EXPRESS 2019; 10:4075-4096. [PMID: 31452996 PMCID: PMC6701528 DOI: 10.1364/boe.10.004075] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2019] [Revised: 06/20/2019] [Accepted: 06/25/2019] [Indexed: 05/14/2023]
Abstract
Elucidating connectivity and functionality at the whole-brain level is one of the most challenging research goals in neuroscience. Various whole-brain optical imaging technologies with submicron lateral resolution have been developed to reveal the fine structures of brain-wide neural and vascular networks at the mesoscopic level. Among them, micro-optical sectioning tomography (MOST) is attracting increasing attention, as a variety of technological variations and solutions tailored toward different biological applications have been optimized. Here, we summarize the recent development of MOST technology in whole-brain imaging and anticipate future improvements.
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Affiliation(s)
- Ting Zheng
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Equal contribution
| | - Zhao Feng
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Equal contribution
| | - Xiaojun Wang
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
| | - Tao Jiang
- HUST–Suzhou Institute for Brainsmatics, JITRI Institute for Brainsmatics, Suzhou, Jiangsu 215000, China
| | - Rui Jin
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
| | - Peilin Zhao
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
| | - Ting Luo
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
| | - Hui Gong
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- HUST–Suzhou Institute for Brainsmatics, JITRI Institute for Brainsmatics, Suzhou, Jiangsu 215000, China
| | - Qingming Luo
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- HUST–Suzhou Institute for Brainsmatics, JITRI Institute for Brainsmatics, Suzhou, Jiangsu 215000, China
| | - Jing Yuan
- Collaborative Innovation Center for Biomedical Engineering, Wuhan National Laboratory for Optoelectronics-Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- Britton Chance Center and MOE Key Laboratory for Biomedical Photonics, School of Engineering Sciences, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China
- HUST–Suzhou Institute for Brainsmatics, JITRI Institute for Brainsmatics, Suzhou, Jiangsu 215000, China
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184
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Trampel R, Bazin PL, Pine K, Weiskopf N. In-vivo magnetic resonance imaging (MRI) of laminae in the human cortex. Neuroimage 2019; 197:707-715. [DOI: 10.1016/j.neuroimage.2017.09.037] [Citation(s) in RCA: 66] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2017] [Revised: 09/13/2017] [Accepted: 09/19/2017] [Indexed: 11/16/2022] Open
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185
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3D-Imaging of Whole Neuronal and Vascular Networks of the Human Dental Pulp via CLARITY and Light Sheet Microscopy. Sci Rep 2019; 9:10860. [PMID: 31350423 PMCID: PMC6659648 DOI: 10.1038/s41598-019-47221-5] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2019] [Accepted: 07/12/2019] [Indexed: 01/10/2023] Open
Abstract
Direct visualization of the spatial relationships of the dental pulp tissue at the whole-organ has remained challenging. CLARITY (Clear Lipid-exchanged Acrylamide Tissue hYdrogel) is a tissue clearing method that has enabled successful 3-dimensional (3D) imaging of intact tissues with high-resolution and preserved anatomic structures. We used CLARITY to study the whole human dental pulp with emphasis on the neurovascular components. Dental pulps from sound teeth were CLARITY-cleared, immunostained for PGP9.5 and CD31, as markers for peripheral neurons and blood vessels, respectively, and imaged with light sheet microscopy. Visualization of the whole dental pulp innervation and vasculature was achieved. Innervation comprised 40% of the dental pulp volume and the vasculature another 40%. Marked innervation morphological differences between uni- and multiradicular teeth were found, also distinct neurovascular interplays. Quantification of the neural and vascular structures distribution, diameter and area showed that blood vessels in the capillary size range was twice as high as that of nerve fibers. In conclusion whole CLARITY-cleared dental pulp samples revealed 3D-morphological neurovascular interactions that could not be visualized with standard microscopy. This represents an outstanding tool to study the molecular and structural intricacies of whole dental tissues in the context of disease and treatment methods.
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186
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Du H, Hou P, Wang L, Wang Z, Li Q. Modified CLARITY Achieving Faster and Better Intact Mouse Brain Clearing and Immunostaining. Sci Rep 2019; 9:10571. [PMID: 31332235 PMCID: PMC6646319 DOI: 10.1038/s41598-019-46814-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2018] [Accepted: 06/29/2019] [Indexed: 01/10/2023] Open
Abstract
CLARITY is a hydrogel embedding clearing method that has the advantages of transparency, different tissue compatibility and immunostaining compatibility. However, there are also some limitations to CLARITY as it requires a long time to achieve transparency, and the electrophoresis clearing is complex. Therefore, we aimed to simplify the electrophoresis system and shorten the processing time of CLARITY. In our study, we developed a non-circulation electrophoresis system to achieve easier manipulation of electrophoresis clearing. We modified the original CLARITY protocol in hydrogel embedding methods, clearing buffer and immunostaining. When comparing brains processed by our modified method or the original protocol, we found our modifications permit faster and more efficient clearing and labeling. Moreover, we developed a new clearing method named Passive pRe-Electrophroresis CLARITY (PRE-CLARITY) and a new immunostaining method named Centrifugation-Expansion staining (CEx staining). PRE-CLARITY achieved faster clearing and higher transparency, and CEx staining accomplished intact mouse brain labeling faster. With our modifications to CLARITY, we accomplished intact mouse brain clearing and immunostaining within one week, while this requires weeks to months with the original CLARITY. Our studies would allow high-content tracing and analysis of intact brain or other large-scale samples in a short time.
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Affiliation(s)
- Hao Du
- Department of Anatomy, Third Military Medical University, Chongqing, 400038, China
| | - Peihong Hou
- Department of Anatomy, Third Military Medical University, Chongqing, 400038, China
| | - Liting Wang
- Biomedical Analysis Center, Third Military Medical University, Chongqing, 400038, China
| | - Zhongke Wang
- Department of Neurosurgery, Xinqiao Hospital, Third Military Medical University, Chongqing, 400037, China
| | - Qiyu Li
- Department of Anatomy, Third Military Medical University, Chongqing, 400038, China.
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187
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Diuba AV, Samigullin DV, Kaszas A, Zonfrillo F, Malkov A, Petukhova E, Casini A, Arosio D, Esclapez M, Gross CT, Bregestovski P. CLARITY analysis of the Cl/pH sensor expression in the brain of transgenic mice. Neuroscience 2019; 439:181-194. [PMID: 31302264 DOI: 10.1016/j.neuroscience.2019.07.010] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2019] [Revised: 07/01/2019] [Accepted: 07/02/2019] [Indexed: 10/26/2022]
Abstract
Genetically encoded biosensors are widely used in cell biology for the non-invasive imaging of concentrations of ions or the activity of enzymes, to evaluate the distribution of small molecules, proteins and organelles, and to image protein interactions in living cells. These fluorescent molecules can be used either by transient expression in cultured cells or in entire organisms or through stable expression by producing transgenic animals characterized by genetically encoded and heritable biosensors. Using the mouse Thy1 mini-promoter, we generated a line of transgenic mice expressing a genetically encoded sensor for the simultaneous measurements of intracellular Cl- and pH. This construct, called ClopHensor, consists of a H+- and Cl--sensitive variant of the enhanced green fluorescent protein (E2GFP) fused with a red fluorescent protein (DsRedm). Stimulation of hippocampal Schaffer collaterals proved that the sensor is functionally active. To reveal the expression pattern of ClopHensor across the brain of Thy1::ClopHensor mice, we obtained transparent brain samples using the CLARITY method and imaged them with confocal and light-sheet microscopy. We then developed a semi-quantitative approach to identify brain structures with high intrinsic sensor fluorescence. This approach allowed us to assess cell morphology and track axonal projection, as well as to confirm E2GFP and DsRedm fluorescence colocalization. This analysis also provides a map of the brain areas suitable for non-invasive monitoring of intracellular Cl-/pH in normal and pathological conditions. This article is part of a Special Issue entitled: Honoring Ricardo Miledi - outstanding neuroscientist of XX-XXI centuries.
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Affiliation(s)
- Artem V Diuba
- Aix-Marseille University, INSERM, INS, Institut of System Neurosciences, 13005 Marseille, France; A.N. Belozersky Institute of Physico-Chemical Biology, M.V. Lomonosov Moscow State University, 119992, Moscow, Russia
| | - Dmitry V Samigullin
- Laboratory of Biophysics of Synaptic Processes, Kazan Institute of Biochemistry and Biophysics, FRC Kazan Scientific Center of RAS, 420111, Kazan, Russia; Department of Radiophotonics and microwave technologies, Kazan National Research Technical University named after A.N.Tupolev, 420111, Kazan, Russia; Open Laboratory of Neuropharmacology, Kazan Federal University,420111, Kazan, Russia
| | - Attila Kaszas
- Aix-Marseille University, INSERM, INS, Institut of System Neurosciences, 13005 Marseille, France; Institut de Neurosciences de la Timone, CNRS UMR 7289 & Aix- Marseille Université, 13005 Marseille, France
| | - Francesca Zonfrillo
- Epigenetics and Neurobiology Unit, European Molecular Biology Laboratory, EMBL-Rome, Via Ramarini 32, 00015 Monterotondo, ITALY
| | - Anton Malkov
- Aix-Marseille University, INSERM, INS, Institut of System Neurosciences, 13005 Marseille, France; Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences, 142290, Pushchino, Russia
| | - Elena Petukhova
- Institute of Neurosciences, Kazan Medical State University, Kazan, Russia
| | | | - Daniele Arosio
- Institute of Biophysics, National Research Council of Italy, 38123 Trento, Italy
| | - Monique Esclapez
- Aix-Marseille University, INSERM, INS, Institut of System Neurosciences, 13005 Marseille, France
| | - Cornelius T Gross
- Epigenetics and Neurobiology Unit, European Molecular Biology Laboratory, EMBL-Rome, Via Ramarini 32, 00015 Monterotondo, ITALY
| | - Piotr Bregestovski
- Aix-Marseille University, INSERM, INS, Institut of System Neurosciences, 13005 Marseille, France; Institute of Neurosciences, Kazan Medical State University, Kazan, Russia.
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188
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Abstract
Light-sheet microscopy is an imaging approach that offers unique advantages for a diverse range of neuroscience applications. Unlike point-scanning techniques such as confocal and two-photon microscopy, light-sheet microscopes illuminate an entire plane of tissue, while imaging this plane onto a camera. Although early implementations of light sheet were optimized for longitudinal imaging of embryonic development in small specimens, emerging implementations are capable of capturing light-sheet images in freely moving, unconstrained specimens and even the intact in vivo mammalian brain. Meanwhile, the unique photobleaching and signal-to-noise benefits afforded by light-sheet microscopy's parallelized detection deliver the ability to perform volumetric imaging at much higher speeds than can be achieved using point scanning. This review describes the basic principles and evolution of light-sheet microscopy, followed by perspectives on emerging applications and opportunities for both imaging large, cleared, and expanded neural tissues and high-speed, functional imaging in vivo.
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Affiliation(s)
- Elizabeth M C Hillman
- Departments of Biomedical Engineering and Radiology and Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA;
| | - Venkatakaushik Voleti
- Departments of Biomedical Engineering and Radiology and Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA;
| | - Wenze Li
- Departments of Biomedical Engineering and Radiology and Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA;
| | - Hang Yu
- Departments of Biomedical Engineering and Radiology and Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA;
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189
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Glaser AK, Reder NP, Chen Y, Yin C, Wei L, Kang S, Barner LA, Xie W, McCarty EF, Mao C, Halpern AR, Stoltzfus CR, Daniels JS, Gerner MY, Nicovich PR, Vaughan JC, True LD, Liu JTC. Multi-immersion open-top light-sheet microscope for high-throughput imaging of cleared tissues. Nat Commun 2019; 10:2781. [PMID: 31273194 PMCID: PMC6609674 DOI: 10.1038/s41467-019-10534-0] [Citation(s) in RCA: 113] [Impact Index Per Article: 22.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Accepted: 05/17/2019] [Indexed: 12/22/2022] Open
Abstract
Recent advances in optical clearing and light-sheet microscopy have provided unprecedented access to structural and molecular information from intact tissues. However, current light-sheet microscopes have imposed constraints on the size, shape, number of specimens, and compatibility with various clearing protocols. Here we present a multi-immersion open-top light-sheet microscope that enables simple mounting of multiple specimens processed with a variety of clearing protocols, which will facilitate wide adoption by preclinical researchers and clinical laboratories. In particular, the open-top geometry provides unsurpassed versatility to interface with a wide range of accessory technologies in the future.
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Affiliation(s)
- Adam K Glaser
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA.
| | - Nicholas P Reder
- Department of Pathology, University of Washington, Seattle, WA, 98195, USA
| | - Ye Chen
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA
| | - Chengbo Yin
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA
| | - Linpeng Wei
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA
| | - Soyoung Kang
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA
| | - Lindsey A Barner
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA
| | - Weisi Xie
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA
| | - Erin F McCarty
- Department of Pathology, University of Washington, Seattle, WA, 98195, USA
| | - Chenyi Mao
- Department of Chemistry, University of Washington, Seattle, WA, 98195, USA
| | - Aaron R Halpern
- Department of Chemistry, University of Washington, Seattle, WA, 98195, USA
| | - Caleb R Stoltzfus
- Department of Immunology, University of Washington, Seattle, WA, 98109, USA
| | | | - Michael Y Gerner
- Department of Immunology, University of Washington, Seattle, WA, 98109, USA
| | | | - Joshua C Vaughan
- Department of Chemistry, University of Washington, Seattle, WA, 98195, USA
- Department of Physiology and Biophysics, University of Washington, Seattle, WA, 98195, USA
| | - Lawrence D True
- Department of Pathology, University of Washington, Seattle, WA, 98195, USA
| | - Jonathan T C Liu
- Department of Mechanical Engineering, University of Washington, Seattle, WA, 98195, USA.
- Department of Pathology, University of Washington, Seattle, WA, 98195, USA.
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190
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Acarón Ledesma H, Li X, Carvalho-de-Souza JL, Wei W, Bezanilla F, Tian B. An atlas of nano-enabled neural interfaces. NATURE NANOTECHNOLOGY 2019; 14:645-657. [PMID: 31270446 PMCID: PMC6800006 DOI: 10.1038/s41565-019-0487-x] [Citation(s) in RCA: 90] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Accepted: 05/17/2019] [Indexed: 05/19/2023]
Abstract
Advances in microscopy and molecular strategies have allowed researchers to gain insight into the intricate organization of the mammalian brain and the roles that neurons play in processing information. Despite vast progress, therapeutic strategies for neurological disorders remain limited, owing to a lack of biomaterials for sensing and modulating neuronal signalling in vivo. Therefore, there is a pressing need for developing material-based tools that can form seamless biointerfaces and interrogate the brain with unprecedented resolution. In this Review, we discuss important considerations in material design and implementation, highlight recent breakthroughs in neural sensing and modulation, and propose future directions in neurotechnology research. Our goal is to create an atlas for nano-enabled neural interfaces and to demonstrate how emerging nanotechnologies can interrogate neural systems spanning multiple biological length scales.
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Affiliation(s)
- Héctor Acarón Ledesma
- Graduate Program in Biophysical Sciences, University of Chicago, Chicago, IL, USA
- Institute for Biophysical Dynamics, University of Chicago, Chicago, IL, USA
| | - Xiaojian Li
- Brain Cognition and Brain Disease Institute of Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, People's Republic of China
- Shenzhen-Hongkong Institute of Brain Science, Shenzhen, People's Republic of China
| | - João L Carvalho-de-Souza
- Department of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL, USA
- Department of Anesthesiology, University of Arizona College of Medicine, Tucson, AZ, USA
| | - Wei Wei
- Department of Neurobiology, University of Chicago, Chicago, IL, USA
| | - Francisco Bezanilla
- Institute for Biophysical Dynamics, University of Chicago, Chicago, IL, USA
- Department of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL, USA
- Centro Interdisciplinario de Neurociencias, Facultad de Ciencias, Universidad de Valparaíso, Valparaíso, Chile
| | - Bozhi Tian
- Institute for Biophysical Dynamics, University of Chicago, Chicago, IL, USA.
- Department of Chemistry, University of Chicago, Chicago, IL, USA.
- James Franck Institute, University of Chicago, Chicago, IL, USA.
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191
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Mohrhardt J, Nagel M, Fleck D, Ben-Shaul Y, Spehr M. Signal Detection and Coding in the Accessory Olfactory System. Chem Senses 2019; 43:667-695. [PMID: 30256909 PMCID: PMC6211456 DOI: 10.1093/chemse/bjy061] [Citation(s) in RCA: 66] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
In many mammalian species, the accessory olfactory system plays a central role in guiding behavioral and physiological responses to social and reproductive interactions. Because of its relatively compact structure and its direct access to amygdalar and hypothalamic nuclei, the accessory olfactory pathway provides an ideal system to study sensory control of complex mammalian behavior. During the last several years, many studies employing molecular, behavioral, and physiological approaches have significantly expanded and enhanced our understanding of this system. The purpose of the current review is to integrate older and newer studies to present an updated and comprehensive picture of vomeronasal signaling and coding with an emphasis on early accessory olfactory system processing stages. These include vomeronasal sensory neurons in the vomeronasal organ, and the circuitry of the accessory olfactory bulb. Because the overwhelming majority of studies on accessory olfactory system function employ rodents, this review is largely focused on this phylogenetic order, and on mice in particular. Taken together, the emerging view from both older literature and more recent studies is that the molecular, cellular, and circuit properties of chemosensory signaling along the accessory olfactory pathway are in many ways unique. Yet, it has also become evident that, like the main olfactory system, the accessory olfactory system also has the capacity for adaptive learning, experience, and state-dependent plasticity. In addition to describing what is currently known about accessory olfactory system function and physiology, we highlight what we believe are important gaps in our knowledge, which thus define exciting directions for future investigation.
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Affiliation(s)
- Julia Mohrhardt
- Department of Chemosensation, Institute for Biology II, RWTH Aachen University, Aachen, Germany
| | - Maximilian Nagel
- Department of Chemosensation, Institute for Biology II, RWTH Aachen University, Aachen, Germany
| | - David Fleck
- Department of Chemosensation, Institute for Biology II, RWTH Aachen University, Aachen, Germany
| | - Yoram Ben-Shaul
- Department of Medical Neurobiology, School of Medicine, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Marc Spehr
- Department of Chemosensation, Institute for Biology II, RWTH Aachen University, Aachen, Germany
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192
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McCoy MG, Nyanyo D, Hung CK, Goerger JP, R Zipfel W, Williams RM, Nishimura N, Fischbach C. Endothelial cells promote 3D invasion of GBM by IL-8-dependent induction of cancer stem cell properties. Sci Rep 2019; 9:9069. [PMID: 31227783 PMCID: PMC6588602 DOI: 10.1038/s41598-019-45535-y] [Citation(s) in RCA: 71] [Impact Index Per Article: 14.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2019] [Accepted: 06/06/2019] [Indexed: 12/14/2022] Open
Abstract
Rapid growth and perivascular invasion are hallmarks of glioblastoma (GBM) that have been attributed to the presence of cancer stem-like cells (CSCs) and their association with the perivascular niche. However, the mechanisms by which the perivascular niche regulates GBM invasion and CSCs remain poorly understood due in part to a lack of relevant model systems. To simulate perivascular niche conditions and analyze consequential changes of GBM growth and invasion, patient-derived GBM spheroids were co-cultured with brain endothelial cells (ECs) in microfabricated collagen gels. Integrating these systems with 3D imaging and biochemical assays revealed that ECs increase GBM invasiveness and growth through interleukin-8 (IL-8)-mediated enrichment of CSCs. Blockade of IL-8 inhibited these effects in GBM-EC co-cultures, while IL-8 supplementation increased CSC-mediated growth and invasion in GBM-monocultures. Experiments in mice confirmed that ECs and IL-8 stimulate intracranial tumor growth and invasion in vivo. Collectively, perivascular niche conditions promote GBM growth and invasion by increasing CSC frequency, and IL-8 may be explored clinically to inhibit these interactions.
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Affiliation(s)
- Michael G McCoy
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States
| | - Dennis Nyanyo
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States
| | - Carol K Hung
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States
| | - Julian Palacios Goerger
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States
| | - Warren R Zipfel
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States
| | - Rebecca M Williams
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States
| | - Nozomi Nishimura
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States
| | - Claudia Fischbach
- Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, United States.
- Kavli Institute at Cornell for Nanoscale Science, Cornell University, Ithaca, NY, 14853, United States.
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193
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Nemirovich-Danchenko NM, Khodanovich MY. New Neurons in the Post-ischemic and Injured Brain: Migrating or Resident? Front Neurosci 2019; 13:588. [PMID: 31275097 PMCID: PMC6591486 DOI: 10.3389/fnins.2019.00588] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2018] [Accepted: 05/23/2019] [Indexed: 12/11/2022] Open
Abstract
The endogenous potential of adult neurogenesis is of particular interest for the development of new strategies for recovery after stroke and traumatic brain injury. These pathological conditions affect endogenous neurogenesis in two aspects. On the one hand, injury usually initiates the migration of neuronal precursors (NPCs) to the lesion area from the already existing, in physiological conditions, neurogenic niche - the ventricular-subventricular zone (V-SVZ) near the lateral ventricles. On the other hand, recent studies have convincingly demonstrated the local generation of new neurons near lesion areas in different brain locations. The striatum, cortex, and hippocampal CA1 region are considered to be locations of such new neurogenic zones in the damaged brain. This review focuses on the relative contribution of two types of NPCs of different origin, resident population in new neurogenic zones and cells migrating from the lateral ventricles, to post-stroke or post-traumatic enhancement of neurogenesis. The migratory pathways of NPCs have also been considered. In addition, the review highlights the advantages and limitations of different methodological approaches to the definition of NPC location and tracking of new neurons. In general, we suggest that despite the considerable number of studies, we still lack a comprehensive understanding of neurogenesis in the damaged brain. We believe that the advancement of methods for in vivo visualization and longitudinal observation of neurogenesis in the brain could fundamentally change the current situation in this field.
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Affiliation(s)
| | - Marina Yu. Khodanovich
- Laboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Tomsk, Russia
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194
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Pianca N, Di Bona A, Lazzeri E, Costantini I, Franzoso M, Prando V, Armani A, Rizzo S, Fedrigo M, Angelini A, Basso C, Pavone FS, Rubart M, Sacconi L, Zaglia T, Mongillo M. Cardiac sympathetic innervation network shapes the myocardium by locally controlling cardiomyocyte size through the cellular proteolytic machinery. J Physiol 2019; 597:3639-3656. [DOI: 10.1113/jp276200] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Accepted: 05/21/2019] [Indexed: 01/07/2023] Open
Affiliation(s)
- Nicola Pianca
- Veneto Institute of Molecular Medicine Padova Italy
- Department of Biomedical SciencesUniversity of Padova Padova Italy
| | - Anna Di Bona
- Veneto Institute of Molecular Medicine Padova Italy
- Department of Cardiac, Thoracic, Vascular Sciences and Public HealthUniversity of Padova Padova Italy
| | - Erica Lazzeri
- European Laboratory for Non‐linear SpectroscopyUniversity of Florence Florence Italy
| | - Irene Costantini
- European Laboratory for Non‐linear SpectroscopyUniversity of Florence Florence Italy
- National Institute of Optics, National Research CouncilUniversity of Florence Florence Italy
| | - Mauro Franzoso
- Veneto Institute of Molecular Medicine Padova Italy
- Department of Biomedical SciencesUniversity of Padova Padova Italy
| | - Valentina Prando
- Veneto Institute of Molecular Medicine Padova Italy
- Department of Cardiac, Thoracic, Vascular Sciences and Public HealthUniversity of Padova Padova Italy
| | - Andrea Armani
- Veneto Institute of Molecular Medicine Padova Italy
- Department of Biomedical SciencesUniversity of Padova Padova Italy
| | - Stefania Rizzo
- Department of Cardiac, Thoracic, Vascular Sciences and Public HealthUniversity of Padova Padova Italy
| | - Marny Fedrigo
- Department of Cardiac, Thoracic, Vascular Sciences and Public HealthUniversity of Padova Padova Italy
| | - Annalisa Angelini
- Department of Cardiac, Thoracic, Vascular Sciences and Public HealthUniversity of Padova Padova Italy
| | - Cristina Basso
- Department of Cardiac, Thoracic, Vascular Sciences and Public HealthUniversity of Padova Padova Italy
| | - Francesco S. Pavone
- European Laboratory for Non‐linear SpectroscopyUniversity of Florence Florence Italy
- National Institute of Optics, National Research CouncilUniversity of Florence Florence Italy
- Department of Physics and AstronomyUniversity of Florence Florence Italy
| | - Michael Rubart
- Indiana University School of Medicine Indianapolis IN USA
| | - Leonardo Sacconi
- European Laboratory for Non‐linear SpectroscopyUniversity of Florence Florence Italy
- National Institute of Optics, National Research CouncilUniversity of Florence Florence Italy
| | - Tania Zaglia
- Veneto Institute of Molecular Medicine Padova Italy
- Department of Biomedical SciencesUniversity of Padova Padova Italy
- Department of Cardiac, Thoracic, Vascular Sciences and Public HealthUniversity of Padova Padova Italy
| | - Marco Mongillo
- Veneto Institute of Molecular Medicine Padova Italy
- Department of Biomedical SciencesUniversity of Padova Padova Italy
- CNR Institute of Neuroscience Padova Italy
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195
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Hsu CW, Kalaga S, Akoma U, Rasmussen TL, Christiansen AE, Dickinson ME. High Resolution Imaging of Mouse Embryos and Neonates with X-Ray Micro-Computed Tomography. ACTA ACUST UNITED AC 2019; 9:e63. [PMID: 31195428 DOI: 10.1002/cpmo.63] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Iodine-contrast micro-computed tomography (microCT) 3D imaging provides a non-destructive and high-throughput platform for studying mouse embryo and neonate development. Here we provide protocols on preparing mouse embryos and neonates between embryonic day 8.5 (E8.5) to postnatal day 4 (P4) for iodine-contrast microCT imaging. With the implementation of the STABILITY method to create a polymer-tissue hybrid structure, we have demonstrated that not only is soft tissue shrinkage minimized but also the minimum required time for soft tissue staining with iodine is decreased, especially for E18.5 to P4 samples. In addition, we also provide a protocol on using commercially available X-CLARITYTM hydrogel solution to create the similar polymer-tissue hybrid structure on delicate early post-implantation stage (E8.5 to E14.5) embryos. With its simple sample staining and mounting processes, this protocol is easy to adopt and implement for most of the commercially available, stand-alone microCT systems in order to study mouse development between early post-implantation to early postnatal stages. © 2019 by John Wiley & Sons, Inc.
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Affiliation(s)
- Chih-Wei Hsu
- Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas.,Optical Imaging and Vital Microscopy Core, Baylor College of Medicine, Houston, Texas
| | - Sowmya Kalaga
- Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas.,Optical Imaging and Vital Microscopy Core, Baylor College of Medicine, Houston, Texas
| | - Uchechukwu Akoma
- Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas
| | - Tara L Rasmussen
- Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas
| | - Audrey E Christiansen
- Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas
| | - Mary E Dickinson
- Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas.,Optical Imaging and Vital Microscopy Core, Baylor College of Medicine, Houston, Texas.,Cardiovascular Research Institute, Baylor College of Medicine, Houston, Texas
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196
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Mountoufaris G, Canzio D, Nwakeze CL, Chen WV, Maniatis T. Writing, Reading, and Translating the Clustered Protocadherin Cell Surface Recognition Code for Neural Circuit Assembly. Annu Rev Cell Dev Biol 2019; 34:471-493. [PMID: 30296392 DOI: 10.1146/annurev-cellbio-100616-060701] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The ability of neurites of individual neurons to distinguish between themselves and neurites from other neurons and to avoid self (self-avoidance) plays a key role in neural circuit assembly in both invertebrates and vertebrates. Similarly, when individual neurons of the same type project into receptive fields of the brain, they must avoid each other to maximize target coverage (tiling). Counterintuitively, these processes are driven by highly specific homophilic interactions between cell surface proteins that lead to neurite repulsion rather than adhesion. Among these proteins in vertebrates are the clustered protocadherins (Pcdhs), and key to their function is the generation of enormous cell surface structural diversity. Here we review recent advances in understanding how a Pcdh cell surface code is generated by stochastic promoter choice; how this code is amplified and read by homophilic interactions between Pcdh complexes at the surface of neurons; and, finally, how the Pcdh code is translated to cellular function, which mediates self-avoidance and tiling and thus plays a central role in the development of complex neural circuits. Not surprisingly, Pcdh mutations that diminish homophilic interactions lead to wiring defects and abnormal behavior in mice, and sequence variants in the Pcdh gene cluster are associated with autism spectrum disorders in family-based genetic studies in humans.
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Affiliation(s)
- George Mountoufaris
- Department of Biochemistry and Molecular Biophysics, Columbia University Medical School, and Zuckerman Institute, Columbia University, New York, NY 10027, USA; .,Current address: Department of Biology and Biological Engineering, California Institute of Technology, Pasadena, California 91125, USA
| | - Daniele Canzio
- Department of Biochemistry and Molecular Biophysics, Columbia University Medical School, and Zuckerman Institute, Columbia University, New York, NY 10027, USA;
| | - Chiamaka L Nwakeze
- Department of Biochemistry and Molecular Biophysics, Columbia University Medical School, and Zuckerman Institute, Columbia University, New York, NY 10027, USA;
| | - Weisheng V Chen
- Department of Biochemistry and Molecular Biophysics, Columbia University Medical School, and Zuckerman Institute, Columbia University, New York, NY 10027, USA; .,Current address: Leveragen, Inc., Cambridge, Massachusetts 02139, USA
| | - Tom Maniatis
- Department of Biochemistry and Molecular Biophysics, Columbia University Medical School, and Zuckerman Institute, Columbia University, New York, NY 10027, USA;
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197
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Wykes RC, Khoo HM, Caciagli L, Blumenfeld H, Golshani P, Kapur J, Stern JM, Bernasconi A, Dedeurwaerdere S, Bernasconi N. WONOEP appraisal: Network concept from an imaging perspective. Epilepsia 2019; 60:1293-1305. [PMID: 31179547 DOI: 10.1111/epi.16067] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2018] [Revised: 05/16/2019] [Accepted: 05/16/2019] [Indexed: 02/01/2023]
Abstract
Neuroimaging techniques applied to a variety of organisms-from zebrafish, to rodents to humans-can offer valuable insights into neuronal network properties and their dysfunction in epilepsy. A wide range of imaging methods used to monitor neuronal circuits and networks during evoked seizures in animal models and advances in functional magnetic resonance imaging (fMRI) applied to patients with epilepsy were discussed during the XIV Workshop on Neurobiology of Epilepsy (XIV WONOEP) organized in 2017 by the Neurobiology Commission of the International League Against Epilepsy (ILAE). We review the growing number of technological approaches developed, as well as the current state of knowledge gained from studies applying these advanced imaging approaches to epilepsy research.
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Affiliation(s)
- Robert C Wykes
- Department of Clinical and Experimental Epilepsy, UCL Queen Square Institute of Neurology, London, UK
| | - Hui Ming Khoo
- Montreal Neurological Institute and Hospital, McGill University, Montreal, Canada.,Department of Neurosurgery, Osaka University Graduate School of Medicine, Suita, Japan
| | - Lorenzo Caciagli
- Department of Clinical and Experimental Epilepsy, UCL Queen Square Institute of Neurology, London, UK.,Neuroimaging of Epilepsy Laboratory, Department of Neurosciences and McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University, Montreal, Quebec, Canada
| | - Hal Blumenfeld
- Department of Neurology, Neuroscience and Neurosurgery, Yale University School of Medicine, New Haven, Connecticut
| | - Peyman Golshani
- Department of Neurology, Geffen School of Medicine, UCLA, Los Angeles, California
| | - Jaideep Kapur
- School of Medicine, University of Virginia, Charlottesville, Virginia
| | - John M Stern
- Department of Neurology, Geffen School of Medicine, UCLA, Los Angeles, California
| | - Andrea Bernasconi
- Neuroimaging of Epilepsy Laboratory, Department of Neurosciences and McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University, Montreal, Quebec, Canada
| | | | - Neda Bernasconi
- Neuroimaging of Epilepsy Laboratory, Department of Neurosciences and McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University, Montreal, Quebec, Canada
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198
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Colomb W, Osmond M, Durfee C, Krebs MD, Sarkar SK. Imaging and Analysis of Cellular Locations in Three-Dimensional Tissue Models. MICROSCOPY AND MICROANALYSIS : THE OFFICIAL JOURNAL OF MICROSCOPY SOCIETY OF AMERICA, MICROBEAM ANALYSIS SOCIETY, MICROSCOPICAL SOCIETY OF CANADA 2019; 25:753-761. [PMID: 30853032 DOI: 10.1017/s1431927619000102] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
The absence of quantitative in vitro cell-extracellular matrix models represents an important bottleneck for basic research and human health. Randomness of cellular distributions provides an opportunity for the development of a quantitative in vitro model. However, quantification of the randomness of random cell distributions is still lacking. In this paper, we have imaged cellular distributions in an alginate matrix using a multiview light sheet microscope and developed quantification metrics of randomness by modeling it as a Poisson process, a process that has constant probability of occurring in space or time. We imaged fluorescently labeled human mesenchymal stem cells embedded in an alginate matrix of thickness greater than 5 mm with axial resolution, the mean full width at half maximum of the axial intensity profiles of fluorescent particles. Simulated randomness agrees well with the experiments. Quantification of distributions and validation by simulations will enable quantitative study of cell-matrix interactions in tissue models.
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Affiliation(s)
- Warren Colomb
- Department of Physics,Colorado School of Mines,Golden, Colorado,USA
| | - Matthew Osmond
- Department of Chemical & Biological Engineering,Colorado School of Mines,Golden, Colorado,USA
| | - Charles Durfee
- Department of Physics,Colorado School of Mines,Golden, Colorado,USA
| | - Melissa D Krebs
- Department of Chemical & Biological Engineering,Colorado School of Mines,Golden, Colorado,USA
| | - Susanta K Sarkar
- Department of Physics,Colorado School of Mines,Golden, Colorado,USA
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199
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Turner R. Myelin and Modeling: Bootstrapping Cortical Microcircuits. Front Neural Circuits 2019; 13:34. [PMID: 31133821 PMCID: PMC6517540 DOI: 10.3389/fncir.2019.00034] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2019] [Accepted: 04/25/2019] [Indexed: 12/15/2022] Open
Abstract
Histological studies of myelin-stained sectioned cadaver brain and in vivo myelin-weighted magnetic resonance imaging (MRI) show that the cerebral cortex is organized into cortical areas with generally well-defined boundaries, which have consistent internal patterns of myelination. The process of myelination is largely driven by neural experience, in which the axonal passage of action potentials stimulates neighboring oligodendrocytes to perform their task. This bootstrapping process, such that the traffic of action potentials facilitates increased traffic, suggests the hypothesis that the specific pattern of myelination (myeloarchitecture) in each cortical area reveals the principal cortical microcircuits required for the function of that area. If this idea is correct, the observable sequential maturation of specific brain areas can provide evidence for models of the stages of cognitive development.
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Affiliation(s)
- Robert Turner
- Department of Neurophysics, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany
- Sir Peter Mansfield Imaging Centre, University of Nottingham, Nottingham, United Kingdom
- Spinoza Centre for Neuroimaging, University of Amsterdam, Amsterdam, Netherlands
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200
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Gradinaru V, Treweek J, Overton K, Deisseroth K. Hydrogel-Tissue Chemistry: Principles and Applications. Annu Rev Biophys 2019; 47:355-376. [PMID: 29792820 PMCID: PMC6359929 DOI: 10.1146/annurev-biophys-070317-032905] [Citation(s) in RCA: 80] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Over the past five years, a rapidly developing experimental approach has enabled high-resolution and high-content information retrieval from intact multicellular animal (metazoan) systems. New chemical and physical forms are created in the hydrogel-tissue chemistry process, and the retention and retrieval of crucial phenotypic information regarding constituent cells and molecules (and their joint interrelationships) are thereby enabled. For example, rich data sets defining both single-cell-resolution gene expression and single-cell-resolution activity during behavior can now be collected while still preserving information on three-dimensional positioning and/or brain-wide wiring of those very same neurons-even within vertebrate brains. This new approach and its variants, as applied to neuroscience, are beginning to illuminate the fundamental cellular and chemical representations of sensation, cognition, and action. More generally, reimagining metazoans as metareactants-or positionally defined three-dimensional graphs of constituent chemicals made available for ongoing functionalization, transformation, and readout-is stimulating innovation across biology and medicine.
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Affiliation(s)
- Viviana Gradinaru
- Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, California 91125, USA;
| | - Jennifer Treweek
- Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, California 91125, USA;
| | - Kristin Overton
- Department of Bioengineering, Stanford University, Stanford, California 94305, USA;
| | - Karl Deisseroth
- Department of Bioengineering, Stanford University, Stanford, California 94305, USA; .,Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, California 94305, USA.,H oward Hughes Medical Institute, Stanford University, Stanford, California 94305, USA
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