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Search indexed bioRxiv preprints in genomics, neuroscience, cell biology and bioinformatics. Read source abstracts and check manuscript versions; preprints are not peer reviewed.

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bioRxiv2023

Differential neural circuit vulnerability to β-amyloid and tau pathologies in novel Alzheimer disease mice

Alzheimers disease (AD) progresses with memory loss and neuropsychiatric symptoms associated with cell specific vulnerability in memory- and emotion-related neural circuits. Neuropathological and synaptic changes are key factors influencing the clinical progression to dementia, but how they cooperate to cause memory and emotional disturbances is largely unknown. Here, we employed pathological, behavioral, expansion microscopy, electrophysiology and transcriptomic approaches to evaluate the effects of amyloid-{beta} (A{beta}) and tau on neuropathological progression, synaptic function, and memory and emotional symptoms in amyloid precursor protein (APP), Tau and double novel APP/Tau transgenic mice expressing the mutant human amyloid precursor protein (APPSw,Ind) and/or microtubule-associated protein tau (MAPT) in excitatory neurons. APP/Tau mice of both sexes show spatial learning and memory deficits associated with synaptic tau accumulation and reduced synaptic proteins and neurotransmission in the hippocampus. By contrast, male and female APP/Tau mice exhibit innate anxious behavior and impaired fear memory extinction linked to A{beta} pathology and with absence of synaptic tau in the basolateral amygdala (BLA). Intriguingly, APP/Tau mice show NMDA-dependent long-term potentiation (LTP) deficits in the hippocampus but not in the amygdala. Bulk RNA sequencing reveals region-specific but also common transcriptional changes in response to A{beta}/tau pathology, including downregulation of synapse transmission and ion channel activity genes. Importantly, we detected 65 orthologs of human AD risk genes identified in GWAS (e.g., APOE, BIN1, CD33, CLU, PICALM, PLCG2, PTK2B, TREM2, SORL1, USP6NL) differentially expressed in the hippocampus and/or BLA of APP/Tau mice, indicating that this APP/Tau model exhibits transcriptional alterations linked to known molecular determinants of AD development. In conclusion, simultaneous development of A{beta} and tau neuropathologies in this double APP/Tau transgenic mouse model reproduces synaptic, behavioral, and molecular alterations associated with AD pathophysiology in a region-specific manner. Our findings highlight region-specific pathological effects of A{beta} and tau in excitatory neuronal circuits mediating emotional and memory processing, providing evidence that both factors and their molecular cascades should be considered in future AD preventive and therapeutic strategies. Graphical abstractAge-dependent vulnerability of memory and emotional neural circuits in response to tau and A{beta} pathologies. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=146 SRC="FIGDIR/small/536603v1_ufig1.gif" ALT="Figure 1"> View larger version (44K): org.highwire.dtl.DTLVardef@efbe90org.highwire.dtl.DTLVardef@1c7f1dborg.highwire.dtl.DTLVardef@1d7764borg.highwire.dtl.DTLVardef@9738ec_HPS_FORMAT_FIGEXP M_FIG C_FIG

neuroscience↗

bioRxiv2025

Towards a mental programming neural circuit: Insights from working memory sequence manipulation

Cognitive reasoning, also known as mental programming, is fundamental to our intelligence. A central function in mental programming is working memory (WM), involving both temporarily maintaining the information and manipulating it based on rules. While the neural mechanisms of WM maintenance have been extensively studied, those governing WM manipulation remain largely unknown. To bridge this gap, the present study focuses on an elementary operation in WM manipulation: re-ordering items in WM sequences. We propose a functional, biologically plausible neural circuit model that consists of two interconnected modules: a memory module composed of continuous attractor-based memory slots that store item features, and a control module sending gain-modulating commands to orchestrate specific operations in the memory module. The model successfully implements two-item swapping in a WM sequence, generating neuronal responses similar to recent primate experiments of WM sequence manipulation. By incorporating principles from the algebraic permutation group, we generalize the circuit model to accommodate more complex sequence manipulations. This math foundation reveals how arbitrary permutations can be decomposed into sequences of elementary swapping operations, which can be generated by a hierarchical tree-structured control circuit module. And the mutual inhibition within the control tree ensures that only one program is being executed at the same time. Our study establishes overarching connections among mental programming neural circuit models, neuro-science experiments, and abstract algebraic structure. These insights enhance our understanding of the neural underpinnings of cognitive reasoning and inspire the design of artificial cognitive systems.

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bioRxiv2021

A linear neural circuit for light avoidance in Drosophila larvae

Understanding how neural circuits underlie behaviour is challenging even in the era of the connectome because it requires a combined approach encompassing anatomical and functional analyses. This is exemplified in studying the circuit underlying the light-avoidance behaviour displayed by the larvae of the fruit fly Drosophila melanogaster. While this behaviour is robust and the nervous system relatively simple, only bits and pieces of the circuit have been delineated1. Indeed, some studies resulted in contradicting conclusions regarding the contributions of various neuronal types to this behaviour2,3. Here we devise trans-Tango MkII, a new version of the transsynaptic circuit tracing and manipulation tool trans-Tango4. We implement trans-Tango MkII in anatomical tracing and combine it with circuit epistasis analysis. We use neuronal inhibition to test necessity of particular neuronal types for light-avoidance. We complement these experiments by selective neuronal activation to examine sufficiency in rescuing light-avoidance deficiencies exhibited by photoreceptor mutants. Together, our studies reveal a four-order, linear circuit for light-avoidance behaviour connecting the light-detecting photoreceptors with a pair of neuroendocrine cells via two types of clock neurons. Our combined approach could be readily expanded to other larval circuits. Further, this strategy provides the framework for studying more complex nervous systems and behaviours.

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bioRxiv2026

A Microfluidic Platform for Spatiotemporal Dissection of Neurodegeneration Across Hierarchical Human Neural Circuits

Understanding how neurodegenerative diseases initiate and propagate through neural circuits remains a fundamental challenge in neuroscience. The earliest stages occur years before symptoms emerge, making them inaccessible to study in patients. Microfluidic platforms, where neurons communicate across chambers through microchannels accessible only to their axons, have opened new experimental avenues. However, existing models lack the complexity and precision needed to track how individual circuit components respond to focal pathological changes over time. Here we present a 33-chamber cortical network-on-chip integrating human iPSC-derived excitatory neurons, inhibitory neurons, and astrocytes in a six-layer feedforward architecture recapitulating the laminar structure of the neocortex. Amyloid-{beta} is applied globally, while progerin-induced accelerated ageing in a single chamber establishes a defined disease core. Continuous recordings using high-density microelectrode arrays reveal progressive, layer-dependent changes in firing dynamics and network topology. Machine-learning-based feature analysis identifies a multiparametric electrophysiological signature distinguishing healthy from disease-affected chambers, enabling studies of the earliest timepoint at which pathology becomes detectable. This establishes a scalable framework for mechanistic studies of neurodegeneration and identification of electrophysiological biomarkers of disease progression.

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bioRxiv2024

Cytokine expression patterns predict suppression of vulnerable neural circuits in a mouse model of Alzheimer's disease

Alzheimers disease is a neurodegenerative disorder characterized by progressive amyloid plaque accumulation, tau tangle formation, neuroimmune dysregulation, synapse and neuron loss, and changes in neural circuit activation that lead to cognitive decline and dementia. Early molecular and cellular disease-instigating events occur 20 or more years prior to presentation of symptoms, making them difficult to study, and for many years amyloid-{beta}, the aggregating peptide seeding amyloid plaques, was thought to be the toxic factor responsible for cognitive deficit. However, strategies targeting amyloid-{beta} aggregation and deposition have largely failed to produce safe and effective therapies, and amyloid plaque levels poorly correlate with cognitive outcomes. However, a role still exists for amyloid-{beta} in the variation in an individuals immune response to early, soluble forms of aggregates, and the downstream consequences of this immune response for aberrant cellular behaviors and creation of a detrimental tissue environment that harms neuron health and causes changes in neural circuit activation. Here, we perform functional magnetic resonance imaging of awake, unanesthetized Alzheimers disease mice to map changes in functional connectivity over the course of disease progression, in comparison to wild-type littermates. In these same individual animals, we spatiotemporally profile the immune milieu by measuring cytokines, chemokines, and growth factors across various brain regions and over the course of disease progression from pre-pathology through established cognitive deficit. We identify specific signatures of immune activation predicting hyperactivity followed by suppression of intra- and then inter-regional functional connectivity in multiple disease-relevant brain regions, following the pattern of spread of amyloid pathology.

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bioRxiv2026

Spatial information transfer in recurrent place-cell networks depends on excitation-inhibition balance, neural-circuit heterogeneities, and trial-to-trial variability

A key challenge in understanding spatial navigation and memory is explaining how hippocampal networks sustain robust spatial information transfer despite pronounced trial-to-trial variability and pervasive neural-circuit heterogeneities. Although hippocampal heterogeneities and physiological variability are well-characterized, circuit-scale understanding of stable information transfer in recurrent place-cell networks remains limited. Here, we first show that even recurrent networks composed of intrinsically identical neurons and receiving identical place-field inputs express pronounced neuron-to-neuron variability in spatial tuning profiles, place-field widths, subthreshold ramp amplitudes, and spatial information transfer. Introduction of intrinsic within-type heterogeneities to excitatory and inhibitory neurons further increased diversity in firing properties, but strikingly improved robustness of spatial information transfer under high trial-to-trial variability. Although strengthening inhibition expectedly narrowed place fields and reduced firing across all networks, the impact of inhibition on information-transfer profiles was stronger in heterogeneous networks manifesting high degree of trial-to-trial variability. Across networks, increasing trial-to-trial variability reduced information transfer and shifted the spatial location of peak information from the high-slope regions of the tuning curve to its peak-firing location. Finally, incorporating afferent heterogeneities allowed neurons to be tuned to distinct place-field centers, reducing peak information values while amplifying neuron-to-neuron diversity in information-transfer profiles. Together, we demonstrate that excitation-inhibition balance, trial-to-trial variability, within-type heterogeneities, and afferent input diversity jointly regulate spatial information transfer in recurrent place-cell circuits. We also highlight intrinsic heterogeneities as substrates for enhanced robustness of spatial coding against perturbations. Importantly, the convergence of multiple disparate mechanisms in yielding similar information-transfer profiles underscores degeneracy as a fundamental organizing principle in neural-circuit physiology.

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bioRxiv2021

A neural circuit linking two sugar sensors regulates satiety-dependent fructose drive in Drosophila.

Ingestion of certain sugars leads to activation of fructose sensors within the brain of flies, which then sustain or terminate feeding behavior depending on internal state. Here, we describe a three-part neural circuit that links satiety with fructose sensing. We show that AB-FBl8 neurons of the Fan-shaped body display oscillatory calcium activity when hemolymph glycemia is high, and that these oscillations require synaptic input from SLP-AB neurons projecting from the protocerebrum to the asymmetric body. Suppression of activity in this circuit, either by starvation or genetic silencing, promotes specific drive for fructose ingestion. Moreover, neuropeptidergic signaling by tachykinin bridges fan-shaped body activity and Gr43a-mediated fructose sensing. Together, our results demonstrate how a three-layer neural circuit links the detection of two sugars to impart precise satiety-dependent control over feeding behavior.

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bioRxiv2025

A neural circuit for female-specific defensive homeostasis in risk assessment

HighlightsSC CB1R+ neurons encode visual survival threats and initiate risk assessment in both sexes CB1R+ SC-LHb GABAergic circuit maintains defensive homeostasis in risk assessment in females eCBs gate this circuit by disinhibiting presynaptic GABA release exclusively in females Disruption of this mechanism female-specifically impairs risk assessment and stress coping In BriefLiu et al. identify a female-specific subcortical circuit in which eCB signaling, via CB1R on GABAergic terminals in the SC, suppresses transmission to the LHb to maintain precise defensive homeostasis in risk assessment. These findings uncover the circuit and neuronal mechanisms that contribute to the sexually dimorphic maintenance of defensive homeostasis. Risk assessment in defensive behavior is an adaptive mechanism shaped by natural selection, enabling individuals to evaluate potential threats and thereby maintain defensive homeostasis. However, it remains unknown whether specific neural circuits maintain their behavioral homeostasis in a sex-specific manner. To address this, we investigated its neural basis by hierarchical behavior analysis framework with neural circuit dissection. In mice of both sexes, visual survival threats activated cannabinoid 1 receptor (CB1R)-expressing neurons in the superior colliculus (SC) to initiate consistent risk assessment. Deletion of CB1R in SC GABAergic neurons female-specifically impairs risk assessment by disinhibiting GABA release in SC-lateral habenula (LHb) projections, resulting in shortened risk assessment. This disruption furthermore increases the occurrence of abnormal spontaneous behavior following chronic stress exclusively in females. We identified a female-specific SC-LHb GABAergic circuit gated by CB1R maintains defensive homeostasis in risk assessment. Our findings reveal how a conserved neuromodulatory system sex-specifically gates a subcortical circuit to orchestrate distinct survival strategies.

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bioRxiv2026

Streamlined Production of Recombinant Adeno-Associated Viruses Using Gateway Cloning Technology for Neural Circuit All-Optical Interrogation

The advent of optogenetics and the rapid development of genetically encoded actuators and reporters for calcium, voltage, neurotransmitters, and other molecules have revolutionized neuroscience research by enabling precise, non-invasive optical interrogation of neural circuits. Successful implementation, however, critically depends on efficient reporter expression in defined neuronal populations. We present a Gateway(R)-based cloning platform providing a robust pipeline for rapid, efficient construction of recombinant adeno-associated virus (rAAV) vectors optimized for neuroscience applications. This platform addresses promoter selection, indicator engineering, and capsid-type optimization, and enables systematic optimization of vector components across a range of optical tools. The benefit of this modular approach is illustrated in the case of ULoVE, a two-photon microscopy method based on acousto-optic deflectors (AODs). This method provides serial light-targeting with kHz sampling rates and high signal-to-noise ratio in vivo, which imposes stringent requirements on indicator expression -- including cell-type specificity, sparse labelling, and precise control of expression levels-- efficiently met through the combinatorial flexibility of the Gateway pipeline. As specific examples, Gateway-constructed Cre-driver viruses combined with Cre-dependent reporters enabled cell-type-specific labelling for two complementary applications. In cerebellar Purkinje cells, an L7::Cre driver virus paired with a Gateway-constructed voltage indicator (JEDI2P-Kv) and ULoVE two-photon excitation at ~5 kHz enables resolution of sub-millisecond dendritic voltage dynamics in awake, behaving mice, including optical detection of dendritic spikelets previously accessible only via intracellular electrophysiology. The same driver virus paired with calcium indicators (GCaMP6f, jRGECO1a) resolves climbing fiber-evoked calcium kinetics under the same conditions. In acute cerebellar slices, a kit::Cre driver virus enabled cell-type-specific expression of the optogenetic actuator ChR2(H134R) in molecular layer interneurons, where ULoVE doughnut-pattern photostimulation achieved single-cell, sub-millisecond optogenetic activation with micron-scale spatial resolution. Beyond ULoVE applications, the same sparse, strong labelling also proved suitable for anatomical tracing of axonal projections in cleared cerebellar tissue, resolving individual DCN axon terminals at the granule cell layer --molecular layer boundary. Taken together, our dual-front approach --combining a modular AAV expression pipeline with AOD-based optical acquisition --provides an integrated platform for developing sophisticated optical tools, including but not limited to AOD-based microscopy, for neural circuit interrogation.

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bioRxiv2016

Advances in two photon scanning and scanless microscopy technologies for functional neural circuit imaging

Recent years have seen substantial developments in technology for imaging neural circuits, raising the prospect of large scale imaging studies of neural populations involved in information processing, with the potential to lead to step changes in our understanding of brain function and dysfunction. In this article we will review some key recent advances: improved fluorophores for single cell resolution functional neuroimaging using a two photon microscope; improved approaches to the problem of scanning active circuits; and the prospect of scanless microscopes which overcome some of the bandwidth limitations of current imaging techniques. These advances in technology for experimental neuroscience have in themselves led to technical challenges, such as the need for the development of novel signal processing and data analysis tools in order to make the most of the new experimental tools. We review recent work in some active topics, such as region of interest segmentation algorithms capable of demixing overlapping signals, and new highly accurate algorithms for calcium transient detection. These advances motivate the development of new data analysis tools capable of dealing with spatial or spatiotem-poral patterns of neural activity, that scale well with pattern size.

Neuroscience↗

bioRxiv2025

Toward Crosstalk-free All-optical Interrogation of Neural Circuits

All-optical interrogation, based on high-resolution two-photon stimulation and imaging, has emerged as a potentially transformative approach in neuroscience, allowing for the simultaneous precise manipulation and monitoring of neuronal activity across various model organisms. However, the unintended excitation of light-gated ion channels such as channelrhodopsin (ChR) during two-photon calcium imaging with genetically encoded calcium indicators (GECIs) introduces artifactual neuronal perturbation and contaminates neural activity measurements. In this study, we propose an active pixel power control (APPC) approach, which dynamically adjusts the imaging laser power at each scanning pixel, to address the challenge. We aim to achieve simultaneous two-photon optogenetic manipulation and calcium imaging with a single femtosecond laser, while minimizing the crosstalk between manipulation and imaging. To study this technologys capabilities, we applied it to the larval zebrafish brain in vivo. Our results demonstrate that the APPC approach preserves GECI signal quality while suppressing optogenetic artifacts significantly. This enhances the accuracy of neural circuit dissection and advances the precision of all-optical interrogation, offering a robust framework for probing neural circuit dynamics and causality in vivo with high fidelity, potentially across various model organisms. Importantly, this technology can be seamlessly integrated with commonly used two-photon microscope systems in laboratories worldwide.

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bioRxiv2019

Dissociable neural circuits underlie the resolution of three discrete sources of competition during task-switching.

Humans perform sub-optimally when juggling more than one task, but are nonetheless required to multitask during many daily activities. Rapidly and effectively switching attentional focus between tasks is fundamental to navigating complex environments. Task-switching paradigms in conjunction with neuroimaging have identified brain networks underpinning flexible reallocation of cognitive resources and a core network of neural regions is repeatedly implicated (i.e., posterior parietal, inferior frontal, anterior cingulate, and middle frontal cortex). Performance costs such as reduced accuracy and slowed responses accompany the first execution of a task following a task-switch. These costs stem from three main sources of competition: 1) the need to reconfigure task-rules, 2) the immediate history of motor responding, and 3) whether inputs to be acted upon provide congruent or incongruent information regarding the appropriate motor response, relative to the recently \"switched-away-from\" task. Here, we asked whether both common (domain-general) and non-overlapping (dissociable) neural circuits were involved in resolving these three distinct sources of competition under high-demand task-switching conditions. Dissociable neural circuits were active in resolving each of the three sources of competition. No domain-general regions were implicated in all three. Rather, two regions were common across rule-switching and stimulus incongruence, and five regions to incongruence and response-switching. Each source of conflict elicited activation from many regions including the posterior cingulate, thalamus, and cerebellum, regions not commonly implicated in the task-switching literature. These results suggest that dissociable neural networks are principally responsible for resolving different sources of competition, but with partial interaction of some overlapping domain-general circuitry.

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bioRxiv2024

Non-Negative Connectivity Causes Bow-Tie Architecture in Neural Circuits

Bow-tie or hourglass architecture is commonly found in biological neural networks. Recently, artificial neural networks with bow-tie architecture have been widely used in various machine-learning applications. However, it is unclear how bow-tie architecture in neural circuits can be formed. We address this by training multi-layer neural network models to perform classification tasks. We demonstrate that during network learning and structural changes, non-negative connections amplify error signals and quench neural activity particularly in the hidden layer, resulting in the emergence of the networks bow-tie architecture. We further show that such architecture has low wiring cost, robust to network size, and generalizable to different discrimination tasks. Overall, our work suggests a possible mechanism for the emergence of bow-tie neural architecture and its functional advantages.

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bioRxiv2023

Neural-circuit basis of song preference learning in fruit flies

As observed in human language learning and song learning in birds, the fruit fly Drosophila melanogaster changes its auditory behaviors according to prior sound experiences. Female flies that have heard male courtship songs of the same species are less responsive to courtship songs of different species. This phenomenon, known as song preference learning in flies, requires GABAergic input to pC1 neurons in the central brain, with these neurons playing a key role in mating behavior by integrating multimodal sensory and internal information. The neural circuit basis of this GABAergic input, however, has not yet been identified. Here, we find that pCd-2 neurons, totaling four cells per hemibrain and expressing the sex-determination gene doublesex, provide the GABAergic input to pC1 neurons for song preference learning. First, RNAi-mediated knockdown of GABA production in pCd-2 neurons abolished song preference learning. Second, pCd-2 neurons directly, and in many cases mutually, connect with pC1 neurons, suggesting the existence of reciprocal circuits between pC1 and pCd-2 neurons. Finally, GABAergic and dopaminergic inputs to pCd-2 neurons are necessary for song preference learning. Together, this study suggests that reciprocal circuits between pC1 and pCd-2 neurons serve as a sensory and internal state-integrated hub, allowing flexible control over female copulation. Consequently, this provides a neural circuit model that underlies experience-dependent auditory plasticity. SignificanceTo find a suitable mate, an organism must adapt its behavior based on past experiences. In the case of Drosophila, female assessments of male song signals, which contain information about the status and species of the sender, are experience dependent. Here, we show that reciprocal circuits in the central brain modulate the females song response depending on her previous auditory experiences. These circuits exhibit feedback and lateral inhibition motifs, and are regulated by dopaminergic and GABAergic inputs. While the effects of prior auditory experiences on sound responsiveness have been extensively studied in other species, our research advances the use of Drosophila as a model for dissecting the circuitry underlying experience-dependent auditory plasticity at single-cell resolution.

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bioRxiv2021

Saccades along spatial neural circuit discontinuities

Saccades are realized by six extraocular muscles that define the final reference frame for eyeball rotations. However, upstream of the nuclei innervating the eye muscles, eye movement commands are represented in two-dimensional retinocentric coordinates, as is the case in the superior colliculus (SC). In such spatial coordinates, the horizontal and vertical visual field meridians, relative to the line of sight, are associated with neural tissue discontinuities due to routing of binocular retinal outputs when forming retinotopic sensory-motor maps. At the level of the SC, a functional discontinuity along the horizontal meridian was additionally discovered, beyond the structural vertical discontinuity associated with hemifield lateralization. How do such neural circuit discontinuities influence purely cardinal saccades? Using thousands of saccades from 3 rhesus macaque monkeys and 14 human subjects, we show how the likelihood of purely horizontal or vertical saccades is infinitesimally small, nulling a discontinuity problem. This does not mean that saccades are sloppy. On the contrary, saccades exhibit remarkable direction and amplitude corrections to account for small initial eye position deviations due to fixational variability: "purely" cardinal saccades can deviate, with an orthogonal component of as little as 0.03 deg, to correct for tiny target position deviations from initial eye position. In humans, probing perceptual target localization additionally revealed that saccades show different biases from perception when targets deviate slightly from purely cardinal directions. These results demonstrate a new functional role for fixational eye movements in visually-guided behavior, and they motivate further neurophysiological investigations of saccade trajectory control in the brainstem. New and NoteworthyPurely cardinal saccades are often characterized as being straight. We show how a small amount of curvature is inevitable, alleviating an implementational problem of dealing with neural circuit discontinuities in the representations of the visual meridians. The small curvature functionally corrects for minute variability in initial eye position due to fixational eye movements. Saccades are far from sloppy; they deviate by as little as <1% of the total vector size to adjust their landing position.

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bioRxiv2021

Pax3 induces neural circuit repair through a developmental program of directed axon outgrowth.

Repairing damaged or dysfunctional human brain circuits remains an ongoing challenge for biomedical science. While surviving neuronal networks can be reorganised after lesion, for example by neurotrophins, these new connections are disorganised and rarely produce clinical improvement. Here we investigate how to promote axonal growth while retaining correct cellular targeting. We show that, in response to brain-derived neurotrophic factor (BDNF) in target-tissue, potential reinnervating neurons upregulate Pax3. Pax3 in turn increases polysialic acid-neural cell adhesion molecule (PSA-NCAM) on their axon terminals, facilitating their outgrowth and pathfinding, and resulting in correctly-targeted neural circuit repair in the mature nervous system. This is a novel role for Pax3, which we confirmed by showing its expression in afferent neurons is essential for spontaneous and BDNF-induced reinnervation in the developing and mature brains, respectively. Together these results suggest that Pax3 contributes to a repair program, in which axon growth is promoted and direction signaling maintained. These data advance our understanding for accurately rebuilding neural circuits: restricting growth-promotion to potential afferent neurons, as opposed to stimulating the whole circuit, allows axon growth without impairing its guidance.

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bioRxiv2020

A neural circuit mechanism of categorical perception: top-down signaling in the primate cortex

In contrast to feedforward architecture commonly used in deep networks at the core of todays AI revolution, the biological cortex is endowed with an abundance of feedback projections. Feedback signaling is often difficult to differentially identify, and its computational roles remain poorly understood. Here, we investigated a cognitive phenomenon, called categorical perception (CP), that reveals the influences of high-level category learning on low-level feature-based perception, as a putative signature of top-down signaling. By examining behavioral data from a visual motion delayed matching experiment in non-human primates, we found that, after categorization training, motion directions closer to (respectively, away from) a category center became more (less) difficult to discriminate. This distance-dependent discrimination performance change along the dimension relevant to the learned categories provides direct evidence for the CP phenomenon. To explain this experimental finding, we developed a neural circuit model that incorporated key neurophysiological findings in visual categorization, working memory and decision making. Our model accounts for the behavioral data indicative of CP, pinpoints its circuit basis, suggests novel experimentally testable predictions and provides a functional explanation for its existence. Our work shows that delayed matching paradigms in non-human primates combined with biologically-based modeling can serve as a promising model system for elucidating the neural mechanisms of CP, as a manifestation of top-down signaling in the cortex. Significant StatementCategorical perception is a cognitive phenomenon revealing the influences of high-level category learning on low-level feature-based perception. However, its underlying neural mechanisms are largely unknown. Here, we found behavioral evidence for this phenomenon from a visual motion delayed matching experiment in non-human primates. We developed a neural circuit model that can account for this behavioral data, pinpoints its circuit basis, suggests novel experimentally testable predictions and provides a functional explanation for its existence. Our work shows that delayed matching paradigms in non-human primates combined with biologically-based modeling can serve as a promising model system for elucidating the neural mechanisms of categorical perception, as a manifestation of top-down signaling in the cortex.

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bioRxiv2026

A conserved serotonin receptor pathway is a druggable modifier of Tau pathology, neural circuit formation and neurodegeneration

Tauopathies are devastating neurodegenerative disorders characterized by Tau hyperphosphorylation, neurofibrillary tangle (NFT) formation, neuronal dysfunction, and cognitive decline. Here, we establish a new Drosophila tauopathy model expressing eGFP-tagged human TauWT or the disease-associated TauP301L variant in the nervous system. TauP301L expression recapitulates key pathological and behavioral hallmarks of tauopathy, including elevated Tau hyperphosphorylation, accumulation of NFT-like, pTau-positive assemblies in vivo, reduced lifespan, hyperactivity, sleep loss, progressive locomotor decline, and age-dependent brain degeneration. Strikingly, TauP301L also disrupts the architecture of the mushroom body, a learning- and memory-related circuit in Drosophila, revealing an early disruption of neural circuit formation that is distinct from adult neurodegenerative phenotypes. We further show that suppression of serotonin 5-HT7R-CDK5 signaling pathway, either by genetic knockdown or pharmacological inhibition with inverse agonist, rescues Tau-induced behavioral and anatomical phenotypes. These findings identify 5-HT7R signaling as a conserved and druggable modifier of Tau toxicity and establish this model as a powerful in vivo platform for mechanistic studies and therapeutic discovery in tauopathies.

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