1
|
Peron T. The networkness of the brain: Comment on "Does the brain behave like a (complex) network? I. Dynamics" by Papo and Buldú. Phys Life Rev 2024; 49:71-73. [PMID: 38518517 DOI: 10.1016/j.plrev.2024.03.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2024] [Accepted: 03/11/2024] [Indexed: 03/24/2024]
Affiliation(s)
- Thomas Peron
- Institute of Mathematics and Computer Science, University of São Paulo, São Carlos 13566-590, São Paulo, Brazil.
| |
Collapse
|
2
|
Zhang L, Xu F, Neri F. An Asynchronous Spiking Neural Membrane System for Edge Detection. Int J Neural Syst 2024; 34:2450023. [PMID: 38490956 DOI: 10.1142/s0129065724500230] [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: 03/17/2024]
Abstract
Spiking neural membrane systems (SN P systems) are a class of bio-inspired models inspired by the activities and connectivity of neurons. Extensive studies have been made on SN P systems with synchronization-based communication, while further efforts are needed for the systems with rhythm-based communication. In this work, we design an asynchronous SN P system with resonant connections where all the enabled neurons in the same group connected by resonant connections should instantly produce spikes with the same rhythm. In the designed system, each of the three modules implements one type of the three operations associated with the edge detection of digital images, and they collaborate each other through the resonant connections. An algorithm called EDSNP for edge detection is proposed to simulate the working of the designed asynchronous SN P system. A quantitative analysis of EDSNP and the related methods for edge detection had been conducted to evaluate the performance of EDSNP. The performance of the EDSNP in processing the testing images is superior to the compared methods, based on the quantitative metrics of accuracy, error rate, mean square error, peak signal-to-noise ratio and true positive rate. The results indicate the potential of the temporal firing and the proper neuronal connections in the SN P system to achieve good performance in edge detection.
Collapse
Affiliation(s)
- Luping Zhang
- Jiangxi Engineering Technology Research Center of Nuclear, Geoscience Data Science and System, Jiangxi Engineering Laboratory on Radioactive Geoscience and Big Data Technology, School of Information Engineering, East China University of Technology, Nanchang 330013, Jiangxi, P. R. China
| | - Fei Xu
- Key Laboratory of Image Information Processing and Intelligent Control of Education Ministry of China, School of Artificial Intelligence and Automation, Huazhong University of Science and Technology, Wuhan 430074, P. R. China
| | - Ferrante Neri
- NICE Research Group, School of Computer Science and Electronic Engineering, University of Surrey, Guildford, Surrey GU2 7XH, UK
| |
Collapse
|
3
|
Mohan UR, Zhang H, Ermentrout B, Jacobs J. The direction of theta and alpha travelling waves modulates human memory processing. Nat Hum Behav 2024; 8:1124-1135. [PMID: 38459263 DOI: 10.1038/s41562-024-01838-3] [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: 07/14/2023] [Accepted: 01/24/2024] [Indexed: 03/10/2024]
Abstract
To support a range of behaviours, the brain must flexibly coordinate neural activity across widespread brain regions. One potential mechanism for this coordination is a travelling wave, in which a neural oscillation propagates across the brain while organizing the order and timing of activity across regions. Although travelling waves are present across the brain in various species, their potential functional relevance has remained unknown. Here, using rare direct human brain recordings, we demonstrate a distinct functional role for travelling waves of theta- and alpha-band (2-13 Hz) oscillations in the cortex. Travelling waves propagate in different directions during separate cognitive processes. In episodic memory, travelling waves tended to propagate in a posterior-to-anterior direction during successful memory encoding and in an anterior-to-posterior direction during recall. Because travelling waves of oscillations correspond to local neuronal spiking, these patterns indicate that rhythmic pulses of activity move across the brain in different directions for separate behaviours. More broadly, our results suggest a fundamental role for travelling waves and oscillations in dynamically coordinating neural connectivity, by flexibly organizing the timing and directionality of network interactions across the cortex to support cognition and behaviour.
Collapse
Affiliation(s)
- Uma R Mohan
- Surgical Neurology Branch, NINDS, National Institutes of Health, Bethesda, MD, USA
| | | | - Bard Ermentrout
- Department of Mathematics, University of Pittsburgh, Pittsburgh, PA, USA
| | - Joshua Jacobs
- Department of Biomedical Engineering, Columbia University, New York City, NY, USA.
- Department of Neurological Surgery, Columbia University, New York City, NY, USA.
| |
Collapse
|
4
|
Khanjanianpak M, Azimi-Tafreshi N, Valizadeh A. Emergence of complex oscillatory dynamics in the neuronal networks with long activity time of inhibitory synapses. iScience 2024; 27:109401. [PMID: 38532887 PMCID: PMC10963234 DOI: 10.1016/j.isci.2024.109401] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Revised: 12/30/2023] [Accepted: 02/28/2024] [Indexed: 03/28/2024] Open
Abstract
The brain displays complex dynamics, including collective oscillations, and extensive research has been conducted to understand their generation. However, our understanding of how biological constraints influence these oscillations is incomplete. This study investigates the essential properties of neuronal networks needed to generate oscillations resembling those in the brain. A simple discrete-time model of interconnected excitable elements is developed, capable of closely resembling the complex oscillations observed in biological neural networks. In the model, synaptic connections remain active for a duration exceeding individual neuron activity. We show that the inhibitory synapses must exhibit longer activity than excitatory synapses to produce a diverse range of the dynamical states, including biologically plausible oscillations. Upon meeting this condition, the transition between different dynamical states can be controlled by external stochastic input to the neurons. The study provides a comprehensive explanation for the emergence of distinct dynamical states in neural networks based on specific parameters.
Collapse
Affiliation(s)
- Mozhgan Khanjanianpak
- Physics Department, Institute for Advanced Studies in Basic Sciences (IASBS), Zanjan 45137-66731, Iran
- Pasargad Institute for Advanced Innovative Solutions (PIAIS), Tehran 1991633357, Iran
| | - Nahid Azimi-Tafreshi
- Physics Department, Institute for Advanced Studies in Basic Sciences (IASBS), Zanjan 45137-66731, Iran
| | - Alireza Valizadeh
- Physics Department, Institute for Advanced Studies in Basic Sciences (IASBS), Zanjan 45137-66731, Iran
- Pasargad Institute for Advanced Innovative Solutions (PIAIS), Tehran 1991633357, Iran
| |
Collapse
|
5
|
Kim Y, Kim H, Oh K, Park JH, Baek CK. Highly biomimetic spiking neuron using SiGe heterojunction bipolar transistors for energy-efficient neuromorphic systems. Sci Rep 2024; 14:8356. [PMID: 38594291 PMCID: PMC11004001 DOI: 10.1038/s41598-024-58962-3] [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: 01/09/2024] [Accepted: 04/05/2024] [Indexed: 04/11/2024] Open
Abstract
We demonstrate a highly biomimetic spiking neuron capable of fast and energy-efficient neuronal oscillation dynamics. Our simple neuron circuit is constructed using silicon-germanium heterojunction based bipolar transistors (HBTs) with nanowire structure. The HBT has a hysteresis window with steep switching characteristics and high current margin in the low voltage range, which enables a high spiking frequency (~ 245 kHz) with low energy consumption (≤ 1.37 pJ/spike). Also, gated structure achieves a stable balance in the activity of the neural system by incorporating both excitatory and inhibitory signal. Furthermore, inhibition of multiple strengths can be realized by adjusting the integration time according to the amplitude of the inhibitory signal. In addition, the spiking frequency can be tuned by mutually controlling the hysteresis window in the HBTs. These results ensure the sparse activity and homeostasis of neural networks.
Collapse
Affiliation(s)
- Yijoon Kim
- Department of Convergence IT Engineering, Pohang University of Science and Technology (POSTECH), Pohang, 37673, South Korea
| | - Hyangwoo Kim
- Future IT Innovation Laboratory, Pohang University of Science and Technology (POSTECH), Pohang, 37673, South Korea
| | - Kyounghwan Oh
- Department of Electrical Engineering, Pohang University of Science and Technology (POSTECH), Pohang, 37673, South Korea
| | - Ju Hong Park
- Department of Convergence IT Engineering, Pohang University of Science and Technology (POSTECH), Pohang, 37673, South Korea
| | - Chang-Ki Baek
- Department of Convergence IT Engineering, Pohang University of Science and Technology (POSTECH), Pohang, 37673, South Korea.
- Future IT Innovation Laboratory, Pohang University of Science and Technology (POSTECH), Pohang, 37673, South Korea.
- Department of Electrical Engineering, Pohang University of Science and Technology (POSTECH), Pohang, 37673, South Korea.
| |
Collapse
|
6
|
Zang J, Liu S, Helson P, Kumar A. Structural constraints on the emergence of oscillations in multi-population neural networks. eLife 2024; 12:RP88777. [PMID: 38477669 DOI: 10.7554/elife.88777] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/14/2024] Open
Abstract
Oscillations arise in many real-world systems and are associated with both functional and dysfunctional states. Whether a network can oscillate can be estimated if we know the strength of interaction between nodes. But in real-world networks (in particular in biological networks) it is usually not possible to know the exact connection weights. Therefore, it is important to determine the structural properties of a network necessary to generate oscillations. Here, we provide a proof that uses dynamical system theory to prove that an odd number of inhibitory nodes and strong enough connections are necessary to generate oscillations in a single cycle threshold-linear network. We illustrate these analytical results in a biologically plausible network with either firing-rate based or spiking neurons. Our work provides structural properties necessary to generate oscillations in a network. We use this knowledge to reconcile recent experimental findings about oscillations in basal ganglia with classical findings.
Collapse
Affiliation(s)
- Jie Zang
- School of Mathematics, South China University of Technology, Guangzhou, China
- Division of Computational Science and Technology, School of Electrical Engineering and Computer Science, KTH Royal Institute of Technology, Stockholm, Sweden
| | - Shenquan Liu
- School of Mathematics, South China University of Technology, Guangzhou, China
| | - Pascal Helson
- Division of Computational Science and Technology, School of Electrical Engineering and Computer Science, KTH Royal Institute of Technology, Stockholm, Sweden
| | - Arvind Kumar
- Division of Computational Science and Technology, School of Electrical Engineering and Computer Science, KTH Royal Institute of Technology, Stockholm, Sweden
| |
Collapse
|
7
|
Orellana V. D, Donoghue JP, Vargas-Irwin CE. Low frequency independent components: Internal neuromarkers linking cortical LFPs to behavior. iScience 2024; 27:108310. [PMID: 38303697 PMCID: PMC10831875 DOI: 10.1016/j.isci.2023.108310] [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: 10/09/2022] [Revised: 12/08/2022] [Accepted: 10/10/2023] [Indexed: 02/03/2024] Open
Abstract
Local field potentials (LFPs) in the primate motor cortex have been shown to reflect information related to volitional movements. However, LFPs are composite signals that receive contributions from multiple neural sources, producing a complex mix of component signals. Using a blind source separation approach, we examined the components of neural activity recorded using multielectrode arrays in motor areas of macaque monkeys during a grasping and lifting task. We found a set of independent components in the low-frequency LFP with high temporal and spatial consistency associated with each task stage. We observed that ICs often arise from electrodes distributed across multiple cortical areas and provide complementary information to external behavioral markers, specifically in task stage detection and trial alignment. Taken together, our results show that it is possible to separate useful independent components of the LFP associated with specific task-related events, potentially representing internal markers of transition between cortical network states.
Collapse
Affiliation(s)
- Diego Orellana V.
- Engineering Faculty, Pontificia Universidad Javeriana, Bogotá 110231, Colombia
- Faculty of Energy, Universidad Nacional de Loja, Loja 110101, Ecuador
| | - John P. Donoghue
- Department of Neuroscience, Brown University, Providence, RI 02912, USA
- Robert J and Nancy D Carney Institute for Brain Science, Providence, RI 02912, USA
- Center for Neurorestoration and Neurotechnology, Rehabilitation Research and Development Service, Department of Veterans Affairs Medical Center, Providence, RI 02908, USA
| | - Carlos E. Vargas-Irwin
- Department of Neuroscience, Brown University, Providence, RI 02912, USA
- Robert J and Nancy D Carney Institute for Brain Science, Providence, RI 02912, USA
- Center for Neurorestoration and Neurotechnology, Rehabilitation Research and Development Service, Department of Veterans Affairs Medical Center, Providence, RI 02908, USA
| |
Collapse
|
8
|
Zheng Z, Xu C, Fan J, Liu M, Chen X. Order parameter dynamics in complex systems: From models to data. CHAOS (WOODBURY, N.Y.) 2024; 34:022101. [PMID: 38341762 DOI: 10.1063/5.0180340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Accepted: 12/14/2023] [Indexed: 02/13/2024]
Abstract
Collective ordering behaviors are typical macroscopic manifestations embedded in complex systems and can be ubiquitously observed across various physical backgrounds. Elements in complex systems may self-organize via mutual or external couplings to achieve diverse spatiotemporal coordinations. The order parameter, as a powerful quantity in describing the transition to collective states, may emerge spontaneously from large numbers of degrees of freedom through competitions. In this minireview, we extensively discussed the collective dynamics of complex systems from the viewpoint of order-parameter dynamics. A synergetic theory is adopted as the foundation of order-parameter dynamics, and it focuses on the self-organization and collective behaviors of complex systems. At the onset of macroscopic transitions, slow modes are distinguished from fast modes and act as order parameters, whose evolution can be established in terms of the slaving principle. We explore order-parameter dynamics in both model-based and data-based scenarios. For situations where microscopic dynamics modeling is available, as prototype examples, synchronization of coupled phase oscillators, chimera states, and neuron network dynamics are analytically studied, and the order-parameter dynamics is constructed in terms of reduction procedures such as the Ott-Antonsen ansatz, the Lorentz ansatz, and so on. For complicated systems highly challenging to be well modeled, we proposed the eigen-microstate approach (EMP) to reconstruct the macroscopic order-parameter dynamics, where the spatiotemporal evolution brought by big data can be well decomposed into eigenmodes, and the macroscopic collective behavior can be traced by Bose-Einstein condensation-like transitions and the emergence of dominant eigenmodes. The EMP is successfully applied to some typical examples, such as phase transitions in the Ising model, climate dynamics in earth systems, fluctuation patterns in stock markets, and collective motion in living systems.
Collapse
Affiliation(s)
- Zhigang Zheng
- Institute of Systems Science, Huaqiao University, Xiamen 361021, China and College of Information Science and Engineering, Huaqiao University, Xiamen 361021, China
| | - Can Xu
- Institute of Systems Science, Huaqiao University, Xiamen 361021, China and College of Information Science and Engineering, Huaqiao University, Xiamen 361021, China
| | - Jingfang Fan
- School of Systems Science, Beijing Normal University, Beijing 100875, China and Institute of Nonequilibrium Systems, Beijing Normal University, Beijing 100875, China
| | - Maoxin Liu
- School of Systems Science, Beijing Normal University, Beijing 100875, China and Institute of Nonequilibrium Systems, Beijing Normal University, Beijing 100875, China
| | - Xiaosong Chen
- School of Systems Science, Beijing Normal University, Beijing 100875, China and Institute of Nonequilibrium Systems, Beijing Normal University, Beijing 100875, China
| |
Collapse
|
9
|
Cenci MA, Kumar A. Cells, pathways, and models in dyskinesia research. Curr Opin Neurobiol 2024; 84:102833. [PMID: 38184982 DOI: 10.1016/j.conb.2023.102833] [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: 11/13/2023] [Revised: 12/01/2023] [Accepted: 12/02/2023] [Indexed: 01/09/2024]
Abstract
L-DOPA-induced dyskinesia (LID) is the most common form of hyperkinetic movement disorder resulting from altered information processing in the cortico-basal ganglia network. We here review recent advances clarifying the altered interplay between striatal output pathways in this movement disorder. We also review studies revealing structural and synaptic changes to the striatal microcircuitry and altered cortico-striatal activity dynamics in LID. We furthermore highlight the recent progress made in understanding the involvement of cerebellar and brain stem nuclei. These recent developments illustrate that dyskinesia research continues to provide key insights into cellular and circuit-level plasticity within the cortico-basal ganglia network and its interconnected brain regions.
Collapse
Affiliation(s)
- M Angela Cenci
- Basal Ganglia Pathophysiology Unit, Department Experimental Medical Science, Lund University, Lund, Sweden.
| | - Arvind Kumar
- School of Electrical Engineering and Computer Science, KTH Royal Institute of Technology, Stockholm, Sweden. https://twitter.com/arvin_neuro
| |
Collapse
|
10
|
Diehl GW, Redish AD. Measuring excitation-inhibition balance through spectral components of local field potentials. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.01.24.577086. [PMID: 38328057 PMCID: PMC10849740 DOI: 10.1101/2024.01.24.577086] [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
The balance between excitation and inhibition is critical to brain functioning, and dysregulation of this balance is a hallmark of numerous psychiatric conditions. Measuring this excitation-inhibition (E:I) balance in vivo has remained difficult, but theoretical models have proposed that characteristics of local field potentials (LFP) may provide an accurate proxy. To establish a conclusive link between LFP and E:I balance, we recorded single units and LFP from the prefrontal cortex (mPFC) of rats during decision making. Dynamic measures of synaptic coupling strength facilitated direct quantification of E:I balance and revealed a strong inverse relationship to broadband spectral power of LFP. These results provide a critical link between LFP and underlying network properties, opening the door for non-invasive recordings to measure E:I balance in clinical settings.
Collapse
Affiliation(s)
- Geoffrey W Diehl
- Department of Neuroscience, University of Minnesota, Minneapolis, MN, United States
| | - A David Redish
- Department of Neuroscience, University of Minnesota, Minneapolis, MN, United States
| |
Collapse
|
11
|
Villalobos N. Disinhibition Is an Essential Network Motif Coordinated by GABA Levels and GABA B Receptors. Int J Mol Sci 2024; 25:1340. [PMID: 38279339 PMCID: PMC10816949 DOI: 10.3390/ijms25021340] [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: 12/12/2023] [Revised: 01/16/2024] [Accepted: 01/19/2024] [Indexed: 01/28/2024] Open
Abstract
Network dynamics are crucial for action and sensation. Changes in synaptic physiology lead to the reorganization of local microcircuits. Consequently, the functional state of the network impacts the output signal depending on the firing patterns of its units. Networks exhibit steady states in which neurons show various activities, producing many networks with diverse properties. Transitions between network states determine the output signal generated and its functional results. The temporal dynamics of excitation/inhibition allow a shift between states in an operational network. Therefore, a process capable of modulating the dynamics of excitation/inhibition may be functionally important. This process is known as disinhibition. In this review, we describe the effect of GABA levels and GABAB receptors on tonic inhibition, which causes changes (due to disinhibition) in network dynamics, leading to synchronous functional oscillations.
Collapse
Affiliation(s)
- Nelson Villalobos
- Academia de Fisiología, Escuela Superior de Medicina, Instituto Politécnico Nacional, Plan de San Luis y Díaz Mirón, Colonia Casco de Santo Tomás, Ciudad de México 11340, Mexico;
- Sección de Estudios Posgrado e Investigación de la Escuela Superior de Medicina, Instituto Politécnico Nacional, Plan de San Luis y Díaz Mirón, Colonia Casco de Santo Tomás, Ciudad de Mexico 11340, Mexico
| |
Collapse
|
12
|
Clarke-Williams CJ, Lopes-Dos-Santos V, Lefèvre L, Brizee D, Causse AA, Rothaermel R, Hartwich K, Perestenko PV, Toth R, McNamara CG, Sharott A, Dupret D. Coordinating brain-distributed network activities in memory resistant to extinction. Cell 2024; 187:409-427.e19. [PMID: 38242086 PMCID: PMC7615560 DOI: 10.1016/j.cell.2023.12.018] [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: 10/12/2022] [Revised: 07/13/2023] [Accepted: 12/13/2023] [Indexed: 01/21/2024]
Abstract
Certain memories resist extinction to continue invigorating maladaptive actions. The robustness of these memories could depend on their widely distributed implementation across populations of neurons in multiple brain regions. However, how dispersed neuronal activities are collectively organized to underpin a persistent memory-guided behavior remains unknown. To investigate this, we simultaneously monitored the prefrontal cortex, nucleus accumbens, amygdala, hippocampus, and ventral tegmental area (VTA) of the mouse brain from initial recall to post-extinction renewal of a memory involving cocaine experience. We uncover a higher-order pattern of short-lived beta-frequency (15-25 Hz) activities that are transiently coordinated across these networks during memory retrieval. The output of a divergent pathway from upstream VTA glutamatergic neurons, paced by a slower (4-Hz) oscillation, actuates this multi-network beta-band coactivation; its closed-loop phase-informed suppression prevents renewal of cocaine-biased behavior. Binding brain-distributed neural activities in this temporally structured manner may constitute an organizational principle of robust memory expression.
Collapse
Affiliation(s)
- Charlie J Clarke-Williams
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK.
| | - Vítor Lopes-Dos-Santos
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Laura Lefèvre
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Demi Brizee
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Adrien A Causse
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Roman Rothaermel
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Katja Hartwich
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Pavel V Perestenko
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Robert Toth
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Colin G McNamara
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - Andrew Sharott
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK
| | - David Dupret
- Medical Research Council Brain Network Dynamics Unit, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford OX1 3TH, UK.
| |
Collapse
|
13
|
Gast R, Solla SA, Kennedy A. Neural heterogeneity controls computations in spiking neural networks. Proc Natl Acad Sci U S A 2024; 121:e2311885121. [PMID: 38198531 PMCID: PMC10801870 DOI: 10.1073/pnas.2311885121] [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: 07/12/2023] [Accepted: 11/27/2023] [Indexed: 01/12/2024] Open
Abstract
The brain is composed of complex networks of interacting neurons that express considerable heterogeneity in their physiology and spiking characteristics. How does this neural heterogeneity influence macroscopic neural dynamics, and how might it contribute to neural computation? In this work, we use a mean-field model to investigate computation in heterogeneous neural networks, by studying how the heterogeneity of cell spiking thresholds affects three key computational functions of a neural population: the gating, encoding, and decoding of neural signals. Our results suggest that heterogeneity serves different computational functions in different cell types. In inhibitory interneurons, varying the degree of spike threshold heterogeneity allows them to gate the propagation of neural signals in a reciprocally coupled excitatory population. Whereas homogeneous interneurons impose synchronized dynamics that narrow the dynamic repertoire of the excitatory neurons, heterogeneous interneurons act as an inhibitory offset while preserving excitatory neuron function. Spike threshold heterogeneity also controls the entrainment properties of neural networks to periodic input, thus affecting the temporal gating of synaptic inputs. Among excitatory neurons, heterogeneity increases the dimensionality of neural dynamics, improving the network's capacity to perform decoding tasks. Conversely, homogeneous networks suffer in their capacity for function generation, but excel at encoding signals via multistable dynamic regimes. Drawing from these findings, we propose intra-cell-type heterogeneity as a mechanism for sculpting the computational properties of local circuits of excitatory and inhibitory spiking neurons, permitting the same canonical microcircuit to be tuned for diverse computational tasks.
Collapse
Affiliation(s)
- Richard Gast
- Department of Neuroscience, Feinberg School of Medicine, Northwestern University, Chicago, IL60611
- Aligning Science Across Parkinson’s Collaborative Research Network, Chevy Chase, MD20815
| | - Sara A. Solla
- Department of Neuroscience, Feinberg School of Medicine, Northwestern University, Chicago, IL60611
| | - Ann Kennedy
- Department of Neuroscience, Feinberg School of Medicine, Northwestern University, Chicago, IL60611
- Aligning Science Across Parkinson’s Collaborative Research Network, Chevy Chase, MD20815
| |
Collapse
|
14
|
Mapelli L, Tritto S. Editorial for This Special Issue "Synaptic Transmission: From Molecular to Neural Network Levels". Biomedicines 2024; 12:145. [PMID: 38255249 PMCID: PMC10812920 DOI: 10.3390/biomedicines12010145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Accepted: 01/08/2024] [Indexed: 01/24/2024] Open
Abstract
We invited contributions reporting new evidence of synaptic mechanisms and their network-level impacts for this Special Issue [...].
Collapse
Affiliation(s)
- Lisa Mapelli
- Department of Brain and Behavioral Sciences, University of Pavia, 27100 Pavia, Italy
| | - Simona Tritto
- Department of Brain and Behavioral Sciences, University of Pavia, 27100 Pavia, Italy
| |
Collapse
|
15
|
Stengl M, Schneider AC. Contribution of membrane-associated oscillators to biological timing at different timescales. Front Physiol 2024; 14:1243455. [PMID: 38264332 PMCID: PMC10803594 DOI: 10.3389/fphys.2023.1243455] [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: 06/20/2023] [Accepted: 12/12/2023] [Indexed: 01/25/2024] Open
Abstract
Environmental rhythms such as the daily light-dark cycle selected for endogenous clocks. These clocks predict regular environmental changes and provide the basis for well-timed adaptive homeostasis in physiology and behavior of organisms. Endogenous clocks are oscillators that are based on positive feedforward and negative feedback loops. They generate stable rhythms even under constant conditions. Since even weak interactions between oscillators allow for autonomous synchronization, coupling/synchronization of oscillators provides the basis of self-organized physiological timing. Amongst the most thoroughly researched clocks are the endogenous circadian clock neurons in mammals and insects. They comprise nuclear clockworks of transcriptional/translational feedback loops (TTFL) that generate ∼24 h rhythms in clock gene expression entrained to the environmental day-night cycle. It is generally assumed that this TTFL clockwork drives all circadian oscillations within and between clock cells, being the basis of any circadian rhythm in physiology and behavior of organisms. Instead of the current gene-based hierarchical clock model we provide here a systems view of timing. We suggest that a coupled system of autonomous TTFL and posttranslational feedback loop (PTFL) oscillators/clocks that run at multiple timescales governs adaptive, dynamic homeostasis of physiology and behavior. We focus on mammalian and insect neurons as endogenous oscillators at multiple timescales. We suggest that neuronal plasma membrane-associated signalosomes constitute specific autonomous PTFL clocks that generate localized but interlinked oscillations of membrane potential and intracellular messengers with specific endogenous frequencies. In each clock neuron multiscale interactions of TTFL and PTFL oscillators/clocks form a temporally structured oscillatory network with a common complex frequency-band comprising superimposed multiscale oscillations. Coupling between oscillator/clock neurons provides the next level of complexity of an oscillatory network. This systemic dynamic network of molecular and cellular oscillators/clocks is suggested to form the basis of any physiological homeostasis that cycles through dynamic homeostatic setpoints with a characteristic frequency-band as hallmark. We propose that mechanisms of homeostatic plasticity maintain the stability of these dynamic setpoints, whereas Hebbian plasticity enables switching between setpoints via coupling factors, like biogenic amines and/or neuropeptides. They reprogram the network to a new common frequency, a new dynamic setpoint. Our novel hypothesis is up for experimental challenge.
Collapse
Affiliation(s)
- Monika Stengl
- Department of Biology, Animal Physiology/Neuroethology, University of Kassel, Kassel, Germany
| | | |
Collapse
|
16
|
Widge AS. Closing the loop in psychiatric deep brain stimulation: physiology, psychometrics, and plasticity. Neuropsychopharmacology 2024; 49:138-149. [PMID: 37415081 PMCID: PMC10700701 DOI: 10.1038/s41386-023-01643-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/02/2023] [Revised: 05/28/2023] [Accepted: 06/20/2023] [Indexed: 07/08/2023]
Abstract
Deep brain stimulation (DBS) is an invasive approach to precise modulation of psychiatrically relevant circuits. Although it has impressive results in open-label psychiatric trials, DBS has also struggled to scale to and pass through multi-center randomized trials. This contrasts with Parkinson disease, where DBS is an established therapy treating thousands of patients annually. The core difference between these clinical applications is the difficulty of proving target engagement, and of leveraging the wide range of possible settings (parameters) that can be programmed in a given patient's DBS. In Parkinson's, patients' symptoms change rapidly and visibly when the stimulator is tuned to the correct parameters. In psychiatry, those same changes take days to weeks, limiting a clinician's ability to explore parameter space and identify patient-specific optimal settings. I review new approaches to psychiatric target engagement, with an emphasis on major depressive disorder (MDD). Specifically, I argue that better engagement may come by focusing on the root causes of psychiatric illness: dysfunction in specific, measurable cognitive functions and in the connectivity and synchrony of distributed brain circuits. I overview recent progress in both those domains, and how it may relate to other technologies discussed in companion articles in this issue.
Collapse
Affiliation(s)
- Alik S Widge
- Department of Psychiatry & Behavioral Sciences, University of Minnesota, Minneapolis, MN, USA.
| |
Collapse
|
17
|
Qin C, Qi Z, Pan S, Xia P, Kong W, Sun B, Du H, Zhang R, Zhu L, Zhou D, Yang X. Advances in Conductive Hydrogel for Spinal Cord Injury Repair and Regeneration. Int J Nanomedicine 2023; 18:7305-7333. [PMID: 38084124 PMCID: PMC10710813 DOI: 10.2147/ijn.s436111] [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: 08/21/2023] [Accepted: 11/08/2023] [Indexed: 12/18/2023] Open
Abstract
Spinal cord injury (SCI) treatment represents a major challenge in clinical practice. In recent years, the rapid development of neural tissue engineering technology has provided a new therapeutic approach for spinal cord injury repair. Implanting functionalized electroconductive hydrogels (ECH) in the injury area has been shown to promote axonal regeneration and facilitate the generation of neuronal circuits by reshaping the microenvironment of SCI. ECH not only facilitate intercellular electrical signaling but, when combined with electrical stimulation, enable the transmission of electrical signals to electroactive tissue and activate bioelectric signaling pathways, thereby promoting neural tissue repair. Therefore, the implantation of ECH into damaged tissues can effectively restore physiological functions related to electrical conduction. This article focuses on the dynamic pathophysiological changes in the SCI microenvironment and discusses the mechanisms of electrical stimulation/signal in the process of SCI repair. By examining electrical activity during nerve repair, we provide insights into the mechanisms behind electrical stimulation and signaling during SCI repair. We classify conductive biomaterials, and offer an overview of the current applications and research progress of conductive hydrogels in spinal cord repair and regeneration, aiming to provide a reference for future explorations and developments in spinal cord regeneration strategies.
Collapse
Affiliation(s)
- Cheng Qin
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Zhiping Qi
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Su Pan
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Peng Xia
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Weijian Kong
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Bin Sun
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Haorui Du
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Renfeng Zhang
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Longchuan Zhu
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Dinghai Zhou
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| | - Xiaoyu Yang
- Department of Orthopedic Surgery, the Second Hospital of Jilin University, Changchun, 130041, People’s Republic of China
| |
Collapse
|
18
|
Pulvermüller F. Neurobiological mechanisms for language, symbols and concepts: Clues from brain-constrained deep neural networks. Prog Neurobiol 2023; 230:102511. [PMID: 37482195 PMCID: PMC10518464 DOI: 10.1016/j.pneurobio.2023.102511] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2022] [Revised: 05/02/2023] [Accepted: 07/18/2023] [Indexed: 07/25/2023]
Abstract
Neural networks are successfully used to imitate and model cognitive processes. However, to provide clues about the neurobiological mechanisms enabling human cognition, these models need to mimic the structure and function of real brains. Brain-constrained networks differ from classic neural networks by implementing brain similarities at different scales, ranging from the micro- and mesoscopic levels of neuronal function, local neuronal links and circuit interaction to large-scale anatomical structure and between-area connectivity. This review shows how brain-constrained neural networks can be applied to study in silico the formation of mechanisms for symbol and concept processing and to work towards neurobiological explanations of specifically human cognitive abilities. These include verbal working memory and learning of large vocabularies of symbols, semantic binding carried by specific areas of cortex, attention focusing and modulation driven by symbol type, and the acquisition of concrete and abstract concepts partly influenced by symbols. Neuronal assembly activity in the networks is analyzed to deliver putative mechanistic correlates of higher cognitive processes and to develop candidate explanations founded in established neurobiological principles.
Collapse
Affiliation(s)
- Friedemann Pulvermüller
- Brain Language Laboratory, Department of Philosophy and Humanities, WE4, Freie Universität Berlin, 14195 Berlin, Germany; Berlin School of Mind and Brain, Humboldt Universität zu Berlin, 10099 Berlin, Germany; Einstein Center for Neurosciences Berlin, 10117 Berlin, Germany; Cluster of Excellence 'Matters of Activity', Humboldt Universität zu Berlin, 10099 Berlin, Germany.
| |
Collapse
|
19
|
Si H, Sun X. Inter-areal transmission of multiple neural signals through frequency-division-multiplexing communication. Cogn Neurodyn 2023; 17:1153-1165. [PMID: 37786658 PMCID: PMC10542065 DOI: 10.1007/s11571-022-09914-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2022] [Revised: 10/26/2022] [Accepted: 11/17/2022] [Indexed: 12/03/2022] Open
Abstract
Inter-areal information transmission in the brain cortex relates to cognitive functions. Researches used to pay attention to activity pattern transmission, signals gating, or routing in neuronal networks. However, the underlying mechanism of simultaneous transmission of multiple neural signals in the same channel across networks remains unclear. In this work, we construct a two-layer feedforward neuronal network (sender-receiver) with each layer's intrinsic rhythms consisting of slow- (low-frequency) and fast- gamma rhythms (high-frequency), investigating how to realize simultaneous transmission of multiple signals in neuronal systems. With the aid of resonance and frequency analysis, it is shown that low- and high-frequency signals can be transmitted simultaneously in such a feedforward network through frequency division multiplexing (FDM) communication. The transmission performance is related to the local resonance, connectivity, as well as background noise. Moreover, low- and high-frequency signals can also be gated or selected with appropriate adjustments of recurrent connection strength and delay, and background noise. Our model might provide a novel insight into the underlying mechanism of complex signals communication between different cortex areas.
Collapse
Affiliation(s)
- Hao Si
- School of Science, Beijing University of Posts and Telecommunications, Beijing, 100876 China
| | - Xiaojuan Sun
- School of Science, Beijing University of Posts and Telecommunications, Beijing, 100876 China
| |
Collapse
|
20
|
Banaie Boroujeni K, Womelsdorf T. Routing states transition during oscillatory bursts and attentional selection. Neuron 2023; 111:2929-2944.e11. [PMID: 37463578 PMCID: PMC10529654 DOI: 10.1016/j.neuron.2023.06.012] [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: 03/26/2023] [Revised: 05/22/2023] [Accepted: 06/20/2023] [Indexed: 07/20/2023]
Abstract
Brain-wide information routing relies on the spatio-temporal dynamics of neural activity, but it remains unclear how routing states emerge at fast spiking timescales and relate to slower activity dynamics during cognitive processes. Here, we show that localized spiking events participate in directional routing states with spiking activity in distant brain areas that dynamically switch or amplify states during oscillatory bursts, attentional selection, and decision-making. Modeling and neural recordings from lateral prefrontal cortex (LPFC), anterior cingulate cortex (ACC), and striatum of nonhuman primates revealed that cross-regional routing states arise within 20 ms following individual neuron spikes, with LPFC spikes leading the activity in ACC and striatum. The baseline routing state amplified during LPFC beta bursts between LPFC and striatum and switched direction during ACC theta/alpha bursts between ACC and LPFC. Selective attention amplified theta-/alpha-band-specific lead ensembles in ACC, while decision-making increased the lead of ACC and LPFC spikes to the striatum.
Collapse
Affiliation(s)
- Kianoush Banaie Boroujeni
- Department of Psychology, Vanderbilt University, Nashville, TN 37240, USA; Princeton Neuroscience Institute, Princeton University, Princeton, NJ 08544, USA.
| | - Thilo Womelsdorf
- Department of Psychology, Vanderbilt University, Nashville, TN 37240, USA; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN 37240, USA
| |
Collapse
|
21
|
Seguin C, Sporns O, Zalesky A. Brain network communication: concepts, models and applications. Nat Rev Neurosci 2023; 24:557-574. [PMID: 37438433 DOI: 10.1038/s41583-023-00718-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/08/2023] [Indexed: 07/14/2023]
Abstract
Understanding communication and information processing in nervous systems is a central goal of neuroscience. Over the past two decades, advances in connectomics and network neuroscience have opened new avenues for investigating polysynaptic communication in complex brain networks. Recent work has brought into question the mainstay assumption that connectome signalling occurs exclusively via shortest paths, resulting in a sprawling constellation of alternative network communication models. This Review surveys the latest developments in models of brain network communication. We begin by drawing a conceptual link between the mathematics of graph theory and biological aspects of neural signalling such as transmission delays and metabolic cost. We organize key network communication models and measures into a taxonomy, aimed at helping researchers navigate the growing number of concepts and methods in the literature. The taxonomy highlights the pros, cons and interpretations of different conceptualizations of connectome signalling. We showcase the utility of network communication models as a flexible, interpretable and tractable framework to study brain function by reviewing prominent applications in basic, cognitive and clinical neurosciences. Finally, we provide recommendations to guide the future development, application and validation of network communication models.
Collapse
Affiliation(s)
- Caio Seguin
- Melbourne Neuropsychiatry Centre, University of Melbourne and Melbourne Health, Melbourne, Victoria, Australia.
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, IN, USA.
| | - Olaf Sporns
- Department of Psychological and Brain Sciences, Indiana University, Bloomington, IN, USA
- Program in Neuroscience, Indiana University, Bloomington, IN, USA
- Program in Cognitive Science, Indiana University, Bloomington, IN, USA
- Indiana University Network Science Institute, Indiana University, Bloomington, IN, USA
| | - Andrew Zalesky
- Melbourne Neuropsychiatry Centre, University of Melbourne and Melbourne Health, Melbourne, Victoria, Australia
- Department of Biomedical Engineering, Melbourne School of Engineering, University of Melbourne, Melbourne, Victoria, Australia
| |
Collapse
|
22
|
Fuscà M, Siebenhühner F, Wang SH, Myrov V, Arnulfo G, Nobili L, Palva JM, Palva S. Brain criticality predicts individual levels of inter-areal synchronization in human electrophysiological data. Nat Commun 2023; 14:4736. [PMID: 37550300 PMCID: PMC10406818 DOI: 10.1038/s41467-023-40056-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Accepted: 07/10/2023] [Indexed: 08/09/2023] Open
Abstract
Neuronal oscillations and their synchronization between brain areas are fundamental for healthy brain function. Yet, synchronization levels exhibit large inter-individual variability that is associated with behavioral variability. We test whether individual synchronization levels are predicted by individual brain states along an extended regime of critical-like dynamics - the Griffiths phase (GP). We use computational modelling to assess how synchronization is dependent on brain criticality indexed by long-range temporal correlations (LRTCs). We analyze LRTCs and synchronization of oscillations from resting-state magnetoencephalography and stereo-electroencephalography data. Synchronization and LRTCs are both positively linearly and quadratically correlated among healthy subjects, while in epileptogenic areas they are negatively linearly correlated. These results show that variability in synchronization levels is explained by the individual position along the GP with healthy brain areas operating in its subcritical and epileptogenic areas in its supercritical side. We suggest that the GP is fundamental for brain function allowing individual variability while retaining functional advantages of criticality.
Collapse
Affiliation(s)
- Marco Fuscà
- Centre for Cognitive Neuroimaging, School of Psychology and Neuroscience, University of Glasgow, Glasgow, UK
- Neuroscience Center, HiLIFE-Helsinki Institute of Life Science, University of Helsinki, Helsinki, Finland
| | - Felix Siebenhühner
- Neuroscience Center, HiLIFE-Helsinki Institute of Life Science, University of Helsinki, Helsinki, Finland
- BioMag Laboratory, HUS Medical Imaging Center, University of Helsinki, Aalto University, and Helsinki University Hospital, Helsinki, Finland
| | - Sheng H Wang
- Neuroscience Center, HiLIFE-Helsinki Institute of Life Science, University of Helsinki, Helsinki, Finland
- Department of Neuroscience and Biomedical Engineering, Aalto University, Espoo, Finland
- CEA, NeuroSpin, Gif-sur-Yvette, France
- MIND team, Inria, Université Paris-Saclay, Bures-sur-Yvette, France
| | - Vladislav Myrov
- Department of Neuroscience and Biomedical Engineering, Aalto University, Espoo, Finland
| | - Gabriele Arnulfo
- Neuroscience Center, HiLIFE-Helsinki Institute of Life Science, University of Helsinki, Helsinki, Finland
- Dept. of Informatics, Bioengineering, Robotics and System engineering, University of Genoa, Genoa, Italy
| | - Lino Nobili
- Child Neuropsychiatry Unit, IRCCS, Istituto G. Gaslini, Department of Neuroscience (DINOGMI), University of Genoa, Genoa, Italy
- "Claudio Munari" Epilepsy Surgery Centre, Niguarda Hospital, Milan, Italy
| | - J Matias Palva
- Centre for Cognitive Neuroimaging, School of Psychology and Neuroscience, University of Glasgow, Glasgow, UK
- Neuroscience Center, HiLIFE-Helsinki Institute of Life Science, University of Helsinki, Helsinki, Finland
- Department of Neuroscience and Biomedical Engineering, Aalto University, Espoo, Finland
| | - Satu Palva
- Centre for Cognitive Neuroimaging, School of Psychology and Neuroscience, University of Glasgow, Glasgow, UK.
- Neuroscience Center, HiLIFE-Helsinki Institute of Life Science, University of Helsinki, Helsinki, Finland.
| |
Collapse
|
23
|
Editorial to the Special Issue “Information Processing in Neuronal Circuits and Systems”. BIOLOGY 2023; 12:biology12030359. [PMID: 36979051 PMCID: PMC10045467 DOI: 10.3390/biology12030359] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Accepted: 02/18/2023] [Indexed: 03/03/2023]
Abstract
The nervous system processes sensory information through a hierarchical structure with multiple processing stages [...]
Collapse
|
24
|
Ashhad S, Slepukhin VM, Feldman JL, Levine AJ. Microcircuit Synchronization and Heavy-Tailed Synaptic Weight Distribution Augment preBötzinger Complex Bursting Dynamics. J Neurosci 2023; 43:240-260. [PMID: 36400528 PMCID: PMC9838711 DOI: 10.1523/jneurosci.1195-22.2022] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Revised: 11/05/2022] [Accepted: 11/10/2022] [Indexed: 11/19/2022] Open
Abstract
The preBötzinger Complex (preBötC) encodes inspiratory time as rhythmic bursts of activity underlying each breath. Spike synchronization throughout a sparsely connected preBötC microcircuit initiates bursts that ultimately drive the inspiratory motor patterns. Using minimal microcircuit models to explore burst initiation dynamics, we examined the variability in probability and latency to burst following exogenous stimulation of a small subset of neurons, mimicking experiments. Among various physiologically plausible graphs of 1000 excitatory neurons constructed using experimentally determined synaptic and connectivity parameters, directed Erdős-Rényi graphs with a broad (lognormal) distribution of synaptic weights best captured the experimentally observed dynamics. preBötC synchronization leading to bursts was regulated by the efferent connectivity of spiking neurons that are optimally tuned to amplify modest preinspiratory activity through input convergence. Using graph-theoretic and machine learning-based analyses, we found that input convergence of efferent connectivity at the next-nearest neighbor order was a strong predictor of incipient synchronization. Our analyses revealed a crucial role of synaptic heterogeneity in imparting exceptionally robust yet flexible preBötC attractor dynamics. Given the pervasiveness of lognormally distributed synaptic strengths throughout the nervous system, we postulate that these mechanisms represent a ubiquitous template for temporal processing and decision-making computational motifs.SIGNIFICANCE STATEMENT Mammalian breathing is robust, virtually continuous throughout life, yet is inherently labile: to adapt to rapid metabolic shifts (e.g., fleeing a predator or chasing prey); for airway reflexes; and to enable nonventilatory behaviors (e.g., vocalization, breathholding, laughing). Canonical theoretical frameworks-based on pacemakers and intrinsic bursting-cannot account for the observed robustness and flexibility of the preBötzinger Complex rhythm. Experiments reveal that network synchronization is the key to initiate inspiratory bursts in each breathing cycle. We investigated preBötC synchronization dynamics using network models constructed with experimentally determined neuronal and synaptic parameters. We discovered that a fat-tailed (non-Gaussian) synaptic weight distribution-a manifestation of synaptic heterogeneity-augments neuronal synchronization and attractor dynamics in this vital rhythmogenic network, contributing to its extraordinary reliability and responsiveness.
Collapse
Affiliation(s)
- Sufyan Ashhad
- Department of Neurobiology, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095-1763
| | - Valentin M Slepukhin
- Department of Physics & Astronomy, University of California, Los Angeles, Los Angeles, California 90095-1596
| | - Jack L Feldman
- Department of Neurobiology, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, California 90095-1763
| | - Alex J Levine
- Department of Physics & Astronomy, University of California, Los Angeles, Los Angeles, California 90095-1596
- Department of Chemistry & Biochemistry, University of California, Los Angeles, Los Angeles, California 90095-1596
| |
Collapse
|
25
|
Dahlmanns JK, Dahlmanns M. Network Reconstruction as a Novel High-Level Marker of Functional Neuronal Viability. Methods Mol Biol 2023; 2644:47-63. [PMID: 37142915 DOI: 10.1007/978-1-0716-3052-5_4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
Neuronal viability is essential for the maintenance of neuronal networks. Already slight noxious modifications, for example, the selective interruption of interneurons' function, which enhances the excitatory drive inside a network, may already be harmful for the overall network. To monitor neuronal viability on the network level, we implemented a network reconstruction approach that infers the effective connectivity of cultured neurons from live-cell fluorescence microscopy recordings. Neuronal spiking is reported by the fast calcium sensor Fluo8-AM using a relatively high sampling rate (27.33 Hz) to detect fast events such as action potential-evoked rises in intracellular calcium. Spiking records are then subjected to a machine learning-based set of algorithms that reconstruct the neuronal network. Then, the topology of the neuronal network can be analyzed via various parameters, such as the modularity, the centrality, or the characteristic path length. In summary, these parameters describe the network and how it is influenced by experimental modulations, for example, hypoxia, nutrient deficiency, co-culture models, or application of drugs and other factors.
Collapse
Affiliation(s)
| | - Marc Dahlmanns
- Institute for Physiology and Pathophysiology, Friedrich-Alexander-Universität Erlangen-Nürnberg, Erlangen, Germany
| |
Collapse
|
26
|
Hintze A, Adami C. Neuroevolution gives rise to more focused information transfer compared to backpropagation in recurrent neural networks. Neural Comput Appl 2022. [DOI: 10.1007/s00521-022-08125-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
AbstractArtificial neural networks (ANNs) are one of the most promising tools in the quest to develop general artificial intelligence. Their design was inspired by how neurons in natural brains connect and process, the only other substrate to harbor intelligence. Compared to biological brains that are sparsely connected and that form sparsely distributed representations, ANNs instead process information by connecting all nodes of one layer to all nodes of the next. In addition, modern ANNs are trained with backpropagation, while their natural counterparts have been optimized by natural evolution over eons. We study whether the training method influences how information propagates through the brain by measuring the transfer entropy, that is, the information that is transferred from one group of neurons to another. We find that while the distribution of connection weights in optimized networks is largely unaffected by the training method, neuroevolution leads to networks in which information transfer is significantly more focused on small groups of neurons (compared to those trained by backpropagation) while also being more robust to perturbations of the weights. We conclude that the specific attributes of a training method (local vs. global) can significantly affect how information is processed and relayed through the brain, even when the overall performance is similar.
Collapse
|
27
|
Yan T, Wang G, Wang L, Liu T, Li T, Wang L, Chen D, Funahashi S, Wu J, Wang B, Suo D. Episodic memory in aspects of brain information transfer by resting-state network topology. Cereb Cortex 2022; 32:4969-4985. [PMID: 35174851 DOI: 10.1093/cercor/bhab526] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2021] [Revised: 12/19/2021] [Accepted: 12/20/2021] [Indexed: 12/27/2022] Open
Abstract
Cognitive functionality emerges due to neural interactions. The interregional signal interactions underlying episodic memory are a complex process. Thus, we need to quantify this process more accurately to understand how brain regions receive information from other regions. Studies suggest that resting-state functional connectivity (FC) conveys cognitive information; additionally, activity flow estimates the contribution of the source region to the activation pattern of the target region, thus decoding the cognitive information transfer. Therefore, we performed a combined analysis of task-evoked activation and resting-state FC voxel-wise by activity flow mapping to estimate the information transfer pattern of episodic memory. We found that the cinguloopercular (CON), frontoparietal (FPN) and default mode networks (DMNs) were the most recruited structures in information transfer. The patterns and functions of information transfer differed between encoding and retrieval. Furthermore, we found that information transfer was a better predictor of memory ability than previous methods. Additional analysis indicated that structural connectivity (SC) had a transportive role in information transfer. Finally, we present the information transfer mechanism of episodic memory from multiple neural perspectives. These findings suggest that information transfer is a better biological indicator that accurately describes signal communication in the brain and strongly influences the function of episodic memory.
Collapse
Affiliation(s)
- Tianyi Yan
- School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| | - Gongshu Wang
- School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| | - Li Wang
- School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| | - Tiantian Liu
- School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| | - Ting Li
- School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| | - Luyao Wang
- School of Mechatronical Engineering, Intelligent Robotics Institute, Beijing Institute of Technology, Beijing 100081, China
| | - Duanduan Chen
- School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| | - Shintaro Funahashi
- Advanced Research Institute of Multidisciplinary Science, Beijing Institute of Technology, Beijing 100081, China
| | - Jinglong Wu
- School of Mechatronical Engineering, Intelligent Robotics Institute, Beijing Institute of Technology, Beijing 100081, China.,Key Laboratory of Biomimetic Robots and Systems, Ministry of Education, Beijing 100081, China.,International Joint Research Laboratory of Biomimetic Robots and Systems, Ministry of Education, Beijing 100081, China
| | - Bin Wang
- Department of Information and Computer, Taiyuan University of Technology, Taiyuan, Shanxi 030024, China
| | - Dingjie Suo
- School of Life Science, Beijing Institute of Technology, Beijing 100081, China
| |
Collapse
|
28
|
Machado TA, Kauvar IV, Deisseroth K. Multiregion neuronal activity: the forest and the trees. Nat Rev Neurosci 2022; 23:683-704. [PMID: 36192596 PMCID: PMC10327445 DOI: 10.1038/s41583-022-00634-0] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/25/2022] [Indexed: 12/12/2022]
Abstract
The past decade has witnessed remarkable advances in the simultaneous measurement of neuronal activity across many brain regions, enabling fundamentally new explorations of the brain-spanning cellular dynamics that underlie sensation, cognition and action. These recently developed multiregion recording techniques have provided many experimental opportunities, but thoughtful consideration of methodological trade-offs is necessary, especially regarding field of view, temporal acquisition rate and ability to guarantee cellular resolution. When applied in concert with modern optogenetic and computational tools, multiregion recording has already made possible fundamental biological discoveries - in part via the unprecedented ability to perform unbiased neural activity screens for principles of brain function, spanning dozens of brain areas and from local to global scales.
Collapse
Affiliation(s)
- Timothy A Machado
- Department of Bioengineering, Stanford University, Stanford, CA, USA
| | - Isaac V Kauvar
- Department of Bioengineering, Stanford University, Stanford, CA, USA
- Department of Electrical Engineering, Stanford University, Stanford, CA, USA
| | - Karl Deisseroth
- Department of Bioengineering, Stanford University, Stanford, CA, USA.
- Howard Hughes Medical Institute, Stanford University, Stanford, CA, USA.
- Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA.
| |
Collapse
|
29
|
Wu J, Aton SJ, Booth V, Zochowski M. Heterogeneous mechanisms for synchronization of networks of resonant neurons under different E/I balance regimes. FRONTIERS IN NETWORK PHYSIOLOGY 2022; 2:975951. [PMID: 36926113 PMCID: PMC10013004 DOI: 10.3389/fnetp.2022.975951] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2022] [Accepted: 09/12/2022] [Indexed: 11/13/2022]
Abstract
Rhythmic synchronization of neuronal firing patterns is a widely present phenomenon in the brain-one that seems to be essential for many cognitive processes. A variety of mechanisms contribute to generation and synchronization of network oscillations, ranging from intrinsic cellular excitability to network mediated effects. However, it is unclear how these mechanisms interact together. Here, using computational modeling of excitatory-inhibitory neural networks, we show that different synchronization mechanisms dominate network dynamics at different levels of excitation and inhibition (i.e. E/I levels) as synaptic strength is systematically varied. Our results show that with low synaptic strength networks are sensitive to external oscillatory drive as a synchronizing mechanism-a hallmark of resonance. In contrast, in a strongly-connected regime, synchronization is driven by network effects via the direct interaction between excitation and inhibition, and spontaneous oscillations and cross-frequency coupling emerge. Unexpectedly, we find that while excitation dominates network synchrony at low excitatory coupling strengths, inhibition dominates at high excitatory coupling strengths. Together, our results provide novel insights into the oscillatory modulation of firing patterns in different excitation/inhibition regimes.
Collapse
Affiliation(s)
- Jiaxing Wu
- Applied Physics Program, University of Michigan, Ann Arbor, MI, United States
| | - Sara J. Aton
- Department of Molecular, Cellular and Developmental Biology, University of Michigan, Ann Arbor, MI, United States
| | - Victoria Booth
- Department of Mathematics, University of Michigan, Ann Arbor, MI, United States
- Department of Anesthesiology, University of Michigan Medical School, Ann Arbor, MI, United States
| | - Michal Zochowski
- Applied Physics Program, University of Michigan, Ann Arbor, MI, United States
- Department of Physics, University of Michigan, Ann Arbor, MI, United States
- Biophysics Program, University of Michigan, Ann Arbor, MI, United States
| |
Collapse
|
30
|
Jaudon F, Thalhammer A, Zentilin L, Cingolani LA. CRISPR-mediated activation of autism gene Itgb3 restores cortical network excitability via mGluR5 signaling. MOLECULAR THERAPY - NUCLEIC ACIDS 2022; 29:462-480. [PMID: 36035754 PMCID: PMC9382421 DOI: 10.1016/j.omtn.2022.07.013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/28/2021] [Accepted: 07/15/2022] [Indexed: 01/12/2023]
Abstract
Many mutations in autism spectrum disorder (ASD) affect a single allele, indicating a key role for gene dosage in ASD susceptibility. Recently, haplo-insufficiency of ITGB3, the gene encoding the extracellular matrix receptor β3 integrin, was associated with ASD. Accordingly, Itgb3 knockout (KO) mice exhibit autism-like phenotypes. The pathophysiological mechanisms of Itgb3 remain, however, unknown, and the potential of targeting this gene for developing ASD therapies uninvestigated. By combining molecular, biochemical, imaging, and pharmacological analyses, we establish that Itgb3 haplo-insufficiency impairs cortical network excitability by promoting extra-synaptic over synaptic signaling of the metabotropic glutamate receptor mGluR5, which is similarly dysregulated in fragile X syndrome, the most frequent monogenic form of ASD. To assess the therapeutic potential of regulating Itgb3 gene dosage, we implemented CRISPR activation and compared its efficacy with that of a pharmacological rescue strategy for fragile X syndrome. Correction of neuronal Itgb3 haplo-insufficiency by CRISPR activation rebalanced network excitability as effectively as blockade of mGluR5 with the selective antagonist MPEP. Our findings reveal an unexpected functional interaction between two ASD genes, thereby validating the pathogenicity of ITGB3 haplo-insufficiency. Further, they pave the way for exploiting CRISPR activation as gene therapy for normalizing gene dosage and network excitability in ASD.
Collapse
Affiliation(s)
- Fanny Jaudon
- Center for Synaptic Neuroscience and Technology (NSYN), Fondazione Istituto Italiano di Tecnologia (IIT), 16132 Genoa, Italy
- Department of Life Sciences, University of Trieste, 34127 Trieste, Italy
| | - Agnes Thalhammer
- Department of Life Sciences, University of Trieste, 34127 Trieste, Italy
- IRCCS Ospedale Policlinico San Martino, 16132 Genoa, Italy
| | - Lorena Zentilin
- AAV Vector Unit, International Centre for Genetic Engineering and Biotechnology (ICGEB), 34149 Trieste, Italy
| | - Lorenzo A. Cingolani
- Center for Synaptic Neuroscience and Technology (NSYN), Fondazione Istituto Italiano di Tecnologia (IIT), 16132 Genoa, Italy
- Department of Life Sciences, University of Trieste, 34127 Trieste, Italy
- Corresponding author Lorenzo A. Cingolani, Department of Life Sciences, University of Trieste, 34127 Trieste, Italy.
| |
Collapse
|
31
|
Srivastava P, Fotiadis P, Parkes L, Bassett DS. The expanding horizons of network neuroscience: From description to prediction and control. Neuroimage 2022; 258:119250. [PMID: 35659996 PMCID: PMC11164099 DOI: 10.1016/j.neuroimage.2022.119250] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Revised: 04/15/2022] [Accepted: 04/25/2022] [Indexed: 01/11/2023] Open
Abstract
The field of network neuroscience has emerged as a natural framework for the study of the brain and has been increasingly applied across divergent problems in neuroscience. From a disciplinary perspective, network neuroscience originally emerged as a formal integration of graph theory (from mathematics) and neuroscience (from biology). This early integration afforded marked utility in describing the interconnected nature of neural units, both structurally and functionally, and underscored the relevance of that interconnection for cognition and behavior. But since its inception, the field has not remained static in its methodological composition. Instead, it has grown to use increasingly advanced graph-theoretic tools and to bring in several other disciplinary perspectives-including machine learning and systems engineering-that have proven complementary. In doing so, the problem space amenable to the discipline has expanded markedly. In this review, we discuss three distinct flavors of investigation in state-of-the-art network neuroscience: (i) descriptive network neuroscience, (ii) predictive network neuroscience, and (iii) a perturbative network neuroscience that draws on recent advances in network control theory. In considering each area, we provide a brief summary of the approaches, discuss the nature of the insights obtained, and highlight future directions.
Collapse
Affiliation(s)
- Pragya Srivastava
- Department of Bioengineering, University of Pennsylvania, Philadelphia PA 19104, USA
| | - Panagiotis Fotiadis
- Department of Bioengineering, University of Pennsylvania, Philadelphia PA 19104, USA; Department of Neuroscience, University of Pennsylvania, Philadelphia PA 19104, USA
| | - Linden Parkes
- Department of Bioengineering, University of Pennsylvania, Philadelphia PA 19104, USA
| | - Dani S Bassett
- Department of Bioengineering, University of Pennsylvania, Philadelphia PA 19104, USA; Department of Physics & Astronomy, University of Pennsylvania, Philadelphia PA 19104, USA; Department of Electrical & Systems Engineering, University of Pennsylvania, Philadelphia PA 19104, USA; Department of Neurology, University of Pennsylvania, Philadelphia PA 19104, USA; Department of Psychiatry, University of Pennsylvania, Philadelphia PA 19104, USA; Santa Fe Institute, Santa Fe NM 87501, USA.
| |
Collapse
|
32
|
Hahn G, Kumar A, Schmidt H, Knösche TR, Deco G. Rate and oscillatory switching dynamics of a multilayer visual microcircuit model. eLife 2022; 11:77594. [PMID: 35994330 PMCID: PMC9395191 DOI: 10.7554/elife.77594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2022] [Accepted: 07/21/2022] [Indexed: 11/16/2022] Open
Abstract
The neocortex is organized around layered microcircuits consisting of a variety of excitatory and inhibitory neuronal types which perform rate- and oscillation-based computations. Using modeling, we show that both superficial and deep layers of the primary mouse visual cortex implement two ultrasensitive and bistable switches built on mutual inhibitory connectivity motives between somatostatin, parvalbumin, and vasoactive intestinal polypeptide cells. The switches toggle pyramidal neurons between high and low firing rate states that are synchronized across layers through translaminar connectivity. Moreover, inhibited and disinhibited states are characterized by low- and high-frequency oscillations, respectively, with layer-specific differences in frequency and power which show asymmetric changes during state transitions. These findings are consistent with a number of experimental observations and embed firing rate together with oscillatory changes within a switch interpretation of the microcircuit.
Collapse
Affiliation(s)
- Gerald Hahn
- Center for Brain and Cognition, Computational Neuroscience Group, Department of Information and Communication Technologies, Universitat Pompeu Fabra, Barcelona, Spain
| | - Arvind Kumar
- Computational Science and Technology, School of Electrical Engineering and Computer Science, KTH Royal Institute of Technology, Stockholm, Sweden
| | - Helmut Schmidt
- Brain Networks Group, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany
| | - Thomas R Knösche
- Brain Networks Group, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany.,Institute of Biomedical Engineering and Informatics, Department of Computer Science and Automation, Technische Universität Ilmenau, Ilmenau, Germany
| | - Gustavo Deco
- Center for Brain and Cognition, Computational Neuroscience Group, Department of Information and Communication Technologies, Universitat Pompeu Fabra, Barcelona, Spain.,Institució Catalana de la Recerca i Estudis Avançats, Barcelona, Spain.,Department of Neuropsychology, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany.,School of Psychological Sciences, Turner Institute for Brain and Mental Health, Monash University, Melbourne, Australia
| |
Collapse
|
33
|
Ganguly K, Khanna P, Morecraft R, Lin DJ. Modulation of neural co-firing to enhance network transmission and improve motor function after stroke. Neuron 2022; 110:2363-2385. [PMID: 35926452 PMCID: PMC9366919 DOI: 10.1016/j.neuron.2022.06.024] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2022] [Revised: 05/15/2022] [Accepted: 06/28/2022] [Indexed: 01/28/2023]
Abstract
Stroke is a leading cause of disability. While neurotechnology has shown promise for improving upper limb recovery after stroke, efficacy in clinical trials has been variable. Our central thesis is that to improve clinical translation, we need to develop a common neurophysiological framework for understanding how neurotechnology alters network activity. Our perspective discusses principles for how motor networks, both healthy and those recovering from stroke, subserve reach-to-grasp movements. We focus on neural processing at the resolution of single movements, the timescale at which neurotechnologies are applied, and discuss how this activity might drive long-term plasticity. We propose that future studies should focus on cross-area communication and bridging our understanding of timescales ranging from single trials within a session to across multiple sessions. We hope that this perspective establishes a combined path forward for preclinical and clinical research with the goal of more robust clinical translation of neurotechnology.
Collapse
Affiliation(s)
- Karunesh Ganguly
- Department of Neurology, Weill Institute for Neuroscience, University of California, San Francisco, San Francisco, CA, USA,Neurology Service, SFVAHCS, San Francisco, CA, USA,
| | - Preeya Khanna
- Department of Neurology, Weill Institute for Neuroscience, University of California, San Francisco, San Francisco, CA, USA,Neurology Service, SFVAHCS, San Francisco, CA, USA
| | - Robert Morecraft
- Laboratory of Neurological Sciences, Division of Basic Biomedical Sciences, Sanford School of Medicine, The University of South Dakota, Vermillion, SD, 57069 USA
| | - David J. Lin
- Center for Neurotechnology and Neurorecovery, Division of Neurocritical Care and Emergency Neurology, Department of Neurology, Massachusetts General Hospital, Boston, MA,Center for Neurorestoration and Neurotechnology, Rehabilitation R&D Service, Providence VA Medical Center, Providence, RI
| |
Collapse
|
34
|
Hajizadeh A, Matysiak A, Wolfrum M, May PJC, König R. Auditory cortex modelled as a dynamical network of oscillators: understanding event-related fields and their adaptation. BIOLOGICAL CYBERNETICS 2022; 116:475-499. [PMID: 35718809 PMCID: PMC9287241 DOI: 10.1007/s00422-022-00936-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2021] [Accepted: 05/07/2022] [Indexed: 06/15/2023]
Abstract
Adaptation, the reduction of neuronal responses by repetitive stimulation, is a ubiquitous feature of auditory cortex (AC). It is not clear what causes adaptation, but short-term synaptic depression (STSD) is a potential candidate for the underlying mechanism. In such a case, adaptation can be directly linked with the way AC produces context-sensitive responses such as mismatch negativity and stimulus-specific adaptation observed on the single-unit level. We examined this hypothesis via a computational model based on AC anatomy, which includes serially connected core, belt, and parabelt areas. The model replicates the event-related field (ERF) of the magnetoencephalogram as well as ERF adaptation. The model dynamics are described by excitatory and inhibitory state variables of cell populations, with the excitatory connections modulated by STSD. We analysed the system dynamics by linearising the firing rates and solving the STSD equation using time-scale separation. This allows for characterisation of AC dynamics as a superposition of damped harmonic oscillators, so-called normal modes. We show that repetition suppression of the N1m is due to a mixture of causes, with stimulus repetition modifying both the amplitudes and the frequencies of the normal modes. In this view, adaptation results from a complete reorganisation of AC dynamics rather than a reduction of activity in discrete sources. Further, both the network structure and the balance between excitation and inhibition contribute significantly to the rate with which AC recovers from adaptation. This lifetime of adaptation is longer in the belt and parabelt than in the core area, despite the time constants of STSD being spatially homogeneous. Finally, we critically evaluate the use of a single exponential function to describe recovery from adaptation.
Collapse
Affiliation(s)
- Aida Hajizadeh
- Research Group Comparative Neuroscience, Leibniz Institute for Neurobiology, Brenneckestraße 6, 39118 Magdeburg, Germany
| | - Artur Matysiak
- Research Group Comparative Neuroscience, Leibniz Institute for Neurobiology, Brenneckestraße 6, 39118 Magdeburg, Germany
| | - Matthias Wolfrum
- Weierstrass Institute for Applied Analysis and Stochastics, Mohrenstraße 39, 10117 Berlin, Germany
| | - Patrick J. C. May
- Research Group Comparative Neuroscience, Leibniz Institute for Neurobiology, Brenneckestraße 6, 39118 Magdeburg, Germany
- Department of Psychology, Lancaster University, Lancaster, LA1 4YF UK
| | - Reinhard König
- Research Group Comparative Neuroscience, Leibniz Institute for Neurobiology, Brenneckestraße 6, 39118 Magdeburg, Germany
| |
Collapse
|
35
|
Wang XJ. Theory of the Multiregional Neocortex: Large-Scale Neural Dynamics and Distributed Cognition. Annu Rev Neurosci 2022; 45:533-560. [PMID: 35803587 DOI: 10.1146/annurev-neuro-110920-035434] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The neocortex is a complex neurobiological system with many interacting regions. How these regions work together to subserve flexible behavior and cognition has become increasingly amenable to rigorous research. Here, I review recent experimental and theoretical work on the modus operandi of a multiregional cortex. These studies revealed several general principles for the neocortical interareal connectivity, low-dimensional macroscopic gradients of biological properties across cortical areas, and a hierarchy of timescales for information processing. Theoretical work suggests testable predictions regarding differential excitation and inhibition along feedforward and feedback pathways in the cortical hierarchy. Furthermore, modeling of distributed working memory and simple decision-making has given rise to a novel mathematical concept, dubbed bifurcation in space, that potentially explains how different cortical areas, with a canonical circuit organization but gradients of biological heterogeneities, are able to subserve their respective (e.g., sensory coding versus executive control) functions in a modularly organized brain.
Collapse
Affiliation(s)
- Xiao-Jing Wang
- Center for Neural Science, New York University, New York, NY, USA;
| |
Collapse
|
36
|
Petkoski S, Jirsa VK. Normalizing the brain connectome for communication through synchronization. Netw Neurosci 2022; 6:722-744. [PMID: 36607179 PMCID: PMC9810372 DOI: 10.1162/netn_a_00231] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Accepted: 01/10/2022] [Indexed: 01/10/2023] Open
Abstract
Networks in neuroscience determine how brain function unfolds, and their perturbations lead to psychiatric disorders and brain disease. Brain networks are characterized by their connectomes, which comprise the totality of all connections, and are commonly described by graph theory. This approach is deeply rooted in a particle view of information processing, based on the quantification of informational bits such as firing rates. Oscillations and brain rhythms demand, however, a wave perspective of information processing based on synchronization. We extend traditional graph theory to a dual, particle-wave, perspective, integrate time delays due to finite transmission speeds, and derive a normalization of the connectome. When applied to the database of the Human Connectome Project, it explains the emergence of frequency-specific network cores including the visual and default mode networks. These findings are robust across human subjects (N = 100) and are a fundamental network property within the wave picture. The normalized connectome comprises the particle view in the limit of infinite transmission speeds and opens the applicability of graph theory to a wide range of novel network phenomena, including physiological and pathological brain rhythms. These two perspectives are orthogonal, but not incommensurable, when understood within the novel, here-proposed, generalized framework of structural connectivity.
Collapse
Affiliation(s)
- Spase Petkoski
- Aix-Marseille University, Inserm, INS, Institut de Neurosciences des Systèmes, Marseille, France,* Corresponding Authors: ;
| | - Viktor K. Jirsa
- Aix-Marseille University, Inserm, INS, Institut de Neurosciences des Systèmes, Marseille, France,* Corresponding Authors: ;
| |
Collapse
|
37
|
Ristič D, Gosak M. Interlayer Connectivity Affects the Coherence Resonance and Population Activity Patterns in Two-Layered Networks of Excitatory and Inhibitory Neurons. Front Comput Neurosci 2022; 16:885720. [PMID: 35521427 PMCID: PMC9062746 DOI: 10.3389/fncom.2022.885720] [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: 02/28/2022] [Accepted: 03/24/2022] [Indexed: 11/13/2022] Open
Abstract
The firing patterns of neuronal populations often exhibit emergent collective oscillations, which can display substantial regularity even though the dynamics of individual elements is very stochastic. One of the many phenomena that is often studied in this context is coherence resonance, where additional noise leads to improved regularity of spiking activity in neurons. In this work, we investigate how the coherence resonance phenomenon manifests itself in populations of excitatory and inhibitory neurons. In our simulations, we use the coupled FitzHugh-Nagumo oscillators in the excitable regime and in the presence of neuronal noise. Formally, our model is based on the concept of a two-layered network, where one layer contains inhibitory neurons, the other excitatory neurons, and the interlayer connections represent heterotypic interactions. The neuronal activity is simulated in realistic coupling schemes in which neurons within each layer are connected with undirected connections, whereas neurons of different types are connected with directed interlayer connections. In this setting, we investigate how different neurophysiological determinants affect the coherence resonance. Specifically, we focus on the proportion of inhibitory neurons, the proportion of excitatory interlayer axons, and the architecture of interlayer connections between inhibitory and excitatory neurons. Our results reveal that the regularity of simulated neural activity can be increased by a stronger damping of the excitatory layer. This can be accomplished with a higher proportion of inhibitory neurons, a higher fraction of inhibitory interlayer axons, a stronger coupling between inhibitory axons, or by a heterogeneous configuration of interlayer connections. Our approach of modeling multilayered neuronal networks in combination with stochastic dynamics offers a novel perspective on how the neural architecture can affect neural information processing and provide possible applications in designing networks of artificial neural circuits to optimize their function via noise-induced phenomena.
Collapse
Affiliation(s)
- David Ristič
- Faculty of Natural Sciences and Mathematics, University of Maribor, Maribor, Slovenia
| | - Marko Gosak
- Faculty of Natural Sciences and Mathematics, University of Maribor, Maribor, Slovenia
- Faculty of Medicine, University of Maribor, Maribor, Slovenia
| |
Collapse
|
38
|
Hagan MA, Pesaran B. Modulation of inhibitory communication coordinates looking and reaching. Nature 2022; 604:708-713. [PMID: 35444285 PMCID: PMC9124440 DOI: 10.1038/s41586-022-04631-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2021] [Accepted: 03/11/2022] [Indexed: 11/09/2022]
Abstract
Looking and reaching are controlled by different brain regions and are coordinated during natural behaviour1. Understanding how flexible, natural behaviours such as coordinated looking and reaching are controlled depends on understanding how neurons in different regions of the brain communicate2. Neural coherence in a gamma-frequency (40-90 Hz) band has been implicated in excitatory multiregional communication3. Inhibitory control mechanisms are also required to flexibly control behaviour4, but little is known about how neurons in one region transiently suppress individual neurons in another to support behaviour. How neuronal firing in a sender region transiently suppresses firing in a receiver region remains poorly understood. Here we study inhibitory communication during a flexible, natural behaviour, termed gaze anchoring, in which saccades are transiently inhibited by coordinated reaches. During gaze anchoring, we found that neurons in the reach region of the posterior parietal cortex can inhibit neuronal firing in the parietal saccade region to suppress eye movements and improve reach accuracy. Suppression is transient, only present around the coordinated reach, and greatest when reach neurons fire spikes with respect to beta-frequency (15-25 Hz) activity, not gamma-frequency activity. Our work provides evidence in the activity of single neurons for a novel mechanism of inhibitory communication in which beta-frequency neural coherence transiently inhibits multiregional communication to flexibly coordinate natural behaviour.
Collapse
Affiliation(s)
- Maureen A Hagan
- Department of Physiology and Neuroscience Program, Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia
- Center for Neural Science, New York University, New York, NY, USA
| | - Bijan Pesaran
- Center for Neural Science, New York University, New York, NY, USA.
| |
Collapse
|
39
|
Stimulating at the right time to recover network states in a model of the cortico-basal ganglia-thalamic circuit. PLoS Comput Biol 2022; 18:e1009887. [PMID: 35245281 PMCID: PMC8939795 DOI: 10.1371/journal.pcbi.1009887] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2021] [Revised: 03/22/2022] [Accepted: 01/31/2022] [Indexed: 11/26/2022] Open
Abstract
Synchronization of neural oscillations is thought to facilitate communication in the brain. Neurodegenerative pathologies such as Parkinson’s disease (PD) can result in synaptic reorganization of the motor circuit, leading to altered neuronal dynamics and impaired neural communication. Treatments for PD aim to restore network function via pharmacological means such as dopamine replacement, or by suppressing pathological oscillations with deep brain stimulation. We tested the hypothesis that brain stimulation can operate beyond a simple “reversible lesion” effect to augment network communication. Specifically, we examined the modulation of beta band (14–30 Hz) activity, a known biomarker of motor deficits and potential control signal for stimulation in Parkinson’s. To do this we setup a neural mass model of population activity within the cortico-basal ganglia-thalamic (CBGT) circuit with parameters that were constrained to yield spectral features comparable to those in experimental Parkinsonism. We modulated the connectivity of two major pathways known to be disrupted in PD and constructed statistical summaries of the spectra and functional connectivity of the resulting spontaneous activity. These were then used to assess the network-wide outcomes of closed-loop stimulation delivered to motor cortex and phase locked to subthalamic beta activity. Our results demonstrate that the spatial pattern of beta synchrony is dependent upon the strength of inputs to the STN. Precisely timed stimulation has the capacity to recover network states, with stimulation phase inducing activity with distinct spectral and spatial properties. These results provide a theoretical basis for the design of the next-generation brain stimulators that aim to restore neural communication in disease. Diseases of the brain lead to a wide range of disabling symptoms for patients, by affecting their ability to move or think properly. These symptoms arise from disruption to both the organization of networks in the brain, but also the timing of neural activity that propagates around it. Treatments for disease with drugs can restore the organization of these networks to some extent, yet it is very difficult to deliver drugs with good spatial or temporal selectivity. Brain stimulation provides one way in which to improve the spatial specificity of treatment, yet understanding how to stimulate at the right time to achieve the best outcome for patients, remains an outstanding question. In this work we use simulations of an important circuit involved in Parkinson’s disease that has parameters chosen to reflect recordings made in animal models of the disease. Using this computer model, we show how brain rhythms can act as signatures of underlying changes in networks. Further, we simulate intervention with temporally precise stimulation to show how future approaches to brain stimulation can act to restore or even augment neural networks following their degeneration in disease.
Collapse
|
40
|
Nunes RV, Reyes MB, Mejias JF, de Camargo RY. Directed functional and structural connectivity in a large-scale model for the mouse cortex. Netw Neurosci 2022; 5:874-889. [PMID: 35024534 PMCID: PMC8746117 DOI: 10.1162/netn_a_00206] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Accepted: 08/09/2021] [Indexed: 11/29/2022] Open
Abstract
Inferring the structural connectivity from electrophysiological measurements is a fundamental challenge in systems neuroscience. Directed functional connectivity measures, such as the generalized partial directed coherence (GPDC), provide estimates of the causal influence between areas. However, the relation between causality estimates and structural connectivity is still not clear. We analyzed this problem by evaluating the effectiveness of GPDC to estimate the connectivity of a ground-truth, data-constrained computational model of a large-scale network model of the mouse cortex. The model contains 19 cortical areas composed of spiking neurons, with areas connected by long-range projections with weights obtained from a tract-tracing cortical connectome. We show that GPDC values provide a reasonable estimate of structural connectivity, with an average Pearson correlation over simulations of 0.74. Moreover, even in a typical electrophysiological recording scenario containing five areas, the mean correlation was above 0.6. These results suggest that it may be possible to empirically estimate structural connectivity from functional connectivity even when detailed whole-brain recordings are not achievable. We analyzed the relationship between structural and directed functional connectivity by evaluating the effectiveness of generalized partial directed coherence (GPDC) to estimate the connectivity of a ground-truth, data-constrained computational model of a large-scale network model of the mouse cortex. We show that GPDC values provide a reasonable estimate of structural connectivity even in a typical electrophysiological recording scenario containing few areas. These results suggest that it may be possible to empirically estimate structural connectivity from functional connectivity even when detailed whole-brain recordings are not achievable.
Collapse
Affiliation(s)
- Ronaldo V Nunes
- Center for Mathematics, Computing, and Cognition, Universidade Federal do ABC, São Bernardo do Campo, Brazil
| | - Marcelo B Reyes
- Center for Mathematics, Computing, and Cognition, Universidade Federal do ABC, São Bernardo do Campo, Brazil
| | - Jorge F Mejias
- Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands
| | - Raphael Y de Camargo
- Center for Mathematics, Computing, and Cognition, Universidade Federal do ABC, São Bernardo do Campo, Brazil
| |
Collapse
|
41
|
Rezayat E, Clark K, Dehaqani MRA, Noudoost B. Dependence of Working Memory on Coordinated Activity Across Brain Areas. Front Syst Neurosci 2022; 15:787316. [PMID: 35095433 PMCID: PMC8792503 DOI: 10.3389/fnsys.2021.787316] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Accepted: 12/06/2021] [Indexed: 11/15/2022] Open
Abstract
Neural signatures of working memory (WM) have been reported in numerous brain areas, suggesting a distributed neural substrate for memory maintenance. In the current manuscript we provide an updated review of the literature focusing on intracranial neurophysiological recordings during WM in primates. Such signatures of WM include changes in firing rate or local oscillatory power within an area, along with measures of coordinated activity between areas based on synchronization between oscillations. In comparing the ability of various neural signatures in any brain area to predict behavioral performance, we observe that synchrony between areas is more frequently and robustly correlated with WM performance than any of the within-area neural signatures. We further review the evidence for alteration of inter-areal synchrony in brain disorders, consistent with an important role for such synchrony during behavior. Additionally, results of causal studies indicate that manipulating synchrony across areas is especially effective at influencing WM task performance. Each of these lines of research supports the critical role of inter-areal synchrony in WM. Finally, we propose a framework for interactions between prefrontal and sensory areas during WM, incorporating a range of experimental findings and offering an explanation for the observed link between intra-areal measures and WM performance.
Collapse
Affiliation(s)
- Ehsan Rezayat
- School of Cognitive Sciences, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran
| | - Kelsey Clark
- Department of Ophthalmology and Visual Sciences, University of Utah, Salt Lake City, UT, United States
| | - Mohammad-Reza A. Dehaqani
- School of Cognitive Sciences, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran
- Cognitive Systems Laboratory, Control and Intelligent Processing Center of Excellence (CIPCE), School of Electrical and Computer Engineering, College of Engineering, University of Tehran, Tehran, Iran
| | - Behrad Noudoost
- Department of Ophthalmology and Visual Sciences, University of Utah, Salt Lake City, UT, United States
- *Correspondence: Behrad Noudoost,
| |
Collapse
|
42
|
Karbalaei Akbari M, Zhuiykov S. Dynamic Self-Rectifying Liquid Metal-Semiconductor Heterointerfaces: A Platform for Development of Bioinspired Afferent Systems. ACS APPLIED MATERIALS & INTERFACES 2021; 13:60636-60647. [PMID: 34878244 DOI: 10.1021/acsami.1c17584] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The assembly of geometrically complex and dynamically active liquid metal/semiconductor heterointerfaces has drawn extensive attention in multidimensional electronic systems. In this study the chemovoltaic driven reactions have enabled the microfluidity of hydrophobic galinstan into a three-dimensional (3D) semiconductor matrix. A dynamic heterointerface is developed between the atomically thin surface oxide of galinstan and the TiO2-Ni interface. Upon the growth of Ga2O3 film at the Ga2O3-TiO2 heterointerface, the partial reduction of the TiO2 film was confirmed by material characterization techniques. The conductance imaging spectroscopy and electrical measurements are used to investigate the charge transfer at heterointerfaces. Concurrently, the dynamic conductance in artificial synaptic junctions is modulated to mimic the biofunctional communication characteristics of multipolar neurons, including slow and fast inhibitory and excitatory postsynaptic responses. The self-rectifying characteristics, femtojoule energy processing, tunable synaptic events, and notably the coordinated signal recognition are the main characteristics of this multisynaptic device. This novel 3D design of liquid metal-semiconductor structure opens up new opportunities for the development of bioinspired afferent systems. It further facilitates the realization of physical phenomena at liquid metal-semiconductor heterointerfaces.
Collapse
Affiliation(s)
- Mohammad Karbalaei Akbari
- Department of Solid State Sciences, Faculty of Science, Ghent University, 9000 Ghent, Belgium
- Centre for Environmental & Energy Research, Faculty of Bioscience Engineering, Ghent University Global Campus, Incheon 21985, South Korea
| | - Serge Zhuiykov
- Department of Solid State Sciences, Faculty of Science, Ghent University, 9000 Ghent, Belgium
- Centre for Environmental & Energy Research, Faculty of Bioscience Engineering, Ghent University Global Campus, Incheon 21985, South Korea
| |
Collapse
|
43
|
Taghdiri N, Calcagno DM, Fu Z, Huang K, Kohler RH, Weissleder R, Coleman TP, King KR. Macrophage calcium reporter mice reveal immune cell communication in vitro and in vivo. CELL REPORTS METHODS 2021; 1:100132. [PMID: 35079727 PMCID: PMC8786215 DOI: 10.1016/j.crmeth.2021.100132] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/03/2021] [Revised: 08/26/2021] [Accepted: 11/19/2021] [Indexed: 01/01/2023]
Abstract
Cell communication underlies emergent functions in diverse cell types and tissues. Recent evidence suggests that macrophages are organized in communicating networks, but new tools are needed to quantitatively characterize the resulting cellular conversations. Here, we infer cell communication from spatiotemporal correlations of intracellular calcium dynamics that are non-destructively imaged across cell populations expressing genetically encoded calcium indicators. We describe a hematopoietic calcium reporter mouse (Csf1rCreGCaMP5fl) and a computational analysis pipeline for inferring communication between reporter cells based on "excess synchrony." We observed signals suggestive of cell communication in macrophages treated with immune-stimulatory DNA in vitro and tumor-associated immune cells imaged in a dorsal window chamber model in vivo. Together, the methods described here expand the toolkit for discovery of cell communication events in macrophages and other immune cells.
Collapse
Affiliation(s)
- Nika Taghdiri
- Department of Bioengineering, Jacobs School of Engineering, University of California, San Diego, 9500 Gilman Dr. MC 0412, La Jolla, CA 92093, USA
| | - David M. Calcagno
- Department of Bioengineering, Jacobs School of Engineering, University of California, San Diego, 9500 Gilman Dr. MC 0412, La Jolla, CA 92093, USA
| | - Zhenxing Fu
- Division of Cardiology and Cardiovascular Institute, Department of Medicine, University of California, San Diego, La Jolla, CA, USA
| | - Kenneth Huang
- Division of Cardiology and Cardiovascular Institute, Department of Medicine, University of California, San Diego, La Jolla, CA, USA
| | - Rainer H. Kohler
- Center for Systems Biology, Massachusetts General Hospital and Harvard Medical School, Simches Research Building, 185 Cambridge Street, Boston, MA, USA
| | - Ralph Weissleder
- Center for Systems Biology, Massachusetts General Hospital and Harvard Medical School, Simches Research Building, 185 Cambridge Street, Boston, MA, USA
| | - Todd P. Coleman
- Department of Bioengineering, Jacobs School of Engineering, University of California, San Diego, 9500 Gilman Dr. MC 0412, La Jolla, CA 92093, USA
| | - Kevin R. King
- Department of Bioengineering, Jacobs School of Engineering, University of California, San Diego, 9500 Gilman Dr. MC 0412, La Jolla, CA 92093, USA
- Division of Cardiology and Cardiovascular Institute, Department of Medicine, University of California, San Diego, La Jolla, CA, USA
| |
Collapse
|
44
|
Foucault C, Meyniel F. Gated recurrence enables simple and accurate sequence prediction in stochastic, changing, and structured environments. eLife 2021; 10:71801. [PMID: 34854377 PMCID: PMC8735865 DOI: 10.7554/elife.71801] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2021] [Accepted: 12/01/2021] [Indexed: 11/13/2022] Open
Abstract
From decision making to perception to language, predicting what is coming next is crucial. It is also challenging in stochastic, changing, and structured environments; yet the brain makes accurate predictions in many situations. What computational architecture could enable this feat? Bayesian inference makes optimal predictions but is prohibitively difficult to compute. Here, we show that a specific recurrent neural network architecture enables simple and accurate solutions in several environments. This architecture relies on three mechanisms: gating, lateral connections, and recurrent weight training. Like the optimal solution and the human brain, such networks develop internal representations of their changing environment (including estimates of the environment’s latent variables and the precision of these estimates), leverage multiple levels of latent structure, and adapt their effective learning rate to changes without changing their connection weights. Being ubiquitous in the brain, gated recurrence could therefore serve as a generic building block to predict in real-life environments.
Collapse
Affiliation(s)
- Cédric Foucault
- INSERM, CEA, Université Paris-Saclay, Gif sur Yvette, France
| | | |
Collapse
|
45
|
Yang B, Liang C, Chen D, Cheng F, Zhang Y, Wang S, Shu J, Huang X, Wang J, Xia K, Ying L, Shi K, Wang C, Wang X, Li F, Zhao Q, Chen Q. A conductive supramolecular hydrogel creates ideal endogenous niches to promote spinal cord injury repair. Bioact Mater 2021; 15:103-119. [PMID: 35386356 PMCID: PMC8941182 DOI: 10.1016/j.bioactmat.2021.11.032] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 11/15/2021] [Accepted: 11/16/2021] [Indexed: 12/29/2022] Open
Abstract
The current effective method for treatment of spinal cord injury (SCI) is to reconstruct the biological microenvironment by filling the injured cavity area and increasing neuronal differentiation of neural stem cells (NSCs) to repair SCI. However, the method is characterized by several challenges including irregular wounds, and mechanical and electrical mismatch of the material-tissue interface. In the current study, a unique and facile agarose/gelatin/polypyrrole (Aga/Gel/PPy, AGP3) hydrogel with similar conductivity and modulus as the spinal cord was developed by altering the concentration of Aga and PPy. The gelation occurred through non-covalent interactions, and the physically crosslinked features made the AGP3 hydrogels injectable. In vitro cultures showed that AGP3 hydrogel exhibited excellent biocompatibility, and promoted differentiation of NSCs toward neurons whereas it inhibited over-proliferation of astrocytes. The in vivo implanted AGP3 hydrogel completely covered the tissue defects and reduced injured cavity areas. In vivo studies further showed that the AGP3 hydrogel provided a biocompatible microenvironment for promoting endogenous neurogenesis rather than glial fibrosis formation, resulting in significant functional recovery. RNA sequencing analysis further indicated that AGP3 hydrogel significantly modulated expression of neurogenesis-related genes through intracellular Ca2+ signaling cascades. Overall, this supramolecular strategy produces AGP3 hydrogel that can be used as favorable biomaterials for SCI repair by filling the cavity and imitating the physiological properties of the spinal cord. A facile strategy was developed to fabricate AGP3 hydrogel satisfying physiological requirements. AGP3 hydrogel promoted the differentiation of NSCs into neurons in vitro. AGP3 hydrogel could activate endogenous neurogenesis to repair spinal cord injury. AGP3 hydrogel modulated expression of neurogenesis-related genes in vitro.
Collapse
|
46
|
Synaptic Dynamics Convey Differential Sensitivity to Input Pattern Changes in Two Muscles Innervated by the Same Motor Neurons. eNeuro 2021; 8:ENEURO.0351-21.2021. [PMID: 34764189 PMCID: PMC8609967 DOI: 10.1523/eneuro.0351-21.2021] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Revised: 09/21/2021] [Accepted: 09/30/2021] [Indexed: 11/21/2022] Open
Abstract
Postsynaptic responses depend on input patterns as well as short-term synaptic plasticity, summation, and postsynaptic membrane properties, but the interactions of those dynamics with realistic input patterns are not well understood. We recorded the responses of the two pyloric dilator (PD) muscles, cpv2a and cpv2b, that are innervated by and receive identical periodic bursting input from the same two motor neurons in the lobster Homarus americanus. Cpv2a and cpv2b showed quantitative differences in membrane nonlinearities and synaptic summation. At a short timescale, responses in both muscles were dominated by facilitation, albeit with different frequency and time dependence. Realistic burst stimulations revealed more substantial differences. Across bursts, cpv2a showed transient depression, whereas cpv2b showed transient facilitation. Steady-state responses to bursting input also differed substantially. Neither muscle had a monotonic dependence on frequency, but cpv2b showed particularly pronounced bandpass filtering. Cpv2a was sensitive to changes in both burst frequency and intra-burst spike frequency, whereas, despite its much slower responses, cpv2b was largely insensitive to changes in burst frequency. Cpv2a was sensitive to both burst duration and number of spikes per burst, whereas cpv2b was sensitive only to the former parameter. Neither muscle showed consistent sensitivity to changes in the overall spike interval structure, but cpv2b was surprisingly sensitive to changes in the first intervals in each burst, a parameter known to be regulated by dopamine (DA) modulation of spike propagation of the presynaptic axon. These findings highlight how seemingly minor circuit output changes mediated by neuromodulation could be read out differentially at the two synapses.
Collapse
|
47
|
Timsit Y, Grégoire SP. Towards the Idea of Molecular Brains. Int J Mol Sci 2021; 22:ijms222111868. [PMID: 34769300 PMCID: PMC8584932 DOI: 10.3390/ijms222111868] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Revised: 10/24/2021] [Accepted: 10/28/2021] [Indexed: 02/06/2023] Open
Abstract
How can single cells without nervous systems perform complex behaviours such as habituation, associative learning and decision making, which are considered the hallmark of animals with a brain? Are there molecular systems that underlie cognitive properties equivalent to those of the brain? This review follows the development of the idea of molecular brains from Darwin’s “root brain hypothesis”, through bacterial chemotaxis, to the recent discovery of neuron-like r-protein networks in the ribosome. By combining a structural biology view with a Bayesian brain approach, this review explores the evolutionary labyrinth of information processing systems across scales. Ribosomal protein networks open a window into what were probably the earliest signalling systems to emerge before the radiation of the three kingdoms. While ribosomal networks are characterised by long-lasting interactions between their protein nodes, cell signalling networks are essentially based on transient interactions. As a corollary, while signals propagated in persistent networks may be ephemeral, networks whose interactions are transient constrain signals diffusing into the cytoplasm to be durable in time, such as post-translational modifications of proteins or second messenger synthesis. The duration and nature of the signals, in turn, implies different mechanisms for the integration of multiple signals and decision making. Evolution then reinvented networks with persistent interactions with the development of nervous systems in metazoans. Ribosomal protein networks and simple nervous systems display architectural and functional analogies whose comparison could suggest scale invariance in information processing. At the molecular level, the significant complexification of eukaryotic ribosomal protein networks is associated with a burst in the acquisition of new conserved aromatic amino acids. Knowing that aromatic residues play a critical role in allosteric receptors and channels, this observation suggests a general role of π systems and their interactions with charged amino acids in multiple signal integration and information processing. We think that these findings may provide the molecular basis for designing future computers with organic processors.
Collapse
Affiliation(s)
- Youri Timsit
- Aix Marseille Université, Université de Toulon, CNRS, IRD, MIO UM110, 13288 Marseille, France
- Research Federation for the Study of Global Ocean Systems Ecology and Evolution, FR2022/Tara GOSEE, 3 rue Michel-Ange, 75016 Paris, France
- Correspondence:
| | - Sergeant-Perthuis Grégoire
- Institut de Mathématiques de Jussieu—Paris Rive Gauche (IMJ-PRG), UMR 7586, CNRS-Université Paris Diderot, 75013 Paris, France;
| |
Collapse
|
48
|
Kershner JR. Multisensory deficits in dyslexia may result from a locus coeruleus attentional network dysfunction. Neuropsychologia 2021; 161:108023. [PMID: 34530025 DOI: 10.1016/j.neuropsychologia.2021.108023] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2021] [Revised: 08/06/2021] [Accepted: 09/11/2021] [Indexed: 12/13/2022]
Abstract
A fundamental educational requirement of beginning reading is to learn, access, and rapidly process associations between novel visuospatial symbols and their phonological representations in speech. Children with difficulties in such cross-modal integration are often divided into dyslexia subtypes, based on whether their primary problem is with the written or spoken component of decoding. The present review suggests that starting in infancy, perceptions of audiovisual speech are integrated by mutual oscillatory phase-resetting between sensory cortices, and throughout development visual and auditory experiences are coupled into unified perceptions. Entirely separate subtypes are incompatible with this view. Visual or auditory deficits will invariably affect processing to some degree in both domains. It is suggested that poor auditory/visual integration may be diagnostic for both forms of dyslexia, stemming from an encoding weakness in the early cross-sensory binding of audiovisual speech. The review presents a model of dyslexia as a dysfunction of the large-scale ventral and dorsal attention networks controlling such binding. Excessive glutamatergic neuronal excitability of the attention networks by the Locus coeruleus-norepinephrine system may interfere with multisensory integration, with deleterious effects on the acquisition of reading by degrading graphene/phoneme conversion.
Collapse
Affiliation(s)
- John R Kershner
- Dept. of Applied Psychology and Human Resources University of Toronto, ON, M5S 1A1, Canada.
| |
Collapse
|
49
|
Amico E, Abbas K, Duong-Tran DA, Tipnis U, Rajapandian M, Chumin E, Ventresca M, Harezlak J, Goñi J. Toward an information theoretical description of communication in brain networks. Netw Neurosci 2021; 5:646-665. [PMID: 34746621 PMCID: PMC8567835 DOI: 10.1162/netn_a_00185] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2019] [Accepted: 01/18/2021] [Indexed: 11/21/2022] Open
Abstract
Modeling communication dynamics in the brain is a key challenge in network neuroscience. We present here a framework that combines two measurements for any system where different communication processes are taking place on top of a fixed structural topology: path processing score (PPS) estimates how much the brain signal has changed or has been transformed between any two brain regions (source and target); path broadcasting strength (PBS) estimates the propagation of the signal through edges adjacent to the path being assessed. We use PPS and PBS to explore communication dynamics in large-scale brain networks. We show that brain communication dynamics can be divided into three main "communication regimes" of information transfer: absent communication (no communication happening); relay communication (information is being transferred almost intact); and transducted communication (the information is being transformed). We use PBS to categorize brain regions based on the way they broadcast information. Subcortical regions are mainly direct broadcasters to multiple receivers; Temporal and frontal nodes mainly operate as broadcast relay brain stations; visual and somatomotor cortices act as multichannel transducted broadcasters. This work paves the way toward the field of brain network information theory by providing a principled methodology to explore communication dynamics in large-scale brain networks.
Collapse
Affiliation(s)
- Enrico Amico
- Institute of Bioengineering, Center for Neuroprosthetics, EPFL, Geneva, Switzerland
- Department of Radiology and Medical Informatics, University of Geneva (UNIGE), Geneva, Switzerland
| | - Kausar Abbas
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
- School of Industrial Engineering, Purdue University, West Lafayette, IN, USA
| | - Duy Anh Duong-Tran
- School of Industrial Engineering, Purdue University, West Lafayette, IN, USA
| | - Uttara Tipnis
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
- School of Industrial Engineering, Purdue University, West Lafayette, IN, USA
| | | | - Evgeny Chumin
- Psychological and Brain Sciences, Indiana University, Bloomington, IN, USA
| | - Mario Ventresca
- School of Industrial Engineering, Purdue University, West Lafayette, IN, USA
| | - Jaroslaw Harezlak
- Department of Epidemiology and Biostatistics, Indiana University, Bloomington, IN, USA
| | - Joaquín Goñi
- Purdue Institute for Integrative Neuroscience, Purdue University, West Lafayette, IN, USA
- School of Industrial Engineering, Purdue University, West Lafayette, IN, USA
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, USA
| |
Collapse
|
50
|
Benigni B, Ghavasieh A, Corso A, d’Andrea V, De Domenico M. Persistence of information flow: A multiscale characterization of human brain. Netw Neurosci 2021; 5:831-850. [PMID: 34746629 PMCID: PMC8567833 DOI: 10.1162/netn_a_00203] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Accepted: 06/08/2021] [Indexed: 12/13/2022] Open
Abstract
Information exchange in the human brain is crucial for vital tasks and to drive diseases. Neuroimaging techniques allow for the indirect measurement of information flows among brain areas and, consequently, for reconstructing connectomes analyzed through the lens of network science. However, standard analyses usually focus on a small set of network indicators and their joint probability distribution. Here, we propose an information-theoretic approach for the analysis of synthetic brain networks (based on generative models) and empirical brain networks, and to assess connectome's information capacity at different stages of dementia. Remarkably, our framework accounts for the whole network state, overcoming limitations due to limited sets of descriptors, and is used to probe human connectomes at different scales. We find that the spectral entropy of empirical data lies between two generative models, indicating an interpolation between modular and geometry-driven structural features. In fact, we show that the mesoscale is suitable for characterizing the differences between brain networks and their generative models. Finally, from the analysis of connectomes obtained from healthy and unhealthy subjects, we demonstrate that significant differences between healthy individuals and the ones affected by Alzheimer's disease arise at the microscale (max. posterior probability smaller than 1%) and at the mesoscale (max. posterior probability smaller than 10%).
Collapse
Affiliation(s)
- Barbara Benigni
- Department of Information Engineering and Computer Science, University of Trento, Trento, Italy
- CoMuNe Lab, Fondazione Bruno Kessler, Trento, Italy
| | - Arsham Ghavasieh
- CoMuNe Lab, Fondazione Bruno Kessler, Trento, Italy
- Department of Physics, University of Trento, Trento, Italy
| | - Alessandra Corso
- CoMuNe Lab, Fondazione Bruno Kessler, Trento, Italy
- Department of Mathematics, University of Trento, Trento, Italy
| | | | | |
Collapse
|