Frontiers in Neural Circuits
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Preprints posted in the last 90 days, ranked by how well they match Frontiers in Neural Circuits's content profile, based on 36 papers previously published here. The average preprint has a 0.02% match score for this journal, so anything above that is already an above-average fit.
Yamauchi, K.; Nirmale, A. G.
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In this study, resource-constrained learning methods were developed as a model for the learning behavior of the fly brain, specifically the mushroom body. Recent research on the mushroom bodies of flies shows that unfamiliar odors activate certain output neurons (MBONs); however, these effects are rapidly suppressed upon repeated exposure to the same odor. Such MBON behaviors appear to reflect odor learning. We investigated how flies continue learning about odors throughout their lives despite their small brains. Researchers have suggested that learning about new odors can help flies forget existing memories. Therefore, we hypothesized that the main reason for continual learning is that it serves as a strategy for forgetting. To test the validity of this hypothesis, we designed three models using a kernel perceptron. This approach is suitable for estimating ongoing learning capacity within a budget. According to the results of computer simulations and theoretical analysis, the model demonstrated the importance of forgetting mechanisms for two reasons: first, to prepare for subsequent learning sessions, and second, to reduce the negative effects of deleting memories. Author summaryDrosophila mushroom body output neurons (MBONs) in the 3 compartment of the fruit fly brain are highly activated by novel odors, and their activation triggers alerting behavior. Interestingly, these specific neurons react only to unfamiliar odor information, suggesting they constantly undergo incremental learning of new odors. This study was aimed at constructing three incremental learning models of the MBON 3 neurons. Although there have been numerous studies on complex circuit designs to reproduce activation waveforms, herein we constructed a fundamental learning model based on a kernelized learning method. Since kernelized learning models interpret Hebbian learning as the addition or subtraction of kernel functions, the model is easy to analyze theoretically. Consequently, we conclude that the forgetting property observed in the MBON 3 neurons is essential for reducing error when learning occurs within a brain of limited capacity.
Xu Ying, B.; Zwart, M. F.; Li, W.-C.
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Neuronal populations connected by gap junctions can be revealed via dye coupling of small molecules like neurobiotin and lucifer yellow. However, the extent of dye diffusion between neurons varies with connexin subtype, loading method, and neuromodulation. Due to the increasing availability of GCaMP transgenic animals, we explore the possibility of revealing gap junctional coupling using Ca2+ imaging in the Xenopus laevis tadpole motor system. Reliable axo-axonal electrical coupling was previously found in excitatory descending interneurons (dINs) using paired recordings but not with neurobiotin dye coupling. Here, we made whole-cell patch-clamp recordings with Ca2+-supplemented intracellular solution to load Ca2+ into GCaMP6s-expressing neurons, followed by Ca2+ imaging to detect potential Ca2+ diffusion across coupled neurons. Successful membrane breakthroughs led to transient fluorescence increases in the patched neuron. However, increasing the Ca2+ concentration promoted membrane resealing and rapid loss of whole-cell recordings. Regardless of recording duration, loading-triggered fluorescence only lasted up to three minutes, suggesting rapid Ca2+ clearance. Pharmacologically blocking sarcoplasmic /endoplasmic reticulum Ca2+-ATPases and plasma membrane Na+/Ca2+ exchangers did not prolong fluorescence, although sustained fluorescence was achieved with positive current injections. Counter to our expectations, fluorescence increases in Ca2+-loaded dINs did not spread to neighboring dINs. Robust intracellular Ca2+ regulation mechanisms, membrane resealing, and long dIN axons likely hindered intercellular Ca2+ diffusion. Therefore, this approach is not appropriate for revealing electrical coupling within this system.
Courtney, A.; Van Dijck, M.; Styfhals, R.; Almansa, E.; Obenhaus, H. A.; Schafer, W. R.; Seuntjens, E.
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Octopus vulgaris and other cephalopods are of increasing interest as neurobiological model organisms. This protocol describes a method to record calcium activity from individual cells in acute brain slices from Octopus vulgaris hatchlings during exogenous application of neurotransmitters. Using this protocol, we characterized single-cell responses to specific neurotransmitters in the optic lobes, which process visual information. The approach is readily adaptable to other cephalopods and small invertebrate species. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=146 HEIGHT=200 SRC="FIGDIR/small/711860v1_ufig1.gif" ALT="Figure 1"> View larger version (39K): org.highwire.dtl.DTLVardef@1564eaeorg.highwire.dtl.DTLVardef@147b682org.highwire.dtl.DTLVardef@11f3b85org.highwire.dtl.DTLVardef@17c9d70_HPS_FORMAT_FIGEXP M_FIG C_FIG
Raslain, I.; Therreau, L.; Robert, V.; El Hariri, H.; Chevaleyre, V.; Jedlicka, P.; Cuntz, H.; Piskorowski, R. A.
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Hippocampal area CA2 has recently emerged as a critical region for social recognition memory. Furthermore, this understudied region has been implicated in psychiatric diseases and neurodegenerative diseases. There has been accumulating evidence indicating that the pyramidal neurons (PNs) in area CA2 exhibit functional specializations that correlate with somatic position in stratum pyramidale (sp). In this study, we investigated the morphological differences in dendritic architecture of CA2 PNs with a focus on the radial gradient, i.e., along the deep-superficial axis of the sp. We conducted a comprehensive morphological analysis including Sholl intersection profiles, branching order distributions, root angle distributions, and dendritic cable lengths. We found that CA2 PNs have fewer oblique dendrites and a larger number of tuft-like dendrites as compared to CA1 PNs. Furthermore, within the CA2 population, we found that many of the dendritic structural features gradually changed along the radial axis from deep to superficial somatic location, indicating a continuum of dendritic morphology rather than two sharply defined subtypes of pyramidal neurons. This morphological characterization may serve as a starting point to better understand the corresponding functional organization of CA2. The gradual difference between deeper and superficial CA2 PNs suggests a continuum of their computational capabilities beyond two binary functional classes. In briefUsing several methods, we examine the dendritic morphology of over 130 CA2 and CA1 pyramidal neurons and find that many properties such as the cable length and terminal numbers of the dendritic arbors vary as a with the location of the soma in the pyramidal layer. HighlightsO_LIWe use scholl analysis, graph theory and machine learning techniques to quantify the different dendritic morphologies of CA2 pyramidal neurons. C_LIO_LIMany properties of CA2 pyramidal neuron apical dendrites vary as a function of somatic location in the pyramidal layer. C_LIO_LIMore superficial CA2 pyramidal neurons have longer oblique apical dendrites, and shorter tuft dendrites. C_LI
Rami, S.; So, M.; Travis, C.; Jiao, Y.; Shamble, P.; Sorrells, T. R.
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The mosquito Aedes aegypti is an important vector of viral pathogens and serves as a model for other vector species. Pathogens are transmitted when a mosquito bites a host animal, but the neural circuits that control seeking and biting behavior are not known. Here, we detail methods and protocols for the manipulation of neural activity in the mosquito using optogenetics, a key technique to determine the causal relationship between neural circuits and behavior. These methods include rearing mosquitoes for optogenetics and three assays that are designed to measure different steps in the sequence of arousal, attraction, proboscis probing, and engorgement on the blood of host animals. These behaviors occur at different spatial scales and in response to different sensory stimuli. Each behavioral assay is outfitted with red (625 nm) LEDs for optogenetic activation. To detect arousal in response to olfactory stimuli, flight and walking are measured in all three assays. To assay attraction or landing, mosquitoes are presented with a heated blood meal in a large arena. Proboscis probing and engorgement are assayed with video resolution that enables measurement of appendages and abdomen size. The protocol describes machine vision models to enable high-resolution temporal quantification of behavior as well as endpoint measurements of feeding. These methods can be used to test the function of any population of neurons in mosquito biting behavior and can be extended to additional behaviors.
Walker, A. B.; Widun, E. V. X.; Heath-Heckman, E. A. C.
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Recent studies have shown that symbiotic bacteria can have drastic effects on host neurobiology, but few simple, accessible models currently exist in which to study these interactions. Hawaiian bobtail squid (Euprymna scolopes) participate in a binary symbiosis with the bacterium Vibrio fischeri, a population of which resides in a specialized hindgut-derived organ called the light organ. Upon colonization by V. fischeri, the light organ undergoes transcriptional changes that suggest neurons are impacted by the initiation of symbiosis, but the nascent light organs innervation has remained uncharacterized. Here, we show that the light organ-associated nervous system (LONS) in hatchling E. scolopes is a remarkably complex segment of the peripheral nervous system. The LONS is largely plexiform and originates from two primary nerves connected by a local commissure. The abundance of synapsin-like immunoreactivity (-lir) indicates that the lobe plexus is highly interconnected. We also highlight a small number of serotonin-lir neurites that innervate the anterior appendages whose developmental fate may be directly affected by symbiont-driven light organ morphogenesis. Finally, we present evidence that a limited but diverse population of neurons reside within the light organ and are often located near internal symbiont-interacting structures. This description of the E. scolopes LONS serves to provide a foundation from which to investigate how beneficial bacterial symbionts affect host peripheral neurobiology in a tractable model system.
Tar, L.; Saray, S.; Mohacsi, M.; Freund, T. F.; Kali, S.
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Anatomically and biophysically detailed models of neurons have been widely used to study information processing in these cells. Most studies focused on understanding specific phenomena, while more general models that aim to capture various cellular processes simultaneously remain rare even though such models are required to predict neuronal behavior under more complex, natural conditions. In this study, we aimed to develop a detailed, data-driven, general-purpose biophysical model of hippocampal CA1 pyramidal neurons. We leveraged extensive morphological, biophysical and physiological data available for this cell type, and established a systematic workflow for model construction and validation that relies on our recently developed software tools. The model is based on a high-quality morphological reconstruction and includes a diverse curated set of ion channel models. After incorporating the available constraints on the distribution of ion channels, the remaining free parameters were optimized using the Neuroptimus tool to fit a variety of electrophysiological features extracted from somatic whole-cell recordings. Validation using HippoUnit confirmed the models ability to replicate key electrophysiological features, including somatic voltage responses to current input, the attenuation of synaptic potentials and backpropagating action potentials, and nonlinear synaptic integration in oblique dendrites. Our model also included active dendritic spines, modeled either explicitly or by merging their biophysical mechanisms into those of the parent dendrite. We found that many aspects of neuronal behavior were unaffected by the level of detail in modeling spines, but modeling nonlinear synaptic integration accurately required the explicit modeling of spines. Our data-driven model of CA1 pyramidal cells matching diverse experimental constraints is a general tool for the investigation of the activity and plasticity of these cells and can also be a reliable component of detailed models of the hippocampal network. Our systematic approach to building and validating general-purpose models should apply to other cell types as well. Author SummaryThe brain processes information through the activity of billions of individual neurons. To understand how these cells work, scientists build detailed computer models that reproduce their electrical behavior. These models make it possible to explore situations that are difficult or impossible to test experimentally. However, many existing neuron models were designed to explain only a few specific phenomena, which limits their usefulness in more complex settings. In this study, we developed a comprehensive computer model of a hippocampal CA1 pyramidal neuron, a cell type that plays a central role in learning and memory. We built the model using extensive experimental data and applied automated methods to ensure that it reproduces a broad range of observed neuronal behaviors. We also examined how small structures called dendritic spines--tiny protrusions where most synaptic communication occurs--affect how neurons combine incoming signals. We found that even simplified models without individual spines can capture many aspects of neuronal activity, but understanding more complex forms of signal integration requires modeling spines explicitly. Our work also supports the development of more realistic simulations of brain circuits.
Tomko, M.; Lupascu, C. A.; Filipova, A.; Jedlicka, P.; Lacinova, L.; Migliore, M.
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BackgroundFlexibility and robustness of neuronal function are closely linked to degeneracy, the ability of distinct structural or parametric configurations to produce similar functional outcomes. At the cellular level, this often manifests as ion-channel degeneracy, in which multiple combinations of intrinsic conductances yield comparable electrophysiological phenotypes. MethodologyWe used a population-based, data-driven modelling framework to generate large ensembles of biophysically detailed CA1 pyramidal neuron models constrained by somatic electrophysiological features extracted from patch-clamp recordings in acute slices from early-birth rats. 10 reconstructed morphologies were incorporated, and model populations were analyzed using parameter correlation analysis, principal component analysis, and generalization tests to assess robustness, degeneracy, and morphology dependence of intrinsic properties. ConclusionsAcross the model population, similar somatic firing behaviours emerged from widely different combinations of intrinsic parameters, demonstrating robust two-level ion channel degeneracy both within and across morphologies. Each morphology occupied a distinct region of parameter space, indicating morphology-specific compensatory effects, while weak pairwise parameter correlations suggested distributed compensation rather than tight parameter dependencies. Even with a fixed morphology, multiple parameter subspaces supported comparable electrophysiological phenotypes. Generalization across morphologies was structure-dependent and non-reciprocal, with successful parameter similarity occurring preferentially between structurally similar neurons. Interestingly, to accurately simulate spike-frequency adaptation, it was important to retain some kinetic properties of the ion channel models as free parameters during optimization. Together, these findings show that dendrite morphology shapes the valid parameter space, and similar electrophysiology of CA1 pyramidal neurons arises from the interplay between structural variability and ion-channel diversity. This work highlights the importance of population-based modelling for capturing biological variability and provides insights into how neuronal robustness might be maintained despite substantial heterogeneity, and offers a scalable pipeline for generating biophysically realistic CA1 neuron populations for use in network simulations. Author summaryNeurons must reliably process information even though their internal components, such as ion channels and cellular shape, can vary widely from cell to cell. How stable behaviour emerges from such variability is a fundamental question in neuroscience. In this study, we explored this problem using detailed computer models of early-birth rat hippocampal CA1 pyramidal neurons, a cell type that plays a central role in learning and memory. Instead of building a single "average" neuron model, we created large populations of models that all reproduced key experimental recordings but differed in their internal parameters. We found that neurons with different shapes and different combinations of ion channels could nevertheless generate similar electrical activity. This phenomenon, known as ion channel degeneracy, allows neurons to remain functional despite biological variability or perturbations. Our results show that neuronal shape strongly influences which parameter combinations are viable, but that multiple solutions exist even for the same morphology. The population of models we provide offers a resource for future studies of early-birth CA1 pyramidal cell function and dysfunction.
Sar, G. K.; Patton, A.; Towlson, E.; Davidsen, J.
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A central question in neuroscience is how neural processing generates or encodes behavior. Caenorhabditis elegans is well suited to addressing this question, given its compact nervous system and near-complete structural connectome. Despite this, findings from previous studies remain inconclusive. While some have shown that the connectome can robustly encode specific behaviors such as locomotion, others report that functional connectivity can be reconfigured across behaviors. We aim to understand the relationship between structural connectivity, functional connectivity and biological behavior in silico by using an experimentally motivated computational model leveraging the structural connectome. Stimulation of specific neurons in the model induces oscillatory neural responses, enabling us to infer neuronal functional connectivity. Functional connectivity is found to be stronger among some neurons, allowing us to identify functional communities. We find that electrical synapses play a critical role in determining functional communities, and the resulting mesoscale functional architecture is predominantly gap junctionally assortative. Furthermore, comparison with behavioral circuits shows that locomotion circuits are largely segregated into distinct functional communities while other circuits are more distributed across multiple functional communities. We also observe that stimulation of neurons belonging to these distributed circuits elicits a more synchronized neuronal response compared to stimulation of neurons within the more segregated circuits. This is consistent with the presence of behavioral patterns that originate in one circuit and terminate in another (e.g., chemosensation leading to locomotion), such that stimulation of one circuit can activate the other and eventually result in a synchronized response. We also find a large repertoire of chimera-like synchronization patterns upon stimulation of certain behavioral circuits (chemosensation, mechanosensation) indicating high dynamical flexibility. Overall, our results demonstrate that while certain behaviors are governed by functionally segregated circuits, others emerge from the synchronization of multiple functional communities, which are, to begin with, influenced by the underlying structural connectivity. Author summaryAnimals constantly transform sensory inputs into actions, but it is still unclear how this mapping from neural activity to behavior is implemented in a real nervous system. Caenorhabditis elegans offers a unique testbed for this question because its entire wiring diagram is nearly completely mapped. Yet, previous works have reached mixed conclusions about how well this anatomical circuit diagram predicts actual patterns of activity and behavior. Here, we use a biologically inspired computational model of the C. elegans nervous system to bridge this gap between structure, function, and behavior. By virtually stimulating individual neurons and observing the resulting network-wide oscillations, we infer how strongly different pairs and groups of neurons interact in functional terms. We then use network analysis tools to identify groups of neurons that tend to co-activate, and relate these functional communities to known behavioral circuits for locomotion and sensory processing. We find that gap junctions play a key role in shaping functional communities, and that locomotion-related neurons are more functionally segregated than neurons involved in other behaviors, which are more functionally distributed. Our results suggest that some behaviors rely on specialized, functionally isolated circuits, whereas others emerge from the coordinated activity of multiple functional communities.
Pang, Y.; Klussmann-Fricke, B.; Cedden, D.; Zhang, J.; Schinko, J. B.; Averof, M.; Riemensperger, T. D.; Bucher, G.
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The brain is one of the most complex animal organs but the development of the many different neuron types remains enigmatic. A set of brain-specific transcription factors is known to be involved in brain patterning but their specific contributions remain to be elucidated in most cases, including foxQ2II. This transcription factor is known to be conserved in anterior neuroectodermal patterning of most animals while it has been lost from vertebrates. However, the contribution of foxQ2II-positive neurons to the adult brain has remained enigmatic. Here, we use an enhancer trap, immunostainings and our newly established beetle brainbow system to categorize Tc-foxQ2II-positive neurons into nine clusters with different projection patterns. All clusters contain neurons with the fast activating neurotransmitters acetylcholine and glutamate while no Tc-foxQ2II positive neuron is GABA-ergic or serotonin-positive. Interestingly, we found that many dopaminergic neurons were Tc-foxQ2II positive and we homologize them with dopaminergic neurons of the PPL2c, PPM1 and PPL1 cluster described in the Drosophila brain. Our results show that Tc-foxQ2II marks subsets of fast-acting interneurons contributing to the higher order brain centers mushroom bodies and central complex. Taken together, our work expands the known functional range of foxQ2 genes from sensory and neurosecretory cell specification to interneurons involved in the function of higher order brain centers.
Zemlianova, K.; McDaniel, J.; Lander, A. G.; Nwaezeapu, J.; Gutierrez, G. J.
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The phenomenon of splitting was originally observed in hamsters which, after prolonged exposure to constant light, exhibit two rest/wake cycles within a subjective day. Splitting is a consequence of the left and right suprachiasmatic nuclei (SCN) falling out of synchrony. While it is known that split activity is characterized by an antiphase relationship between the left and right SCN and between the core and shell within each hemisphere, the role of the commissural projections that connect the right and left SCN is not known. In the present study, we investigate the impact of the inter-hemispheric connections on the split and unsplit dynamics of a computational model of the bilateral SCN. Our model has 4 nodes corresponding to each right and left core and shell. We simulated our bilateral model under different lighting conditions and measured its period and the phase relationships among the 4 nodes. To further characterize the dynamics of the system, we performed a bifurcation analysis. We found that the bilateral model automatically splits unless entrained by bright light/dark cycles, or unless it has excitatory inter-hemispheric connections. This suggests that excitatory cross-connections may be important for freerunning behavior. We found that constant light of varying intensities transitions the model between split and unsplit activity only in very limited conditions, but the strength and polarity of the contralateral connections play a much greater role in this dynamical transition. These findings suggest that splitting may involve plasticity of the inter-hemispheric connections of the SCN.
Ocana, F. M.; Gomez, A.; Salas, C.; Rodriguez, F.
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The functional organization of the teleost telencephalic pallium remains poorly understood, particularly regarding the presence of modality-specific sensory domains and their topographic arrangement. Here, we used in vivo wide-field voltage-sensitive dye imaging to map sensory-evoked neural activity across the dorsal surface of the telencephalic pallium of adult goldfish. Somatosensory, auditory, gustatory, and visual stimulation revealed distinct, modality-specific domains primarily located within the dorsomedial (Dm) and dorsolateral (Dl) pallium. Within Dm, somatosensory and auditory stimuli activated partially overlapping territories in the caudal subregion (Dm4), exhibiting clear somatotopic and tonotopic organization along the mediolateral axis. Gustatory stimulation selectively engaged Dm3, where different tastants activated spatially distinct but partially overlapping domains. A more rostral subregion (Dm2) responded only to high-intensity somatosensory stimulation, suggesting involvement in processing negatively valenced inputs. Visual stimulation activated a circumscribed area within the dorsolateral pallium (Dld2),that closely matched cytoarchitectural boundaries. Pharmacological blockade of ionotropic glutamate receptors markedly reduced sensory-evoked responses, indicating that these maps depend on glutamatergic synaptic transmission. Together, these findings show that the goldfish pallium contains distinct, spatially organized sensory representations and a refined internal functional architecture. This organization suggests that pallial topographic sensory maps may not be exclusive to mammals and birds. Based on these results, we propose that dorsomedial and dorsolateral pallial regions may be functionally comparable to components of the mammalian mesocortical network, more than to the pallial amygdala or the neocortex. This framework provides a new perspective on pallial organization in teleosts and contributes to understanding the evolutionary origins of the vertebrate pallium. HIGHLIGHTSO_LIVoltage-sensitive dye imaging was used to map sensory responses in the goldfish pallium. C_LIO_LIDistinct sensory areas for somatosensory, auditory, gustatory, and visual modalities were identified. C_LIO_LISome sensory regions in Dm show topographically organized maps. C_LIO_LIFunctional segregation suggests a complex, non-diffuse pallial organization. C_LIO_LIFindings support a novel hypothesis linking Dm and Dld to mammalian mesocortical regions. C_LI
De Matola, M.; Arcara, G.
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Convolutional neural networks (CNNs) are a class of artificial neural networks (ANNs). Since the early 2010s, they have been widely adopted as models of primate vision and classifiers of neuroimaging data, becoming relevant for a wealth of neuroscientific fields. However, the majority of neuroscience researchers come from soft-science backgrounds (like medicine, biology, or psychology) and do not have enough quantitative skills to understand the inner workings of A/CNNs. To avoid undesirable black boxes, neuroscientists should acquire some rudiments of computational neuroscience and machine learning. However, most researchers do not have the time nor the resources to make big learning investments, and self-study materials are hardly tailored to people with little mathematical background. This paper aims to fill this gap by providing a concise but accurate introduction to CNNs and their use in neuroscience -- using the minimum required mathematics, neuroscientific analogies, and Python code examples. A companion Jupyter Notebook guides readers through code examples, translating theory into practice and providing visual outputs. The paper is organised in three sections: The Concepts, The Implementation, and The Biological Plausibility of A/CNNs. The three sections are largely independent, so readers can either go through the entire paper or select a section of interest.
Xu, Z.; Hong, B.; Li, L.; Xie, T.; Chen, Z.; Yao, H.; Zhang, T.
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Electrophysiological data, which serve as a biological signal that bridges neural activity and behavioral tasks, provide an innovative approach to neuroscience research. In this study, we constructed a dataset that contains over 2000 neurons across 117 days recorded in 20 mice containing 28,573 trials. Data for 5 mice were collected from the Secondary Motor Cortex (M2) region 8 mice was derived from the Ventrolateral Striatum (VLS) and 7 mice were from Substantia Nigra pars Reticulata (SNR). We induced licking behavior in head-fixed mice by periodically delivering water through a spout while simultaneously recording spiking activity from three brain regions and behavior related electrical signals. This dataset ensures precise temporal alignment between neural activity and behavioral events, offering a robust foundation for investigating neural encoding mechanisms and simulation of neural activities. This dataset establishes a precise spike-to-event mapping, which enables high decoding accuracy using Multilayer Perceptron (MLP) and Support Vector Machine (SVM). It can serve as a high-quality benchmark for developing encoding and decoding algorithms in neural networks, particularly Spiking Neural Networks (SNNs).
Vanni, S.; Vedele, F.; Hokkanen, H.
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The primate retina dissects visual scenes into multiple retinocortical streams. The most numerous retinal ganglion cell (GC) types, midget and parasol cells, are further divided into ON and OFF subtypes. These four GC populations have anatomical and physiological asymmetries, which are reflected in the spike trains received by downstream circuits. Computational models of the visual cortex, however, rarely take GC signal processing into account. We have built a macaque retina simulator with the aim of providing biologically plausible spike trains for downstream visual cortex simulations. The simulator is based on realistic sampling density and receptive field size as a function of eccentricity, as well as on two distinct spatial and three temporal receptive field models. Starting from data from literature and earlier receptive field measurements, we synthetize distributions for receptive field parameters, from which the synthetic units are sampled. The models are restricted for monocular and monochromatic stimuli and follow data from the temporal hemiretina which is more isotropic. We show that the model patches conform to anatomical data not used in the reconstruction process and characterize the responses with respect to spatial and temporal contrast sensitivity functions. This simulator allows starting from a stimulus video and provides biologically plausible spike trains for the distinct unit types. This supports development of thalamocortical primate model systems of vision. In addition, it can provide a reference for more biophysical retina models. The independent parameters are housed in text files supporting reparameterization for particular macaque data or other primate species. Author summaryVisual environment provides a rich source of information, and the visual system structure and function has been studied for decades in many species, including humans. The most complex data in mammalian species are processed in the cerebral cortex, but to date we are still missing a functioning model of cortical computations. While the earlier anatomical and physiological data describe many details of the visual system, to understand the functional logic we need to numerically simulate the complex interactions within this system. To pave the way for simulating visual cortex computations, we have developed a functioning model for macaque retina. The neuroinformatics comprises a review and re-digitized existing retina data from literature, as well as statistics of earlier macaque receptive field data. Finally, we provide software which brings the collected neuroinformatics to life and allows researchers to convert visual input into biologically feasible spike trains for simulation experiments of visual cortex.
Grossjohann, A.; Richter, V.; Reinhardt, F.; Hahmann, M.; Badelt, R.; Kinnigkeit, J.; Breitfeld, J.; Kovacs, P.; Stadler, P. F.; Coin, I.; Thum, A. S.
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Octopamine is involved in a variety of different physiological and behavioral mecha-nisms in Drosophila melanogaster. Throughout the life cycle of the fruit fly, from the larva to the adult, octopaminergic neurons in both the central and the peripheral nerv-ous system target a multitude of neurons and even non-neuronal tissues, making it challenging to analyze individual mechanisms of octopamine function. One approach to deconstructing this complex system is to examine the postsynaptic components of signal transmission. In Drosophila, octopamine interacts with six distinct G-protein-coupled receptors. For some of these receptors, expression maps and functional im-plications have been described. In contrast, other receptors have been neglected, partly due to the lack of suitable genetic tools. Here, for the first time, we compiled a complete set of mutant lines of all known octopamine receptors, all generated using the same genetic tool, the recently established Trojan Exon system. It integrates the Gal4/UAS binary expression strategy while simultaneously impairing receptor func-tion. This enabled us to generate a comprehensive anatomical map of receptor ex-pression in the larva and, at the same time, analyze the function of individual octopa-mine receptors during larval development, chemosensory perception and locomotion. All octopamine receptors (Oamb, Oct2R, Oct{beta}1R, Oct{beta}2R, Oct{beta}3R, and Oct-TyrR) showed extensive signal in the central nervous system. The same was found for the peripheral nervous system, with the exception of Oct{beta}2R, which showed pronounced expression in the somatic muscles. We also observed a previously undescribed role of Oct{beta}1R, Oct{beta}3R, and Oct-TyrR in larval hatching and in the survival of larvae and pupae. Molecular evaluation of the Trojan Exon octopamine lines supports our analy-sis. In addition, we combined the experimental results with gene expression data from the different development stages of Drosophila melanogaster and from different tis-sues and cell populations throughout the body. Overall, we compiled, analyzed and validated a complete set of octopamine lines which, together with gene expression analysis, provides a basis for further functional studies on the larval octopaminergic system.
Cheron, J.; Lowman, M.; Anant, M.; Siauw, M.; Kebschull, J. M.
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The cerebellar nuclei form the main output structures of the cerebellum and are composed of a deeply conserved set of cell types. Two excitatory cell classes, Class-A and -B, are present in each cerebellar nucleus and mediate all excitatory output of the cerebellum. To provide genetic access to these cell types, here we identified Acan as a marker gene for Class-B cells and generated a knock-in Acan-P2A-Cre mouse line. We demonstrate that this Acan-Cre line selectively labels Class-B neurons in the cerebellar nuclei and validate its use in viral projection tracing. This new mouse line provides a valuable genetic tool to study cerebellar nuclei organization and function.
Arellano, J. I.; Rakic, P.
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The hippocampus participates in crucial functions such as memory consolidation, spatial processing and emotional regulation that require diverse input from multiple cortical areas that is funneled through the upper layers of the entorhinal cortex (EC), mostly from layer II to the dentate gyrus (DG). Traditional models described 200,000 EC layer II neurons projecting to 1 million granule cells (GCs) in the rat, rendering low divergence (1:5), with each EC neuron establishing about 18,000 synapses with GCs and each GC receiving about 4,000 synapses from EC neurons. In this manuscript, we update this model of connectivity incorporating new features described in the last three decades that include updated populations of EC layer II neurons obtained with design-based stereology, a revised definition of EC layer II based on molecular criteria and selecting reelin expressing neurons as the only layer II neurons projecting to the hippocampus. The updated model shows [~]80,000 neurons from EC layer II projecting to the DG, [~]45,000 from the medial entorhinal cortex (MEC) and [~]35,000 from the lateral entorhinal cortex (LEC) with high divergence of 1:20 and 1:30. We also show that EC layer II neurons may establish [~]90,000-115,000 synapses on GCs, while GCs receive about 8,000 synapses from EC layer II neurons. We estimate a [~]25% redundancy in the connectivity, so each EC neuron may contact [~]68,000-86,000 GCs and each GC would be contacted by [~]3000 neurons from MEC and 3,000 from LEC. In addition, we quantitatively assess a potential projection of mossy cells to the medial molecular layer described in mice, which could have a potential impact on GC inhibition. Overall, we produced a detailed, complete, and updated quantitative model of EC projections to the DG that reveals a much more divergent and richer projection than previously described, with implications for functional models (e.g.: pattern separation) and more widely for building realistic hippocampal models or establishing comparisons across species.
Furuichi, S.; Kohno, T.
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The brain is believed to process information efficiently in a different manner from deep learning-based artificial intelligence (AI). Brain-like next-generation AI is gaining attention owing to its potential to perform human-like, highly adaptive, robust, and power-efficient computation. To realize such AI, one crucial approach is the bottom-up implementation of the neuronal systems, capturing their electrophysiological characteristics in electronic circuits. However, this neuromorphic approach generally focuses on simplified neuronal models that do not refer to many biological findings. Developing closer-to-brain models is a natural direction that serve as a fundamental computing model for next-generation AI. One of the constraints of neuromorphic circuits is the bit resolution of synaptic efficacy memory, as the memory footprint scales with it precision. Although low-resolution synaptic efficacy is essential for minimizing memory circuit footprint and energy consumption, it generally leads to performance degradation in many tasks such as the spatio-temporal spike pattern detection. This study proposed a closer-to-brain learning rule that incorporates heterosynaptic plasticity (HP) induced by glutamate spillover. It is demonstrated that our model mitigates the performance degradation associated with low-bit resolution synaptic efficacy, achieving the pattern detection success rate with 3-bit resolution synaptic efficacy, which is comparable to 64-bit floating-point precision. Furthermore, the findings of the study indicate that HP based model accelerates the convergence of the synaptic effcacy and effectively potentiates the synapses relevant to the pattern detection while suppressing irrelevant ones, thereby promoting a bimodal distribution of synaptic efficacies. These findings may provide a basic framework for constructing an energy-efficient, brain-like next-generation AI that maintains high performance under hardware constraints.
Barrios, G.; Olechowski-Bessaguet, A.; Cardoit, L.; Fevrier, T.; Wattignier, A.; Tostivint, H.; Cattaert, D.; Thoby-Brisson, M.; Lambert, F. M.
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Vestibular neurons are core elements of the pathways involved in vestibulo-motor functions, such as vestibulo-spinal and vestibulo-ocular reflexes. To meet behavioral needs, electrophysiological neuronal properties are adequately adapted to the sensory-motor computation sustaining these distinct vestibular reflexes. During frog metamorphosis, there is a complete reorganization of the posturo-locomotor system while the oculomotor system remains minimally changed, probably associated to so far unknown changes in vestibular neuronal properties. We used this unique model to investigate the central developmental mechanisms underlying such a reconfiguration of vestibular-associated behaviors. Central vestibular neurons exhibit two types of electrophysiological phenotypes: tonic neurons with a continuous discharge and phasic neurons with a transitory discharge mainly due to the activation of Kv1.1 channel. Electrophysiological recordings and Kv1.1 immunolabeling of vestibulospinal (VS) and vestibulo-ocular (VO) neurons at both larval and juvenile stages revealed that the majority of VS neurons exhibited a tonic discharge in larvae but a phasic discharge in juvenile, while VO neurons remained mainly tonic throughout development. Changes in phasic and tonic neurons proportions in VS population are partly explained by neurogenesis. But we provide evidences that an electrophysiological phenotype switch is a concomitant developmental mechanism participating in the maturation of these central vestibular neurons. All together our results showed that the maturation process in central vestibular neuronal groups is highly related to the metamorphosis-induced remodeling of vestibulo-motor functions they are involved in, with the ultimate purpose of ensuring an adequate adaptation of neuronal elements properties to the developmental changes of behavioral constrains.