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Shao Q, Chen L, Li X, Li M, Cui H, Li X, Zhao X, Shi Y, Sun Q, Yan K, Wang G. A non-canonical visual cortical-entorhinal pathway contributes to spatial navigation. Nat Commun 2024; 15:4122. [PMID: 38750027 PMCID: PMC11096324 DOI: 10.1038/s41467-024-48483-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2023] [Accepted: 04/29/2024] [Indexed: 05/18/2024] Open
Abstract
Visual information is important for accurate spatial coding and memory-guided navigation. As a crucial area for spatial cognition, the medial entorhinal cortex (MEC) harbors diverse spatially tuned cells and functions as the major gateway relaying sensory inputs to the hippocampus containing place cells. However, how visual information enters the MEC has not been fully understood. Here, we identify a pathway originating in the secondary visual cortex (V2) and directly targeting MEC layer 5a (L5a). L5a neurons served as a network hub for visual processing in the MEC by routing visual inputs from multiple V2 areas to other local neurons and hippocampal CA1. Interrupting this pathway severely impaired visual stimulus-evoked neural activity in the MEC and performance of mice in navigation tasks. These observations reveal a visual cortical-entorhinal pathway highlighting the role of MEC L5a in sensory information transmission, a function typically attributed to MEC superficial layers before.
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Affiliation(s)
- Qiming Shao
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Ligu Chen
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Xiaowan Li
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Miao Li
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Hui Cui
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Xiaoyue Li
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Xinran Zhao
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Yuying Shi
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Qiang Sun
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Kaiyue Yan
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China
| | - Guangfu Wang
- HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China.
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2
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Chen S, Rahn RM, Bice AR, Bice SH, Padawer-Curry JA, Hengen KB, Dougherty JD, Culver JP. Visual Deprivation during Mouse Critical Period Reorganizes Network-Level Functional Connectivity. J Neurosci 2024; 44:e1019232024. [PMID: 38538145 PMCID: PMC11079959 DOI: 10.1523/jneurosci.1019-23.2024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 03/04/2024] [Accepted: 03/12/2024] [Indexed: 04/09/2024] Open
Abstract
A classic example of experience-dependent plasticity is ocular dominance (OD) shift, in which the responsiveness of neurons in the visual cortex is profoundly altered following monocular deprivation (MD). It has been postulated that OD shifts also modify global neural networks, but such effects have never been demonstrated. Here, we use wide-field fluorescence optical imaging (WFOI) to characterize calcium-based resting-state functional connectivity during acute (3 d) MD in female and male mice with genetically encoded calcium indicators (Thy1-GCaMP6f). We first establish the fundamental performance of WFOI by computing signal to noise properties throughout our data processing pipeline. Following MD, we found that Δ band (0.4-4 Hz) GCaMP6 activity in the deprived visual cortex decreased, suggesting that excitatory activity in this region was reduced by MD. In addition, interhemispheric visual homotopic functional connectivity decreased following MD, which was accompanied by a reduction in parietal and motor homotopic connectivity. Finally, we observed enhanced internetwork connectivity between the visual and parietal cortex that peaked 2 d after MD. Together, these findings support the hypothesis that early MD induces dynamic reorganization of disparate functional networks including the association cortices.
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Affiliation(s)
- Siyu Chen
- Departments of Radiology, Washington University School of Medicine, St. Louis, Missouri 63110
- Genetics, Washington University School of Medicine, St. Louis, Missouri 63110
- Psychiatry, Washington University School of Medicine, St. Louis, Missouri 63110
| | - Rachel M Rahn
- Departments of Radiology, Washington University School of Medicine, St. Louis, Missouri 63110
- Genetics, Washington University School of Medicine, St. Louis, Missouri 63110
- Psychiatry, Washington University School of Medicine, St. Louis, Missouri 63110
| | - Annie R Bice
- Departments of Radiology, Washington University School of Medicine, St. Louis, Missouri 63110
| | - Seana H Bice
- Departments of Radiology, Washington University School of Medicine, St. Louis, Missouri 63110
| | - Jonah A Padawer-Curry
- Departments of Radiology, Washington University School of Medicine, St. Louis, Missouri 63110
| | - Keith B Hengen
- Biology, Washington University School of Medicine, St. Louis, Missouri 63110
| | - Joseph D Dougherty
- Genetics, Washington University School of Medicine, St. Louis, Missouri 63110
- Psychiatry, Washington University School of Medicine, St. Louis, Missouri 63110
- Intellectual and Developmental Disabilities Research Center, Washington University School of Medicine, St. Louis, Missouri 63110
| | - Joseph P Culver
- Departments of Radiology, Washington University School of Medicine, St. Louis, Missouri 63110
- Physics, Washington University School of Medicine, St. Louis, Missouri 63110
- Biomedical Engineering, Washington University School of Medicine, St. Louis, Missouri 63110
- Imaging Science PhD Program, Washington University School of Medicine, St. Louis, Missouri 63110
- Biophotonics Research Center, Washington University School of Medicine, St. Louis, Missouri 63110
- Neuroscience, Washington University School of Medicine, St. Louis, Missouri 63110
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3
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Magrou L, Joyce MKP, Froudist-Walsh S, Datta D, Wang XJ, Martinez-Trujillo J, Arnsten AFT. The meso-connectomes of mouse, marmoset, and macaque: network organization and the emergence of higher cognition. Cereb Cortex 2024; 34:bhae174. [PMID: 38771244 PMCID: PMC11107384 DOI: 10.1093/cercor/bhae174] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Revised: 03/29/2024] [Accepted: 04/08/2024] [Indexed: 05/22/2024] Open
Abstract
The recent publications of the inter-areal connectomes for mouse, marmoset, and macaque cortex have allowed deeper comparisons across rodent vs. primate cortical organization. In general, these show that the mouse has very widespread, "all-to-all" inter-areal connectivity (i.e. a "highly dense" connectome in a graph theoretical framework), while primates have a more modular organization. In this review, we highlight the relevance of these differences to function, including the example of primary visual cortex (V1) which, in the mouse, is interconnected with all other areas, therefore including other primary sensory and frontal areas. We argue that this dense inter-areal connectivity benefits multimodal associations, at the cost of reduced functional segregation. Conversely, primates have expanded cortices with a modular connectivity structure, where V1 is almost exclusively interconnected with other visual cortices, themselves organized in relatively segregated streams, and hierarchically higher cortical areas such as prefrontal cortex provide top-down regulation for specifying precise information for working memory storage and manipulation. Increased complexity in cytoarchitecture, connectivity, dendritic spine density, and receptor expression additionally reveal a sharper hierarchical organization in primate cortex. Together, we argue that these primate specializations permit separable deconstruction and selective reconstruction of representations, which is essential to higher cognition.
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Affiliation(s)
- Loïc Magrou
- Department of Neural Science, New York University, New York, NY 10003, United States
| | - Mary Kate P Joyce
- Department of Neuroscience, Yale University School of Medicine, New Haven, CT 06510, United States
| | - Sean Froudist-Walsh
- School of Engineering Mathematics and Technology, University of Bristol, Bristol, BS8 1QU, United Kingdom
| | - Dibyadeep Datta
- Department of Psychiatry, Yale University School of Medicine, New Haven, CT 06510, United States
| | - Xiao-Jing Wang
- Department of Neural Science, New York University, New York, NY 10003, United States
| | - Julio Martinez-Trujillo
- Departments of Physiology and Pharmacology, and Psychiatry, Schulich School of Medicine and Dentistry, Western University, London, ON, N6A 3K7, Canada
| | - Amy F T Arnsten
- Department of Neuroscience, Yale University School of Medicine, New Haven, CT 06510, United States
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4
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Szelenyi ER, Fisenne D, Knox JE, Harris JA, Gornet JA, Palaniswamy R, Kim Y, Venkataraju KU, Osten P. Distributed X chromosome inactivation in brain circuitry is associated with X-linked disease penetrance of behavior. Cell Rep 2024; 43:114068. [PMID: 38614085 PMCID: PMC11107803 DOI: 10.1016/j.celrep.2024.114068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2023] [Revised: 02/05/2024] [Accepted: 03/21/2024] [Indexed: 04/15/2024] Open
Abstract
The precise anatomical degree of brain X chromosome inactivation (XCI) that is sufficient to alter X-linked disorders in females is unclear. Here, we quantify whole-brain XCI at single-cell resolution to discover a prevalent activation ratio of maternal to paternal X at 60:40 across all divisions of the adult brain. This modest, non-random XCI influences X-linked disease penetrance: maternal transmission of the fragile X mental retardation 1 (Fmr1)-knockout (KO) allele confers 55% of total brain cells with mutant X-active, which is sufficient for behavioral penetrance, while 40% produced from paternal transmission is tolerated. Local XCI mosaicism within affected maternal Fmr1-KO mice further specifies sensorimotor versus social anxiety phenotypes depending on which distinct brain circuitry is most affected, with only a 50%-55% mutant X-active threshold determining penetrance. Thus, our results define a model of X-linked disease penetrance in females whereby distributed XCI among single cells populating brain circuitries can regulate the behavioral penetrance of an X-linked mutation.
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Affiliation(s)
- Eric R Szelenyi
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA; Program in Neuroscience, Stony Brook University, Neurobiology and Behavior, Stony Brook, NY 11794, USA.
| | - Danielle Fisenne
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA; Hofstra University, Hempstead, NY 11549, USA; Certerra, Inc., Farmingdale, NY 11735, USA
| | - Joseph E Knox
- Allen Institute for Brain Science, Seattle, WA 98109, USA
| | - Julie A Harris
- Allen Institute for Brain Science, Seattle, WA 98109, USA
| | - James A Gornet
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA; Columbia University, New York, NY 10027, USA
| | | | - Yongsoo Kim
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA; College of Medicine, Penn State University, Hershey, PA 17033, USA
| | | | - Pavel Osten
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA
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5
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Burkhalter A, Ji W, Meier AM, D’Souza RD. Modular horizontal network within mouse primary visual cortex. Front Neuroanat 2024; 18:1364675. [PMID: 38650594 PMCID: PMC11033472 DOI: 10.3389/fnana.2024.1364675] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2024] [Accepted: 03/04/2024] [Indexed: 04/25/2024] Open
Abstract
Interactions between feedback connections from higher cortical areas and local horizontal connections within primary visual cortex (V1) were shown to play a role in contextual processing in different behavioral states. Layer 1 (L1) is an important part of the underlying network. This cell-sparse layer is a target of feedback and local inputs, and nexus for contacts onto apical dendrites of projection neurons in the layers below. Importantly, L1 is a site for coupling inputs from the outside world with internal information. To determine whether all of these circuit elements overlap in L1, we labeled the horizontal network within mouse V1 with anterograde and retrograde viral tracers. We found two types of local horizontal connections: short ones that were tangentially limited to the representation of the point image, and long ones which reached beyond the receptive field center, deep into its surround. The long connections were patchy and terminated preferentially in M2 muscarinic acetylcholine receptor-negative (M2-) interpatches. Anterogradely labeled inputs overlapped in M2-interpatches with apical dendrites of retrogradely labeled L2/3 and L5 cells, forming module-selective loops between topographically distant locations. Previous work showed that L1 of M2-interpatches receive inputs from the lateral posterior thalamic nucleus (LP) and from a feedback network from areas of the medial dorsal stream, including the secondary motor cortex. Together, these findings suggest that interactions in M2-interpatches play a role in processing visual inputs produced by object-and self-motion.
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Affiliation(s)
- Andreas Burkhalter
- Department of Neuroscience, Washington University School of Medicine, St. Louis, MO, United States
| | - Weiqing Ji
- Department of Neuroscience, Washington University School of Medicine, St. Louis, MO, United States
| | - Andrew M. Meier
- Department of Neuroscience, Washington University School of Medicine, St. Louis, MO, United States
- Department of Speech, Language and Hearing Sciences, College of Engineering, Boston University, Boston, MA, United States
| | - Rinaldo D. D’Souza
- Department of Neuroscience, Washington University School of Medicine, St. Louis, MO, United States
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6
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Bolaños F, Orlandi JG, Aoki R, Jagadeesh AV, Gardner JL, Benucci A. Efficient coding of natural images in the mouse visual cortex. Nat Commun 2024; 15:2466. [PMID: 38503746 PMCID: PMC10951403 DOI: 10.1038/s41467-024-45919-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Accepted: 02/06/2024] [Indexed: 03/21/2024] Open
Abstract
How the activity of neurons gives rise to natural vision remains a matter of intense investigation. The mid-level visual areas along the ventral stream are selective to a common class of natural images-textures-but a circuit-level understanding of this selectivity and its link to perception remains unclear. We addressed these questions in mice, first showing that they can perceptually discriminate between textures and statistically simpler spectrally matched stimuli, and between texture types. Then, at the neural level, we found that the secondary visual area (LM) exhibited a higher degree of selectivity for textures compared to the primary visual area (V1). Furthermore, textures were represented in distinct neural activity subspaces whose relative distances were found to correlate with the statistical similarity of the images and the mice's ability to discriminate between them. Notably, these dependencies were more pronounced in LM, where the texture-related subspaces were smaller than in V1, resulting in superior stimulus decoding capabilities. Together, our results demonstrate texture vision in mice, finding a linking framework between stimulus statistics, neural representations, and perceptual sensitivity-a distinct hallmark of efficient coding computations.
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Affiliation(s)
- Federico Bolaños
- University of British Columbia, Neuroimaging and NeuroComputation Centre, Vancouver, BC, V6T, Canada
| | - Javier G Orlandi
- University of Calgary, Department of Physics and Astronomy, Calgary, AB, T2N 1N4, Canada.
| | - Ryo Aoki
- RIKEN Center for Brain Science, Laboratory for Neural Circuits and Behavior, Wakoshi, Japan
| | | | - Justin L Gardner
- Stanford University, Wu Tsai Neurosciences Institute, Stanford, CA, USA
| | - Andrea Benucci
- RIKEN Center for Brain Science, Laboratory for Neural Circuits and Behavior, Wakoshi, Japan.
- Queen Mary, University of London, School of Biological and Behavioral Science, London, E1 4NS, UK.
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7
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Dinh TNA, Moon HS, Kim SG. Separation of bimodal fMRI responses in mouse somatosensory areas into V1 and non-V1 contributions. Sci Rep 2024; 14:6302. [PMID: 38491035 PMCID: PMC10943206 DOI: 10.1038/s41598-024-56305-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Accepted: 03/05/2024] [Indexed: 03/18/2024] Open
Abstract
Multisensory integration is necessary for the animal to survive in the real world. While conventional methods have been extensively used to investigate the multisensory integration process in various brain areas, its long-range interactions remain less explored. In this study, our goal was to investigate interactions between visual and somatosensory networks on a whole-brain scale using 15.2-T BOLD fMRI. We compared unimodal to bimodal BOLD fMRI responses and dissected potential cross-modal pathways with silencing of primary visual cortex (V1) by optogenetic stimulation of local GABAergic neurons. Our data showed that the influence of visual stimulus on whisker activity is higher than the influence of whisker stimulus on visual activity. Optogenetic silencing of V1 revealed that visual information is conveyed to whisker processing via both V1 and non-V1 pathways. The first-order ventral posteromedial thalamic nucleus (VPM) was functionally affected by non-V1 sources, while the higher-order posterior medial thalamic nucleus (POm) was predominantly modulated by V1 but not non-V1 inputs. The primary somatosensory barrel field (S1BF) was influenced by both V1 and non-V1 inputs. These observations provide valuable insights for into the integration of whisker and visual sensory information.
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Affiliation(s)
- Thi Ngoc Anh Dinh
- Center for Neuroscience Imaging Research (CNIR), Institute for Basic Science (IBS), Suwon, 16419, South Korea
- Department of Biomedical Engineering, Sungkyunkwan University, Suwon, 16419, South Korea
| | - Hyun Seok Moon
- Center for Neuroscience Imaging Research (CNIR), Institute for Basic Science (IBS), Suwon, 16419, South Korea
- Department of Biomedical Engineering, Sungkyunkwan University, Suwon, 16419, South Korea
| | - Seong-Gi Kim
- Center for Neuroscience Imaging Research (CNIR), Institute for Basic Science (IBS), Suwon, 16419, South Korea.
- Department of Biomedical Engineering, Sungkyunkwan University, Suwon, 16419, South Korea.
- Department of Intelligent Precision Healthcare Convergence, Sungkyunkwan University, Suwon, 16419, South Korea.
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8
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Liu Y, Seguin C, Betzel RF, Akarca D, Di Biase MA, Zalesky A. A generative model of the connectome with dynamic axon growth. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.02.23.581824. [PMID: 38464116 PMCID: PMC10925171 DOI: 10.1101/2024.02.23.581824] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/12/2024]
Abstract
Connectome generative models, otherwise known as generative network models, provide insight into the wiring principles underpinning brain network organization. While these models can approximate numerous statistical properties of empirical networks, they typically fail to explicitly characterize an important contributor to brain organization - axonal growth. Emulating the chemoaffinity guided axonal growth, we provide a novel generative model in which axons dynamically steer the direction of propagation based on distance-dependent chemoattractive forces acting on their growth cones. This simple dynamic growth mechanism, despite being solely geometry-dependent, is shown to generate axonal fiber bundles with brain-like geometry and features of complex network architecture consistent with the human brain, including lognormally distributed connectivity weights, scale-free nodal degrees, small-worldness, and modularity. We demonstrate that our model parameters can be fitted to individual connectomes, enabling connectome dimensionality reduction and comparison of parameters between groups. Our work offers an opportunity to bridge studies of axon guidance and connectome development, providing new avenues for understanding neural development from a computational perspective.
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Affiliation(s)
- Yuanzhe Liu
- Department of Biomedical Engineering, Faculty of Engineering & Information Technology, The University of Melbourne, Melbourne, VIC, Australia
- Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne, Melbourne, VIC, Australia
| | - Caio Seguin
- Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne, Melbourne, VIC, Australia
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, IN, USA
| | - Richard F. Betzel
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, IN, USA
| | - Danyal Akarca
- Department of Psychiatry, University of Cambridge, Cambridge, UK
- MRC Cognition and Brain Sciences Unit, University of Cambridge, UK
| | - Maria A. Di Biase
- Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne, Melbourne, VIC, Australia
- Department of Psychiatry, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA, USA
| | - Andrew Zalesky
- Department of Biomedical Engineering, Faculty of Engineering & Information Technology, The University of Melbourne, Melbourne, VIC, Australia
- Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne, Melbourne, VIC, Australia
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9
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Zhang A, Jin L, Yao S, Matsuyama M, van Velthoven CTJ, Sullivan HA, Sun N, Kellis M, Tasic B, Wickersham I, Chen X. Rabies virus-based barcoded neuroanatomy resolved by single-cell RNA and in situ sequencing. eLife 2024; 12:RP87866. [PMID: 38319699 PMCID: PMC10942611 DOI: 10.7554/elife.87866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2024] Open
Abstract
Mapping the connectivity of diverse neuronal types provides the foundation for understanding the structure and function of neural circuits. High-throughput and low-cost neuroanatomical techniques based on RNA barcode sequencing have the potential to map circuits at cellular resolution and a brain-wide scale, but existing Sindbis virus-based techniques can only map long-range projections using anterograde tracing approaches. Rabies virus can complement anterograde tracing approaches by enabling either retrograde labeling of projection neurons or monosynaptic tracing of direct inputs to genetically targeted postsynaptic neurons. However, barcoded rabies virus has so far been only used to map non-neuronal cellular interactions in vivo and synaptic connectivity of cultured neurons. Here we combine barcoded rabies virus with single-cell and in situ sequencing to perform retrograde labeling and transsynaptic labeling in the mouse brain. We sequenced 96 retrogradely labeled cells and 295 transsynaptically labeled cells using single-cell RNA-seq, and 4130 retrogradely labeled cells and 2914 transsynaptically labeled cells in situ. We found that the transcriptomic identities of rabies virus-infected cells can be robustly identified using both single-cell RNA-seq and in situ sequencing. By associating gene expression with connectivity inferred from barcode sequencing, we distinguished long-range projecting cortical cell types from multiple cortical areas and identified cell types with converging or diverging synaptic connectivity. Combining in situ sequencing with barcoded rabies virus complements existing sequencing-based neuroanatomical techniques and provides a potential path for mapping synaptic connectivity of neuronal types at scale.
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Affiliation(s)
- Aixin Zhang
- Allen Institute for Brain ScienceSeattleUnited States
| | - Lei Jin
- McGovern Institute for Brain Research, Massachusetts Institute of TechnologyCambridgeUnited States
| | - Shenqin Yao
- Allen Institute for Brain ScienceSeattleUnited States
| | - Makoto Matsuyama
- McGovern Institute for Brain Research, Massachusetts Institute of TechnologyCambridgeUnited States
| | | | - Heather Anne Sullivan
- McGovern Institute for Brain Research, Massachusetts Institute of TechnologyCambridgeUnited States
| | - Na Sun
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Broad Institute of MIT and HarvardCambridgeUnited States
- Broad Institute of MIT and HarvardCambridgeUnited States
| | - Manolis Kellis
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Broad Institute of MIT and HarvardCambridgeUnited States
- Broad Institute of MIT and HarvardCambridgeUnited States
| | | | - Ian Wickersham
- McGovern Institute for Brain Research, Massachusetts Institute of TechnologyCambridgeUnited States
| | - Xiaoyin Chen
- Allen Institute for Brain ScienceSeattleUnited States
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10
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Puxeddu MG, Faskowitz J, Seguin C, Yovel Y, Assaf Y, Betzel R, Sporns O. Relation of connectome topology to brain volume across 103 mammalian species. PLoS Biol 2024; 22:e3002489. [PMID: 38315722 PMCID: PMC10868790 DOI: 10.1371/journal.pbio.3002489] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Revised: 02/15/2024] [Accepted: 01/08/2024] [Indexed: 02/07/2024] Open
Abstract
The brain connectome is an embedded network of anatomically interconnected brain regions, and the study of its topological organization in mammals has become of paramount importance due to its role in scaffolding brain function and behavior. Unlike many other observable networks, brain connections incur material and energetic cost, and their length and density are volumetrically constrained by the skull. Thus, an open question is how differences in brain volume impact connectome topology. We address this issue using the MaMI database, a diverse set of mammalian connectomes reconstructed from 201 animals, covering 103 species and 12 taxonomy orders, whose brain size varies over more than 4 orders of magnitude. Our analyses focus on relationships between volume and modular organization. After having identified modules through a multiresolution approach, we observed how connectivity features relate to the modular structure and how these relations vary across brain volume. We found that as the brain volume increases, modules become more spatially compact and dense, comprising more costly connections. Furthermore, we investigated how spatial embedding shapes network communication, finding that as brain volume increases, nodes' distance progressively impacts communication efficiency. We identified modes of variation in network communication policies, as smaller and bigger brains show higher efficiency in routing- and diffusion-based signaling, respectively. Finally, bridging network modularity and communication, we found that in larger brains, modular structure imposes stronger constraints on network signaling. Altogether, our results show that brain volume is systematically related to mammalian connectome topology and that spatial embedding imposes tighter restrictions on larger brains.
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Affiliation(s)
- Maria Grazia Puxeddu
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, Indiana, United States of America
| | - Joshua Faskowitz
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, Indiana, United States of America
| | - Caio Seguin
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, Indiana, United States of America
| | - Yossi Yovel
- School of Neurobiology, Biochemistry and Biophysics, Tel Aviv University, Tel Aviv, Israel
| | - Yaniv Assaf
- School of Neurobiology, Biochemistry and Biophysics, Tel Aviv University, Tel Aviv, Israel
| | - Richard Betzel
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, Indiana, United States of America
- Program in Neuroscience, Indiana University, Bloomington, Indiana, United States of America
- Program in Cognitive Science, Indiana University, Bloomington, Indiana, United States of America
| | - Olaf Sporns
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, Indiana, United States of America
- Program in Neuroscience, Indiana University, Bloomington, Indiana, United States of America
- Program in Cognitive Science, Indiana University, Bloomington, Indiana, United States of America
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11
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Nikbakht N. More Than the Sum of Its Parts: Visual-Tactile Integration in the Behaving Rat. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2024; 1437:37-58. [PMID: 38270852 DOI: 10.1007/978-981-99-7611-9_3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2024]
Abstract
We experience the world by constantly integrating cues from multiple modalities to form unified sensory percepts. Once familiar with multimodal properties of an object, we can recognize it regardless of the modality involved. In this chapter we will examine the case of a visual-tactile orientation categorization experiment in rats. We will explore the involvement of the cerebral cortex in recognizing objects through multiple sensory modalities. In the orientation categorization task, rats learned to examine and judge the orientation of a raised, black and white grating using touch, vision, or both. Their multisensory performance was better than the predictions of linear models for cue combination, indicating synergy between the two sensory channels. Neural recordings made from a candidate associative cortical area, the posterior parietal cortex (PPC), reflected the principal neuronal correlates of the behavioral results: PPC neurons encoded both graded information about the object and categorical information about the animal's decision. Intriguingly single neurons showed identical responses under each of the three modality conditions providing a substrate for a neural circuit in the cortex that is involved in modality-invariant processing of objects.
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Affiliation(s)
- Nader Nikbakht
- Massachusetts Institute of Technology, Cambridge, MA, USA.
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12
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Tang Y, Gervais C, Moffitt R, Nareddula S, Zimmermann M, Nadew YY, Quinn CJ, Saldarriaga V, Edens P, Chubykin AA. Visual experience induces 4-8 Hz synchrony between V1 and higher-order visual areas. Cell Rep 2023; 42:113482. [PMID: 37999977 PMCID: PMC10790627 DOI: 10.1016/j.celrep.2023.113482] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2023] [Revised: 09/20/2023] [Accepted: 11/07/2023] [Indexed: 11/26/2023] Open
Abstract
Visual perceptual experience induces persistent 4-8 Hz oscillations in the mouse primary visual cortex (V1), encoding visual familiarity. Recent studies suggest that higher-order visual areas (HVAs) are functionally specialized and segregated into information streams processing distinct visual features. However, whether visual memories are processed and stored within the distinct streams is not understood. We report here that V1 and lateromedial (LM), but not V1 and anterolateral, become more phase synchronized in 4-8 Hz after the entrainment of visual stimulus that maximally induces responses in LM. Directed information analysis reveals changes in the top-down functional connectivity between V1 and HVAs. Optogenetic inactivation of LM reduces post-stimulus oscillation peaks in V1 and impairs visual discrimination behavior. Our results demonstrate that 4-8 Hz familiarity-evoked oscillations are specific for the distinct visual features and are present in the corresponding HVAs, where they may be used for the inter-areal communication with V1 during memory-related behaviors.
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Affiliation(s)
- Yu Tang
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA
| | - Catherine Gervais
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA
| | - Rylann Moffitt
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA
| | - Sanghamitra Nareddula
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA
| | - Michael Zimmermann
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA
| | - Yididiya Y Nadew
- Department of Computer Sciences, Iowa State University, Ames, IA 50011, USA
| | | | - Violeta Saldarriaga
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA
| | - Paige Edens
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA
| | - Alexander A Chubykin
- Department of Biological Sciences, Purdue Institute for Integrative Neuroscience, Purdue Autism Research Center, Purdue University, West Lafayette, IN 47907, USA.
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13
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Liu J, He Y, Lavoie A, Bouvier G, Liu BH. A direction-selective cortico-brainstem pathway adaptively modulates innate behaviors. Nat Commun 2023; 14:8467. [PMID: 38123558 PMCID: PMC10733370 DOI: 10.1038/s41467-023-42910-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 10/25/2023] [Indexed: 12/23/2023] Open
Abstract
Sensory cortices modulate innate behaviors through corticofugal projections targeting phylogenetically-old brainstem nuclei. However, the principles behind the functional connectivity of these projections remain poorly understood. Here, we show that in mice visual cortical neurons projecting to the optic-tract and dorsal-terminal nuclei (NOT-DTN) possess distinct response properties and anatomical connectivity, supporting the adaption of an essential innate eye movement, the optokinetic reflex (OKR). We find that these corticofugal neurons are enriched in specific visual areas, and they prefer temporo-nasal visual motion, matching the direction bias of downstream NOT-DTN neurons. Remarkably, continuous OKR stimulation selectively enhances the activity of these temporo-nasally biased cortical neurons, which can efficiently promote OKR plasticity. Lastly, we demonstrate that silencing downstream NOT-DTN neurons, which project specifically to the inferior olive-a key structure in oculomotor plasticity, impairs the cortical modulation of OKR and OKR plasticity. Our results unveil a direction-selective cortico-brainstem pathway that adaptively modulates innate behaviors.
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Affiliation(s)
- Jiashu Liu
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, L5L 1C6, Canada
- Department of Cell and Systems Biology, University of Toronto, Toronto, ON, M5S 3G5, Canada
| | - Yingtian He
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, L5L 1C6, Canada
- Department of Cell and Systems Biology, University of Toronto, Toronto, ON, M5S 3G5, Canada
| | - Andreanne Lavoie
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, L5L 1C6, Canada
- Department of Cell and Systems Biology, University of Toronto, Toronto, ON, M5S 3G5, Canada
| | - Guy Bouvier
- Université Paris-Saclay, CNRS, Institut des Neurosciences Paris-Saclay, 91400, Saclay, France
| | - Bao-Hua Liu
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, L5L 1C6, Canada.
- Department of Cell and Systems Biology, University of Toronto, Toronto, ON, M5S 3G5, Canada.
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14
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Jeong H, Namboodiri VMK, Jung MW, Andermann ML. Sensory cortical ensembles exhibit differential coupling to ripples in distinct hippocampal subregions. Curr Biol 2023; 33:5185-5198.e4. [PMID: 37995696 PMCID: PMC10842729 DOI: 10.1016/j.cub.2023.10.073] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2023] [Revised: 08/29/2023] [Accepted: 10/31/2023] [Indexed: 11/25/2023]
Abstract
Cortical neurons activated during recent experiences often reactivate with dorsal hippocampal CA1 ripples during subsequent rest. Less is known about cortical interactions with intermediate hippocampal CA1, whose connectivity, functions, and ripple events differ from dorsal CA1. We identified three clusters of putative excitatory neurons in mouse visual cortex that are preferentially excited together with either dorsal or intermediate CA1 ripples or suppressed before both ripples. Neurons in each cluster were evenly distributed across primary and higher visual cortices and co-active even in the absence of ripples. These ensembles exhibited similar visual responses but different coupling to thalamus and pupil-indexed arousal. We observed a consistent activity sequence preceding and predicting ripples: (1) suppression of ripple-suppressed cortical neurons, (2) thalamic silence, and (3) activation of intermediate CA1-ripple-activated cortical neurons. We propose that coordinated dynamics of these ensembles relay visual experiences to distinct hippocampal subregions for incorporation into different cognitive maps.
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Affiliation(s)
- Huijeong Jeong
- Department of Neurology, University of California, San Francisco, 1651 4th Street, San Francisco, CA 94158, USA; Center for Synaptic Brain Dysfunctions, Institute for Basic Science, 291 Daehak-ro, Daejeon 34141, Republic of Korea; Department of Biological Sciences, Korea Advanced Institute of Science and Technology, 291 Daehak-ro, Daejeon 34141, Republic of Korea
| | - Vijay Mohan K Namboodiri
- Department of Neurology, University of California, San Francisco, 1651 4th Street, San Francisco, CA 94158, USA; Neuroscience Graduate Program, University of California, San Francisco, 1651 4th Street, San Francisco, CA 94158, USA; Weill Institute for Neuroscience, Kavli Institute for Fundamental Neuroscience, Center for Integrative Neuroscience, University of California, San Francisco, 1651 4th Street, San Francisco, CA 94158, USA.
| | - Min Whan Jung
- Center for Synaptic Brain Dysfunctions, Institute for Basic Science, 291 Daehak-ro, Daejeon 34141, Republic of Korea; Department of Biological Sciences, Korea Advanced Institute of Science and Technology, 291 Daehak-ro, Daejeon 34141, Republic of Korea.
| | - Mark L Andermann
- Division of Endocrinology, Metabolism, and Diabetes, Beth Israel Deaconess Medical Center, Harvard Medical School, 330 Brookline Avenue, Boston, MA 02215, USA; Department of Neurobiology, Harvard Medical School, 220 Longwood Avenue, Boston, MA 02115, USA.
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15
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Wu K, Wang D, Wang Y, Tang P, Li X, Pan Y, Tao HW, Zhang LI, Liang F. Distinct circuits in anterior cingulate cortex encode safety assessment and mediate flexibility of fear reactions. Neuron 2023; 111:3650-3667.e6. [PMID: 37652003 PMCID: PMC10990237 DOI: 10.1016/j.neuron.2023.08.008] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2023] [Revised: 07/15/2023] [Accepted: 08/08/2023] [Indexed: 09/02/2023]
Abstract
Safety assessment and threat evaluation are crucial for animals to live and survive in the wilderness. However, neural circuits underlying safety assessment and their transformation to mediate flexibility of fear-induced defensive behaviors remain largely unknown. Here, we report that distinct neuronal populations in mouse anterior cingulate cortex (ACC) encode safety status by selectively responding under different contexts of auditory threats, with one preferably activated when an animal staysing in a self-deemed safe zone and another specifically activated in more dangerous environmental settings that led to escape behavior. The safety-responding neurons preferentially target the zona incerta (ZI), which suppresses the superior colliculus (SC) via its GABAergic projection, while the danger-responding neurons preferentially target and excite SC. These distinct corticofugal pathways antagonistically modulate SC responses to threat, resulting in context-dependent expression of fear reactions. Thus, ACC serves as a critical node to encode safety/danger assessment and mediate behavioral flexibility through differential top-down circuits.
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Affiliation(s)
- Kaibin Wu
- School of Biomedical Engineering, Southern Medical University, Guangzhou 510515, China; Guangdong-Hong Kong-Macao Greater Bay Area Center for Brain Science and Brain-Inspired Intelligence, Southern Medical University, Guangzhou 510515, China; Key Laboratory of Mental Health of the Ministry of Education, Southern Medical University, Guangzhou 510515, China; Department of Anaesthesiology, Zhujiang Hospital of Southern Medical University, Guangzhou 510220, China; Guangdong Province Key Laboratory of Psychiatric Disorders, Southern Medical University, Guangzhou 510515, China
| | - Dijia Wang
- School of Biomedical Engineering, Southern Medical University, Guangzhou 510515, China; Guangdong-Hong Kong-Macao Greater Bay Area Center for Brain Science and Brain-Inspired Intelligence, Southern Medical University, Guangzhou 510515, China; Key Laboratory of Mental Health of the Ministry of Education, Southern Medical University, Guangzhou 510515, China; Department of Anaesthesiology, Zhujiang Hospital of Southern Medical University, Guangzhou 510220, China; Guangdong Province Key Laboratory of Psychiatric Disorders, Southern Medical University, Guangzhou 510515, China
| | - Yuwei Wang
- Department of Psychology, School of Public Health, Southern Medical University, Guangzhou 510515, China
| | - Peiwen Tang
- School of Biomedical Engineering, Southern Medical University, Guangzhou 510515, China; Guangdong-Hong Kong-Macao Greater Bay Area Center for Brain Science and Brain-Inspired Intelligence, Southern Medical University, Guangzhou 510515, China; Key Laboratory of Mental Health of the Ministry of Education, Southern Medical University, Guangzhou 510515, China; Department of Anaesthesiology, Zhujiang Hospital of Southern Medical University, Guangzhou 510220, China; Guangdong Province Key Laboratory of Psychiatric Disorders, Southern Medical University, Guangzhou 510515, China
| | - Xuan Li
- School of Biomedical Engineering, Southern Medical University, Guangzhou 510515, China
| | - Yidi Pan
- School of Biomedical Engineering, Southern Medical University, Guangzhou 510515, China
| | - Huizhong W Tao
- Center for Neural Circuits & Sensory Processing Disorders, Zilkha Neurogenetic Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA; Department of Physiology & Neuroscience, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA
| | - Li I Zhang
- Center for Neural Circuits & Sensory Processing Disorders, Zilkha Neurogenetic Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA; Department of Physiology & Neuroscience, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA
| | - Feixue Liang
- School of Biomedical Engineering, Southern Medical University, Guangzhou 510515, China; Guangdong-Hong Kong-Macao Greater Bay Area Center for Brain Science and Brain-Inspired Intelligence, Southern Medical University, Guangzhou 510515, China; Key Laboratory of Mental Health of the Ministry of Education, Southern Medical University, Guangzhou 510515, China; Department of Anaesthesiology, Zhujiang Hospital of Southern Medical University, Guangzhou 510220, China; Guangdong Province Key Laboratory of Psychiatric Disorders, Southern Medical University, Guangzhou 510515, China; Department of Psychology, School of Public Health, Southern Medical University, Guangzhou 510515, China.
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16
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Zhang A, Jin L, Yao S, Matsuyama M, van Velthoven C, Sullivan H, Sun N, Kellis M, Tasic B, Wickersham IR, Chen X. Rabies virus-based barcoded neuroanatomy resolved by single-cell RNA and in situ sequencing. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.03.16.532873. [PMID: 36993334 PMCID: PMC10055146 DOI: 10.1101/2023.03.16.532873] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Mapping the connectivity of diverse neuronal types provides the foundation for understanding the structure and function of neural circuits. High-throughput and low-cost neuroanatomical techniques based on RNA barcode sequencing have the potential to map circuits at cellular resolution and a brain-wide scale, but existing Sindbis virus-based techniques can only map long-range projections using anterograde tracing approaches. Rabies virus can complement anterograde tracing approaches by enabling either retrograde labeling of projection neurons or monosynaptic tracing of direct inputs to genetically targeted postsynaptic neurons. However, barcoded rabies virus has so far been only used to map non-neuronal cellular interactions in vivo and synaptic connectivity of cultured neurons. Here we combine barcoded rabies virus with single-cell and in situ sequencing to perform retrograde labeling and transsynaptic labeling in the mouse brain. We sequenced 96 retrogradely labeled cells and 295 transsynaptically labeled cells using single-cell RNA-seq, and 4,130 retrogradely labeled cells and 2,914 transsynaptically labeled cells in situ. We found that the transcriptomic identities of rabies virus-infected cells can be robustly identified using both single-cell RNA-seq and in situ sequencing. By associating gene expression with connectivity inferred from barcode sequencing, we distinguished long-range projecting cortical cell types from multiple cortical areas and identified cell types with converging or diverging synaptic connectivity. Combining in situ sequencing with barcoded rabies virus complements existing sequencing-based neuroanatomical techniques and provides a potential path for mapping synaptic connectivity of neuronal types at scale.
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Affiliation(s)
- Aixin Zhang
- Allen Institute for Brain Science, Seattle, WA
| | - Lei Jin
- McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA
- Current address: Lingang Laboratory, Shanghai, China
| | - Shenqin Yao
- Allen Institute for Brain Science, Seattle, WA
| | - Makoto Matsuyama
- McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA
- Current address: Metcela Inc., Kawasaki, Kanagawa, Japan
| | | | - Heather Sullivan
- McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA
| | - Na Sun
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, MA
- Broad Institute of MIT and Harvard, Cambridge, MA, USA
| | - Manolis Kellis
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, MA
- Broad Institute of MIT and Harvard, Cambridge, MA, USA
| | | | - Ian R. Wickersham
- McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA
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17
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Matteucci G, Bellacosa Marotti R, Zattera B, Zoccolan D. Truly pattern: Nonlinear integration of motion signals is required to account for the responses of pattern cells in rat visual cortex. SCIENCE ADVANCES 2023; 9:eadh4690. [PMID: 37939191 PMCID: PMC10631736 DOI: 10.1126/sciadv.adh4690] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Accepted: 10/06/2023] [Indexed: 11/10/2023]
Abstract
A key feature of advanced motion processing in the primate dorsal stream is the existence of pattern cells-specialized cortical neurons that integrate local motion signals into pattern-invariant representations of global direction. Pattern cells have also been reported in rodent visual cortex, but it is unknown whether the tuning of these neurons results from truly integrative, nonlinear mechanisms or trivially arises from linear receptive fields (RFs) with a peculiar geometry. Here, we show that pattern cells in rat primary (V1) and lateromedial (LM) visual cortex process motion direction in a way that cannot be explained by the linear spatiotemporal structure of their RFs. Instead, their tuning properties are consistent with and well explained by those of units in a state-of-the-art neural network model of the dorsal stream. This suggests that similar cortical processes underlay motion representation in primates and rodents. The latter could thus serve as powerful model systems to unravel the underlying circuit-level mechanisms.
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18
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Neske GT, Cardin JA. Transthalamic input to higher-order cortex selectively conveys state information. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.10.08.561424. [PMID: 37873181 PMCID: PMC10592671 DOI: 10.1101/2023.10.08.561424] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2023]
Abstract
Communication among different neocortical areas is largely thought to be mediated by long-range synaptic interactions between cortical neurons, with the thalamus providing only an initial relay of information from the sensory periphery. Higher-order thalamic nuclei receive strong synaptic inputs from the cortex and send robust projections back to other cortical areas, providing a distinct and potentially critical route for cortico-cortical communication. However, the relative contributions of corticocortical and thalamocortical inputs to higher-order cortical function remain unclear. Using imaging of cortical neurons and projection axon terminals in combination with optogenetic manipulations, we find that the higher-order visual thalamus of mice conveys a specialized stream of information to higher-order visual cortex. Whereas corticocortical projections from lower cortical areas convey robust visual information, higher-order thalamocortical projections convey strong behavioral state information. Together, these findings suggest a key role for higher-order thalamus in providing contextual signals that flexibly modulate sensory processing in higher-order cortex.
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Affiliation(s)
- Garrett T. Neske
- Department of Neuroscience, Kavli Institute for Neuroscience, Wu Tsai Neuroscience Institute, Yale University, New Haven, CT, USA
- Present address: Department of Physiology and Biophysics, State University of New York at Buffalo, Jacobs School of Medicine and Biomedical Sciences, Buffalo, NY, USA
| | - Jessica A. Cardin
- Department of Neuroscience, Kavli Institute for Neuroscience, Wu Tsai Neuroscience Institute, Yale University, New Haven, CT, USA
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19
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Pennartz CMA, Oude Lohuis MN, Olcese U. How 'visual' is the visual cortex? The interactions between the visual cortex and other sensory, motivational and motor systems as enabling factors for visual perception. Philos Trans R Soc Lond B Biol Sci 2023; 378:20220336. [PMID: 37545313 PMCID: PMC10404929 DOI: 10.1098/rstb.2022.0336] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Accepted: 06/13/2023] [Indexed: 08/08/2023] Open
Abstract
The definition of the visual cortex is primarily based on the evidence that lesions of this area impair visual perception. However, this does not exclude that the visual cortex may process more information than of retinal origin alone, or that other brain structures contribute to vision. Indeed, research across the past decades has shown that non-visual information, such as neural activity related to reward expectation and value, locomotion, working memory and other sensory modalities, can modulate primary visual cortical responses to retinal inputs. Nevertheless, the function of this non-visual information is poorly understood. Here we review recent evidence, coming primarily from studies in rodents, arguing that non-visual and motor effects in visual cortex play a role in visual processing itself, for instance disentangling direct auditory effects on visual cortex from effects of sound-evoked orofacial movement. These findings are placed in a broader framework casting vision in terms of predictive processing under control of frontal, reward- and motor-related systems. In contrast to the prevalent notion that vision is exclusively constructed by the visual cortical system, we propose that visual percepts are generated by a larger network-the extended visual system-spanning other sensory cortices, supramodal areas and frontal systems. This article is part of the theme issue 'Decision and control processes in multisensory perception'.
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Affiliation(s)
- Cyriel M. A. Pennartz
- Cognitive and Systems Neuroscience Group, Swammerdam Institute for Life Sciences, University of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
- Amsterdam Brain and Cognition, University of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
| | - Matthijs N. Oude Lohuis
- Cognitive and Systems Neuroscience Group, Swammerdam Institute for Life Sciences, University of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
- Champalimaud Research, Champalimaud Foundation, 1400-038 Lisbon, Portugal
| | - Umberto Olcese
- Cognitive and Systems Neuroscience Group, Swammerdam Institute for Life Sciences, University of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
- Amsterdam Brain and Cognition, University of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
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20
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King CW, Ledochowitsch P, Buice MA, de Vries SEJ. Saccade-Responsive Visual Cortical Neurons Do Not Exhibit Distinct Visual Response Properties. eNeuro 2023; 10:ENEURO.0051-23.2023. [PMID: 37591733 PMCID: PMC10506534 DOI: 10.1523/eneuro.0051-23.2023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Revised: 07/05/2023] [Accepted: 07/24/2023] [Indexed: 08/19/2023] Open
Abstract
Rapid saccadic eye movements are used by animals to sample different parts of the visual scene. Previous work has investigated neural correlates of these saccades in visual cortical areas such as V1; however, how saccade-responsive neurons are distributed across visual areas, cell types, and cortical layers has remained unknown. Through analyzing 818 1 h experimental sessions from the Allen Brain Observatory, we present a large-scale analysis of saccadic behaviors in head-fixed mice and their neural correlates. We find that saccade-responsive neurons are present across visual cortex, but their distribution varies considerably by transgenically defined cell type, cortical area, and cortical layer. We also find that saccade-responsive neurons do not exhibit distinct visual response properties from the broader neural population, suggesting that the saccadic responses of these neurons are likely not predominantly visually driven. These results provide insight into the roles played by different cell types within a broader, distributed network of sensory and motor interactions.
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Affiliation(s)
- Chase W King
- MindScope Program, Allen Institute, Seattle, Washington 98109
- Department of Computer Science, University of Washington, Seattle, Washington 98195-2350
| | | | - Michael A Buice
- MindScope Program, Allen Institute, Seattle, Washington 98109
- Department of Applied Mathematics, University of Washington, Seattle, Washington 98195-3925
| | - Saskia E J de Vries
- MindScope Program, Allen Institute, Seattle, Washington 98109
- Department of Physiology & Biophysics, University of Washington, Seattle, Washington 98195-7290
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21
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Brenner JM, Beltramo R, Gerfen CR, Ruediger S, Scanziani M. A genetically defined tecto-thalamic pathway drives a system of superior-colliculus-dependent visual cortices. Neuron 2023; 111:2247-2257.e7. [PMID: 37172584 PMCID: PMC10524301 DOI: 10.1016/j.neuron.2023.04.022] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2022] [Revised: 02/13/2023] [Accepted: 04/17/2023] [Indexed: 05/15/2023]
Abstract
Cortical responses to visual stimuli are believed to rely on the geniculo-striate pathway. However, recent work has challenged this notion by showing that responses in the postrhinal cortex (POR), a visual cortical area, instead depend on the tecto-thalamic pathway, which conveys visual information to the cortex via the superior colliculus (SC). Does POR's SC-dependence point to a wider system of tecto-thalamic cortical visual areas? What information might this system extract from the visual world? We discovered multiple mouse cortical areas whose visual responses rely on SC, with the most lateral showing the strongest SC-dependence. This system is driven by a genetically defined cell type that connects the SC to the pulvinar thalamic nucleus. Finally, we show that SC-dependent cortices distinguish self-generated from externally generated visual motion. Hence, lateral visual areas comprise a system that relies on the tecto-thalamic pathway and contributes to processing visual motion as animals move through the environment.
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Affiliation(s)
- Joshua M Brenner
- Department of Physiology, University of California, San Francisco, San Francisco, CA, USA; Howard Hughes Medical Institute, University of California, San Francisco, San Francisco, CA, USA
| | - Riccardo Beltramo
- Department of Physiology, University of California, San Francisco, San Francisco, CA, USA; Howard Hughes Medical Institute, University of California, San Francisco, San Francisco, CA, USA; University of Cambridge, Cambridge, UK
| | | | - Sarah Ruediger
- Department of Physiology, University of California, San Francisco, San Francisco, CA, USA; Howard Hughes Medical Institute, University of California, San Francisco, San Francisco, CA, USA
| | - Massimo Scanziani
- Department of Physiology, University of California, San Francisco, San Francisco, CA, USA; Howard Hughes Medical Institute, University of California, San Francisco, San Francisco, CA, USA.
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22
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Wyrick DG, Cain N, Larsen RS, Lecoq J, Valley M, Ahmed R, Bowlus J, Boyer G, Caldejon S, Casal L, Chvilicek M, DePartee M, Groblewski PA, Huang C, Johnson K, Kato I, Larkin J, Lee E, Liang E, Luviano J, Mace K, Nayan C, Nguyen T, Reding M, Seid S, Sevigny J, Stoecklin M, Williford A, Choi H, Garrett M, Mazzucato L. Differential encoding of temporal context and expectation under representational drift across hierarchically connected areas. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.06.02.543483. [PMID: 37333203 PMCID: PMC10274646 DOI: 10.1101/2023.06.02.543483] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/20/2023]
Abstract
The classic view that neural populations in sensory cortices preferentially encode responses to incoming stimuli has been strongly challenged by recent experimental studies. Despite the fact that a large fraction of variance of visual responses in rodents can be attributed to behavioral state and movements, trial-history, and salience, the effects of contextual modulations and expectations on sensory-evoked responses in visual and association areas remain elusive. Here, we present a comprehensive experimental and theoretical study showing that hierarchically connected visual and association areas differentially encode the temporal context and expectation of naturalistic visual stimuli, consistent with the theory of hierarchical predictive coding. We measured neural responses to expected and unexpected sequences of natural scenes in the primary visual cortex (V1), the posterior medial higher order visual area (PM), and retrosplenial cortex (RSP) using 2-photon imaging in behaving mice collected through the Allen Institute Mindscope's OpenScope program. We found that information about image identity in neural population activity depended on the temporal context of transitions preceding each scene, and decreased along the hierarchy. Furthermore, our analyses revealed that the conjunctive encoding of temporal context and image identity was modulated by expectations of sequential events. In V1 and PM, we found enhanced and specific responses to unexpected oddball images, signaling stimulus-specific expectation violation. In contrast, in RSP the population response to oddball presentation recapitulated the missing expected image rather than the oddball image. These differential responses along the hierarchy are consistent with classic theories of hierarchical predictive coding whereby higher areas encode predictions and lower areas encode deviations from expectation. We further found evidence for drift in visual responses on the timescale of minutes. Although activity drift was present in all areas, population responses in V1 and PM, but not in RSP, maintained stable encoding of visual information and representational geometry. Instead we found that RSP drift was independent of stimulus information, suggesting a role in generating an internal model of the environment in the temporal domain. Overall, our results establish temporal context and expectation as substantial encoding dimensions in the visual cortex subject to fast representational drift and suggest that hierarchically connected areas instantiate a predictive coding mechanism.
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Affiliation(s)
- David G Wyrick
- Department of Biology and Institute of Neuroscience, University of Oregon
- Allen Institute, Mindscope program, University of Oregon
| | - Nicholas Cain
- Allen Institute, Mindscope program, University of Oregon
| | | | - Jérôme Lecoq
- Allen Institute, Mindscope program, University of Oregon
| | - Matthew Valley
- Allen Institute, Mindscope program, University of Oregon
| | - Ruweida Ahmed
- Allen Institute, Mindscope program, University of Oregon
| | - Jessica Bowlus
- Allen Institute, Mindscope program, University of Oregon
| | | | | | - Linzy Casal
- Allen Institute, Mindscope program, University of Oregon
| | | | | | | | - Cindy Huang
- Allen Institute, Mindscope program, University of Oregon
| | | | - India Kato
- Allen Institute, Mindscope program, University of Oregon
| | - Josh Larkin
- Allen Institute, Mindscope program, University of Oregon
| | - Eric Lee
- Allen Institute, Mindscope program, University of Oregon
| | | | | | - Kyla Mace
- Allen Institute, Mindscope program, University of Oregon
| | - Chelsea Nayan
- Allen Institute, Mindscope program, University of Oregon
| | | | - Melissa Reding
- Allen Institute, Mindscope program, University of Oregon
| | - Sam Seid
- Allen Institute, Mindscope program, University of Oregon
| | - Joshua Sevigny
- Allen Institute, Mindscope program, University of Oregon
| | | | - Ali Williford
- Allen Institute, Mindscope program, University of Oregon
| | - Hannah Choi
- Allen Institute, Mindscope program, University of Oregon
- School of Mathematics, Georgia Institute of Technology, University of Oregon
| | - Marina Garrett
- Allen Institute, Mindscope program, University of Oregon
| | - Luca Mazzucato
- Department of Biology and Institute of Neuroscience, University of Oregon
- Department of Mathematics and Physics, University of Oregon
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23
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Hovde K, Rautio IV, Hegstad AM, Witter MP, Whitlock JR. Visuomotor interactions in the mouse forebrain mediated by extrastriate cortico-cortical pathways. Front Neuroanat 2023; 17:1188808. [PMID: 37228422 PMCID: PMC10203190 DOI: 10.3389/fnana.2023.1188808] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Accepted: 04/14/2023] [Indexed: 05/27/2023] Open
Abstract
Introduction The mammalian visual system can be broadly divided into two functional processing pathways: a dorsal stream supporting visually and spatially guided actions, and a ventral stream enabling object recognition. In rodents, the majority of visual signaling in the dorsal stream is transmitted to frontal motor cortices via extrastriate visual areas surrounding V1, but exactly where and to what extent V1 feeds into motor-projecting visual regions is not well known. Methods We employed a dual labeling strategy in male and female mice in which efferent projections from V1 were labeled anterogradely, and motor-projecting neurons in higher visual areas were labeled with retrogradely traveling adeno-associated virus (rAAV-retro) injected in M2. We characterized the labeling in both flattened and coronal sections of dorsal cortex and made high-resolution 3D reconstructions to count putative synaptic contacts in different extrastriate areas. Results The most pronounced colocalization V1 output and M2 input occurred in extrastriate areas AM, PM, RL and AL. Neurons in both superficial and deep layers in each project to M2, but high resolution volumetric reconstructions indicated that the majority of putative synaptic contacts from V1 onto M2-projecting neurons occurred in layer 2/3. Discussion These findings support the existence of a dorsal processing stream in the mouse visual system, where visual signals reach motor cortex largely via feedforward projections in anteriorly and medially located extrastriate areas.
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Affiliation(s)
- Karoline Hovde
- Kavli Institute for Systems Neuroscience, Norwegian University of Science and Technology, Trondheim, Norway
- Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Ida V. Rautio
- Kavli Institute for Systems Neuroscience, Norwegian University of Science and Technology, Trondheim, Norway
| | - Andrea M. Hegstad
- Kavli Institute for Systems Neuroscience, Norwegian University of Science and Technology, Trondheim, Norway
| | - Menno P. Witter
- Kavli Institute for Systems Neuroscience, Norwegian University of Science and Technology, Trondheim, Norway
| | - Jonathan R. Whitlock
- Kavli Institute for Systems Neuroscience, Norwegian University of Science and Technology, Trondheim, Norway
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24
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Yang G, Wang Y, Xu Z, Zhang X, Ruan W, Mo F, Lu B, Fan P, Dai Y, He E, Song Y, Wang C, Liu J, Cai X. PtNPs/PEDOT:PSS-Modified Microelectrode Arrays for Detection of the Discharge of Head Direction Cells in the Retrosplenial Cortex of Rats under Dissociation between Visual and Vestibular Inputs. BIOSENSORS 2023; 13:bios13050496. [PMID: 37232857 DOI: 10.3390/bios13050496] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Revised: 04/15/2023] [Accepted: 04/17/2023] [Indexed: 05/27/2023]
Abstract
The electrophysiological activities of head direction (HD) cells under visual and vestibular input dissociation are important to understanding the formation of the sense of direction in animals. In this paper, we fabricated a PtNPs/PEDOT:PSS-modified MEA to detect changes in the discharge of HD cells under dissociated sensory conditions. The electrode shape was customized for the retrosplenial cortex (RSC) and was conducive to the sequential detection of neurons at different depths in vivo when combined with a microdriver. The recording sites of the electrode were modified with PtNPs/PEDOT:PSS to form a three-dimensional convex structure, leading to closer contact with neurons and improving the detection performance and signal-to-noise ratio of the MEA. We designed a rotating cylindrical arena to separate the visual and vestibular information of the rats and detected the changes in the directional tuning of the HD cells in the RSC. The results showed that after visual and vestibular sensory dissociation, HD cells used visual information to establish newly discharged directions which differed from the original direction. However, with the longer time required to process inconsistent sensory information, the function of the HD system gradually degraded. After recovery, the HD cells reverted to their newly established direction rather than the original direction. The research based on our MEAs revealed how HD cells process dissociated sensory information and contributes to the study of the spatial cognitive navigation mechanism.
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Affiliation(s)
- Gucheng Yang
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yiding Wang
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zhaojie Xu
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xue Zhang
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
| | - Wang Ruan
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
| | - Fan Mo
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Botao Lu
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Penghui Fan
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yuchuan Dai
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Enhui He
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yilin Song
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | | | - Juntao Liu
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xinxia Cai
- State Key Laboratory of Transducer Technology, Aerospace Information Research Institute, Chinese Academy of Sciences, Beijing 100190, China
- School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
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25
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Sit KK, Goard MJ. Coregistration of heading to visual cues in retrosplenial cortex. Nat Commun 2023; 14:1992. [PMID: 37031198 PMCID: PMC10082791 DOI: 10.1038/s41467-023-37704-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2022] [Accepted: 03/28/2023] [Indexed: 04/10/2023] Open
Abstract
Spatial cognition depends on an accurate representation of orientation within an environment. Head direction cells in distributed brain regions receive a range of sensory inputs, but visual input is particularly important for aligning their responses to environmental landmarks. To investigate how population-level heading responses are aligned to visual input, we recorded from retrosplenial cortex (RSC) of head-fixed mice in a moving environment using two-photon calcium imaging. We show that RSC neurons are tuned to the animal's relative orientation in the environment, even in the absence of head movement. Next, we found that RSC receives functionally distinct projections from visual and thalamic areas and contains several functional classes of neurons. While some functional classes mirror RSC inputs, a newly discovered class coregisters visual and thalamic signals. Finally, decoding analyses reveal unique contributions to heading from each class. Our results suggest an RSC circuit for anchoring heading representations to environmental visual landmarks.
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Affiliation(s)
- Kevin K Sit
- Department of Psychological and Brain Sciences University of California, Santa Barbara, Santa Barbara, CA, 93106, USA
| | - Michael J Goard
- Department of Psychological and Brain Sciences University of California, Santa Barbara, Santa Barbara, CA, 93106, USA.
- Department of Molecular, Cellular, and Developmental Biology University of California, Santa Barbara, Santa Barbara, CA, 93106, USA.
- Neuroscience Research Institute University of California Santa Barbara, Santa Barbara, CA, 93106, USA.
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26
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Jeong H, Namboodiri VMK, Jung MW, Andermann ML. Sensory cortical ensembles exhibit differential coupling to ripples in distinct hippocampal subregions. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.03.17.533028. [PMID: 36993665 PMCID: PMC10055189 DOI: 10.1101/2023.03.17.533028] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Cortical neurons activated during recent experiences often reactivate with dorsal hippocampal CA1 sharp-wave ripples (SWRs) during subsequent rest. Less is known about cortical interactions with intermediate hippocampal CA1, whose connectivity, functions, and SWRs differ from those of dorsal CA1. We identified three clusters of visual cortical excitatory neurons that are excited together with either dorsal or intermediate CA1 SWRs, or suppressed before both SWRs. Neurons in each cluster were distributed across primary and higher visual cortices and co-active even in the absence of SWRs. These ensembles exhibited similar visual responses but different coupling to thalamus and pupil-indexed arousal. We observed a consistent activity sequence: (i) suppression of SWR-suppressed cortical neurons, (ii) thalamic silence, and (iii) activation of the cortical ensemble preceding and predicting intermediate CA1 SWRs. We propose that the coordinated dynamics of these ensembles relay visual experiences to distinct hippocampal subregions for incorporation into different cognitive maps.
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Affiliation(s)
- Huijeong Jeong
- Department of Neurology, University of California, San Francisco, CA 94158, USA
- Center for Synaptic Brain Dysfunctions, Institute for Basic Science, Daejeon 34141, Korea
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon 34141, Korea
| | - Vijay Mohan K Namboodiri
- Department of Neurology, University of California, San Francisco, CA 94158, USA
- Neuroscience Graduate Program, University of California, San Francisco, CA 94158, USA
- Weill Institute for Neuroscience, Kavli Institute for Fundamental Neuroscience, Center for Integrative Neuroscience, University of California, San Francisco 94158, CA, USA
| | - Min Whan Jung
- Center for Synaptic Brain Dysfunctions, Institute for Basic Science, Daejeon 34141, Korea
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Daejeon 34141, Korea
| | - Mark L. Andermann
- Division of Endocrinology, Metabolism, and Diabetes, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02115 USA
- Lead contact
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27
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Yao S, Wang Q, Hirokawa KE, Ouellette B, Ahmed R, Bomben J, Brouner K, Casal L, Caldejon S, Cho A, Dotson NI, Daigle TL, Egdorf T, Enstrom R, Gary A, Gelfand E, Gorham M, Griffin F, Gu H, Hancock N, Howard R, Kuan L, Lambert S, Lee EK, Luviano J, Mace K, Maxwell M, Mortrud MT, Naeemi M, Nayan C, Ngo NK, Nguyen T, North K, Ransford S, Ruiz A, Seid S, Swapp J, Taormina MJ, Wakeman W, Zhou T, Nicovich PR, Williford A, Potekhina L, McGraw M, Ng L, Groblewski PA, Tasic B, Mihalas S, Harris JA, Cetin A, Zeng H. A whole-brain monosynaptic input connectome to neuron classes in mouse visual cortex. Nat Neurosci 2023; 26:350-364. [PMID: 36550293 PMCID: PMC10039800 DOI: 10.1038/s41593-022-01219-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Accepted: 10/27/2022] [Indexed: 12/24/2022]
Abstract
Identification of structural connections between neurons is a prerequisite to understanding brain function. Here we developed a pipeline to systematically map brain-wide monosynaptic input connections to genetically defined neuronal populations using an optimized rabies tracing system. We used mouse visual cortex as the exemplar system and revealed quantitative target-specific, layer-specific and cell-class-specific differences in its presynaptic connectomes. The retrograde connectivity indicates the presence of ventral and dorsal visual streams and further reveals topographically organized and continuously varying subnetworks mediated by different higher visual areas. The visual cortex hierarchy can be derived from intracortical feedforward and feedback pathways mediated by upper-layer and lower-layer input neurons. We also identify a new role for layer 6 neurons in mediating reciprocal interhemispheric connections. This study expands our knowledge of the visual system connectomes and demonstrates that the pipeline can be scaled up to dissect connectivity of different cell populations across the mouse brain.
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Affiliation(s)
- Shenqin Yao
- Allen Institute for Brain Science, Seattle, WA, USA.
| | - Quanxin Wang
- Allen Institute for Brain Science, Seattle, WA, USA
| | - Karla E Hirokawa
- Allen Institute for Brain Science, Seattle, WA, USA
- Cajal Neuroscience, Seattle, WA, USA
| | | | | | | | | | - Linzy Casal
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | - Andy Cho
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | | | - Tom Egdorf
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | - Amanda Gary
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | | | | | - Hong Gu
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | | | - Leonard Kuan
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | | | | | - Kyla Mace
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | | | | | | | | | | | - Kat North
- Allen Institute for Brain Science, Seattle, WA, USA
- Cajal Neuroscience, Seattle, WA, USA
| | | | | | - Sam Seid
- Allen Institute for Brain Science, Seattle, WA, USA
| | - Jackie Swapp
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | | | - Thomas Zhou
- Allen Institute for Brain Science, Seattle, WA, USA
| | - Philip R Nicovich
- Allen Institute for Brain Science, Seattle, WA, USA
- Cajal Neuroscience, Seattle, WA, USA
| | | | | | - Medea McGraw
- Allen Institute for Brain Science, Seattle, WA, USA
| | - Lydia Ng
- Allen Institute for Brain Science, Seattle, WA, USA
| | | | | | | | - Julie A Harris
- Allen Institute for Brain Science, Seattle, WA, USA
- Cajal Neuroscience, Seattle, WA, USA
| | - Ali Cetin
- Allen Institute for Brain Science, Seattle, WA, USA
- CNC Program, Stanford University, Palo Alto, CA, USA
| | - Hongkui Zeng
- Allen Institute for Brain Science, Seattle, WA, USA.
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28
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Horrocks EAB, Mareschal I, Saleem AB. Walking humans and running mice: perception and neural encoding of optic flow during self-motion. Philos Trans R Soc Lond B Biol Sci 2023; 378:20210450. [PMID: 36511417 PMCID: PMC9745880 DOI: 10.1098/rstb.2021.0450] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Locomotion produces full-field optic flow that often dominates the visual motion inputs to an observer. The perception of optic flow is in turn important for animals to guide their heading and interact with moving objects. Understanding how locomotion influences optic flow processing and perception is therefore essential to understand how animals successfully interact with their environment. Here, we review research investigating how perception and neural encoding of optic flow are altered during self-motion, focusing on locomotion. Self-motion has been found to influence estimation and sensitivity for optic flow speed and direction. Nonvisual self-motion signals also increase compensation for self-driven optic flow when parsing the visual motion of moving objects. The integration of visual and nonvisual self-motion signals largely follows principles of Bayesian inference and can improve the precision and accuracy of self-motion perception. The calibration of visual and nonvisual self-motion signals is dynamic, reflecting the changing visuomotor contingencies across different environmental contexts. Throughout this review, we consider experimental research using humans, non-human primates and mice. We highlight experimental challenges and opportunities afforded by each of these species and draw parallels between experimental findings. These findings reveal a profound influence of locomotion on optic flow processing and perception across species. This article is part of a discussion meeting issue 'New approaches to 3D vision'.
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Affiliation(s)
- Edward A. B. Horrocks
- Institute of Behavioural Neuroscience, Department of Experimental Psychology, University College London, London WC1H 0AP, UK
| | - Isabelle Mareschal
- School of Biological and Behavioural Sciences, Queen Mary, University of London, London E1 4NS, UK
| | - Aman B. Saleem
- Institute of Behavioural Neuroscience, Department of Experimental Psychology, University College London, London WC1H 0AP, UK
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29
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Murakami T, Ohki K. Thalamocortical circuits for the formation of hierarchical pathways in the mammalian visual cortex. Front Neural Circuits 2023; 17:1155195. [PMID: 37139079 PMCID: PMC10149680 DOI: 10.3389/fncir.2023.1155195] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Accepted: 03/20/2023] [Indexed: 05/05/2023] Open
Abstract
External sensory inputs propagate from lower-order to higher-order brain areas, and the hierarchical neural network supporting this information flow is a fundamental structure of the mammalian brain. In the visual system, multiple hierarchical pathways process different features of the visual information in parallel. The brain can form this hierarchical structure during development with few individual differences. A complete understanding of this formation mechanism is one of the major goals of neuroscience. For this purpose, it is necessary to clarify the anatomical formation process of connections between individual brain regions and to elucidate the molecular and activity-dependent mechanisms that instruct these connections in each areal pair. Over the years, researchers have unveiled developmental mechanisms of the lower-order pathway from the retina to the primary visual cortex. The anatomical formation of the entire visual network from the retina to the higher visual cortex has recently been clarified, and higher-order thalamic nuclei are gaining attention as key players in this process. In this review, we summarize the network formation process in the mouse visual system, focusing on projections from the thalamic nuclei to the primary and higher visual cortices, which are formed during the early stages of development. Then, we discuss how spontaneous retinal activity that propagates through thalamocortical pathways is essential for the formation of corticocortical connections. Finally, we discuss the possible role of higher-order thalamocortical projections as template structures in the functional maturation of visual pathways that process different visual features in parallel.
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Affiliation(s)
- Tomonari Murakami
- Department of Physiology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan
- Institute for AI and Beyond, The University of Tokyo, Tokyo, Japan
| | - Kenichi Ohki
- Department of Physiology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan
- Institute for AI and Beyond, The University of Tokyo, Tokyo, Japan
- World Premier International Research Center Initiative-International Research Center for Neurointelligence (WPI-IRCN), The University of Tokyo, Tokyo, Japan
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30
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Choi K, Kim WK, Hyeon C. Polymer Physics-Based Classification of Neurons. Neuroinformatics 2023; 21:177-193. [PMID: 36190621 DOI: 10.1007/s12021-022-09605-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/12/2022] [Indexed: 11/26/2022]
Abstract
Recognizing that diverse morphologies of neurons are reminiscent of structures of branched polymers, we put forward a principled and systematic way of classifying neurons that employs the ideas of polymer physics. In particular, we use 3D coordinates of individual neurons, which are accessible in recent neuron reconstruction datasets from electron microscope images. We numerically calculate the form factor, F(q), a Fourier transform of the distance distribution of particles comprising an object of interest, which is routinely measured in scattering experiments to quantitatively characterize the structure of materials. For a polymer-like object consisting of n monomers spanning over a length scale of r, F(q) scales with the wavenumber [Formula: see text] as [Formula: see text] at an intermediate range of q, where [Formula: see text] is the fractal dimension or the inverse scaling exponent ([Formula: see text]) characterizing the geometrical feature ([Formula: see text]) of the object. F(q) can be used to describe a neuron morphology in terms of its size ([Formula: see text]) and the extent of branching quantified by [Formula: see text]. By defining the distance between F(q)s as a measure of similarity between two neuronal morphologies, we tackle the neuron classification problem. In comparison with other existing classification methods for neuronal morphologies, our F(q)-based classification rests solely on 3D coordinates of neurons with no prior knowledge of morphological features. When applied to publicly available neuron datasets from three different organisms, our method not only complements other methods but also offers a physical picture of how the dendritic and axonal branches of an individual neuron fill the space of dense neural networks inside the brain.
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Affiliation(s)
- Kiri Choi
- School of Computational Sciences, Korea Institute for Advanced Study, Seoul, 02455, Korea
| | - Won Kyu Kim
- School of Computational Sciences, Korea Institute for Advanced Study, Seoul, 02455, Korea
| | - Changbong Hyeon
- School of Computational Sciences, Korea Institute for Advanced Study, Seoul, 02455, Korea.
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31
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Margalit SN, Golomb NG, Tsur O, Ben Yehoshua E, Raz A, Slovin H. Spatiotemporal patterns of population response in the visual cortex under isoflurane: from wakefulness to loss of consciousness. Cereb Cortex 2022; 32:5512-5529. [PMID: 35169840 DOI: 10.1093/cercor/bhac031] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2021] [Revised: 12/22/2021] [Accepted: 01/18/2022] [Indexed: 01/25/2023] Open
Abstract
Anesthetic drugs are widely used in medicine and research to mediate loss of consciousness (LOC). Isoflurane is a commonly used anesthetic drug; however, its effects on cortical sensory processing, in particular around LOC, are not well understood. Using voltage-sensitive dye imaging, we measured visually evoked neuronal population response from the visual cortex in awake and anesthetized mice at 3 increasing concentrations of isoflurane, thus controlling the level of anesthesia from wakefulness to deep anesthesia. At low concentration of isoflurane, the effects on neuronal measures were minor relative to the awake condition. These effects augmented with increasing isoflurane concentration, while around LOC point, they showed abrupt and nonlinear changes. At the network level, we found that isoflurane decreased the stimulus-evoked intra-areal spatial spread of local neural activation, previously reported to be mediated by horizontal connections, and also reduced intra-areal synchronization of neuronal population. The synchronization between different visual areas decreased with higher isoflurane levels. Isoflurane reduced the population response amplitude and prolonged their latencies while higher visual areas showed increased vulnerability to isoflurane concentration. Our results uncover the changes in neural activity and synchronization at isoflurane concentrations leading to LOC and suggest reverse hierarchical shutdown of cortical areas.
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Affiliation(s)
- Shany Nivinsky Margalit
- The Gonda Multidisciplinary Brain Research Center, Bar-Ilan University, Ramat Gan 5290002, Israel
| | - Neta Gery Golomb
- Department of Anesthesiology, Rambam Health Care Campus, Haifa, 3109601, Israel and The Ruth and Bruce Rappaport Faculty of Medicine, Technion - Israel Institute of Technology, Haifa 3200003, Israel
| | - Omer Tsur
- The Gonda Multidisciplinary Brain Research Center, Bar-Ilan University, Ramat Gan 5290002, Israel
| | - Eve Ben Yehoshua
- The Gonda Multidisciplinary Brain Research Center, Bar-Ilan University, Ramat Gan 5290002, Israel
| | - Aeyal Raz
- Department of Anesthesiology, Rambam Health Care Campus, Haifa, 3109601, Israel and The Ruth and Bruce Rappaport Faculty of Medicine, Technion - Israel Institute of Technology, Haifa 3200003, Israel
| | - Hamutal Slovin
- The Gonda Multidisciplinary Brain Research Center, Bar-Ilan University, Ramat Gan 5290002, Israel
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32
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Shi J, Shea-Brown E, Buice MA. Learning dynamics of deep linear networks with multiple pathways. ADVANCES IN NEURAL INFORMATION PROCESSING SYSTEMS 2022; 35:34064-34076. [PMID: 38288081 PMCID: PMC10824491] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Subscribe] [Scholar Register] [Indexed: 01/31/2024]
Abstract
Not only have deep networks become standard in machine learning, they are increasingly of interest in neuroscience as models of cortical computation that capture relationships between structural and functional properties. In addition they are a useful target of theoretical research into the properties of network computation. Deep networks typically have a serial or approximately serial organization across layers, and this is often mirrored in models that purport to represent computation in mammalian brains. There are, however, multiple examples of parallel pathways in mammalian brains. In some cases, such as the mouse, the entire visual system appears arranged in a largely parallel, rather than serial fashion. While these pathways may be formed by differing cost functions that drive different computations, here we present a new mathematical analysis of learning dynamics in networks that have parallel computational pathways driven by the same cost function. We use the approximation of deep linear networks with large hidden layer sizes to show that, as the depth of the parallel pathways increases, different features of the training set (defined by the singular values of the input-output correlation) will typically concentrate in one of the pathways. This result is derived analytically and demonstrated with numerical simulation with both linear and non-linear networks. Thus, rather than sharing stimulus and task features across multiple pathways, parallel network architectures learn to produce sharply diversified representations with specialized and specific pathways, a mechanism which may hold important consequences for codes in both biological and artificial systems.
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Affiliation(s)
- Jianghong Shi
- Department of Applied Mathematics, University of Washington, Seattle, WA 98195
| | - Eric Shea-Brown
- Department of Applied Mathematics, University of Washington, Seattle, WA 98195
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33
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Detecting hierarchical organization of pervasive communities by modular decomposition of Markov chain. Sci Rep 2022; 12:20211. [PMID: 36418410 PMCID: PMC9684584 DOI: 10.1038/s41598-022-24567-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2022] [Accepted: 11/17/2022] [Indexed: 11/25/2022] Open
Abstract
Connecting nodes that contingently co-appear, which is a common process of networking in social and biological systems, normally leads to modular structure characterized by the absence of definite boundaries. This study seeks to find and evaluate methods to detect such modules, which will be called 'pervasive' communities. We propose a mathematical formulation to decompose a random walk spreading over the entire network into localized random walks as a proxy for pervasive communities. We applied this formulation to biological and social as well as synthetic networks to demonstrate that it can properly detect communities as pervasively structured objects. We further addressed a question that is fundamental but has been little discussed so far: What is the hierarchical organization of pervasive communities and how can it be extracted? Here we show that hierarchical organization of pervasive communities is unveiled from finer to coarser layers through discrete phase transitions that intermittently occur as the value for a resolution-controlling parameter is quasi-statically increased. To our knowledge, this is the first elucidation of how the pervasiveness and hierarchy, both hallmarks of community structure of real-world networks, are unified.
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Pathak A, Menon SN, Sinha S. Mesoscopic architecture enhances communication across the macaque connectome revealing structure-function correspondence in the brain. Phys Rev E 2022; 106:054304. [PMID: 36559437 DOI: 10.1103/physreve.106.054304] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Accepted: 09/13/2022] [Indexed: 06/17/2023]
Abstract
Analyzing the brain in terms of organizational structures at intermediate scales provides an approach to unravel the complexity arising from interactions between its large number of components. Focusing on a wiring diagram that spans the cortex, basal ganglia, and thalamus of the macaque brain, we identify robust modules in the network that provide a mesoscopic-level description of its topological architecture. Surprisingly, we find that the modular architecture facilitates rapid communication across the network, instead of localizing activity as is typically expected in networks having community organization. By considering processes of diffusive spreading and coordination, we demonstrate that the specific pattern of inter- and intramodular connectivity in the network allows propagation to be even faster than equivalent randomized networks with or without modular structure. This pattern of connectivity is seen at different scales and is conserved across principal cortical divisions, as well as subcortical structures. Furthermore, we find that the physical proximity between areas is insufficient to explain the modular organization, as similar mesoscopic structures can be obtained even after factoring out the effect of distance constraints on the connectivity. By supplementing the topological information about the macaque connectome with physical locations, volumes, and functions of the constituent areas and analyzing this augmented dataset, we reveal a counterintuitive role played by the modular architecture of the brain in promoting global coordination of its activity. It suggests a possible explanation for the ubiquity of modularity in brain networks.
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Affiliation(s)
- Anand Pathak
- The Institute of Mathematical Sciences, CIT Campus, Taramani, Chennai 600113, India
- Homi Bhabha National Institute, Anushaktinagar, Mumbai 400 094, India
| | - Shakti N Menon
- The Institute of Mathematical Sciences, CIT Campus, Taramani, Chennai 600113, India
| | - Sitabhra Sinha
- The Institute of Mathematical Sciences, CIT Campus, Taramani, Chennai 600113, India
- Homi Bhabha National Institute, Anushaktinagar, Mumbai 400 094, India
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Wajnerman Paz A. The global neuronal workspace as a broadcasting network. Netw Neurosci 2022; 6:1186-1204. [PMID: 38800460 PMCID: PMC11117084 DOI: 10.1162/netn_a_00261] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2021] [Accepted: 06/13/2022] [Indexed: 05/29/2024] Open
Abstract
A new strategy for moving forward in the characterization of the global neuronal workspace (GNW) is proposed. According to Dehaene, Changeux, and colleagues (Dehaene, 2014, pp. 304, 312; Dehaene & Changeux, 2004, 2005), broadcasting is the main function of the GNW. However, the dynamic network properties described by recent graph theoretic GNW models are consistent with many large-scale communication processes that are different from broadcasting. We propose to apply a different graph theoretic approach, originally developed for optimizing information dissemination in communication networks, which can be used to identify the pattern of frequency and phase-specific directed functional connections that the GNW would exhibit only if it were a broadcasting network.
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Affiliation(s)
- Abel Wajnerman Paz
- Department of Philosophy, Universidad Alberto Hurtado, Santiago, Chile
- Neuroethics Buenos Aires, Buenos Aires, Argentina
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36
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Zorzo C, Arias JL, Méndez M. The removal and addition of cues does not impair spatial retrieval and leads to a different metabolic activity of the limbic network in female rats. Brain Res Bull 2022; 190:22-31. [PMID: 36126874 DOI: 10.1016/j.brainresbull.2022.09.013] [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: 06/13/2022] [Revised: 08/07/2022] [Accepted: 09/16/2022] [Indexed: 11/02/2022]
Abstract
The retrieval of spatial memories does not always occur in an environment with the same stimuli configuration where the memory was first formed. However, re-exposure to a partial portion of the previously encountered cues can elicit memory successfully. Navigation with contextual changes has received little attention, especially in females. Thus, we aimed to assess memory retrieval using the Morris Water Maze spatial reference protocol in female adult Wistar rats. Rats were trained with five allocentric cues, and retrieval was explored one week later either with the same cues, or with four removed, or with three added cues. We studied the underlying brain oxidative metabolism of the hippocampus, prefrontal, parietal, retrosplenial, entorhinal, and perirhinal cortices through cytochrome c oxidase (CCO) histochemistry. Neither cue removal nor cue addition impaired retrieval performance. Retrieval with a degraded subset of cues led to increased prefrontal, hippocampal, retrosplenial, parietal, and perirhinal CCO activity. Retrieval with extra cues led to an enhancement of CCO activity in the hippocampus and retrosplenial cortex. Different patterns of network intercorrelations were found. The cue-removal group presented a closed reciprocal network, while the group with extra cues had separate parallel networks. Both groups showed a simpler network than the group with no cue modifications. Future research is needed to delve into behavioral and brain-related functions of spatial memory processes under modified environmental conditions.
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Affiliation(s)
- Candela Zorzo
- Department of Psychology, University of Oviedo, Plaza Feijoo, s/n, E-33003 Oviedo, Spain; Instituto de Neurociencias del Principado de Asturias (INEUROPA), E-33003 Oviedo, Spain; Instituto de Investigación Sanitaria del Principado de Asturias (ISPA), 33006 Oviedo, Spain.
| | - Jorge L Arias
- Department of Psychology, University of Oviedo, Plaza Feijoo, s/n, E-33003 Oviedo, Spain; Instituto de Neurociencias del Principado de Asturias (INEUROPA), E-33003 Oviedo, Spain; Instituto de Investigación Sanitaria del Principado de Asturias (ISPA), 33006 Oviedo, Spain.
| | - Marta Méndez
- Department of Psychology, University of Oviedo, Plaza Feijoo, s/n, E-33003 Oviedo, Spain; Instituto de Neurociencias del Principado de Asturias (INEUROPA), E-33003 Oviedo, Spain; Instituto de Investigación Sanitaria del Principado de Asturias (ISPA), 33006 Oviedo, Spain.
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Visual evoked feedforward-feedback traveling waves organize neural activity across the cortical hierarchy in mice. Nat Commun 2022; 13:4754. [PMID: 35963850 PMCID: PMC9376099 DOI: 10.1038/s41467-022-32378-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2021] [Accepted: 07/27/2022] [Indexed: 12/26/2022] Open
Abstract
Sensory processing is distributed among many brain regions that interact via feedforward and feedback signaling. Neuronal oscillations have been shown to mediate intercortical feedforward and feedback interactions. Yet, the macroscopic structure of the multitude of such oscillations remains unclear. Here, we show that simple visual stimuli reliably evoke two traveling waves with spatial wavelengths that cover much of the cerebral hemisphere in awake mice. 30-50 Hz feedforward waves arise in primary visual cortex (V1) and propagate rostrally, while 3-6 Hz feedback waves originate in the association cortex and flow caudally. The phase of the feedback wave modulates the amplitude of the feedforward wave and synchronizes firing between V1 and parietal cortex. Altogether, these results provide direct experimental evidence that visual evoked traveling waves percolate through the cerebral cortex and coordinate neuronal activity across broadly distributed networks mediating visual processing.
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38
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Modular strategy for development of the hierarchical visual network in mice. Nature 2022; 608:578-585. [PMID: 35922512 DOI: 10.1038/s41586-022-05045-w] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Accepted: 06/28/2022] [Indexed: 12/31/2022]
Abstract
Hierarchical and parallel networks are fundamental structures of the mammalian brain1-8. During development, lower- and higher-order thalamic nuclei and many cortical areas in the visual system form interareal connections and build hierarchical dorsal and ventral streams9-13. One hypothesis for the development of visual network wiring involves a sequential strategy wherein neural connections are sequentially formed alongside hierarchical structures from lower to higher areas14-17. However, this sequential strategy would be inefficient for building the entire visual network comprising numerous interareal connections. We show that neural pathways from the mouse retina to primary visual cortex (V1) or dorsal/ventral higher visual areas (HVAs) through lower- or higher-order thalamic nuclei form as parallel modules before corticocortical connections. Subsequently, corticocortical connections among V1 and HVAs emerge to combine these modules. Retina-derived activity propagating the initial parallel modules is necessary to establish retinotopic inter-module connections. Thus, the visual network develops in a modular manner involving initial establishment of parallel modules and their subsequent concatenation. Findings in this study raise the possibility that parallel modules from higher-order thalamic nuclei to HVAs act as templates for cortical ventral and dorsal streams and suggest that the brain has an efficient strategy for the development of a hierarchical network comprising numerous areas.
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Nano PR, Bhaduri A. Evaluation of advances in cortical development using model systems. Dev Neurobiol 2022; 82:408-427. [PMID: 35644985 PMCID: PMC10924780 DOI: 10.1002/dneu.22879] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2022] [Revised: 04/26/2022] [Accepted: 04/30/2022] [Indexed: 11/11/2022]
Abstract
Compared with that of even the closest primates, the human cortex displays a high degree of specialization and expansion that largely emerges developmentally. Although decades of research in the mouse and other model systems has revealed core tenets of cortical development that are well preserved across mammalian species, small deviations in transcription factor expression, novel cell types in primates and/or humans, and unique cortical architecture distinguish the human cortex. Importantly, many of the genes and signaling pathways thought to drive human-specific cortical expansion also leave the brain vulnerable to disease, as the misregulation of these factors is highly correlated with neurodevelopmental and neuropsychiatric disorders. However, creating a comprehensive understanding of human-specific cognition and disease remains challenging. Here, we review key stages of cortical development and highlight known or possible differences between model systems and the developing human brain. By identifying the developmental trajectories that may facilitate uniquely human traits, we highlight open questions in need of approaches to examine these processes in a human context and reveal translatable insights into human developmental disorders.
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Affiliation(s)
- Patricia R Nano
- Department of Biological Chemistry, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California, USA
| | - Aparna Bhaduri
- Department of Biological Chemistry, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California, USA
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40
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Diversity of spatiotemporal coding reveals specialized visual processing streams in the mouse cortex. Nat Commun 2022; 13:3249. [PMID: 35668056 PMCID: PMC9170684 DOI: 10.1038/s41467-022-29656-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2021] [Accepted: 03/23/2022] [Indexed: 12/23/2022] Open
Abstract
The cerebral cortex contains diverse neural representations of the visual scene, each enabling distinct visual and spatial abilities. However, the extent to which representations are distributed or segregated across cortical areas remains poorly understood. By determining the spatial and temporal responses of >30,000 layer 2/3 pyramidal neurons, we characterize the functional organization of parallel visual streams across eight areas of the mouse cortex. While dorsal and ventral areas form complementary representations of spatiotemporal frequency, motion speed, and spatial patterns, the anterior and posterior dorsal areas show distinct specializations for fast and slow oriented contrasts. At the cellular level, while diverse spatiotemporal tuning lies along a continuum, oriented and non-oriented spatial patterns are encoded by distinct tuning types. The identified tuning types are present across dorsal and ventral streams. The data underscore the highly specific and highly distributed nature of visual cortical representations, which drives specialization of cortical areas and streams. The cerebral cortex contains different neural representations of the visual scene. Here, the authors show diverse and stereotyped tuning composing specialized representations in the dorsal and ventral areas of the mouse visual cortex, suggesting parallel processing channels and streams.
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41
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Yu Y, Stirman JN, Dorsett CR, Smith SL. Selective representations of texture and motion in mouse higher visual areas. Curr Biol 2022; 32:2810-2820.e5. [PMID: 35609609 DOI: 10.1016/j.cub.2022.04.091] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2021] [Revised: 03/22/2022] [Accepted: 04/28/2022] [Indexed: 10/18/2022]
Abstract
The mouse visual cortex contains interconnected higher visual areas, but their functional specializations are unclear. Here, we used a data-driven approach to examine the representations of complex visual stimuli by L2/3 neurons across mouse higher visual areas, measured using large-field-of-view two-photon calcium imaging. Using specialized stimuli, we found higher fidelity representations of texture in area LM, compared to area AL. Complementarily, we found higher fidelity representations of motion in area AL, compared to area LM. We also observed this segregation of information in response to naturalistic videos. Finally, we explored how receptive field models of visual cortical neurons could produce the segregated representations of texture and motion we observed. These selective representations could aid in behaviors such as visually guided navigation.
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Affiliation(s)
- Yiyi Yu
- Department of Electrical & Computer Engineering, Center for BioEngineering, Neuroscience Research Institute, University of California, Santa Barbara, Santa Barbara, CA 93106, USA
| | - Jeffrey N Stirman
- Neuroscience Research Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Christopher R Dorsett
- Neuroscience Research Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Spencer L Smith
- Department of Electrical & Computer Engineering, Center for BioEngineering, Neuroscience Research Institute, University of California, Santa Barbara, Santa Barbara, CA 93106, USA.
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42
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A self-learning cognitive architecture exploiting causality from rewards. Neural Netw 2022; 150:274-292. [DOI: 10.1016/j.neunet.2022.02.029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 01/10/2022] [Accepted: 02/28/2022] [Indexed: 11/20/2022]
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43
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Kaas JH, Qi HX, Stepniewska I. Escaping the nocturnal bottleneck, and the evolution of the dorsal and ventral streams of visual processing in primates. Philos Trans R Soc Lond B Biol Sci 2022; 377:20210293. [PMID: 34957843 PMCID: PMC8710890 DOI: 10.1098/rstb.2021.0293] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2021] [Accepted: 09/21/2021] [Indexed: 12/12/2022] Open
Abstract
Early mammals were small and nocturnal. Their visual systems had regressed and they had poor vision. After the extinction of the dinosaurs 66 mya, some but not all escaped the 'nocturnal bottleneck' by recovering high-acuity vision. By contrast, early primates escaped the bottleneck within the age of dinosaurs by having large forward-facing eyes and acute vision while remaining nocturnal. We propose that these primates differed from other mammals by changing the balance between two sources of visual information to cortex. Thus, cortical processing became less dependent on a relay of information from the superior colliculus (SC) to temporal cortex and more dependent on information distributed from primary visual cortex (V1). In addition, the two major classes of visual information from the retina became highly segregated into magnocellular (M cell) projections from V1 to the primate-specific temporal visual area (MT), and parvocellular-dominated projections to the dorsolateral visual area (DL or V4). The greatly expanded P cell inputs from V1 informed the ventral stream of cortical processing involving temporal and frontal cortex. The M cell pathways from V1 and the SC informed the dorsal stream of cortical processing involving MT, surrounding temporal cortex, and parietal-frontal sensorimotor domains. This article is part of the theme issue 'Systems neuroscience through the lens of evolutionary theory'.
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Affiliation(s)
- Jon H. Kaas
- Department of Pshycology, Vanderbilt University, 301 Wilson Hall, 111 21st Ave. S., Nashville, TN 37240, USA
| | - Hui-Xin Qi
- Department of Pshycology, Vanderbilt University, 301 Wilson Hall, 111 21st Ave. S., Nashville, TN 37240, USA
| | - Iwona Stepniewska
- Department of Pshycology, Vanderbilt University, 301 Wilson Hall, 111 21st Ave. S., Nashville, TN 37240, USA
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Hierarchical and nonhierarchical features of the mouse visual cortical network. Nat Commun 2022; 13:503. [PMID: 35082302 PMCID: PMC8791996 DOI: 10.1038/s41467-022-28035-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2020] [Accepted: 12/13/2021] [Indexed: 01/08/2023] Open
Abstract
Neocortical computations underlying vision are performed by a distributed network of functionally specialized areas. Mouse visual cortex, a dense interareal network that exhibits hierarchical properties, comprises subnetworks interconnecting distinct processing streams. To determine the layout of the mouse visual hierarchy, we have evaluated the laminar patterns formed by interareal axonal projections originating in each of ten areas. Reciprocally connected pairs of areas exhibit feedforward/feedback relationships consistent with a hierarchical organization. Beta regression analyses, which estimate a continuous hierarchical distance measure, indicate that the network comprises multiple nonhierarchical circuits embedded in a hierarchical organization of overlapping levels. Single-unit recordings in anaesthetized mice show that receptive field sizes are generally consistent with the hierarchy, with the ventral stream exhibiting a stricter hierarchy than the dorsal stream. Together, the results provide an anatomical metric for hierarchical distance, and reveal both hierarchical and nonhierarchical motifs in mouse visual cortex. Mouse visual cortex is a dense, interconnected network of distinct areas. D’Souza et al. identify an anatomical index to quantify the hierarchical nature of pathways, and highlight the hierarchical and nonhierarchical features of the network.
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45
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Measuring Stimulus-Evoked Neurophysiological Differentiation in Distinct Populations of Neurons in Mouse Visual Cortex. eNeuro 2022; 9:ENEURO.0280-21.2021. [PMID: 35022186 PMCID: PMC8856714 DOI: 10.1523/eneuro.0280-21.2021] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2021] [Revised: 12/02/2021] [Accepted: 12/08/2021] [Indexed: 11/24/2022] Open
Abstract
Despite significant progress in understanding neural coding, it remains unclear how the coordinated activity of large populations of neurons relates to what an observer actually perceives. Since neurophysiological differences must underlie differences among percepts, differentiation analysis—quantifying distinct patterns of neurophysiological activity—has been proposed as an “inside-out” approach that addresses this question. This methodology contrasts with “outside-in” approaches such as feature tuning and decoding analyses, which are defined in terms of extrinsic experimental variables. Here, we used two-photon calcium imaging in mice of both sexes to systematically survey stimulus-evoked neurophysiological differentiation (ND) in excitatory neuronal populations in layers (L)2/3, L4, and L5 across five visual cortical areas (primary, lateromedial, anterolateral, posteromedial, and anteromedial) in response to naturalistic and phase-scrambled movie stimuli. We find that unscrambled stimuli evoke greater ND than scrambled stimuli specifically in L2/3 of the anterolateral and anteromedial areas, and that this effect is modulated by arousal state and locomotion. By contrast, decoding performance was far above chance and did not vary substantially across areas and layers. Differentiation also differed within the unscrambled stimulus set, suggesting that differentiation analysis may be used to probe the ethological relevance of individual stimuli.
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46
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Masaki Y, Yamaguchi M, Takeuchi RF, Osakada F. Monosynaptic rabies virus tracing from projection-targeted single neurons. Neurosci Res 2022; 178:20-32. [DOI: 10.1016/j.neures.2022.01.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2021] [Revised: 01/16/2022] [Accepted: 01/25/2022] [Indexed: 10/19/2022]
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47
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He D, Ogmen H. Sensorimotor Self-organization via Circular-Reactions. Front Neurorobot 2021; 15:658450. [PMID: 34966265 PMCID: PMC8710445 DOI: 10.3389/fnbot.2021.658450] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Accepted: 11/22/2021] [Indexed: 11/15/2022] Open
Abstract
Newborns demonstrate innate abilities in coordinating their sensory and motor systems through reflexes. One notable characteristic is circular reactions consisting of self-generated motor actions that lead to correlated sensory and motor activities. This paper describes a model for goal-directed reaching based on circular reactions and exocentric reference-frames. The model is built using physiologically plausible visual processing modules and arm-control neural networks. The model incorporates map representations with ego- and exo-centric reference frames for sensory inputs, vector representations for motor systems, as well as local associative learning that result from arm explorations. The integration of these modules is simulated and tested in a three-dimensional spatial environment using Unity3D. The results show that, through self-generated activities, the model self-organizes to generate accurate arm movements that are tolerant with respect to various sources of noise.
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Affiliation(s)
- Dongcheng He
- Laboratory of Perceptual and Cognitive Dynamics, Department of Electrical & Computer Engineering, Ritchie School of Engineering and Computer Science, University of Denver, Denver, CO, United States
| | - Haluk Ogmen
- Laboratory of Perceptual and Cognitive Dynamics, Department of Electrical & Computer Engineering, Ritchie School of Engineering and Computer Science, University of Denver, Denver, CO, United States
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48
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Motanis H, Khorasani LN, Giza CC, Harris NG. Peering into the Brain through the Retrosplenial Cortex to Assess Cognitive Function of the Injured Brain. Neurotrauma Rep 2021; 2:564-580. [PMID: 34901949 PMCID: PMC8655812 DOI: 10.1089/neur.2021.0044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
The retrosplenial cortex (RSC) is a posterior cortical area that has been drawing increasing interest in recent years, with a growing number of studies studying its contribution to cognitive and sensory functions. From an anatomical perspective, it has been established that the RSC is extensively and often reciprocally connected with the hippocampus, neocortex, and many midbrain regions. Functionally, the RSC is an important hub of the default-mode network. This endowment, with vast anatomical and functional connections, positions the RSC to play an important role in episodic memory, spatial and contextual learning, sensory-cognitive activities, and multi-modal sensory information processing and integration. Additionally, RSC dysfunction has been reported in cases of cognitive decline, particularly in Alzheimer's disease and stroke. We review the literature to examine whether the RSC can act as a cortical marker of persistent cognitive dysfunction after traumatic brain injury (TBI). Because the RSC is easily accessible at the brain's surface using in vivo techniques, we argue that studying RSC network activity post-TBI can shed light into the mechanisms of less-accessible brain regions, such as the hippocampus. There is a fundamental gap in the TBI field about the microscale alterations occurring post-trauma, and by studying the RSC's neuronal activity at the cellular level we will be able to design better therapeutic tools. Understanding how neuronal activity and interactions produce normal and abnormal activity in the injured brain is crucial to understanding cognitive dysfunction. By using this approach, we expect to gain valuable insights to better understand brain disorders like TBI.
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Affiliation(s)
- Helen Motanis
- UCLA Brain Injury Research Center, Department of Neurosurgery, Geffen Medical School, UCLA Mattel Children's Hospital, University of California at Los Angeles, Los Angeles, California, USA
| | - Laila N. Khorasani
- UCLA Brain Injury Research Center, Department of Neurosurgery, Geffen Medical School, UCLA Mattel Children's Hospital, University of California at Los Angeles, Los Angeles, California, USA
| | - Christopher C. Giza
- UCLA Brain Injury Research Center, Department of Neurosurgery, Geffen Medical School, UCLA Mattel Children's Hospital, University of California at Los Angeles, Los Angeles, California, USA
- Department of Pediatrics, UCLA Mattel Children's Hospital, University of California at Los Angeles, Los Angeles, California, USA
| | - Neil G. Harris
- UCLA Brain Injury Research Center, Department of Neurosurgery, Geffen Medical School, UCLA Mattel Children's Hospital, University of California at Los Angeles, Los Angeles, California, USA
- Intellectual Development and Disabilities Research Center, UCLA Mattel Children's Hospital, University of California at Los Angeles, Los Angeles, California, USA
- *Address correspondence to: Neil G. Harris, PhD, Department of Neurosurgery, University of California at Los Angeles, Wasserman Building, 300 Stein Plaza, Room 551, Los Angeles, CA 90095, USA;
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49
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Resulaj A. Projections of the Mouse Primary Visual Cortex. Front Neural Circuits 2021; 15:751331. [PMID: 34867213 PMCID: PMC8641241 DOI: 10.3389/fncir.2021.751331] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2021] [Accepted: 10/28/2021] [Indexed: 11/13/2022] Open
Abstract
Lesion or damage to the primary visual cortex (V1) results in a profound loss of visual perception in humans. Similarly, in mice, optogenetic silencing of V1 profoundly impairs discrimination of orientated gratings. V1 is thought to have such a critical role in perception in part due to its position in the visual processing hierarchy. It is the first brain area in the neocortex to receive visual input, and it distributes this information to more than 18 brain areas. Here I review recent advances in our understanding of the organization and function of the V1 projections in the mouse. This progress is in part due to new anatomical and viral techniques that allow for efficient labeling of projection neurons. In the final part of the review, I conclude by highlighting challenges and opportunities for future research.
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Affiliation(s)
- Arbora Resulaj
- Department of Biology, University of Toronto Mississauga, Mississauga, ON, Canada.,Department of Cell and Systems Biology, University of Toronto, Toronto, ON, Canada
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50
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Gămănuţ R, Shimaoka D. Anatomical and functional connectomes underlying hierarchical visual processing in mouse visual system. Brain Struct Funct 2021; 227:1297-1315. [PMID: 34846596 DOI: 10.1007/s00429-021-02415-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Accepted: 10/08/2021] [Indexed: 10/19/2022]
Abstract
Over the last 10 years, there has been a surge in interest in the rodent visual system resulting from the discovery of visual processing functions shared with primates V1, and of a complex anatomical structure in the extrastriate visual cortex. This surprisingly intricate visual system was elucidated by recent investigations using rapidly growing genetic tools primarily available in the mouse. Here, we examine the structural and functional connections of visual areas that have been identified in mice mostly during the past decade, and the impact of these findings on our understanding of brain functions associated with vision. Special attention is paid to structure-function relationships arising from the hierarchical organization, which is a prominent feature of the primate visual system. Recent evidence supports the existence of a hierarchical organization in rodents that contains levels that are poorly resolved relative to those observed in primates. This shallowness of the hierarchy indicates that the mouse visual system incorporates abundant non-hierarchical processing. Thus, the mouse visual system provides a unique opportunity to study non-hierarchical processing and its relation to hierarchical processing.
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Affiliation(s)
- Răzvan Gămănuţ
- Department of Physiology, Monash University, Melbourne, Australia
| | - Daisuke Shimaoka
- Department of Physiology, Monash University, Melbourne, Australia.
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