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Dellal S, Zurita H, Kruglikov I, Valero M, Abad-Perez P, Geron E, Meng JH, Pronneke A, Hanson JL, Mir E, Ongaro M, Wang XJ, Buzsaki G, Machold RP, Rudy B. Inhibitory and disinhibitory VIP IN-mediated circuits in neocortex. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.02.26.640383. [PMID: 40060562 PMCID: PMC11888407 DOI: 10.1101/2025.02.26.640383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 03/14/2025]
Abstract
Cortical GABAergic interneurons (INs) expressing the neuropeptide vasoactive-intestinal peptide (VIP) predominantly function by inhibiting dendritic-targeting somato-statin (SST) expressing INs, thereby disinhibiting pyramidal cells (PCs) and facilitating cortical circuit plasticity. VIP INs are a molecularly heterogeneous group, but the physiological significance of this diversity is unclear at present. Here, we have characterized the functional diversity of VIP INs in the primary somatosensory cortex (vS1) using intersectional genetic approaches. We found that VIP INs are comprised of four primary populations that exhibit different laminar distributions, axonal and dendritic arbors, intrinsic electrophysiological properties, and efferent connectivity. Furthermore, we observe that these populations are differentially activated by long-range inputs, and display distinct responses to neuromodulation by endocannabinoids, acetylcholine and noradrenaline. Stimulation of VIP IN subpopulations in vivo results in differential effects on the cortical network, thus providing evidence for specialized modes of VIP IN-mediated regulation of PC activity during cortical information processing.
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2
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Jo Y, Liang X, Nguyen HH, Choi Y, Choi M, Bae GE, Cho Y, Woo J, Lee HJ. Selective manipulation of excitatory and inhibitory neurons in top-down and bottom-up visual pathways using ultrasound stimulation. Brain Stimul 2025; 18:848-862. [PMID: 40222665 DOI: 10.1016/j.brs.2025.04.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2024] [Revised: 02/27/2025] [Accepted: 04/08/2025] [Indexed: 04/15/2025] Open
Abstract
INTRODUCTION Techniques for precise manipulation of neurons in specific neural pathways are crucial for excitatory/inhibitory (E/I) balance and investigation of complex brain circuits. Low-intensity focused ultrasound stimulation (LIFUS) has emerged as a promising tool for noninvasive deep-brain targeting at high spatial resolution. However, there is a lack of studies that extensively investigate the modulation of top-down and bottom-up corticothalamic circuits via selective manipulation of excitatory and inhibitory neurons. Here, a comprehensive methodology using electrophysiological recording and c-Fos staining is employed to demonstrate pulse repetition frequency (PRF)-dependent E/I selectivity of ultrasound stimulation in the top-down and bottom-up corticothalamic pathways of the visual circuit in rodents. MATERIALS AND METHODS Ultrasound stimulation at various PRFs is applied to either the lateral posterior nucleus of the thalamus (LP) or the primary visual cortex (V1), and multi-channel single-unit activity is recorded from the V1 using a silicon probe. RESULTS AND CONCLUSION Our results demonstrate that high-frequency PRFs, particularly at 3 kHz and 1 kHz, are effective at activating the bidirectional corticothalamic visual pathway. In addition, brain region-specific PRFs modulate E/I cortical signals, corticothalamic projections, and synaptic neurotransmission, which is imperative for circuit-specific applications and behavioral studies.
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Affiliation(s)
- Yehhyun Jo
- School of Electrical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Xiaojia Liang
- School of Electrical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Hong Hanh Nguyen
- School of Electrical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Yeonseo Choi
- School of Electrical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Minji Choi
- School of Electrical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Ga-Eun Bae
- School of Electrical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Yakdol Cho
- Research Animal Resource Center, Korea Institute of Science and Technology (KIST), Seoul, 02792, Republic of Korea
| | - Jiwan Woo
- Research Animal Resource Center, Korea Institute of Science and Technology (KIST), Seoul, 02792, Republic of Korea
| | - Hyunjoo Jenny Lee
- School of Electrical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea; KAIST Institute for Nano Century (KINC), Daejeon, 34141, Republic of Korea.
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3
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Meyerolbersleben LS, Sirota A, Busse L. Anatomically resolved oscillatory bursts reveal dynamic motifs of thalamocortical activity during naturalistic stimulus viewing. Neuron 2025:S0896-6273(25)00250-8. [PMID: 40252643 DOI: 10.1016/j.neuron.2025.03.030] [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: 08/17/2024] [Revised: 02/02/2025] [Accepted: 03/25/2025] [Indexed: 04/21/2025]
Abstract
Natural vision requires circuit mechanisms which process complex spatiotemporal stimulus features in parallel. In the mammalian forebrain, one signature of circuit activation is fast oscillatory dynamics, reflected in the local field potential (LFP). Using data from the Allen Neuropixels Visual Coding project, we show that local visual features in naturalistic stimuli induce in mouse primary visual cortex (V1) retinotopically specific oscillations in various frequency bands and V1 layers. Specifically, layer 4 (L4) narrowband gamma was linked to luminance, low-gamma to optic flow, and L4/L5 epsilon oscillations to contrast. These feature-specific oscillations were associated with distinct translaminar spike-phase coupling patterns, which were conserved across a range of stimuli containing the relevant visual features, suggesting that they might constitute feature-specific circuit motifs. Our findings highlight visually induced fast oscillations as markers of dynamic circuit motifs, which may support differential and multiplexed coding of complex visual input and thalamocortical information propagation.
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Affiliation(s)
- Lukas Sebastian Meyerolbersleben
- Division of Neurobiology, Faculty of Biology, LMU Munich, 82152 Planegg-Martinsried, Germany; Graduate School of Systemic Neurosciences (GSN), LMU Munich, 82152 Planegg-Martinsried, Germany
| | - Anton Sirota
- Division of Neurobiology, Faculty of Biology, LMU Munich, 82152 Planegg-Martinsried, Germany; Bernstein Center for Computational Neuroscience, 82152 Planegg-Martinsried, Germany.
| | - Laura Busse
- Division of Neurobiology, Faculty of Biology, LMU Munich, 82152 Planegg-Martinsried, Germany; Bernstein Center for Computational Neuroscience, 82152 Planegg-Martinsried, Germany.
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4
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Medina-Coss y León R, Lezama E, Márquez I, Treviño M. Adrenergic Modulation of Cortical Gain and Sensory Processing in the Mouse Visual Cortex. Brain Sci 2025; 15:406. [PMID: 40309887 PMCID: PMC12025498 DOI: 10.3390/brainsci15040406] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2025] [Revised: 04/10/2025] [Accepted: 04/16/2025] [Indexed: 05/02/2025] Open
Abstract
Background/Objectives: Sensory perception is influenced by internal neuronal variability and external noise. Neuromodulators such as norepinephrine (NE) regulate this variability by modulating excitation-inhibition balance, oscillatory dynamics, and interlaminar connectivity. While NE is known to modulate cortical gain, it remains unclear how it shapes sensory processing under noisy conditions. This study investigates how adrenergic modulation affects signal-to-noise processing and perceptual decision-making in the primary visual cortex (V1) of mice exposed to varying levels of visual noise. Methods: We performed in vivo local field potential (LFP) recordings from layers 2/3 and 4 of V1 in sedated mice to assess the impact of visual noise and systemic administration of atomoxetine, a NE reuptake inhibitor, on cortical signal processing. In a separate group of freely moving mice, we used a two-alternative forced-choice to evaluate the behavioral effects of systemic and intracortical adrenergic manipulations on visual discrimination. Results: Moderate visual noise enhanced cortical signal processing and visual choices, consistent with stochastic resonance. High noise levels impaired both. Systemic atomoxetine administration flattened the cortical signal-to-noise ratio function, suggesting disrupted gain control. Behaviorally, clonidine impaired accuracy at moderate noise levels, while atomoxetine reduced discrimination performance and increased response variability. Intracortical NE infusions produced similar effects. Conclusions: Our findings demonstrate that NE regulates the balance between signal amplification and noise suppression in a noise- and context-dependent manner. These results extend existing models of neuromodulatory function by linking interlaminar communication and cortical variability to perceptual decision-making.
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Affiliation(s)
- Ricardo Medina-Coss y León
- Laboratorio de Plasticidad Cortical y Aprendizaje Perceptual, Instituto de Neurociencias, Universidad de Guadalajara, Guadalajara 44130, Jalisco, Mexico
- School of Medicine, Southern Illinois University, Carbondale, IL 62901, USA
| | - Elí Lezama
- Laboratorio de Plasticidad Cortical y Aprendizaje Perceptual, Instituto de Neurociencias, Universidad de Guadalajara, Guadalajara 44130, Jalisco, Mexico
| | - Inmaculada Márquez
- Laboratorio de Plasticidad Cortical y Aprendizaje Perceptual, Instituto de Neurociencias, Universidad de Guadalajara, Guadalajara 44130, Jalisco, Mexico
- Departamento de Ciencias Médicas y de la Vida, Centro Universitario de la Ciénega, Universidad de Guadalajara, Ocotlán 47820, Jalisco, Mexico
- Departamento de Psicología, Centro Universitario de la Ciénega, Universidad de Guadalajara, Ocotlán 47820, Jalisco, Mexico
| | - Mario Treviño
- Laboratorio de Plasticidad Cortical y Aprendizaje Perceptual, Instituto de Neurociencias, Universidad de Guadalajara, Guadalajara 44130, Jalisco, Mexico
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5
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Beau M, Herzfeld DJ, Naveros F, Hemelt ME, D'Agostino F, Oostland M, Sánchez-López A, Chung YY, Maibach M, Kyranakis S, Stabb HN, Martínez Lopera MG, Lajko A, Zedler M, Ohmae S, Hall NJ, Clark BA, Cohen D, Lisberger SG, Kostadinov D, Hull C, Häusser M, Medina JF. A deep learning strategy to identify cell types across species from high-density extracellular recordings. Cell 2025; 188:2218-2234.e22. [PMID: 40023155 DOI: 10.1016/j.cell.2025.01.041] [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: 05/16/2024] [Revised: 11/20/2024] [Accepted: 01/28/2025] [Indexed: 03/04/2025]
Abstract
High-density probes allow electrophysiological recordings from many neurons simultaneously across entire brain circuits but fail to reveal cell type. Here, we develop a strategy to identify cell types from extracellular recordings in awake animals and reveal the computational roles of neurons with distinct functional, molecular, and anatomical properties. We combine optogenetics and pharmacology using the cerebellum as a testbed to generate a curated ground-truth library of electrophysiological properties for Purkinje cells, molecular layer interneurons, Golgi cells, and mossy fibers. We train a semi-supervised deep learning classifier that predicts cell types with greater than 95% accuracy based on the waveform, discharge statistics, and layer of the recorded neuron. The classifier's predictions agree with expert classification on recordings using different probes, in different laboratories, from functionally distinct cerebellar regions, and across species. Our classifier extends the power of modern dynamical systems analyses by revealing the unique contributions of simultaneously recorded cell types during behavior.
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Affiliation(s)
- Maxime Beau
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - David J Herzfeld
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Francisco Naveros
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA; Department of Computer Engineering, Automation and Robotics, Research Centre for Information and Communication Technologies, University of Granada, Granada, Spain
| | - Marie E Hemelt
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Federico D'Agostino
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Marlies Oostland
- Wolfson Institute for Biomedical Research, University College London, London, UK; Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, the Netherlands
| | | | - Young Yoon Chung
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Michael Maibach
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Stephen Kyranakis
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA
| | - Hannah N Stabb
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | | | - Agoston Lajko
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Marie Zedler
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Shogo Ohmae
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA
| | - Nathan J Hall
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Beverley A Clark
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Dana Cohen
- The Leslie and Susan Gonda Multidisciplinary Brain Research Center, Bar-Ilan University, Ramat-Gan, Israel
| | - Stephen G Lisberger
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Dimitar Kostadinov
- Wolfson Institute for Biomedical Research, University College London, London, UK; Centre for Developmental Neurobiology, King's College London, London, UK
| | - Court Hull
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Michael Häusser
- Wolfson Institute for Biomedical Research, University College London, London, UK; School of Biomedical Sciences, The University of Hong Kong, Hong Kong, China
| | - Javier F Medina
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA.
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6
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Vélez-Fort M, Cossell L, Porta L, Clopath C, Margrie TW. Motor and vestibular signals in the visual cortex permit the separation of self versus externally generated visual motion. Cell 2025; 188:2175-2189.e15. [PMID: 39978344 DOI: 10.1016/j.cell.2025.01.032] [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: 07/11/2023] [Revised: 01/06/2025] [Accepted: 01/24/2025] [Indexed: 02/22/2025]
Abstract
Knowing whether we are moving or something in the world is moving around us is possibly the most critical sensory discrimination we need to perform. How the brain and, in particular, the visual system solves this motion-source separation problem is not known. Here, we find that motor, vestibular, and visual motion signals are used by the mouse primary visual cortex (VISp) to differentially represent the same visual flow information according to whether the head is stationary or experiencing passive versus active translation. During locomotion, we find that running suppresses running-congruent translation input and that translation signals dominate VISp activity when running and translation speed become incongruent. This cross-modal interaction between the motor and vestibular systems was found throughout the cortex, indicating that running and translation signals provide a brain-wide egocentric reference frame for computing the internally generated and actual speed of self when moving through and sensing the external world.
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Affiliation(s)
- Mateo Vélez-Fort
- Sainsbury Wellcome Centre, University College London, London, UK
| | - Lee Cossell
- Sainsbury Wellcome Centre, University College London, London, UK
| | - Laura Porta
- Sainsbury Wellcome Centre, University College London, London, UK
| | - Claudia Clopath
- Sainsbury Wellcome Centre, University College London, London, UK; Bioengineering Department, Imperial College London, London, UK
| | - Troy W Margrie
- Sainsbury Wellcome Centre, University College London, London, UK.
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7
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Opalka AN, Dougherty KJ, Wang DV. A Distinct Down-to-Up Transition Assembly in the Retrosplenial Cortex during Slow-Wave Sleep. J Neurosci 2025; 45:e1484242025. [PMID: 39952672 PMCID: PMC11968548 DOI: 10.1523/jneurosci.1484-24.2025] [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: 08/05/2024] [Revised: 01/24/2025] [Accepted: 02/11/2025] [Indexed: 02/17/2025] Open
Abstract
Understanding the intricate mechanisms underlying slow-wave sleep (SWS) is crucial for deciphering the brain's role in memory consolidation and cognitive functions. It is well established that cortical delta oscillations (0.5-4 Hz) coordinate communications among cortical, hippocampal, and thalamic regions during SWS. These delta oscillations feature periods of Up and Down states, with the latter previously thought to represent complete cortical silence; however, new evidence suggests that Down states serve important functions for information exchange during memory consolidation. The retrosplenial cortex (RSC) is pivotal for memory consolidation due to its extensive connectivity with memory-associated regions, although it remains unclear how RSC neurons engage in delta-associated consolidation processes. Here, we employed multichannel in vivo electrophysiology to study RSC neuronal activity in ad libitum behaving male mice during natural SWS. We discovered a discrete assembly of putative excitatory RSC neurons (∼20%) that initiated firing at SWS Down states and reached maximal firing at the Down-to-Up transitions. Therefore, we termed these RSC neurons the Down-to-Up transition assembly (DUA) and the remaining RSC excitatory neurons as non-DUA. Compared with non-DUA, DUA neurons appear to exhibit higher firing rates and larger cell body size and lack monosynaptic connectivity with nearby RSC neurons. Furthermore, optogenetics combined with electrophysiology revealed differential innervation of RSC excitatory neurons by memory-associated inputs. Collectively, these findings provide insight into the distinct activity patterns of RSC neuronal subpopulations during sleep and their potential role in memory processes.
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Affiliation(s)
- Ashley N Opalka
- Department of Neurobiology and Anatomy, Drexel University College of Medicine, Philadelphia, Pennsylvania 19129
| | - Kimberly J Dougherty
- Department of Neurobiology and Anatomy, Drexel University College of Medicine, Philadelphia, Pennsylvania 19129
| | - Dong V Wang
- Department of Neurobiology and Anatomy, Drexel University College of Medicine, Philadelphia, Pennsylvania 19129
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8
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Onorato I, Tzanou A, Schneider M, Uran C, Broggini AC, Vinck M. Distinct roles of PV and Sst interneurons in visually induced gamma oscillations. Cell Rep 2025; 44:115385. [PMID: 40048428 DOI: 10.1016/j.celrep.2025.115385] [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: 06/16/2024] [Revised: 11/26/2024] [Accepted: 02/11/2025] [Indexed: 03/29/2025] Open
Abstract
Gamma-frequency oscillations are a hallmark of active information processing and are generated by interactions between excitatory and inhibitory neurons. To examine the contribution of distinct inhibitory interneurons to visually induced gamma oscillations, we recorded from optogenetically identified PV+ (parvalbumin) and Sst+ (somatostatin) interneurons in mouse primary visual cortex (V1). PV and Sst inhibitory interneurons exhibited distinct correlations to gamma oscillations. PV cells were strongly phase locked, while Sst cells were weakly phase locked, except for narrow-waveform Sst cells. PV cells fired at a substantially earlier phase in the gamma cycle (≈6 ms) than Sst cells. PV cells fired shortly after the onset of tightly synchronized burst events in excitatory cells, while Sst interneurons fired after subsequent burst spikes or single spikes. These findings indicate a main role of PV interneurons in synchronizing network activity and suggest that PV and Sst interneurons control the excitability of somatic and dendritic neural compartments with precise time delays coordinated by gamma oscillations.
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Affiliation(s)
- Irene Onorato
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany; Max Planck Institute for Brain Research, 60438 Frankfurt, Germany; Neuroscience Research Center, Charité-Universitätsmedizin Berlin, 10117 Berlin, Germany.
| | - Athanasia Tzanou
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany
| | - Marius Schneider
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany; Max Planck Institute for Brain Research, 60438 Frankfurt, Germany
| | - Cem Uran
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany; Donders Centre for Neuroscience, Department of Neurophysics, Radboud University Nijmegen, 6525 Nijmegen, the Netherlands; Max Planck Institute for Brain Research, 60438 Frankfurt, Germany
| | - Ana Clara Broggini
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany
| | - Martin Vinck
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany; Donders Centre for Neuroscience, Department of Neurophysics, Radboud University Nijmegen, 6525 Nijmegen, the Netherlands.
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9
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Kornfeld-Sylla SS, Gelegen C, Norris JE, Chaloner FA, Lee M, Khela M, Heinrich MJ, Finnie PSB, Ethridge LE, Erickson CA, Schmitt LM, Cooke SF, Wilkinson CL, Bear MF. A human electrophysiological biomarker of Fragile X Syndrome is shared in V1 of Fmr1 KO mice and caused by loss of FMRP in cortical excitatory neurons. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.03.19.644144. [PMID: 40166357 PMCID: PMC11957138 DOI: 10.1101/2025.03.19.644144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/02/2025]
Abstract
Predicting clinical therapeutic outcomes from preclinical animal studies remains an obstacle to developing treatments for neuropsychiatric disorders. Electrophysiological biomarkers analyzed consistently across species could bridge this divide. In humans, alpha oscillations in the resting state electroencephalogram (rsEEG) are altered in many disorders, but these disruptions have not yet been characterized in animal models. Here, we employ a uniform analytical method to show in males with fragile X syndrome (FXS) that the slowed alpha oscillations observed in adults are also present in children and in visual cortex of adult and juvenile Fmr1 -/y mice. We find that alpha-like oscillations in mice reflect the differential activity of two classes of inhibitory interneurons, but the phenotype is caused by deletion of Fmr1 specifically in cortical excitatory neurons. These results provide a framework for studying alpha oscillation disruptions across species, advance understanding of a critical rsEEG signature in the human brain and inform the cellular basis for a putative biomarker of FXS.
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10
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Gonzalez-Ferrer J, Lehrer J, Schweiger HE, Geng J, Hernandez S, Reyes F, Sevetson JL, Salama SR, Teodorescu M, Haussler D, Mostajo-Radji MA. HIPPIE: A Multimodal Deep Learning Model for Electrophysiological Classification of Neurons. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.03.14.642461. [PMID: 40161713 PMCID: PMC11952528 DOI: 10.1101/2025.03.14.642461] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 04/02/2025]
Abstract
Extracellular electrophysiological recordings present unique computational challenges for neuronal classification due to noise, technical variability, and batch effects across experimental systems. We introduce HIPPIE (High-dimensional Interpretation of Physiological Patterns In Extracellular recordings), a deep learning framework that combines self-supervised pretraining on unlabeled datasets with supervised fine-tuning to classify neurons from extracellular recordings. Using conditional convolutional joint autoencoders, HIPPIE learns robust, technology-adjusted representations of waveforms and spiking dynamics. This model can be applied to electrophysiological classification and clustering across diverse biological cultures and technologies. We validated HIPPIE on both in vivo mouse recordings and in vitro brain slices, where it demonstrated superior performance over other unsupervised methods in cell-type discrimination and aligned closely with anatomically defined classes. Its latent space organizes neurons along electrophysiological gradients, while enabling batch and individual corrected alignment of recordings across experiments. HIPPIE establishes a general framework for systematically decoding neuronal diversity in native and engineered systems.
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Affiliation(s)
- Jesus Gonzalez-Ferrer
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- These authors contributed equally to this work
| | - Julian Lehrer
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- These authors contributed equally to this work
| | - Hunter E. Schweiger
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Molecular, Cellular and Developmental Biology, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- These authors contributed equally to this work
| | - Jinghui Geng
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- These authors contributed equally to this work
| | - Sebastian Hernandez
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
| | - Francisco Reyes
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Biotechnology Program, Berkeley City College, Berkeley, CA, 94704, USA
| | - Jess L. Sevetson
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Molecular, Cellular and Developmental Biology, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
| | - Sofie R. Salama
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Molecular, Cellular and Developmental Biology, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
| | - Mircea Teodorescu
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
| | - David Haussler
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
| | - Mohammed A. Mostajo-Radji
- Genomics Institute, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
- Live Cell Biotechnology Discovery Lab, University of California Santa Cruz, Santa Cruz, CA, 95060, USA
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11
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Yue L, Bao C, Zhang L, Zhang F, Zhou W, Iannetti GD, Hu L. Neuronal mechanisms of nociceptive-evoked gamma-band oscillations in rodents. Neuron 2025; 113:769-784.e6. [PMID: 39809278 DOI: 10.1016/j.neuron.2024.12.011] [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: 02/06/2024] [Revised: 08/02/2024] [Accepted: 12/12/2024] [Indexed: 01/16/2025]
Abstract
Gamma-band oscillations (GBOs) in the primary somatosensory cortex (S1) play key roles in nociceptive processing. Yet, one crucial question remains unaddressed: what neuronal mechanisms underlie nociceptive-evoked GBOs? Here, we addressed this question using a range of somatosensory stimuli (nociceptive and non-nociceptive), neural recording techniques (electroencephalography in humans and silicon probes and calcium imaging in rodents), and optogenetics (alone or simultaneously with electrophysiology in mice). We found that (1) GBOs encoded pain intensity independent of stimulus intensity in humans, (2) GBOs in S1 encoded pain intensity and were triggered by spiking of S1 interneurons, (3) parvalbumin (PV)-positive interneurons preferentially tracked pain intensity, and critically, (4) PV S1 interneurons causally modulated GBOs and pain-related behaviors for both thermal and mechanical pain. These findings provide causal evidence that nociceptive-evoked GBOs preferentially encoding pain intensity are generated by PV interneurons in S1, thereby laying a solid foundation for developing GBO-based targeted pain therapies.
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Affiliation(s)
- Lupeng Yue
- State Key Laboratory of Cognitive Science and Mental Health, Institute of Psychology, Chinese Academy of Sciences, Beijing, China; Department of Psychology, University of Chinese Academy of Sciences, Beijing, China
| | - Chongyu Bao
- State Key Laboratory of Cognitive Science and Mental Health, Institute of Psychology, Chinese Academy of Sciences, Beijing, China; Department of Psychology, University of Chinese Academy of Sciences, Beijing, China; Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, China
| | - Libo Zhang
- State Key Laboratory of Cognitive Science and Mental Health, Institute of Psychology, Chinese Academy of Sciences, Beijing, China; Department of Psychology, University of Chinese Academy of Sciences, Beijing, China
| | - Fengrui Zhang
- State Key Laboratory of Cognitive Science and Mental Health, Institute of Psychology, Chinese Academy of Sciences, Beijing, China; Department of Psychology, University of Chinese Academy of Sciences, Beijing, China
| | - Wenqian Zhou
- State Key Laboratory of Cognitive Science and Mental Health, Institute of Psychology, Chinese Academy of Sciences, Beijing, China; Department of Psychology, University of Chinese Academy of Sciences, Beijing, China
| | - Gian Domenico Iannetti
- Neuroscience and Behaviour Laboratory, Italian Institute of Technology, Rome, Italy; Department of Neuroscience, Physiology, and Pharmacology, University College London, London, UK
| | - Li Hu
- State Key Laboratory of Cognitive Science and Mental Health, Institute of Psychology, Chinese Academy of Sciences, Beijing, China; Department of Psychology, University of Chinese Academy of Sciences, Beijing, China.
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12
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Ebrahimvand Z, Daliri MR. Cross-Frequency Couplings Reveal Mice Visual Cortex Selectivity to Grating Orientations. Brain Behav 2025; 15:e70360. [PMID: 40079646 PMCID: PMC11905059 DOI: 10.1002/brb3.70360] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/08/2024] [Revised: 12/27/2024] [Accepted: 01/20/2025] [Indexed: 03/15/2025] Open
Abstract
INTRODUCTION Oriented grating is usually employed in visual science experiments as a prominent property of neurons in the visual cortices. Previous studies have shown that the study of mouse vision can make a significant contribution to the field of neuroscience research, and also the local field potential (LFP) analysis could contain more information and give us a better view of brain function. METHODS In this research, cross-frequency coupling is employed to assess the grating orientation perception in V1 and lateromedial (LM) of 10 mice. The experimental data were collected using chronically implanted multielectrode arrays, involving area V1 recording of five mice and area LM recording of five mice separately, performing a passive visual task. Two criteria known as phase-amplitude coupling (PAC) and amplitude-amplitude coupling (AAC) were exploited to analyze the characteristics of cross-frequency coupling of LFP signals in the experiment consisting of first-order and second-order drifting sinusoidal grating stimuli with different orientations. RESULTS It was found that in area LM the correlation between phase of lower than 8 Hz band signal and amplitude of above 100 Hz band signal can be significantly different for orientations and stimulus conditions simultaneously. In area V1, this difference was observed in amplitude correlation between 12 and 30 Hz and more than 70 Hz subbands. CONCLUSIONS In conclusion, PAC and AAC can be proper features in orientation perception detection. Our results suggest that in both areas, the significant role of high-band and low-band oscillations of LFPs discloses the reliability of these bands and generally LFP signals in mice visual perception.
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Affiliation(s)
- Zahra Ebrahimvand
- Neuroscience & Neuroengineering Research Lab., Biomedical Engineering Department, School of Electrical EngineeringIran University of Science & TechnologyTehranIran
| | - Mohammad Reza Daliri
- Neuroscience & Neuroengineering Research Lab., Biomedical Engineering Department, School of Electrical EngineeringIran University of Science & TechnologyTehranIran
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13
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Zutshi I, Apostolelli A, Yang W, Zheng ZS, Dohi T, Balzani E, Williams AH, Savin C, Buzsáki G. Hippocampal neuronal activity is aligned with action plans. Nature 2025; 639:153-161. [PMID: 39779866 DOI: 10.1038/s41586-024-08397-7] [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: 02/16/2024] [Accepted: 10/31/2024] [Indexed: 01/11/2025]
Abstract
Neurons in the hippocampus are correlated with different variables, including space, time, sensory cues, rewards and actions, in which the extent of tuning depends on ongoing task demands1-8. However, it remains uncertain whether such diverse tuning corresponds to distinct functions within the hippocampal network or whether a more generic computation can account for these observations9. Here, to disentangle the contribution of externally driven cues versus internal computation, we developed a task in mice in which space, auditory tones, rewards and context were juxtaposed with changing relevance. High-density electrophysiological recordings revealed that neurons were tuned to each of these modalities. By comparing movement paths and action sequences, we observed that external variables had limited direct influence on hippocampal firing. Instead, spiking was influenced by online action plans and modulated by goal uncertainty. Our results suggest that internally generated cell assembly sequences are selected and updated by action plans towards deliberate goals. The apparent tuning of hippocampal neuronal spiking to different sensory modalities might emerge due to alignment to the afforded action progression within a task rather than representation of external cues.
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Affiliation(s)
- Ipshita Zutshi
- Neuroscience Institute, New York University Grossman School of Medicine, New York, NY, USA
| | - Athina Apostolelli
- Neuroscience Institute, New York University Grossman School of Medicine, New York, NY, USA
| | - Wannan Yang
- Neuroscience Institute, New York University Grossman School of Medicine, New York, NY, USA
- Center for Neural Science, New York University, New York, NY, USA
| | - Zheyang Sam Zheng
- Neuroscience Institute, New York University Grossman School of Medicine, New York, NY, USA
- Center for Neural Science, New York University, New York, NY, USA
| | - Tora Dohi
- Neuroscience Institute, New York University Grossman School of Medicine, New York, NY, USA
| | - Edoardo Balzani
- Center for Neural Science, New York University, New York, NY, USA
- Center for Data Science, New York University, New York, NY, USA
| | - Alex H Williams
- Center for Neural Science, New York University, New York, NY, USA
- Center for Computational Neuroscience, Flatiron Institute, New York, NY, USA
| | - Cristina Savin
- Center for Neural Science, New York University, New York, NY, USA
- Center for Data Science, New York University, New York, NY, USA
| | - György Buzsáki
- Neuroscience Institute, New York University Grossman School of Medicine, New York, NY, USA.
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14
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Miyamoto H, Mazaki E, Makino Y, Fang Q, Hamada T, Handa Y, Hensch TK. Rapid and cumulative adult plasticity in the mouse visual cortex. Front Neural Circuits 2025; 19:1537305. [PMID: 40093861 PMCID: PMC11906431 DOI: 10.3389/fncir.2025.1537305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2024] [Accepted: 02/11/2025] [Indexed: 03/19/2025] Open
Abstract
Experience-dependent neural plasticity enables the brain to adapt to diverse and dynamic environments by reshaping circuits. In the adult visual system, this plasticity can be elicited by repeated sensory stimuli; however, its temporal dynamics and underlying mechanisms remain unclear. Here, we investigated the regulation of visual response potentiation induced by repeated light flashes in the primary visual cortex of awake adult mice. Our findings revealed two distinct temporal phases of potentiation: a rapid phase occurring within seconds and a cumulative phase developing over hours to days. Notably, the identification of this rapid phase phenomenon adds to and refines the prevailing view that visual plasticity in the adult cortex is predominantly slow. Additionally, exposure to visual stimuli enhanced spontaneous slow-wave activity in the visual cortex during non-REM sleep. This plasticity was significantly impaired in Grin2a (NR2A) knockout mice, a model of schizophrenia, which mirrors visual plasticity deficits observed in human patients. The dual temporal characteristics of flash-evoked visual plasticity likely reflect multifaceted aspects of adult brain functionality, encompassing processes related to memory, learning, and neurological disorders. This model of visual plasticity in defined neural circuits provides a simplified yet robust and extensible framework for exploring the neural mechanisms underlying adaptive and maladaptive behavioral changes.
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Affiliation(s)
- Hiroyuki Miyamoto
- International Research Center for Neurointelligence (IRCN), The University of Tokyo Institutes for Advanced Study, Tokyo, Japan
| | - Emi Mazaki
- International Research Center for Neurointelligence (IRCN), The University of Tokyo Institutes for Advanced Study, Tokyo, Japan
| | - Yuichi Makino
- International Research Center for Neurointelligence (IRCN), The University of Tokyo Institutes for Advanced Study, Tokyo, Japan
| | - Qi Fang
- Technology and Innovation Center, Daikin Industries, Ltd., Osaka, Japan
| | - Tomohito Hamada
- Technology and Innovation Center, Daikin Industries, Ltd., Osaka, Japan
| | - Youichi Handa
- Technology and Innovation Center, Daikin Industries, Ltd., Osaka, Japan
| | - Takao K. Hensch
- International Research Center for Neurointelligence (IRCN), The University of Tokyo Institutes for Advanced Study, Tokyo, Japan
- Department of Molecular Cellular Biology, Center for Brain Science, Harvard University, Cambridge, MA, United States
- FM Kirby Neurobiology Center, Boston Children's Hospital, Harvard Medical School, Boston, MA, United States
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15
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Tsukano H, Garcia MM, Dandu PR, Kato HK. Predictive filtering of sensory response via orbitofrontal top-down input. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2024.09.17.613562. [PMID: 39345607 PMCID: PMC11429993 DOI: 10.1101/2024.09.17.613562] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 10/01/2024]
Abstract
Habituation is a crucial sensory filtering mechanism whose dysregulation can lead to a continuously intense world in disorders with sensory overload. While habituation is considered to require top-down predictive signaling to suppress irrelevant inputs, the exact brain loci storing the internal predictive model and the circuit mechanisms of sensory filtering remain unclear. We found that daily neural habituation in the primary auditory cortex (A1) was reversed by inactivation of the orbitofrontal cortex (OFC). Top-down projections from the ventrolateral OFC, but not other frontal areas, carried predictive signals that grew with daily sound experience and suppressed A1 via somatostatin-expressing inhibitory neurons. Thus, prediction signals from the OFC cancel out behaviorally irrelevant anticipated stimuli by generating their "negative images" in sensory cortices.
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Affiliation(s)
- Hiroaki Tsukano
- Department of Psychiatry, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
| | - Michellee M. Garcia
- Department of Psychiatry, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
| | - Pranathi R. Dandu
- Department of Psychiatry, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
| | - Hiroyuki K. Kato
- Department of Psychiatry, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
- Carolina Institute for Developmental Disabilities, University of North Carolina at Chapel Hill; Chapel Hill, 27599, USA
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16
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Akella S, Ledochowitsch P, Siegle JH, Belski H, Denman DD, Buice MA, Durand S, Koch C, Olsen SR, Jia X. Deciphering neuronal variability across states reveals dynamic sensory encoding. Nat Commun 2025; 16:1768. [PMID: 39971911 PMCID: PMC11839951 DOI: 10.1038/s41467-025-56733-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: 04/04/2024] [Accepted: 01/29/2025] [Indexed: 02/21/2025] Open
Abstract
Influenced by non-stationary factors such as brain states and behavior, neurons exhibit substantial response variability even to identical stimuli. However, it remains unclear how their relative impact on neuronal variability evolves over time. To address this question, we designed an encoding model conditioned on latent states to partition variability in the mouse visual cortex across internal brain dynamics, behavior, and external visual stimulus. Applying a hidden Markov model to local field potentials, we consistently identified three distinct oscillation states, each with a unique variability profile. Regression models within each state revealed a dynamic composition of factors influencing spiking variability, with the dominant factor switching within seconds. The state-conditioned regression model uncovered extensive diversity in source contributions across units, varying in accordance with anatomical hierarchy and internal state. This heterogeneity in encoding underscores the importance of partitioning variability over time, particularly when considering the influence of non-stationary factors on sensory processing.
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Affiliation(s)
| | | | | | | | - Daniel D Denman
- Allen Institute, Seattle, WA, USA
- Anschutz Medical Campus School of Medicine, University of Colorado, Aurora, CO, USA
| | | | | | | | | | - Xiaoxuan Jia
- School of Life Science, Tsinghua University, Beijing, China.
- IDG/McGovern Institute for Brain Research, Tsinghua University, Beijing, China.
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17
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Garcia MM, Kline AM, Onodera K, Tsukano H, Dandu PR, Acosta HC, Kasten M, Manis PB, Kato HK. Noncanonical Short-Latency Auditory Pathway Directly Activates Deep Cortical Layers. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2025.01.06.631598. [PMID: 39829930 PMCID: PMC11741258 DOI: 10.1101/2025.01.06.631598] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 01/22/2025]
Abstract
Auditory processing in the cerebral cortex is considered to begin with thalamocortical inputs to layer 4 (L4) of the primary auditory cortex (A1). In this canonical model, A1 L4 inputs initiate a hierarchical cascade, with higher-order cortices receiving pre-processed information for the slower integration of complex sounds. Here, we identify alternative ascending pathways in mice that bypass A1 and directly reach multiple layers of the secondary auditory cortex (A2), indicating parallel activation of these areas alongside sequential information processing. We found that L6 of both A1 and A2 receive short-latency (<10 ms) sound inputs, comparable in speed to the canonical A1 L4 input but transmitted through higher-order thalamic nuclei. Additionally, A2 L4 is innervated by a caudal subdivision within the traditionally defined primary thalamus, which we now identify as belonging to the non-primary system. Notably, both thalamic regions receive projections from distinct subdivisions of the higher-order inferior colliculus, which in turn are directly innervated by cochlear nucleus neurons. These findings reveal alternative ascending pathways reaching A2 at L4 and L6 via secondary subcortical structures. Thus, higher-order auditory cortex processes both slow, pre-processed information and rapid, direct sensory inputs, enabling parallel and distributed processing of fast sensory information across cortical areas.
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Affiliation(s)
- Michellee M. Garcia
- Department of Psychiatry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Amber M Kline
- Department of Psychiatry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Koun Onodera
- Department of Psychiatry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Hiroaki Tsukano
- Department of Psychiatry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Pranathi R. Dandu
- Department of Psychiatry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Hailey C. Acosta
- Department of Psychiatry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Michael Kasten
- Department of Otolaryngology/Head and Neck Surgery, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Paul B. Manis
- Department of Otolaryngology/Head and Neck Surgery, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Department of Cell Biology and Physiology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Hiroyuki K. Kato
- Department of Psychiatry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
- Eaton-Peabody Laboratories, Massachusetts Eye and Ear, Boston, MA 02114, USA
- Department of Otolaryngology - Head and Neck Surgery, Harvard Medical School, Boston, MA 02114, USA
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18
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Páscoa dos Santos F, Verschure PFMJ. Excitatory-inhibitory homeostasis and bifurcation control in the Wilson-Cowan model of cortical dynamics. PLoS Comput Biol 2025; 21:e1012723. [PMID: 39761317 PMCID: PMC11737862 DOI: 10.1371/journal.pcbi.1012723] [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: 06/10/2024] [Revised: 01/16/2025] [Accepted: 12/16/2024] [Indexed: 01/18/2025] Open
Abstract
Although the primary function of excitatory-inhibitory (E-I) homeostasis is the maintenance of mean firing rates, the conjugation of multiple homeostatic mechanisms is thought to be pivotal to ensuring edge-of-bifurcation dynamics in cortical circuits. However, computational studies on E-I homeostasis have focused solely on the plasticity of inhibition, neglecting the impact of different modes of E-I homeostasis on cortical dynamics. Therefore, we investigate how the diverse mechanisms of E-I homeostasis employed by cortical networks shape oscillations and edge-of-bifurcation dynamics. Using the Wilson-Cowan model, we explore how distinct modes of E-I homeostasis maintain stable firing rates in models with varying levels of input and how it affects circuit dynamics. Our results confirm that E-I homeostasis can be leveraged to control edge-of-bifurcation dynamics and that some modes of homeostasis maintain mean firing rates under higher levels of input by modulating the distance to the bifurcation. Additionally, relying on multiple modes of homeostasis ensures stable activity while keeping oscillation frequencies within a physiological range. Our findings tie relevant features of cortical networks, such as E-I balance, the generation of gamma oscillations, and edge-of-bifurcation dynamics, under the framework of firing-rate homeostasis, providing a mechanistic explanation for the heterogeneity in the distance to the bifurcation found across cortical areas. In addition, we reveal the functional benefits of relying upon different homeostatic mechanisms, providing a robust method to regulate network dynamics with minimal perturbation to the generation of gamma rhythms and explaining the correlation between inhibition and gamma frequencies found in cortical networks.
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Affiliation(s)
- Francisco Páscoa dos Santos
- Eodyne Systems SL, Barcelona, Spain
- Department of Information and Communication Technologies, Universitat Pompeu Fabra (UPF), Barcelona, Spain
| | - Paul F. M. J. Verschure
- Donders Institute for Brain, Cognition and Behavior, Radboud University, Nijmegen, The Netherlands
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19
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Montgomery DP, Bowen DA, Wu J, Bear MF, Gaier ED. Cortical responses to conflicting binocular stimuli in mouse primary visual cortex. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2024.12.31.630912. [PMID: 39803450 PMCID: PMC11722220 DOI: 10.1101/2024.12.31.630912] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/14/2025]
Abstract
Binocular vision requires that the brain integrate information coming from each eye. These images are combined (fused) to generate a meaningful composite image. Differences between images, within a range, provide useful information about depth (stereopsis). Interocular disparities that are not effectively combined result in diplopia and rivalry. The neural mechanisms underlying these binocular interactions remain poorly understood. Using a combination of visually evoked potential (VEP) recordings, unit recordings, and 2-photon calcium imaging in the binocular region of mouse primary visual cortex (bV1), we probed the neural mechanisms underlying the processing of two distinct forms of disparate binocular signals. Using a dichoptic display, introduction of a spatial interocular phase disparity in grating stimuli reduced VEP magnitude through decreased neuronal firing in the early phase of the response (40-80 ms after stimulus onset, corresponding to the VEP negativity). Introduction of an interocular orientation disparity also decreased VEP magnitude, but this difference was driven by an increase in firing in the late portion of the visual response (100-200 ms after stimulus onset, corresponding to the VEP positivity). This increase in activity was observed for both regular-spiking (putative excitatory) and fast-spiking (putative parvalbumin-positive inhibitory) units. By contrast, visually evoked calcium responses of somatostatin-positive interneurons decreased with introduction of the interocular orientation disparity. Based on these results, we propose that interocular phase differences largely suppress bV1 responses via feedforward thalamocortical interactions, whereas interocular orientation differences prolong visually evoked activity in bV1 through somatostatin-positive interneuron-mediated disinhibition.
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20
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Bouvier G, Sanzeni A, Hamada E, Brunel N, Scanziani M. Inter- and Intrahemispheric Sources of Vestibular Signals to V1. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.11.18.624137. [PMID: 39605728 PMCID: PMC11601413 DOI: 10.1101/2024.11.18.624137] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/29/2024]
Abstract
Head movements are sensed by the vestibular organs. Unlike classical senses, signals from vestibular organs are not conveyed to a dedicated cortical area but are broadcast throughout the cortex. Surprisingly, the routes taken by vestibular signals to reach the cortex are still largely uncharted. Here we show that the primary visual cortex (V1) receives real-time head movement signals - direction, velocity, and acceleration - from the ipsilateral pulvinar and contralateral visual cortex. The ipsilateral pulvinar provides the main head movement signal, with a bias toward contraversive movements (e.g. clockwise movements in left V1). Conversely, the contralateral visual cortex provides head movement signals during ipsiversive movements. Crucially, head movement variables encoded in V1 are already encoded in the pulvinar, suggesting that those variables are computed subcortically. Thus, the convergence of inter- and intrahemispheric signals endows V1 with a rich representation of the animal's head movements.
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Affiliation(s)
- Guy Bouvier
- 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
- Université Paris-Saclay, CNRS, Institut des Neurosciences Paris-Saclay, 91400 Saclay, France
| | - Alessandro Sanzeni
- Department of Computing Sciences, Bocconi University, 20100 Milan, Italy
- Center for Theoretical Neuroscience and Mortimer B Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA
- Department of Neurobiology, Duke University, Durham, NC 27710, USA
| | - Elizabeth Hamada
- Department of Neurology, University of California, San Francisco, San Francisco, CA, USA
| | - Nicolas Brunel
- Department of Computing Sciences, Bocconi University, 20100 Milan, Italy
- Department of Neurobiology, Duke University, Durham, NC 27710, 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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21
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Khan HF, Dutta S, Scott AN, Xiao S, Yadav S, Chen X, Aryal UK, Kinzer-Ursem TL, Rochet JC, Jayant K. Site-specific seeding of Lewy pathology induces distinct pre-motor cellular and dendritic vulnerabilities in the cortex. Nat Commun 2024; 15:10775. [PMID: 39737978 PMCID: PMC11685769 DOI: 10.1038/s41467-024-54945-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2024] [Accepted: 11/26/2024] [Indexed: 01/01/2025] Open
Abstract
Circuit-based biomarkers distinguishing the gradual progression of Lewy pathology across synucleinopathies remain unknown. Here, we show that seeding of α-synuclein preformed fibrils in mouse dorsal striatum and motor cortex leads to distinct prodromal-phase cortical dysfunction across months. Our findings reveal that while both seeding sites had increased cortical pathology and hyperexcitability, distinct differences in electrophysiological and cellular ensemble patterns were crucial in distinguishing pathology spread between the two seeding sites. Notably, while beta-band spike-field-coherence reflected a significant increase beginning in Layer-5 and then spreading to Layer-2/3, the rate of entrainment and the propensity of stochastic beta-burst dynamics was markedly seeding location-specific. This beta dysfunction was accompanied by gradual superficial excitatory ensemble instability following cortical, but not striatal, preformed fibrils injection. We reveal a link between Layer-5 dendritic vulnerabilities and translaminar beta event dysfunction, which could be used to differentiate symptomatically similar synucleinopathies.
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Affiliation(s)
- Hammad F Khan
- Weldon School of Biomedical Engineering, West Lafayette, Indiana, IN, USA
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
| | - Sayan Dutta
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
- Borch Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, IN, USA
| | - Alicia N Scott
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
- Borch Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, IN, USA
| | - Shulan Xiao
- Weldon School of Biomedical Engineering, West Lafayette, Indiana, IN, USA
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
| | - Saumitra Yadav
- Weldon School of Biomedical Engineering, West Lafayette, Indiana, IN, USA
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
| | - Xiaoling Chen
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
- Borch Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, IN, USA
| | - Uma K Aryal
- Department of Comparative Pathobiology, Purdue University, West Lafayette, IN, USA
- Purdue Proteomics Facility, Bindley Bioscience Center, Purdue University, West Lafayette, IN, USA
| | - Tamara L Kinzer-Ursem
- Weldon School of Biomedical Engineering, West Lafayette, Indiana, IN, USA
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
| | - Jean-Christophe Rochet
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA.
- Borch Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, IN, USA.
| | - Krishna Jayant
- Weldon School of Biomedical Engineering, West Lafayette, Indiana, IN, USA.
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA.
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22
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Balogh-Lantos Z, Fiáth R, Horváth ÁC, Fekete Z. High density laminar recordings reveal cell type and layer specific responses to infrared neural stimulation in the rat neocortex. Sci Rep 2024; 14:31523. [PMID: 39732850 PMCID: PMC11682324 DOI: 10.1038/s41598-024-82980-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: 07/22/2024] [Accepted: 12/10/2024] [Indexed: 12/30/2024] Open
Abstract
Infrared neural stimulation has consistently shown that temperature is a critical neuronal state variable. However, a comprehensive understanding of the biophysical background is essential. In this study, using high-density laminar electrode recordings, we investigated the impact of pulsed and continuous-wave infrared illumination on cortical neurons in anesthetized rats ([Formula: see text]). By analyzing the infrared (IR) stimulation-related responses of more than 7500 single units, we found that elevating tissue temperature with IR stimulation resulted in a significant increase in the number of cells affected, including a substantial rise in the number of inhibited cells. Pulsed stimulation affected an average of [Formula: see text] of units, resulting primarily in increased activity. In contrast, continuous stimulation significantly increased the percentage of affected cells to [Formula: see text], with single units tending to be suppressed. Furthermore, when analyzing cell types, a higher percentage of principal cells displayed increased firing rates ([Formula: see text]) compared to suppressed activity ([Formula: see text]). Meanwhile, more interneurons were suppressed ([Formula: see text]) than showed increased activity ([Formula: see text]). On average, the firing rate of neurons reached 90% of the maximal activation within approximately 36 seconds after the onset of infrared stimulation. The proportion of neurons with suppressed activity decreased with cortical depth, while the proportion of neurons with elevated activity increased in deeper layers. These results provide valuable data to understand the mechanism of infrared neural stimulation in the living brain.
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Affiliation(s)
- Zsófia Balogh-Lantos
- Research Group for Implantable Microsystems, Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Práter utca 50/a, Budapest, 1083, Hungary
- Roska Tamás Doctoral School of Sciences and Technology, Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Práter utca 50/a, Budapest, 1083, Hungary
| | - Richárd Fiáth
- Research Group for Implantable Microsystems, Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Práter utca 50/a, Budapest, 1083, Hungary
- Institute of Cognitive Neuroscience and Psychology, HUN-REN Research Centre for Natural Sciences, Magyar tudósok körútja 2, Budapest, 1117, Hungary
| | - Ágoston Csaba Horváth
- Research Group for Implantable Microsystems, Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Práter utca 50/a, Budapest, 1083, Hungary
| | - Zoltán Fekete
- Research Group for Implantable Microsystems, Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Práter utca 50/a, Budapest, 1083, Hungary.
- Institute of Cognitive Neuroscience and Psychology, HUN-REN Research Centre for Natural Sciences, Magyar tudósok körútja 2, Budapest, 1117, Hungary.
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23
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Drebitz E, Rausch LP, Domingo Gil E, Kreiter AK. Three distinct gamma oscillatory networks within cortical columns in macaque monkeys' area V1. Front Neural Circuits 2024; 18:1490638. [PMID: 39735419 PMCID: PMC11671273 DOI: 10.3389/fncir.2024.1490638] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2024] [Accepted: 11/25/2024] [Indexed: 12/31/2024] Open
Abstract
Introduction A fundamental property of the neocortex is its columnar organization in many species. Generally, neurons of the same column share stimulus preferences and have strong anatomical connections across layers. These features suggest that neurons within a column operate as one unified network. Other features, like the different patterns of input and output connections of neurons located in separate layers and systematic differences in feature tuning, hint at a more segregated and possibly flexible functional organization of neurons within a column. Methods To distinguish between these views of columnar processing, we conducted laminar recordings in macaques' area V1 while they performed a demanding attention task. We identified three separate regions with strong gamma oscillatory activity, located in the supragranular, granular, and infragranular laminar domains, based on the current source density (CSD). Results and Discussion Their characteristics differed significantly in their dominant gamma frequency and attention-dependent modulation of their gramma power and gamma frequency. In line, spiking activity in the supragranular, infragranular, and upper part of the granular domain exhibited strong phase coherence with the CSD signals of their domain but showed much weaker coherence with the CSD signals of other domains. Conclusion These results indicate that columnar processing involves a certain degree of independence between neurons in the three laminar domains, consistent with the assumption of multiple, separate intracolumnar ensembles. Such a functional organization offers various possibilities for dynamic network configuration, indicating that neurons in a column are not restricted to operate as one unified network. Thus, the findings open interesting new possibilities for future concepts and investigations on flexible, dynamic cortical ensemble formation and selective information processing.
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Affiliation(s)
- Eric Drebitz
- Cognitive Neurophysiology, Brain Research Institute, University of Bremen, Bremen, Germany
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24
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Rimehaug AE, Dale AM, Arkhipov A, Einevoll GT. Uncovering population contributions to the extracellular potential in the mouse visual system using Laminar Population Analysis. PLoS Comput Biol 2024; 20:e1011830. [PMID: 39666739 DOI: 10.1371/journal.pcbi.1011830] [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: 01/15/2024] [Revised: 12/26/2024] [Accepted: 11/20/2024] [Indexed: 12/14/2024] Open
Abstract
The local field potential (LFP), the low-frequency part of the extracellular potential, reflects transmembrane currents in the vicinity of the recording electrode. Thought mainly to stem from currents caused by synaptic input, it provides information about neural activity complementary to that of spikes, the output of neurons. However, the many neural sources contributing to the LFP, and likewise the derived current source density (CSD), can often make it challenging to interpret. Efforts to improve its interpretability have included the application of statistical decomposition tools like principal component analysis (PCA) and independent component analysis (ICA) to disentangle the contributions from different neural sources. However, their underlying assumptions of, respectively, orthogonality and statistical independence are not always valid for the various processes or pathways generating LFP. Here, we expand upon and validate a decomposition algorithm named Laminar Population Analysis (LPA), which is based on physiological rather than statistical assumptions. LPA utilizes the multiunit activity (MUA) and LFP jointly to uncover the contributions of different populations to the LFP. To perform the validation of LPA, we used data simulated with the large-scale, biophysically detailed model of mouse V1 developed by the Allen Institute. We find that LPA can identify laminar positions within V1 and the temporal profiles of laminar population firing rates from the MUA. We also find that LPA can estimate the salient current sinks and sources generated by feedforward input from the lateral geniculate nucleus (LGN), recurrent activity in V1, and feedback input from the lateromedial (LM) area of visual cortex. LPA identifies and distinguishes these contributions with a greater accuracy than the alternative statistical decomposition methods, PCA and ICA. The contributions from different cortical layers within V1 could however not be robustly separated and identified with LPA. This is likely due to substantial synchrony in population firing rates across layers, which may be reduced with other stimulus protocols in the future. Lastly, we also demonstrate the application of LPA on experimentally recorded MUA and LFP from 24 animals in the publicly available Visual Coding dataset. Our results suggest that LPA can be used both as a method to estimate positions of laminar populations and to uncover salient features in LFP/CSD contributions from different populations.
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Affiliation(s)
| | - Anders M Dale
- Department of Neuroscience, University of California San Diego, San Diego, California, United States of America
| | - Anton Arkhipov
- Allen Institute, Seattle, Washington, United States of America
| | - Gaute T Einevoll
- Department of Physics, Norwegian University of Life Sciences, Ås, Norway
- Department of Physics, University of Oslo, Oslo, Norway
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25
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Ichim AM, Barzan H, Moca VV, Nagy-Dabacan A, Ciuparu A, Hapca A, Vervaeke K, Muresan RC. The gamma rhythm as a guardian of brain health. eLife 2024; 13:e100238. [PMID: 39565646 DOI: 10.7554/elife.100238] [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: 05/30/2024] [Accepted: 11/09/2024] [Indexed: 11/21/2024] Open
Abstract
Gamma oscillations in brain activity (30-150 Hz) have been studied for over 80 years. Although in the past three decades significant progress has been made to try to understand their functional role, a definitive answer regarding their causal implication in perception, cognition, and behavior still lies ahead of us. Here, we first review the basic neural mechanisms that give rise to gamma oscillations and then focus on two main pillars of exploration. The first pillar examines the major theories regarding their functional role in information processing in the brain, also highlighting critical viewpoints. The second pillar reviews a novel research direction that proposes a therapeutic role for gamma oscillations, namely the gamma entrainment using sensory stimulation (GENUS). We extensively discuss both the positive findings and the issues regarding reproducibility of GENUS. Going beyond the functional and therapeutic role of gamma, we propose a third pillar of exploration, where gamma, generated endogenously by cortical circuits, is essential for maintenance of healthy circuit function. We propose that four classes of interneurons, namely those expressing parvalbumin (PV), vasointestinal peptide (VIP), somatostatin (SST), and nitric oxide synthase (NOS) take advantage of endogenous gamma to perform active vasomotor control that maintains homeostasis in the neuronal tissue. According to this hypothesis, which we call GAMER (GAmma MEdiated ciRcuit maintenance), gamma oscillations act as a 'servicing' rhythm that enables efficient translation of neural activity into vascular responses that are essential for optimal neurometabolic processes. GAMER is an extension of GENUS, where endogenous rather than entrained gamma plays a fundamental role. Finally, we propose several critical experiments to test the GAMER hypothesis.
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Grants
- RO-NO-2019-0504 Unitatea Executiva pentru Finantarea Invatamantului Superior, a Cercetarii, Dezvoltarii si Inovarii
- ERA-NET-FLAG-ERA-ModelDXConsciousness Unitatea Executiva pentru Finantarea Invatamantului Superior, a Cercetarii, Dezvoltarii si Inovarii
- ERANET-NEURON-2-UnscrAMBLY Unitatea Executiva pentru Finantarea Invatamantului Superior, a Cercetarii, Dezvoltarii si Inovarii
- ERANET-FLAG-ERA-MONAD Unitatea Executiva pentru Finantarea Invatamantului Superior, a Cercetarii, Dezvoltarii si Inovarii
- ERANET-NEURON-2-IBRAA Unitatea Executiva pentru Finantarea Invatamantului Superior, a Cercetarii, Dezvoltarii si Inovarii
- ERANET-NEURON-2-RESIST-D Unitatea Executiva pentru Finantarea Invatamantului Superior, a Cercetarii, Dezvoltarii si Inovarii
- PN-IV-P8-8.1-PRE-HE-ORG-2024-0185 Unitatea Executiva pentru Finantarea Invatamantului Superior, a Cercetarii, Dezvoltarii si Inovarii
- 952096 NEUROTWIN European Commission
- INSPIRE POC 488/1/1/2014+/127725 Ministerul Investițiilor și Proiectelor Europene
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Affiliation(s)
- Ana Maria Ichim
- Transylvanian Institute of Neuroscience, Department of Experimental and Theoretical Neuroscience, Cluj-Napoca, Romania
- Preclinical MRI Center, Interdisciplinary Research Institute on Bio-Nano-Sciences, Babeș-Bolyai University, Cluj-Napoca, Romania
| | - Harald Barzan
- Transylvanian Institute of Neuroscience, Department of Experimental and Theoretical Neuroscience, Cluj-Napoca, Romania
| | - Vasile Vlad Moca
- Transylvanian Institute of Neuroscience, Department of Experimental and Theoretical Neuroscience, Cluj-Napoca, Romania
| | - Adriana Nagy-Dabacan
- Transylvanian Institute of Neuroscience, Department of Experimental and Theoretical Neuroscience, Cluj-Napoca, Romania
| | - Andrei Ciuparu
- Transylvanian Institute of Neuroscience, Department of Experimental and Theoretical Neuroscience, Cluj-Napoca, Romania
| | - Adela Hapca
- Transylvanian Institute of Neuroscience, Department of Experimental and Theoretical Neuroscience, Cluj-Napoca, Romania
- Faculty of Biology and Geology, Babeș-Bolyai University, Cluj-Napoca, Romania
| | - Koen Vervaeke
- Department of Molecular Medicine, Institute of Basic Medical Sciences, University of Oslo, Oslo, Norway
| | - Raul Cristian Muresan
- Transylvanian Institute of Neuroscience, Department of Experimental and Theoretical Neuroscience, Cluj-Napoca, Romania
- STAR-UBB Institute, Babeș-Bolyai University, Cluj-Napoca, Romania
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26
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Paulson AL, Zhang L, Prichard AM, Singer AC. 40 Hz sensory stimulation enhances CA3-CA1 coordination and prospective coding during navigation in a mouse model of Alzheimer's disease. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.10.23.619408. [PMID: 39484571 PMCID: PMC11526945 DOI: 10.1101/2024.10.23.619408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2024]
Abstract
40 Hz sensory stimulation ("flicker") has emerged as a new technique to potentially mitigate pathology and improve cognition in mouse models of Alzheimer's disease (AD) pathology. However, it remains unknown how 40 Hz flicker affects neural codes essential for memory. Accordingly, we investigate the effects of 40 Hz flicker on neural representations of experience in the hippocampus of the 5XFAD mouse model of AD by recording 1000s of neurons during a goal-directed spatial navigation task. We find that an hour of daily exposure to 40 Hz audio-visual stimulation over 8 days leads to higher coordination between hippocampal subregions CA3 and CA1 during navigation. Consistent with CA3's role in generating sequential activity that represents future positions, 40 Hz flicker exposure increased prospective coding of future positions. In turn, prospective coding was more prominent during efficient navigation behavior. Our findings show how 40 Hz flicker enhances key hippocampal activity during behavior that is important for memory.
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Affiliation(s)
- Abigail L Paulson
- Coulter Department of Biomedical Engineering, Emory University and Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Lu Zhang
- Coulter Department of Biomedical Engineering, Emory University and Georgia Institute of Technology, Atlanta, GA, 30332, USA
- National Institute of Mental Health, NIH, Bethesda, 20892, MD
| | - Ashley M Prichard
- Coulter Department of Biomedical Engineering, Emory University and Georgia Institute of Technology, Atlanta, GA, 30332, USA
- Atlanta VA Medical Center, Decatur, GA, 30033, USA
| | - Annabelle C Singer
- Coulter Department of Biomedical Engineering, Emory University and Georgia Institute of Technology, Atlanta, GA, 30332, USA
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27
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Sederberg A, Pala A, Stanley GB. Latent dynamics of primary sensory cortical population activity structured by fluctuations in the local field potential. Front Comput Neurosci 2024; 18:1445621. [PMID: 39507683 PMCID: PMC11537859 DOI: 10.3389/fncom.2024.1445621] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2024] [Accepted: 10/03/2024] [Indexed: 11/08/2024] Open
Abstract
Introduction As emerging technologies enable measurement of precise details of the activity within microcircuits at ever-increasing scales, there is a growing need to identify the salient features and patterns within the neural populations that represent physiologically and behaviorally relevant aspects of the network. Accumulating evidence from recordings of large neural populations suggests that neural population activity frequently exhibits relatively low-dimensional structure, with a small number of variables explaining a substantial fraction of the structure of the activity. While such structure has been observed across the brain, it is not known how reduced-dimension representations of neural population activity relate to classical metrics of "brain state," typically described in terms of fluctuations in the local field potential (LFP), single-cell activity, and behavioral metrics. Methods Hidden state models were fit to spontaneous spiking activity of populations of neurons, recorded in the whisker area of primary somatosensory cortex of awake mice. Classic measures of cortical state in S1, including the LFP and whisking activity, were compared to the dynamics of states inferred from spiking activity. Results A hidden Markov model fit the population spiking data well with a relatively small number of states, and putative inhibitory neurons played an outsize role in determining the latent state dynamics. Spiking states inferred from the model were more informative of the cortical state than a direct readout of the spiking activity of single neurons or of the population. Further, the spiking states predicted both the trial-by-trial variability in sensory responses and one aspect of behavior, whisking activity. Discussion Our results show how classical measurements of brain state relate to neural population spiking dynamics at the scale of the microcircuit and provide an approach for quantitative mapping of brain state dynamics across brain areas.
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Affiliation(s)
- Audrey Sederberg
- Wallace H Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, United States
- Department of Neuroscience, University of Minnesota, Minneapolis, MN, United States
- School of Psychology, Georgia Institute of Technology, Atlanta, GA, United States
- School of Physics, Georgia Institute of Technology, Atlanta, GA, United States
| | - Aurélie Pala
- Wallace H Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, United States
- Department of Biology, Emory University, Atlanta, GA, United States
| | - Garrett B. Stanley
- Wallace H Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, United States
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28
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Lee S, Zhao Z, Alekseichuk I, Shirinpour S, Linn G, Schroeder CE, Falchier AY, Opitz A. Layer-specific dynamics of local field potentials in monkey V1 during electrical stimulation. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.10.19.619242. [PMID: 39484447 PMCID: PMC11526877 DOI: 10.1101/2024.10.19.619242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2024]
Abstract
The mammalian neocortex, organized into six cellular layers or laminae, forms a cortical network within layers. Layer specific computations are crucial for sensory processing of visual stimuli within primary visual cortex. Laminar recordings of local field potentials (LFPs) are a powerful tool to study neural activity within cortical layers. Electric brain stimulation is widely used in basic neuroscience and in a large range of clinical applications. However, the layer-specific effects of electric stimulation on LFPs remain unclear. To address this gap, we conducted laminar LFP recordings of the primary visual cortex in monkeys while presenting a flash visual stimulus. Simultaneously, we applied a low frequency sinusoidal current to the occipital lobe with offset frequency to the flash stimulus repetition rate. We analyzed the modulation of visual-evoked potentials with respect to the applied phase of the electric stimulation. Our results reveal that only the deeper layers, but not the superficial layers, show phase-dependent changes in LFP components with respect to the applied current. Employing a cortical column model, we demonstrate that these in vivo observations can be explained by phase-dependent changes in the driving force within neurons of deeper layers. Our findings offer crucial insight into the selective modulation of cortical layers through electric stimulation, thus advancing approaches for more targeted neuromodulation.
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29
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Zhu S, Oh YJ, Trepka EB, Chen X, Moore T. Dependence of Contextual Modulation in Macaque V1 on Interlaminar Signal Flow. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.04.18.590176. [PMID: 38659877 PMCID: PMC11042257 DOI: 10.1101/2024.04.18.590176] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/26/2024]
Abstract
In visual cortex, neural correlates of subjective perception can be generated by modulation of activity from beyond the classical receptive field (CRF). In macaque V1, activity generated by nonclassical receptive field (nCRF) stimulation involves different intracortical circuitry than activity generated by CRF stimulation, suggesting that interactions between neurons across V1 layers differ under CRF and nCRF stimulus conditions. Using Neuropixels probes, we measured border ownership modulation within large, local populations of V1 neurons. We found that neurons in single columns preferred the same side of objects located outside of the CRF. In addition, we found that cross-correlations between pairs of neurons situated across feedback/horizontal and input layers differed between CRF and nCRF stimulation. Furthermore, independent of the comparison with CRF stimulation, we observed that the magnitude of border ownership modulation increased with the proportion of information flow from feedback/horizontal layers to input layers. These results demonstrate that the flow of signals between layers covaries with the degree to which neurons integrate information from beyond the CRF.
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30
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Nakata S, Iwasaki K, Funato H, Yanagisawa M, Ozaki H. Neuronal subtype-specific transcriptomic changes in the cerebral neocortex associated with sleep pressure. Neurosci Res 2024; 207:13-25. [PMID: 38537682 DOI: 10.1016/j.neures.2024.03.004] [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: 02/20/2024] [Revised: 03/19/2024] [Accepted: 03/22/2024] [Indexed: 04/07/2024]
Abstract
Sleep is homeostatically regulated by sleep pressure, which increases during wakefulness and dissipates during sleep. Recent studies have suggested that the cerebral neocortex, a six-layered structure composed of various layer- and projection-specific neuronal subtypes, is involved in the representation of sleep pressure governed by transcriptional regulation. Here, we examined the transcriptomic changes in neuronal subtypes in the neocortex upon increased sleep pressure using single-nucleus RNA sequencing datasets and predicted the putative intracellular and intercellular molecules involved in transcriptome alterations. We revealed that sleep deprivation (SD) had the greatest effect on the transcriptome of layer 2 and 3 intratelencephalic (L2/3 IT) neurons among the neocortical glutamatergic neuronal subtypes. The expression of mutant SIK3 (SLP), which is known to increase sleep pressure, also induced profound changes in the transcriptome of L2/3 IT neurons. We identified Junb as a candidate transcription factor involved in the alteration of the L2/3 IT neuronal transcriptome by SD and SIK3 (SLP) expression. Finally, we inferred putative intercellular ligands, including BDNF, LSAMP, and PRNP, which may be involved in SD-induced alteration of the transcriptome of L2/3 IT neurons. We suggest that the transcriptome of L2/3 IT neurons is most impacted by increased sleep pressure among neocortical glutamatergic neuronal subtypes and identify putative molecules involved in such transcriptional alterations.
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Affiliation(s)
- Shinya Nakata
- International Institute for Integrative Sleep Medicine (WPI-IIIS), University of Tsukuba, Tsukuba, Ibaraki, Japan
| | - Kanako Iwasaki
- International Institute for Integrative Sleep Medicine (WPI-IIIS), University of Tsukuba, Tsukuba, Ibaraki, Japan
| | - Hiromasa Funato
- International Institute for Integrative Sleep Medicine (WPI-IIIS), University of Tsukuba, Tsukuba, Ibaraki, Japan; Department of Anatomy, Graduate School of Medicine, Toho University, Tokyo, Japan
| | - Masashi Yanagisawa
- International Institute for Integrative Sleep Medicine (WPI-IIIS), University of Tsukuba, Tsukuba, Ibaraki, Japan; Department of Molecular Genetics, University of Texas Southwestern Medical Center, Dallas, TX, USA; Life Science Center for Survival Dynamics, Tsukuba Advanced Research Alliance, University of Tsukuba, Tsukuba, Ibaraki, Japan.
| | - Haruka Ozaki
- Bioinformatics Laboratory, Institute of Medicine, University of Tsukuba, Tsukuba, Ibaraki, Japan; Center for Artificial Intelligence Research, University of Tsukuba, Tsukuba, Ibaraki, Japan.
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31
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Gulbinaite R, Nazari M, Rule ME, Bermudez-Contreras EJ, Cohen MX, Mohajerani MH, Heimel JA. Spatiotemporal resonance in mouse primary visual cortex. Curr Biol 2024; 34:4184-4196.e7. [PMID: 39255789 DOI: 10.1016/j.cub.2024.07.091] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Revised: 07/08/2024] [Accepted: 07/29/2024] [Indexed: 09/12/2024]
Abstract
Human primary visual cortex (V1) responds more strongly, or resonates, when exposed to ∼10, ∼15-20, and ∼40-50 Hz rhythmic flickering light. Full-field flicker also evokes the perception of hallucinatory geometric patterns, which mathematical models explain as standing-wave formations emerging from periodic forcing at resonant frequencies of the simulated neural network. However, empirical evidence for such flicker-induced standing waves in the visual cortex was missing. We recorded cortical responses to flicker in awake mice using high-spatial-resolution widefield imaging in combination with high-temporal-resolution glutamate-sensing fluorescent reporter (iGluSnFR). The temporal frequency tuning curves in the mouse V1 were similar to those observed in humans, showing a banded structure with multiple resonance peaks (8, 15, and 33 Hz). Spatially, all flicker frequencies evoked responses in V1 corresponding to retinotopic stimulus location, but some evoked additional peaks. These flicker-induced cortical patterns displayed standing-wave characteristics and matched linear wave equation solutions in an area restricted to the visual cortex. Taken together, the interaction of periodic traveling waves with cortical area boundaries leads to spatiotemporal activity patterns that may affect perception.
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Affiliation(s)
- Rasa Gulbinaite
- Netherlands Institute for Neuroscience, Meibergdreef 47, 1105 BA Amsterdam, the Netherlands.
| | - Mojtaba Nazari
- Canadian Centre for Behavioral Neuroscience, University of Lethbridge Lethbridge, AB T1K 3M4, Canada
| | - Michael E Rule
- School of Engineering Mathematics and Technology, University of Bristol, Queen's Building, Bristol BS8 1TR, UK
| | | | - Michael X Cohen
- Radboud University Medical Center, Donders Institute for Brain, Cognition, and Behaviour, 6525 EN Nijmegen, the Netherlands
| | - Majid H Mohajerani
- Canadian Centre for Behavioral Neuroscience, University of Lethbridge Lethbridge, AB T1K 3M4, Canada; Department of Psychiatry, Douglas Hospital Research Centre, McGill University, 6875 Boulevard LaSalle, Montréal, QC H4H 1R3, Canada
| | - J Alexander Heimel
- Netherlands Institute for Neuroscience, Meibergdreef 47, 1105 BA Amsterdam, the Netherlands
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32
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Zheng T, Sugino M, Jimbo Y, Ermentrout GB, Kotani K. Analyzing top-down visual attention in the context of gamma oscillations: a layer- dependent network-of- networks approach. Front Comput Neurosci 2024; 18:1439632. [PMID: 39376575 PMCID: PMC11456483 DOI: 10.3389/fncom.2024.1439632] [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: 05/28/2024] [Accepted: 09/03/2024] [Indexed: 10/09/2024] Open
Abstract
Top-down visual attention is a fundamental cognitive process that allows individuals to selectively attend to salient visual stimuli in the environment. Recent empirical findings have revealed that gamma oscillations participate in the modulation of visual attention. However, computational studies face challenges when analyzing the attentional process in the context of gamma oscillation due to the unstable nature of gamma oscillations and the complexity induced by the layered fashion in the visual cortex. In this study, we propose a layer-dependent network-of-networks approach to analyze such attention with gamma oscillations. The model is validated by reproducing empirical findings on orientation preference and the enhancement of neuronal response due to top-down attention. We perform parameter plane analysis to classify neuronal responses into several patterns and find that the neuronal response to sensory and attention signals was modulated by the heterogeneity of the neuronal population. Furthermore, we revealed a counter-intuitive scenario that the excitatory populations in layer 2/3 and layer 5 exhibit opposite responses to the attentional input. By modification of the original model, we confirmed layer 6 plays an indispensable role in such cases. Our findings uncover the layer-dependent dynamics in the cortical processing of visual attention and open up new possibilities for further research on layer-dependent properties in the cerebral cortex.
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Affiliation(s)
- Tianyi Zheng
- Department of Precision Engineering, The University of Tokyo, Tokyo, Japan
| | - Masato Sugino
- Department of Precision Engineering, The University of Tokyo, Tokyo, Japan
| | - Yasuhiko Jimbo
- Department of Precision Engineering, The University of Tokyo, Tokyo, Japan
| | - G. Bard Ermentrout
- Department of Mathematics, University of Pittsburgh, Pittsburgh, PA, United States
| | - Kiyoshi Kotani
- Department of Human and Engineered Environmental Studies, The University of Tokyo, Chiba, Japan
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33
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Zhang LA, Li P, Callaway EM. High-Resolution Laminar Identification in Macaque Primary Visual Cortex Using Neuropixels Probes. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.01.23.576944. [PMID: 38328229 PMCID: PMC10849622 DOI: 10.1101/2024.01.23.576944] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/09/2024]
Abstract
Laminar electrode arrays allow simultaneous recording of activity of many cortical neurons and assignment to layers using current source density (CSD) analyses. Electrode arrays with 100-micron contact spacing have been used to estimate borders between layer 4 versus superficial or deep layers, but in macaque primary visual cortex (V1) there are far more layers, such as 4A which is only 50-100 microns thick. Neuropixels electrode arrays have 20-micron spacing, and thus could potentially discern thinner layers and more precisely identify laminar borders. Here we show that laminar distributions of CSDs lack consistency and the spatial resolution required for thin layers and accurate layer boundaries. To take full advantage of high density Neuropixels arrays, we have developed approaches based on higher resolution electrical signals and analyses, including spike waveforms and spatial spread, unit density, high-frequency action potential (AP) power spectrum, temporal power change, and coherence spectrum, that afford far higher resolution of laminar distinctions, including the ability to precisely detect the borders of even the thinnest layers of V1.
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Affiliation(s)
- Li A. Zhang
- The Salk Institute for Biological Studies, La Jolla, CA 92037, USA
| | - Peichao Li
- Department of Neurology of the Second Affiliated Hospital and Interdisciplinary Institute of Neuroscience and Technology, School of Brain Science and Brain Medicine, Zhejiang University School of Medicine, Hangzhou 310058, China
- Liangzhu Laboratory, MOE Frontier Science Center for Brain Science & Brain-Machine Integration, State Key Laboratory of Brain-machine Intelligence, Zhejiang University, 1369 West Wenyi Road, Hangzhou 311121, China
- NHC and CAMS Key Laboratory of Medical Neurobiology, Zhejiang University, Hangzhou 310058, China
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Riyahi P, Phillips MA, Boley N, Colonnese MT. Experience Dependence of Alpha Rhythms and Neural Dynamics in the Mouse Visual Cortex. J Neurosci 2024; 44:e2011222024. [PMID: 39151954 PMCID: PMC11411595 DOI: 10.1523/jneurosci.2011-22.2024] [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: 10/26/2022] [Revised: 07/13/2024] [Accepted: 08/07/2024] [Indexed: 08/19/2024] Open
Abstract
The role of experience in the development and maintenance of emergent network properties such as cortical oscillations and states is poorly understood. To define how early-life experience affects cortical dynamics in the visual cortex of adult, head-fixed mice, we examined the effects of two forms of blindness initiated before eye opening and continuing through recording: (1) bilateral loss of retinal input (enucleation) and (2) degradation of visual input (eyelid suture). Neither form of deprivation fundamentally altered the state-dependent regulation of firing rates or local field potentials. However, each deprivation caused unique changes in network behavior. Laminar analysis revealed two different generative mechanisms for low-frequency synchronization: one prevalent during movement and the other during quiet wakefulness. The former was absent in enucleated mice, suggesting a mouse homolog of human alpha oscillations. In addition, neurons in enucleated animals were less correlated and fired more regularly, but no change in mean firing rate. Eyelid suture decreased firing rates during quiet wakefulness, but not during movement, with no effect on neural correlations or regularity. Sutured animals showed a broadband increase in depth EEG power and an increased occurrence, but reduced central frequency, of narrowband gamma oscillations. The complementary-rather than additive-effects of lid suture and enucleation suggest that the development of emergent network properties does not require vision but is plastic to modified input. Our results suggest a complex interaction of internal set points and experience determines mature cortical activity, with low-frequency synchronization being particularly susceptible to early deprivation.
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Affiliation(s)
- Pouria Riyahi
- Department of Pharmacology and Physiology, The George Washington University, Washington, District of Columbia 20052
- Department of Biomedical Engineering, The George Washington University School of Medicine, Washington, District of Columbia 20052
| | - Marnie A Phillips
- Department of Pharmacology and Physiology, The George Washington University, Washington, District of Columbia 20052
| | - Nathaniel Boley
- Institute for Biomedical Sciences, The George Washington University School of Medicine, Washington, District of Columbia 20052
| | - Matthew T Colonnese
- Department of Pharmacology and Physiology, The George Washington University, Washington, District of Columbia 20052
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35
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Barzan R, Bozkurt B, Nejad MM, Süß ST, Surdin T, Böke H, Spoida K, Azimi Z, Grömmke M, Eickelbeck D, Mark MD, Rohr L, Siveke I, Cheng S, Herlitze S, Jancke D. Gain control of sensory input across polysynaptic circuitries in mouse visual cortex by a single G protein-coupled receptor type (5-HT 2A). Nat Commun 2024; 15:8078. [PMID: 39277631 PMCID: PMC11401874 DOI: 10.1038/s41467-024-51861-1] [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: 12/01/2022] [Accepted: 08/16/2024] [Indexed: 09/17/2024] Open
Abstract
Response gain is a crucial means by which modulatory systems control the impact of sensory input. In the visual cortex, the serotonergic 5-HT2A receptor is key in such modulation. However, due to its expression across different cell types and lack of methods that allow for specific activation, the underlying network mechanisms remain unsolved. Here we optogenetically activate endogenous G protein-coupled receptor (GPCR) signaling of a single receptor subtype in distinct mouse neocortical subpopulations in vivo. We show that photoactivation of the 5-HT2A receptor pathway in pyramidal neurons enhances firing of both excitatory neurons and interneurons, whereas 5-HT2A photoactivation in parvalbumin interneurons produces bidirectional effects. Combined photoactivation in both cell types and cortical network modelling demonstrates a conductance-driven polysynaptic mechanism that controls the gain of visual input without affecting ongoing baseline levels. Our study opens avenues to explore GPCRs neuromodulation and its impact on sensory-driven activity and ongoing neuronal dynamics.
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Affiliation(s)
- Ruxandra Barzan
- Optical Imaging Group, Institut für Neuroinformatik, Ruhr University Bochum, Bochum, Germany
- International Graduate School of Neuroscience, Ruhr University Bochum, Bochum, Germany
- MEDICE Arzneimittel Pütter GmbH & Co. KG, Iserlohn, Germany
| | - Beyza Bozkurt
- Optical Imaging Group, Institut für Neuroinformatik, Ruhr University Bochum, Bochum, Germany
- International Graduate School of Neuroscience, Ruhr University Bochum, Bochum, Germany
| | - Mohammadreza M Nejad
- Computational Neuroscience, Institute for Neural Computation, Ruhr University Bochum, Bochum, Germany
| | - Sandra T Süß
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Tatjana Surdin
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Hanna Böke
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Katharina Spoida
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Zohre Azimi
- Optical Imaging Group, Institut für Neuroinformatik, Ruhr University Bochum, Bochum, Germany
- International Graduate School of Neuroscience, Ruhr University Bochum, Bochum, Germany
| | - Michelle Grömmke
- Behavioral Neuroscience, Ruhr University Bochum, Bochum, Germany
| | - Dennis Eickelbeck
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Melanie D Mark
- Behavioral Neuroscience, Ruhr University Bochum, Bochum, Germany
| | - Lennard Rohr
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Ida Siveke
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Sen Cheng
- Computational Neuroscience, Institute for Neural Computation, Ruhr University Bochum, Bochum, Germany
| | - Stefan Herlitze
- Department of Zoology and Neurobiology, Ruhr University Bochum, Bochum, Germany
| | - Dirk Jancke
- Optical Imaging Group, Institut für Neuroinformatik, Ruhr University Bochum, Bochum, Germany.
- International Graduate School of Neuroscience, Ruhr University Bochum, Bochum, Germany.
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36
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Zutshi I, Apostolelli A, Yang W, Zheng ZS, Dohi T, Balzani E, Williams AH, Savin C, Buzsáki G. Hippocampal neuronal activity is aligned with action plans. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.09.05.611533. [PMID: 39282373 PMCID: PMC11398474 DOI: 10.1101/2024.09.05.611533] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2025]
Abstract
Neurons in the hippocampus are correlated with different variables, including space, time, sensory cues, rewards, and actions, where the extent of tuning depends on ongoing task demands. However, it remains uncertain whether such diverse tuning corresponds to distinct functions within the hippocampal network or if a more generic computation can account for these observations. To disentangle the contribution of externally driven cues versus internal computation, we developed a task in mice where space, auditory tones, rewards, and context were juxtaposed with changing relevance. High-density electrophysiological recordings revealed that neurons were tuned to each of these modalities. By comparing movement paths and action sequences, we observed that external variables had limited direct influence on hippocampal firing. Instead, spiking was influenced by online action plans modulated by goal uncertainty. Our results suggest that internally generated cell assembly sequences are selected and updated by action plans toward deliberate goals. The apparent tuning of hippocampal neuronal spiking to different sensory modalities might emerge due to alignment to the afforded action progression within a task rather than representation of external cues.
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Bennett C, Ouellette B, Ramirez TK, Cahoon A, Cabasco H, Browning Y, Lakunina A, Lynch GF, McBride EG, Belski H, Gillis R, Grasso C, Howard R, Johnson T, Loeffler H, Smith H, Sullivan D, Williford A, Caldejon S, Durand S, Gale S, Guthrie A, Ha V, Han W, Hardcastle B, Mochizuki C, Sridhar A, Suarez L, Swapp J, Wilkes J, Siegle JH, Farrell C, Groblewski PA, Olsen SR. SHIELD: Skull-shaped hemispheric implants enabling large-scale electrophysiology datasets in the mouse brain. Neuron 2024; 112:2869-2885.e8. [PMID: 38996587 DOI: 10.1016/j.neuron.2024.06.015] [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: 02/12/2024] [Revised: 05/02/2024] [Accepted: 06/18/2024] [Indexed: 07/14/2024]
Abstract
To understand the neural basis of behavior, it is essential to measure spiking dynamics across many interacting brain regions. Although new technologies, such as Neuropixels probes, facilitate multi-regional recordings, significant surgical and procedural hurdles remain for these experiments to achieve their full potential. Here, we describe skull-shaped hemispheric implants enabling large-scale electrophysiology datasets (SHIELD). These 3D-printed skull-replacement implants feature customizable insertion holes, allowing dozens of cortical and subcortical structures to be recorded in a single mouse using repeated multi-probe insertions over many days. We demonstrate the procedure's high success rate, biocompatibility, lack of adverse effects on behavior, and compatibility with imaging and optogenetics. To showcase SHIELD's scientific utility, we use multi-probe recordings to reveal novel insights into how alpha rhythms organize spiking activity across visual and sensorimotor networks. Overall, this method enables powerful, large-scale electrophysiological experiments for the study of distributed neural computation.
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Affiliation(s)
- Corbett Bennett
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA.
| | - Ben Ouellette
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | | | | | - Hannah Cabasco
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Yoni Browning
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Anna Lakunina
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Galen F Lynch
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | | | - Hannah Belski
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Ryan Gillis
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Conor Grasso
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Robert Howard
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Tye Johnson
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Henry Loeffler
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Heston Smith
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | | | | | | | | | - Samuel Gale
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Alan Guthrie
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Vivian Ha
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Warren Han
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Ben Hardcastle
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | | | - Arjun Sridhar
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Lucas Suarez
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Jackie Swapp
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | - Joshua Wilkes
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
| | | | | | | | - Shawn R Olsen
- Allen Institute for Neural Dynamics, Seattle, WA 98109, USA.
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Haziza S, Chrapkiewicz R, Zhang Y, Kruzhilin V, Li J, Li J, Delamare G, Swanson R, Buzsáki G, Kannan M, Vasan G, Lin MZ, Zeng H, Daigle TL, Schnitzer MJ. Imaging high-frequency voltage dynamics in multiple neuron classes of behaving mammals. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.08.15.607428. [PMID: 39185175 PMCID: PMC11343216 DOI: 10.1101/2024.08.15.607428] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/27/2024]
Abstract
Fluorescent genetically encoded voltage indicators report transmembrane potentials of targeted cell-types. However, voltage-imaging instrumentation has lacked the sensitivity to track spontaneous or evoked high-frequency voltage oscillations in neural populations. Here we describe two complementary TEMPO voltage-sensing technologies that capture neural oscillations up to ~100 Hz. Fiber-optic TEMPO achieves ~10-fold greater sensitivity than prior photometry systems, allows hour-long recordings, and monitors two neuron-classes per fiber-optic probe in freely moving mice. With it, we uncovered cross-frequency-coupled theta- and gamma-range oscillations and characterized excitatory-inhibitory neural dynamics during hippocampal ripples and visual cortical processing. The TEMPO mesoscope images voltage activity in two cell-classes across a ~8-mm-wide field-of-view in head-fixed animals. In awake mice, it revealed sensory-evoked excitatory-inhibitory neural interactions and traveling gamma and 3-7 Hz waves in the visual cortex, and previously unreported propagation directions for hippocampal theta and beta waves. These technologies have widespread applications probing diverse oscillations and neuron-type interactions in healthy and diseased brains.
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Affiliation(s)
- Simon Haziza
- James H. Clark Center, Stanford University, Stanford, CA 94305, USA
- CNC Program, Stanford University, Stanford, CA 94305, USA
| | - Radosław Chrapkiewicz
- James H. Clark Center, Stanford University, Stanford, CA 94305, USA
- CNC Program, Stanford University, Stanford, CA 94305, USA
| | - Yanping Zhang
- James H. Clark Center, Stanford University, Stanford, CA 94305, USA
- CNC Program, Stanford University, Stanford, CA 94305, USA
- Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
| | - Vasily Kruzhilin
- James H. Clark Center, Stanford University, Stanford, CA 94305, USA
- CNC Program, Stanford University, Stanford, CA 94305, USA
| | - Jane Li
- James H. Clark Center, Stanford University, Stanford, CA 94305, USA
- CNC Program, Stanford University, Stanford, CA 94305, USA
| | - Jizhou Li
- Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
| | | | - Rachel Swanson
- Neuroscience Institute, Langone Medical Center, New York University, New York, NY 10016, USA
| | - György Buzsáki
- Neuroscience Institute, Langone Medical Center, New York University, New York, NY 10016, USA
- Department of Neurology, Langone Medical Center, New York University, New York, NY 10016, USA
| | - Madhuvanthi Kannan
- Department of Neuroscience, University of Minnesota, Minneapolis, MN 55455, USA
| | - Ganesh Vasan
- Department of Neuroscience, University of Minnesota, Minneapolis, MN 55455, USA
| | - Michael Z Lin
- Departments of Bioengineering & Pediatrics, Stanford University, Stanford CA 94305, USA
| | - Hongkui Zeng
- Allen Institute for Brain Science, Seattle, WA 98109, USA
| | - Tanya L Daigle
- Allen Institute for Brain Science, Seattle, WA 98109, USA
| | - Mark J Schnitzer
- James H. Clark Center, Stanford University, Stanford, CA 94305, USA
- CNC Program, Stanford University, Stanford, CA 94305, USA
- Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA
- Lead contact
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39
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Karaba LA, Robinson HL, Harvey RE, Chen W, Fernandez-Ruiz A, Oliva A. A hippocampal circuit mechanism to balance memory reactivation during sleep. Science 2024; 385:738-743. [PMID: 39146421 PMCID: PMC11428313 DOI: 10.1126/science.ado5708] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Accepted: 06/14/2024] [Indexed: 08/17/2024]
Abstract
Memory consolidation involves the synchronous reactivation of hippocampal cells active during recent experience in sleep sharp-wave ripples (SWRs). How this increase in firing rates and synchrony after learning is counterbalanced to preserve network stability is not understood. We discovered a network event generated by an intrahippocampal circuit formed by a subset of CA2 pyramidal cells to cholecystokinin-expressing (CCK+) basket cells, which fire a barrage of action potentials ("BARR") during non-rapid eye movement sleep. CA1 neurons and assemblies that increased their activity during learning were reactivated during SWRs but inhibited during BARRs. The initial increase in reactivation during SWRs returned to baseline through sleep. This trend was abolished by silencing CCK+ basket cells during BARRs, resulting in higher synchrony of CA1 assemblies and impaired memory consolidation.
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Affiliation(s)
| | | | - Ryan E. Harvey
- Department of Neurobiology and Behavior, Cornell University, Ithaca, NY, USA
| | - Weiwei Chen
- Department of Neurobiology and Behavior, Cornell University, Ithaca, NY, USA
| | | | - Azahara Oliva
- Department of Neurobiology and Behavior, Cornell University, Ithaca, NY, USA
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Miyashita Y. Cortical Layer-Dependent Signaling in Cognition: Three Computational Modes of the Canonical Circuit. Annu Rev Neurosci 2024; 47:211-234. [PMID: 39115926 DOI: 10.1146/annurev-neuro-081623-091311] [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] [Indexed: 08/10/2024]
Abstract
The cerebral cortex performs computations via numerous six-layer modules. The operational dynamics of these modules were studied primarily in early sensory cortices using bottom-up computation for response selectivity as a model, which has been recently revolutionized by genetic approaches in mice. However, cognitive processes such as recall and imagery require top-down generative computation. The question of whether the layered module operates similarly in top-down generative processing as in bottom-up sensory processing has become testable by advances in the layer identification of recorded neurons in behaving monkeys. This review examines recent advances in laminar signaling in these two computations, using predictive coding computation as a common reference, and shows that each of these computations recruits distinct laminar circuits, particularly in layer 5, depending on the cognitive demands. These findings highlight many open questions, including how different interareal feedback pathways, originating from and terminating at different layers, convey distinct functional signals.
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Affiliation(s)
- Yasushi Miyashita
- Department of Physiology, The University of Tokyo School of Medicine, Tokyo, Japan;
- Juntendo University Graduate School of Medicine, Tokyo, Japan
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41
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Kajikawa Y, Mackey CA, O’Connell MN. Laminar pattern of sensory-evoked dynamic high-frequency oscillatory activity in the macaque auditory cortex. Cereb Cortex 2024; 34:bhae338. [PMID: 39128941 PMCID: PMC11317206 DOI: 10.1093/cercor/bhae338] [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: 04/16/2024] [Revised: 07/17/2024] [Accepted: 07/26/2024] [Indexed: 08/13/2024] Open
Abstract
High-frequency (>60 Hz) neuroelectric signals likely have functional roles distinct from low-frequency (<30 Hz) signals. While high-gamma activity (>60 Hz) does not simply equate to neuronal spiking, they are highly correlated, having similar information encoding. High-gamma activity is typically considered broadband and poorly phase-locked to sensory stimuli and thus is typically analyzed after transformations into absolute amplitude or spectral power. However, those analyses discard signal polarity, compromising the interpretation of neuroelectric events that are essentially dipolar. In the spectrotemporal profiles of field potentials in auditory cortex, we show high-frequency spectral peaks not phase-locked to sound onset, which follow the broadband peak of phase-locked onset responses. Isolating the signal components comprising the high-frequency peaks reveals narrow-band high-frequency oscillatory events, whose instantaneous frequency changes rapidly from >150 to 60 Hz, which may underlie broadband high-frequency spectral peaks in previous reports. The laminar amplitude distributions of the isolated activity had two peak positions, while the laminar phase patterns showed a counterphase relationship between those peaks, indicating the formation of dipoles. Our findings suggest that nonphase-locked HGA arises in part from oscillatory or recurring activity of supragranular-layer neuronal ensembles in auditory cortex.
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Affiliation(s)
- Yoshinao Kajikawa
- Center for Biomedical Imaging and Neuromodulation, Nathan S. Kline Institute for Psychiatric Research, 140 Old Orangeburg Rd, Orangeburg, NY 10962, USA
- Department of Psychiatry, New York University School of Medicine, 550 First Avenue, New York, NY 10016, USA
| | - Chase A Mackey
- Center for Biomedical Imaging and Neuromodulation, Nathan S. Kline Institute for Psychiatric Research, 140 Old Orangeburg Rd, Orangeburg, NY 10962, USA
| | - Monica Noelle O’Connell
- Center for Biomedical Imaging and Neuromodulation, Nathan S. Kline Institute for Psychiatric Research, 140 Old Orangeburg Rd, Orangeburg, NY 10962, USA
- Department of Psychiatry, New York University School of Medicine, 550 First Avenue, New York, NY 10016, USA
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42
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Iwase M, Diba K, Pastalkova E, Mizuseki K. Dynamics of spike transmission and suppression between principal cells and interneurons in the hippocampus and entorhinal cortex. Hippocampus 2024; 34:393-421. [PMID: 38874439 DOI: 10.1002/hipo.23612] [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: 12/01/2023] [Revised: 03/29/2024] [Accepted: 05/07/2024] [Indexed: 06/15/2024]
Abstract
Synaptic excitation and inhibition are essential for neuronal communication. However, the variables that regulate synaptic excitation and inhibition in the intact brain remain largely unknown. Here, we examined how spike transmission and suppression between principal cells (PCs) and interneurons (INTs) are modulated by activity history, brain state, cell type, and somatic distance between presynaptic and postsynaptic neurons by applying cross-correlogram analyses to datasets recorded from the dorsal hippocampus and medial entorhinal cortex (MEC) of 11 male behaving and sleeping Long Evans rats. The strength, temporal delay, and brain-state dependency of the spike transmission and suppression depended on the subregions/layers. The spike transmission probability of PC-INT excitatory pairs that showed short-term depression versus short-term facilitation was higher in CA1 and lower in CA3. Likewise, the intersomatic distance affected the proportion of PC-INT excitatory pairs that showed short-term depression and facilitation in the opposite manner in CA1 compared with CA3. The time constant of depression was longer, while that of facilitation was shorter in MEC than in CA1 and CA3. During sharp-wave ripples, spike transmission showed a larger gain in the MEC than in CA1 and CA3. The intersomatic distance affected the spike transmission gain during sharp-wave ripples differently in CA1 versus CA3. A subgroup of MEC layer 3 (EC3) INTs preferentially received excitatory inputs from and inhibited MEC layer 2 (EC2) PCs. The EC2 PC-EC3 INT excitatory pairs, most of which showed short-term depression, exhibited higher spike transmission probabilities than the EC2 PC-EC2 INT and EC3 PC-EC3 INT excitatory pairs. EC2 putative stellate cells exhibited stronger spike transmission to and received weaker spike suppression from EC3 INTs than EC2 putative pyramidal cells. This study provides detailed comparisons of monosynaptic interaction dynamics in the hippocampal-entorhinal loop, which may help to elucidate circuit operations.
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Affiliation(s)
- Motosada Iwase
- Department of Physiology, Graduate School of Medicine, Osaka City University, Osaka, Japan
- Department of Physiology, Graduate School of Medicine, Osaka Metropolitan University, Osaka, Japan
| | - Kamran Diba
- Department of Anesthesiology, Neuroscience Graduate Program, University of Michigan Medical School, Ann Arbor, Michigan, USA
| | - Eva Pastalkova
- The William Alanson White Institute of Psychiatry, Psychoanalysis & Psychology, New York, New York, USA
| | - Kenji Mizuseki
- Department of Physiology, Graduate School of Medicine, Osaka City University, Osaka, Japan
- Department of Physiology, Graduate School of Medicine, Osaka Metropolitan University, Osaka, Japan
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43
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Spyropoulos G, Schneider M, van Kempen J, Gieselmann MA, Thiele A, Vinck M. Distinct feedforward and feedback pathways for cell-type specific attention effects. Neuron 2024; 112:2423-2434.e7. [PMID: 38759641 PMCID: PMC7616856 DOI: 10.1016/j.neuron.2024.04.020] [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: 04/19/2023] [Revised: 02/12/2024] [Accepted: 04/17/2024] [Indexed: 05/19/2024]
Abstract
Selective attention is thought to depend on enhanced firing activity in extrastriate areas. Theories suggest that this enhancement depends on selective inter-areal communication via gamma (30-80 Hz) phase-locking. To test this, we simultaneously recorded from different cell types and cortical layers of macaque V1 and V4. We find that while V1-V4 gamma phase-locking between local field potentials increases with attention, the V1 gamma rhythm does not engage V4 excitatory-neurons, but only fast-spiking interneurons in L4 of V4. By contrast, attention enhances V4 spike-rates in both excitatory and inhibitory cells, most strongly in L2/3. The rate increase in L2/3 of V4 precedes V1 in time. These findings suggest enhanced signal transmission with attention does not depend on inter-areal gamma phase-locking and show that the endogenous gamma rhythm has cell-type- and layer-specific effects on downstream target areas. Similar findings were made in the mouse visual system, based on opto-tagging of identified interneurons.
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Affiliation(s)
- Georgios Spyropoulos
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany
| | - Marius Schneider
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany; Donders Centre for Neuroscience, Department of Neuroinformatics, Radboud University Nijmegen, 6525 Nijmegen, the Netherlands
| | - Jochem van Kempen
- Biosciences Institute, Newcastle University, Newcastle upon Tyne NE1 7RU, UK
| | | | - Alexander Thiele
- Biosciences Institute, Newcastle University, Newcastle upon Tyne NE1 7RU, UK
| | - Martin Vinck
- Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society, 60528 Frankfurt am Main, Germany; Donders Centre for Neuroscience, Department of Neuroinformatics, Radboud University Nijmegen, 6525 Nijmegen, the Netherlands.
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Handa T, Zhang Q, Aizawa H. Cholinergic modulation of interhemispheric inhibition in the mouse motor cortex. Cereb Cortex 2024; 34:bhae290. [PMID: 39042031 DOI: 10.1093/cercor/bhae290] [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: 02/06/2024] [Revised: 06/19/2024] [Accepted: 07/10/2024] [Indexed: 07/24/2024] Open
Abstract
Interhemispheric inhibition of the homotopic motor cortex is believed to be effective for accurate unilateral motor function. However, the cellular mechanisms underlying interhemispheric inhibition during unilateral motor behavior remain unclear. Furthermore, the impact of the neuromodulator acetylcholine on interhemispheric inhibition and the associated cellular mechanisms are not well understood. To address this knowledge gap, we conducted recordings of neuronal activity from the bilateral motor cortex of mice during the paw-reaching task. Subsequently, we analyzed interhemispheric spike correlation at the cell-pair level, classifying putative cell types to explore the underlying cellular circuitry mechanisms of interhemispheric inhibition. We found a cell-type pair-specific enhancement of the interhemispheric spike correlation when the mice were engaged in the reaching task. We also found that the interhemispheric spike correlation was modulated by pharmacological acetylcholine manipulation. The local field responses to contralateral excitation differed along the cortical depths, and muscarinic receptor antagonism enhanced the inhibitory component of the field response in deep layers. The muscarinic subtype M2 receptor is predominantly expressed in deep cortical neurons, including GABAergic interneurons. These results suggest that GABAergic interneurons expressing muscarinic receptors in deep layers mediate the neuromodulation of interhemispheric inhibition in the homotopic motor cortex.
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Affiliation(s)
- Takashi Handa
- Department of Neurobiology, Graduate School of Biomedical and Health Sciences, Hiroshima University, 1-2-3 Kasumi, Minami-ku, Hiroshima City, Hiroshima 734-8553, Japan
| | - Qing Zhang
- Department of Neurobiology, Graduate School of Biomedical and Health Sciences, Hiroshima University, 1-2-3 Kasumi, Minami-ku, Hiroshima City, Hiroshima 734-8553, Japan
| | - Hidenori Aizawa
- Department of Neurobiology, Graduate School of Biomedical and Health Sciences, Hiroshima University, 1-2-3 Kasumi, Minami-ku, Hiroshima City, Hiroshima 734-8553, Japan
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45
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Jungmann RM, Feliciano T, Aguiar LAA, Soares-Cunha C, Coimbra B, Rodrigues AJ, Copelli M, Matias FS, de Vasconcelos NAP, Carelli PV. State-dependent complexity of the local field potential in the primary visual cortex. Phys Rev E 2024; 110:014402. [PMID: 39160943 DOI: 10.1103/physreve.110.014402] [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: 12/13/2023] [Accepted: 06/06/2024] [Indexed: 08/21/2024]
Abstract
The local field potential (LFP) is as a measure of the combined activity of neurons within a region of brain tissue. While biophysical modeling schemes for LFP in cortical circuits are well established, there is a paramount lack of understanding regarding the LFP properties along the states assumed in cortical circuits over long periods. Here we use a symbolic information approach to determine the statistical complexity based on Jensen disequilibrium measure and Shannon entropy of LFP data recorded from the primary visual cortex (V1) of urethane-anesthetized rats and freely moving mice. Using these information quantifiers, we find consistent relations between LFP recordings and measures of cortical states at the neuronal level. More specifically, we show that LFP's statistical complexity is sensitive to cortical state (characterized by spiking variability), as well as to cortical layer. In addition, we apply these quantifiers to characterize behavioral states of freely moving mice, where we find indirect relations between such states and spiking variability.
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Affiliation(s)
| | | | | | - Carina Soares-Cunha
- Life and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga 4710-057, Portugal
- ICVS/3B's-PT Government Associate Laboratory, Braga/Guimarães 4710-057, Portugal
| | - Bárbara Coimbra
- Life and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga 4710-057, Portugal
- ICVS/3B's-PT Government Associate Laboratory, Braga/Guimarães 4710-057, Portugal
| | - Ana João Rodrigues
- Life and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga 4710-057, Portugal
- ICVS/3B's-PT Government Associate Laboratory, Braga/Guimarães 4710-057, Portugal
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46
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Ratliff JM, Terral G, Lutzu S, Heiss J, Mota J, Stith B, Lechuga AV, Ramakrishnan C, Fenno LE, Daigle T, Deisseroth K, Zeng H, Ngai J, Tasic B, Sjulson L, Rudolph S, Kilduff TS, Batista-Brito R. Neocortical long-range inhibition promotes cortical synchrony and sleep. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.06.20.599756. [PMID: 38948753 PMCID: PMC11213009 DOI: 10.1101/2024.06.20.599756] [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: 07/02/2024]
Abstract
Behavioral states such as sleep and wake are highly correlated with specific patterns of rhythmic activity in the cortex. During low arousal states such as slow wave sleep, the cortex is synchronized and dominated by low frequency rhythms coordinated across multiple regions. Although recent evidence suggests that GABAergic inhibitory neurons are key players in cortical state modulation, the in vivo circuit mechanisms coordinating synchronized activity among local and distant neocortical networks are not well understood. Here, we show that somatostatin and chondrolectin co-expressing cells (Sst-Chodl cells), a sparse and unique class of neocortical inhibitory neurons, are selectively active during low arousal states and are largely silent during periods of high arousal. In contrast to other neocortical inhibitory neurons, we show these neurons have long-range axons that project across neocortical areas. Activation of Sst-Chodl cells is sufficient to promote synchronized cortical states characteristic of low arousal, with increased spike co-firing and low frequency brain rhythms, and to alter behavioral states by promoting sleep. Contrary to the prevailing belief that sleep is exclusively driven by subcortical mechanisms, our findings reveal that these long-range inhibitory neurons not only track changes in behavioral state but are sufficient to induce both sleep-like cortical states and sleep behavior, establishing a crucial circuit component in regulating behavioral states.
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Affiliation(s)
- Jacob M Ratliff
- Albert Einstein College of Medicine, New York City, NY, United States
| | - Geoffrey Terral
- Albert Einstein College of Medicine, New York City, NY, United States
| | - Stefano Lutzu
- Albert Einstein College of Medicine, New York City, NY, United States
| | - Jaime Heiss
- Biosciences Division, SRI International, Menlo Park, CA 94025, United States
| | - Julie Mota
- Albert Einstein College of Medicine, New York City, NY, United States
| | - Bianca Stith
- Albert Einstein College of Medicine, New York City, NY, United States
| | | | | | - Lief E Fenno
- The University of Texas at Austin, Austin, TX, United States
| | - Tanya Daigle
- Allen Institute for Brain Science, Seattle, WA, United States
| | | | - Hongkui Zeng
- Allen Institute for Brain Science, Seattle, WA, United States
| | - John Ngai
- National Institute of Neurological Disease and Stroke, Bethesda, MD, United States
| | - Bosiljka Tasic
- Allen Institute for Brain Science, Seattle, WA, United States
| | - Lucas Sjulson
- Albert Einstein College of Medicine, New York City, NY, United States
| | - Stephanie Rudolph
- Albert Einstein College of Medicine, New York City, NY, United States
| | - Thomas S. Kilduff
- Biosciences Division, SRI International, Menlo Park, CA 94025, United States
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47
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Chen K, Forrest AM, Burgos GG, Kozai TDY. Neuronal functional connectivity is impaired in a layer dependent manner near chronically implanted intracortical microelectrodes in C57BL6 wildtype mice. J Neural Eng 2024; 21:10.1088/1741-2552/ad5049. [PMID: 38788704 PMCID: PMC11948186 DOI: 10.1088/1741-2552/ad5049] [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: 11/06/2023] [Accepted: 05/24/2024] [Indexed: 05/26/2024]
Abstract
Objective.This study aims to reveal longitudinal changes in functional network connectivity within and across different brain structures near chronically implanted microelectrodes. While it is well established that the foreign-body response (FBR) contributes to the gradual decline of the signals recorded from brain implants over time, how the FBR affects the functional stability of neural circuits near implanted brain-computer interfaces (BCIs) remains unknown. This research aims to illuminate how the chronic FBR can alter local neural circuit function and the implications for BCI decoders.Approach.This study utilized single-shank, 16-channel,100µm site-spacing Michigan-style microelectrodes (3 mm length, 703µm2 site area) that span all cortical layers and the hippocampal CA1 region. Sex balanced C57BL6 wildtype mice (11-13 weeks old) received perpendicularly implanted microelectrode in left primary visual cortex. Electrophysiological recordings were performed during both spontaneous activity and visual sensory stimulation. Alterations in neuronal activity near the microelectrode were tested assessing cross-frequency synchronization of local field potential (LFP) and spike entrainment to LFP oscillatory activity throughout 16 weeks after microelectrode implantation.Main results. The study found that cortical layer 4, the input-receiving layer, maintained activity over the implantation time. However, layers 2/3 rapidly experienced severe impairment, leading to a loss of proper intralaminar connectivity in the downstream output layers 5/6. Furthermore, the impairment of interlaminar connectivity near the microelectrode was unidirectional, showing decreased connectivity from Layers 2/3 to Layers 5/6 but not the reverse direction. In the hippocampus, CA1 neurons gradually became unable to properly entrain to the surrounding LFP oscillations.Significance. This study provides a detailed characterization of network connectivity dysfunction over long-term microelectrode implantation periods. This new knowledge could contribute to the development of targeted therapeutic strategies aimed at improving the health of the tissue surrounding brain implants and potentially inform engineering of adaptive decoders as the FBR progresses. Our study's understanding of the dynamic changes in the functional network over time opens the door to developing interventions for improving the long-term stability and performance of intracortical microelectrodes.
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Affiliation(s)
- Keying Chen
- Department of Bioengineering, University of Pittsburgh, Pittsburgh, PA, United States of America
- Center for Neural Basis of Cognition, Pittsburgh, PA, United States of America
| | - Adam M Forrest
- Department of Bioengineering, University of Pittsburgh, Pittsburgh, PA, United States of America
- Center for Neural Basis of Cognition, Pittsburgh, PA, United States of America
| | | | - Takashi D Y Kozai
- Department of Bioengineering, University of Pittsburgh, Pittsburgh, PA, United States of America
- Center for Neural Basis of Cognition, Pittsburgh, PA, United States of America
- Center for Neuroscience, University of Pittsburgh, Pittsburgh, PA, United States of America
- McGowan Institute of Regenerative Medicine, University of Pittsburgh, Pittsburgh, PA, United States of America
- NeuroTech Center, University of Pittsburgh Brain Institute, Pittsburgh, PA, United States of America
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48
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Xiao S, Cunningham WJ, Kondabolu K, Lowet E, Moya MV, Mount RA, Ravasio C, Bortz E, Shaw D, Economo MN, Han X, Mertz J. Large-scale deep tissue voltage imaging with targeted-illumination confocal microscopy. Nat Methods 2024; 21:1094-1102. [PMID: 38840033 PMCID: PMC11500676 DOI: 10.1038/s41592-024-02275-w] [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: 07/04/2023] [Accepted: 04/09/2024] [Indexed: 06/07/2024]
Abstract
Voltage imaging with cellular specificity has been made possible by advances in genetically encoded voltage indicators. However, the kilohertz rates required for voltage imaging lead to weak signals. Moreover, out-of-focus fluorescence and tissue scattering produce background that both undermines the signal-to-noise ratio and induces crosstalk between cells, making reliable in vivo imaging in densely labeled tissue highly challenging. We describe a microscope that combines the distinct advantages of targeted illumination and confocal gating while also maximizing signal detection efficiency. The resulting benefits in signal-to-noise ratio and crosstalk reduction are quantified experimentally and theoretically. Our microscope provides a versatile solution for enabling high-fidelity in vivo voltage imaging at large scales and penetration depths, which we demonstrate across a wide range of imaging conditions and different genetically encoded voltage indicator classes.
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Affiliation(s)
- Sheng Xiao
- Department of Biomedical Engineering, Boston University, Boston, MA, USA.
| | | | | | - Eric Lowet
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
- Department of Neuroscience, Erasmus MC, Rotterdam, the Netherlands
| | - Maria V Moya
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
| | - Rebecca A Mount
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
| | - Cara Ravasio
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
| | - Emma Bortz
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
| | - Dana Shaw
- Graduate Program for Neuroscience, Boston University, Boston, MA, USA
- Neurophotonics Center, Boston University, Boston, MA, USA
| | - Michael N Economo
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
- Neurophotonics Center, Boston University, Boston, MA, USA
| | - Xue Han
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
- Neurophotonics Center, Boston University, Boston, MA, USA
| | - Jerome Mertz
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
- Neurophotonics Center, Boston University, Boston, MA, USA
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Beau M, Herzfeld DJ, Naveros F, Hemelt ME, D’Agostino F, Oostland M, Sánchez-López A, Chung YY, Michael Maibach, Kyranakis S, Stabb HN, Martínez Lopera MG, Lajko A, Zedler M, Ohmae S, Hall NJ, Clark BA, Cohen D, Lisberger SG, Kostadinov D, Hull C, Häusser M, Medina JF. A deep-learning strategy to identify cell types across species from high-density extracellular recordings. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.01.30.577845. [PMID: 38352514 PMCID: PMC10862837 DOI: 10.1101/2024.01.30.577845] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 02/23/2024]
Abstract
High-density probes allow electrophysiological recordings from many neurons simultaneously across entire brain circuits but don't reveal cell type. Here, we develop a strategy to identify cell types from extracellular recordings in awake animals, revealing the computational roles of neurons with distinct functional, molecular, and anatomical properties. We combine optogenetic activation and pharmacology using the cerebellum as a testbed to generate a curated ground-truth library of electrophysiological properties for Purkinje cells, molecular layer interneurons, Golgi cells, and mossy fibers. We train a semi-supervised deep-learning classifier that predicts cell types with greater than 95% accuracy based on waveform, discharge statistics, and layer of the recorded neuron. The classifier's predictions agree with expert classification on recordings using different probes, in different laboratories, from functionally distinct cerebellar regions, and across animal species. Our classifier extends the power of modern dynamical systems analyses by revealing the unique contributions of simultaneously-recorded cell types during behavior.
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Affiliation(s)
- Maxime Beau
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - David J. Herzfeld
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Francisco Naveros
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA
- Department of Computer Engineering, Automation and Robotics, Research Centre for Information and Communication Technologies, University of Granada, Granada, Spain
| | - Marie E. Hemelt
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Federico D’Agostino
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Marlies Oostland
- Wolfson Institute for Biomedical Research, University College London, London, UK
- Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, the Netherlands
| | | | - Young Yoon Chung
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Michael Maibach
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Stephen Kyranakis
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA
| | - Hannah N. Stabb
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | | | - Agoston Lajko
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Marie Zedler
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Shogo Ohmae
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA
| | - Nathan J. Hall
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Beverley A. Clark
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Dana Cohen
- The Leslie and Susan Gonda Multidisciplinary Brain Research Center, Bar-Ilan University, Ramat-Gan, Israel
| | | | - Dimitar Kostadinov
- Wolfson Institute for Biomedical Research, University College London, London, UK
- Centre for Developmental Neurobiology, King’s College London, London, UK
| | - Court Hull
- Department of Neurobiology, Duke University School of Medicine, Durham, NC, USA
| | - Michael Häusser
- Wolfson Institute for Biomedical Research, University College London, London, UK
| | - Javier F. Medina
- Department of Neuroscience, Baylor College of Medicine, Houston, TX, USA
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50
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Shipkov D, Nasretdinov A, Khazipov R, Valeeva G. Synchronous excitation in the superficial and deep layers of the medial entorhinal cortex precedes early sharp waves in the neonatal rat hippocampus. Front Cell Neurosci 2024; 18:1403073. [PMID: 38737704 PMCID: PMC11082381 DOI: 10.3389/fncel.2024.1403073] [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: 03/18/2024] [Accepted: 04/15/2024] [Indexed: 05/14/2024] Open
Abstract
Early Sharp Waves (eSPWs) are the earliest pattern of network activity in the developing hippocampus of neonatal rodents. eSPWs were originally considered to be an immature prototype of adult SPWs, which are spontaneous top-down hippocampal events that are self-generated in the hippocampal circuitry. However, recent studies have shifted this paradigm to a bottom-up model of eSPW genesis, in which eSPWs are primarily driven by the inputs from the layers 2/3 of the medial entorhinal cortex (MEC). A hallmark of the adult SPWs is the relay of information from the CA1 hippocampus to target structures, including deep layers of the EC. Whether and how deep layers of the MEC are activated during eSPWs in the neonates remains elusive. In this study, we investigated activity in layer 5 of the MEC of neonatal rat pups during eSPWs using silicone probe recordings from the MEC and CA1 hippocampus. We found that neurons in deep and superficial layers of the MEC fire synchronously during MEC sharp potentials, and that neuronal firing in both superficial and deep layers of the MEC precedes the activation of CA1 neurons during eSPWs. Thus, the sequence of activation of CA1 hippocampal neurons and deep EC neurons during sharp waves reverses during development, from a lead of deep EC neurons during eSPWs in neonates to a lead of CA1 neurons during adult SPWs. These findings suggest another important difference in the generative mechanisms and possible functional roles of eSPWs compared to adult SPWs.
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Affiliation(s)
- Dmitrii Shipkov
- Laboratory of Neurobiology, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Azat Nasretdinov
- Laboratory of Neurobiology, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
| | - Roustem Khazipov
- Laboratory of Neurobiology, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
- INMED - INSERM, Aix-Marseille University, Marseille, France
| | - Guzel Valeeva
- Laboratory of Neurobiology, Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, Russia
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