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Journal of Comparative Neurology

○ Wiley

Preprints posted in the last 30 days, ranked by how well they match Journal of Comparative Neurology's content profile, based on 73 papers previously published here. The average preprint has a 0.03% match score for this journal, so anything above that is already an above-average fit.

1
The olfactory ventricle: an overlooked and evolutionarily conserved feature of the mammalian brain

Butruille, L.; Dubois, J.-P.; Migaud, M.; Remaud, S.

2026-10-07 neuroscience 10.64898/2026.10.04.756487 medRxiv
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The olfactory ventricle (OV), an anterior extension of the lateral ventricular system into the olfactory bulbs, is generally considered a transient developmental structure that closes during early postnatal life. However, this view largely derives from a limited number of laboratory models, and the evolutionary distribution and cellular organization of the adult OV remain poorly understood. Here, we combined a comparative survey of mammalian neuroanatomy with phylogenetic analyses and cellular characterization of the OV across species. We compiled anatomical data for 154 mammalian species spanning 26 orders and 80 families, revealing widespread persistence of a patent OV into adulthood. Phylogenetic analyses supported OV presence as the ancestral mammalian state and indicated that its absence is phylogenetically structured and consistent with repeated secondary losses. Chiroptera displayed multiple lineage-specific losses, whereas variation within Muridae extended to the intraspecific level, with contrasting OV persistence among Mus musculus and Rattus norvegicus populations. Comparative histological analyses in sheep, Peromyscus maniculatus, and CD1 mice revealed that, despite marked interspecific differences in OV morphology, the persistent ventricular region retains a conserved cellular organization characterized by progenitor- and glial-associated markers, proliferative cells, immature neuronal populations, and a differentiated apical/ciliary interface. Although these observations do not establish local neuronal production or demonstrate that the OV constitutes an autonomous neurogenic niche, their convergence across species indicates that the persistent adult OV is not simply an anatomically residual lumen but a specialized component of mammalian olfactory bulb organization. Together, our findings identify the OV as an ancestral and widely conserved feature of the mammalian brain and provide an evolutionary and cellular framework for investigating the developmental mechanisms controlling its persistence and its potential contribution to adult olfactory neurogenesis and plasticity.

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Different patterns of eye-specific input are relayed to overlapping populations in the mouse superior colliculus

Ezeiza-Ortega, M.; Saluja, J.; Triplett, J. W.

2026-09-28 neuroscience 10.64898/2026.09.22.753580 medRxiv
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The mouse superior colliculus (SC) regulates critical behaviors such as prey capture and visual threat avoidance, each of which depend on binocular visual processing. In contrast to our previous understanding, recent work has demonstrated widespread and diverse binocular interactions in the mouse SC. The SC receives direct input from contralaterally and ipsilaterally projecting retinal ganglion cells (contra- and ipsi-RGCs), but the ways in which eye-specific information is filtered in the SC remain unclear. Here, we utilized a trans-synaptic, intersectional viral tracing strategy to label SC neurons receiving input monocularly from contra-RGCs (SC-C), monocularly from ipsi-RGCs (SC-I), or binocularly from both (SC-B). We show that a surprising number of SC neurons receive ipsi-RGC input and that the proportions of SC-C, SC-I, and SC-B neurons are consistent throughout the SC. Morphometric analysis revealed few differences between neurons receiving different eye-specific patterns of input. Consistent with this, we show that SC-C, SC-I, and SC-B neurons are comprised of similar proportions of five morphologically distinct subtypes. And, the expression of candidate molecular markers appears similar across innervation patterns. Together, these data suggest that eye-specific information is widespread throughout the SC targeting overlapping populations of neurons.

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Meis2 is required for GABAergic amacrine cell survival in the developing retina.

Alqahtani, S.; Kerstein, P. C.

2026-10-11 neuroscience 10.64898/2026.10.06.757052 medRxiv
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Amacrine cells (ACs) are the most diverse neuron in the retina, with more than sixty different subtypes, each contributing to the detection of specific visual features. Despite their importance in visual feature detection, the genetic basis for this diversity is still not well understood. Recent single-cell transcriptomic datasets have identified several potential genes that may regulate cellular diversity, but the underlying mechanisms have not been investigated. For example, the transcription factor Meis2 is selectively expressed in the GABAergic subclass of ACs. In this study, we focused on how Meis2 regulates the development of GABAergic ACs. We hypothesized that Meis2 is required for specification and survival of GABAergic ACs. To test this, we used the Meis2 conditional knockout mouse (Meis2-CKO) where Meis2 was deleted from either the entire retina or specifically from AC precursor cells. The deletion of Meis2 led to a ~60% reduction in total GABAergic ACs in the retina. This loss of GABAergic ACs occurred only after postnatal day 5 (P5), suggesting Meis2 is not required for early specification but may be required for survival. To further investigate cell death and survival, we quantified cleaved caspase-3 positive cells in the retina at several developmental timepoints. In Meis2-CKO mice, we found an increase in cleaved caspase-3 immunolabeling at P5 and P6 timepoints coinciding with the reduction of GABAergic ACs. Further analysis of GABAergic AC subtypes demonstrated a subtype-specific cell death in Meis2-CKO retinas. For example, the total number of dopaminergic (TH) ACs were significantly reduced, whereas starburst (ChAT) ACs remained unchanged. These findings suggest that Meis2 is important for the survival of a subset of GABAergic AC subtypes in the mammalian retina. In addition, Meis2 may control the expression of specific survival factors that prevent apoptosis during developmental cell death in the retina.

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Oxytocin and Vasopressin Immunoreactivity Differs Across Auditory Brainstem Nuclei in Rodents with Distinct Social Systems

Joseph, L.; Boren, L.; Ingram, G. E.; McCullagh, E. A.

2026-09-29 neuroscience 10.64898/2026.09.28.755085 medRxiv
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Oxytocin (OT) and vasopressin (AVP) are neuropeptide hormones involved in regulating animal social behavior and a broad spectrum of physiological processes. Although their distributions are well documented in neuroendocrine regions of the forebrain and midbrain, their expression in the hindbrain remains poorly understood. Here, we used immunohistochemistry to quantify OT and AVP immunoreactive puncta within three auditory brainstem nuclei, the lateral superior olive (LSO), the medial superior olive (MSO), and the medial nucleus of the trapezoid body (MNTB) in six wild-caught rodent species differing in sociality. We also quantified the volume of these nuclei and examined variation in total brain volume across species and sociality. OT and AVP puncta count differed among species and social groups. Group-living species exhibited higher OT and AVP puncta counts than monogamous and solitary species in the LSO and MNTB. In the MSO, OT puncta counts did not differ among social groups, whereas AVP puncta counts were higher in group-living than in monogamous and solitary species. Total brain volume and the volumes of the MNTB and MSO differed among species, but not across social groups, whereas LSO volume did not differ among species or sociality. These findings revealed sociality-related variation in OT and AVP immunoreactive puncta within auditory brainstem circuits and suggest that neuropeptide signaling within early auditory brainstem pathways may contribute to the neural integration of social and auditory information.

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Thermoregulatory roles of preoptic area histamine H1 receptor-expressing neurons

Pinol, R. A.; Valeri, A.; Xiao, C.; Hadley, C.; Goldschmidt, A. I.; Kerspern, D.; Kulkarni, S.; Gavrilova, O.; Lutas, A.; Krashes, M. J.; Reitman, M.

2026-09-28 neuroscience 10.64898/2026.09.22.753241 medRxiv
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The preoptic area (POA) is a key regulator of body temperature, orchestrating behavioral and physiological thermoregulatory functions, including fever, torpor, and homeostatic responses to ambient temperature. Histamine regulates body temperature across animal taxa, including mammals, lower vertebrates, and invertebrates. Hrh1, which encodes the histamine H1 receptor, is expressed in several neuronal populations in the POA with limited overlap with other POA thermoregulatory neurons. Acute activation of POAHrh1 neurons increased body temperature and physical activity. Acute inhibition attenuated the dark phase increase in body temperature without affecting physical activity. There was no effect of inhibition on body temperature during the light phase, fever, cold exposure, or warm exposure. Assessing behavioral thermoregulation, we found that POAHrh1 neurons stimulated nest building in both sexes, possibly contributing to cold-induced nesting behavior. Through projections to the arcuate, dorsomedial hypothalamic and tuberomammillary nuclei, POAHrh1 neurons can increase body temperature and physical activity. Overall, POAHrh1 neurons participate in several thermoregulatory functions, including daily body temperature rhythm regulation, physical activity, and nest building behavior.

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Atlas of adult Danionella fish telencephalon reveals retention of larval characters

Perelmuter, J. T.; Bass, A. H.

2026-09-29 neuroscience 10.64898/2026.09.23.753900 medRxiv
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The adult size of the vertebrate telencephalon typically impedes our interpreting its functions within the context of brain-wide circuit dynamics. Danionella, a genus of miniature and transparent teleost fishes closely related to zebrafish (Danio rerio), holds promise for whole-brain imaging and connectomics in an adult vertebrate. These advantages result from progenesis, a form of heterochrony characterized by early developmental onset of sexual maturation and cessation of growth leading to the retention of larval or juvenile characters in adults. Using molecular markers, tract tracing, and quantitative comparisons of cellular distribution patterns, we report a detailed neuroanatomical atlas of the adult Danionella dracula (Dracula fish) telencephalon. The results demonstrate that adults of Dracula fish and other Danionella species show extreme reduction in cellular migration from periventricular zones and topographic reorganization of major pallial divisions, including a compartment-like caudal pallium reminiscent of insect glomeruli (a dense neuropil surrounded by a thin layer of somata). We further document these characters in larval zebrafish, providing essential evidence corroborating a larval-like telencephalon in Danionella adults. Despite this phenotype, most canonical regions of the adult teleost telencephalon are identified. We also generate a transgenic GCaMP Dracula fish line, an annotated 3-dimensional atlas, and align functional imaging data to demonstrate the usefulness of this atlas as a resource for deciphering how the novel progenetic cytoarchitecture of the adult Danionella telencephalon can support its rich behavioral repertoire.

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Retinotopic organization of head-orienting vectors in the pigeon ventral lateral geniculate nucleus

Severin, D.; Reynaert, B.; Vega-Zuniga, T.; Letelier, J. C.; Marin, G.; Karten, H. J.; Mpodozis, J.

2026-10-08 neuroscience 10.64898/2026.10.03.756353 medRxiv
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The ventral lateral geniculate nucleus (GLv) is a conserved retinorecipient structure positioned between visual and premotor systems, yet its role in visuomotor transformations remains poorly understood. Here, we examined whether the pigeon GLv contains a spatially organized motor representation linking visual-field locations to orienting movements. Anatomical tracing identified descending projections from neurons in the GLv inner lamina (GLv-li) through pretectal and tegmental regions toward pontine targets. GLv-li projection neurons are GABAergic, yet electrical microstimulation of GLv-li in awake pigeons evoked rapid head movements followed by smaller eye movements. Each stimulation locus produced a reproducible characteristic motor vector whose direction and duration were largely insensitive to stimulation parameters, whereas movement amplitude and velocity approached site-specific plateaus. Movements initiated from different head positions were better explained by repetition of a fixed displacement than by convergence toward a common spatial goal. Critically, motor-vector direction was systematically related to the direction of the visual receptive field represented at the same GLv locus, while motor-vector amplitude covaried with receptive-field eccentricity. These defining features persisted after optic tectum ablation. Together, these findings reveal a retinotopically-organized map of fixed-vector head movements in the avian GLv and identify a tectum-independent route through which visual spatial representations can access descending orienting circuitry.

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Relaxin-3 neurons of the zebrafish periaqueductal gray mediate behavioral responses evoked by darkness

Chia, J. S. M.; Martin, M.; Padilla, G. M.; Jefferson, J.; Krishna, V.; Vanwalleghem, G.; Cheng, R.-K.; Krishnan, S.; Lovett-Barron, M.; Thiele, T. R.; Jesuthasan, S.

2026-10-01 neuroscience 10.64898/2026.09.26.754586 medRxiv
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Ambient illumination influences many aspects of brain function, including responses to threats. One brain region proposed to mediate these effects is the periaqueductal gray (PAG), an evolutionarily conserved midbrain structure that contains multiple subpopulations of peptidergic neurons. Here we ask which cell types in the larval zebrafish PAG respond to changes in ambient illumination. By registering post hoc gene expression to neurons recorded during exposure to sensory stimuli, we show that GABAergic PAG neurons expressing the neuropeptide Relaxin-3 (rln3a+) are persistently activated by darkness, while a neighboring subpopulation of GABAergic PAG neurons expressing penka is not. Zebrafish lacking rln3a show a reduction in locomotion during darkness. We propose that darkness recruits Relaxin-3-releasing PAG neurons to promote vigilance and potentiate defense circuits. These results identify a specific peptidergic population of PAG neurons that are potentially relevant to behavioral state dysregulation associated with excessive darkness.

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Neurons in the lateral spinal nucleus give rise to the spinotectal component of the anterolateral system in the mouse

Abu Hajer, M.; Yadav, M.; Ma, W.; Dickie, A. C.; Polgar, E.; Bell, A. M.; Todd, A.

2026-10-05 neuroscience 10.64898/2026.09.29.755366 medRxiv
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The anterolateral system (ALS) originates from neurons in various regions of the spinal cord and conveys somatosensory information related to pain, skin temperature and itch to several brain targets. One component of the ALS is the spinotectal tract, which projects to the superior colliculus (SC) and is thought to underlie directed movements of the head towards a painful stimulus. Using anterograde and retrograde tracing, we demonstrate that the input from the spinal enlargements to the SC originates predominantly from neurons in the lateral spinal nucleus (LSN), many of which express calbindin. This input, which mainly targets the caudal and lateral parts of the SC, is somatotopically organised, and is associated with the clusters of Pitx2-expressing neurons that have been identified in previous studies. Since activation of Pitx2 neurons drives directed head movements, input from LSN neurons to the Pitx2 cells is likely to be a critical component of orientation and attention towards a noxious stimuli. We also provide evidence that spinotectal LSN cells receive excitatory synaptic input from neurons in superficial dorsal horn that express substance P or the gastrin-releasing peptide receptor (GRPR). Since GRPR neurons are strongly implicated in itch, our findings raise the possibility that the SC has a role in coordinating movements in response to pruritic stimuli.

10
Syntaxin-1 and syntaxin binding protein 1-1 are required for planarian behavior and brain regeneration

Clay, K. B.; Roberts, P. A.; Lechtreck, K. F.; Roberts-Galbraith, R. H.

2026-10-12 neuroscience 10.64898/2026.10.05.756827 medRxiv
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Background: Nervous system regeneration requires creation of new neurons and their integration into new and existing networks. How new neurons find their targets and reconnect in the environment of regenerating tissue remains a major gap in knowledge. The planarian Schmidtea mediterranea is well suited to the study of neural regeneration due to the remarkable ability of planarians to regenerate their entire body, including the nervous system. However, we have not yet been able to explore synaptogenesis in regeneration using planarians due to a lack of tools to study synapses. Here we investigate potential players in planarian synapse, focusing on the conserved syntaxin protein family, which functions in neurotransmitter vesicle fusion at the synapse. Results: We found that reduction of either syntaxin-1 (stx1) or syntaxin-binding protein 1-1 (stxbp1-1) decreased locomotion and impeded brain regeneration, specifically in synapse-rich regions. Conclusions: Our observations support STX-1 and STXBP1-1 as bona fide synapse components, providing a starting point for studies neuronal connectivity during homeostatic remodeling and regeneration.

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Differential maturation of mRGC pupillary constriction and circadian rhythmicity in typically developing human infants

Nystrom, P.; Jonsdottir, L. K.

2026-10-01 neuroscience 10.64898/2026.09.25.754365 medRxiv
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Intrinsically light sensitive retinal ganglion cells through melanopsin photoreception (mRGCs) are important for fundamental regulatory brain processes such as circadian rhythms, mood, acute sleep, and pupillary constriction. While previous research in animal models indicates temporal differences in maturation of mRGC mediated projections, corresponding developmental patterns have not been studied in human infants. To elucidate the roles of mRGCs in early development of regulation of pupillary constriction and sleep/wake patterns, we here explore the maturation of mRGC mediated photoentrainment in human infants aged 1 to 12 months, using non-invasive eye tracking pupillometry and sleep diaries. Although the mRGCs relay rod/cone activation in a range of light intensities, it is possible to separate rod/cone/mRGC activation due to the photoreceptors' color sensitivity and temporal responsiveness. We therefore used sustained red and blue light stimulation after partial dark adaptation to characterize developmental changes in wavelength-dependent mRGC-relayed pupillary responses. Infants' pupil responses indicate a prolonged post-natal mRGC maturation to the shell of the olivary pretectal nucleus during the first year. This response was separate from infants' sleep/wake patterns, which parallels findings from cellular research on murines: the mRGCs have separate pathways for photoentrainment of pupillary constriction and sleep/wake patterns, which develop with different temporal dynamics. Together, these findings provide the first characterization of developmental changes in mRGC-relayed pupillary responses in human infants, and an initial step towards bridging human mRGC network development with murine and human adult mRGC research.

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Kiss1 neurons in the medial amygdala of mice are sexually dimorphic and unique from hypothalamic anteroventral periventricular Kiss1 neurons in their action potential firing properties

Pakulat, L. M.; Zhang, Y.; Guillet, E.; McGinnis, M.; Lesslie, M.; Colledge, W. H.; Jones, S.

2026-09-24 neuroscience 10.64898/2026.09.19.752853 medRxiv
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Abstract The importance of hypothalamic kisspeptin (Kiss1) neurons in controlling the reproductive axis is well established, while a population of extra-hypothalamic Kiss1 neurons is found in the medial amygdala (MeA) of both males and females in rodents and is less well understood. The MeA is connected with the olfactory bulbs, the hypothalamus and cortical areas. MeA Kiss1 neurons have been implicated in sexual behaviour and modulation of the reproductive axis; however, little is known about their action potential firing properties, which would influence kisspeptin release in target brain regions, nor whether their physiological properties are sex- or estrous cycle-dependent. In this study, whole-cell patch-clamp recordings were made from Kiss1 neurons in brain slices containing the MeA of adult female (estrous and diestrous) and male mice. MeA Kiss1 (Kiss1MeA) neurons were sexually dimorphic, with greater numbers in male compared to female mice and a slower change in excitability in estrous females compared with males. However, combining a range of electrophysiological parameters using principal component analysis did not reveal a distinct sex- or estrous cycle-linked phenotype, suggesting that the properties of Kiss1MeA neurons- and therefore kisspeptin release- are broadly similar. Interestingly, Kiss1MeA neurons had unique electrophysiological properties compared with anteroventral periventricular (AVPV) hypothalamic Kiss1 (Kiss1AVPV) neurons in female mice; with their reduced excitability, achieving action potential firing frequencies greater than 10Hz required a larger current input, indicating that Kiss1MeA neurons require stronger synaptic input to achieve firing frequencies that drive kisspeptin release. These findings provide new information about the physiological properties of Kiss1MeA neurons, showing subtle sex differences and profound regional differences between the MeA and AVPV.

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The potato cyst nematode Globodera pallida possesses an expanded serotonergic nervous system

Coke, M. C.; Lilley, C. J.; Healey, R.; O'Connor, V. M.; Holden-Dye, L. M.; Urwin, P. E.

2026-10-06 neuroscience 10.64898/2026.09.29.755464 medRxiv
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Abstract The neurotransmitter serotonin (5-hydroxytryptamine; 5-HT) controls behaviours that are essential for the parasitic lifestyle of plant parasitic nematodes (PPNs). Here, we used serotonin immunochemistry and in situ hybridization for the serotonin synthesis genes, Gpa-tph-1 and Gpa-bas-1, to map its signalling pathways in Globodera pallida J2 infective stages. We identified fourteen serotonin-immunoreactive cell bodies around the pharyngeal median bulb and revealed that eleven of them co-express Gpa-tph-1 and Gpa-bas-1, confirming these are serotonin-synthesising neurons. Serotonin immunoreactivity was also localised in structures consistent with labelling of amphids, and in sixteen non-neuronal cells located in the middle and posterior region of the nematode. Depletion of serotonin with reserpine reduced the serotonin immunoreactivity in all fourteen cell bodies confirming their neuronal identity, but not in non-neuronal tissue. We identified additional, but infrequent expression of Gpa-tph-1 in two cells and expression of Gpa-bas-1 in one pair of symmetrically bilateral cells anterior to the median bulb, that lacked serotonin immunoreactivity. The results reveal distinct pools of serotonin distribution in G. pallida and indicate serotonin signalling is more complex than in other parasitic nematodes and C. elegans, highlighting evolutionary divergence in neurotransmitter identity.

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BMP4 Restricts Axonal Ramification and Bouton Density in Cholinergic Projections from the Basal Forebrain

Higashi, T.; Kobayashi, Y.; Seki, A.; Okabe, S.; Nishii, K.

2026-10-02 neuroscience 10.64898/2026.09.30.755469 medRxiv
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Axonal projections and precise synapse formation are essential for the establishment of functional neural circuits, and their dysregulation contributes to various psychiatric and neurodegenerative disorders. Although numerous extracellular cues secreted from surrounding tissues regulate axon guidance and synapse formation, the mechanisms by which neurons locally regulate terminal patterning within their projection fields remain poorly understood. Bone morphogenetic protein 4 (BMP4) is a classical morphogen that is involved in early neural tube patterning during development. However, its postnatal function remains unclear. Previous in vitro studies using hippocampal glutamatergic neurons demonstrated that BMP4 can act locally on axons to suppress synapse formation, raising the possibility that BMP4 regulates terminal differentiation after target innervation. Here, we investigated the role of BMP4 in postnatal cholinergic circuit development using cholinergic neuron-specific Bmp4 conditional knockout (Bmp4 cKO) mice, with adult analyses performed in males. Basal forebrain cholinergic neurons project extensively throughout the neocortex and are essential for higher brain functions, including arousal and attention. Bmp4 cKO mice exhibited increased cholinergic axon terminals in the neocortex, hippocampus, and amygdala, as well as increased axonal ramification in the neocortex without affecting cytoarchitectonic organization or cholinergic neuron numbers in the basal forebrain. These findings demonstrate that BMP4 functions as a negative regulator of cholinergic terminal formation and axonal arborization, suggesting that BMP4 may act locally to restrict cholinergic axonal expansion during neural circuit maturation.

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ISL1 is required for the terminal differentiation and maintenance of Starburst Amacrine Cells

Santana Agreda, Y. C.; Wright, K. M.

2026-10-12 neuroscience 10.64898/2026.10.05.756830 medRxiv
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During mammalian nervous system development, multipotent progenitor cells differentiate into hundreds of distinct neuronal subtypes. Neuronal subtype terminal differentiation is regulated by transcription factors that directly control the acquisition and maintenance of terminal identity. Using the mouse retina as a model system, we show that the transcription factor ISL1 is required for the terminal differentiation and maintenance of starburst amacrine cells (SACs), the sole cholinergic neuron subtype in the retina. We conditionally deleted Isl1 selectively from amacrine and horizontal cell precursors, allowing us to assess its cell-autonomous role in SAC development without disrupting its critical function in bipolar cell and retinal ganglion cell development. We find that ISL1 is not required for initial SAC specification but is required for their terminal differentiation. Isl1-deficient SACs retain a GABAergic amacrine cell identity but fail to adopt many SAC-specific features including expression of genes required for cholinergic transmission. In the absence of ISL1, SACs fail to migrate properly, with both OFF- and ON- SACs localizing to the inner nuclear layer. Deletion of Isl1 from post-migratory SACs at later stages of development revealed that it is also required for maintaining SAC identity and proper dendrite stratification. Loss of Isl1 from SACs ultimately caused abnormal development of the direction selective circuit. Together, these findings establish that ISL1 is required for the induction and maintenance of SAC-specific identity from a generic amacrine state.

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The dendritic spine vicinome: characterizing its crowding in the human brain with petavoxel electron microscopy

Manjarrez, E.; Lozada, N.; Zamora-Ursulo, M. A.; Flores, A.

2026-09-24 neuroscience 10.64898/2026.09.16.752196 medRxiv
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For more than a century we have pictured the dendritic spine as the postsynaptic point where a single presynaptic bouton delivers its message. That picture is correct but incomplete, since it overlooks other neuronal elements surrounding each spine. Here we characterize that neighborhood for the first time by counting and measuring the proximity of the elements encircling each postsynaptic spine. We call this neighborhood the vicinome: the full set of neuronal and glial elements surrounding a dendritic spine. We used ground-truth three-dimensional meshes from the H01 petavoxel dataset, a reconstruction of the human cerebral cortex. We analyzed 4550 neighboring elements across 322 spines from 17 pyramidal neurons in cortical layers 2 through 5, with each spine classified as apical or basal. Neighbor number followed a depth gradient, falling from 17.2 {+/-} 4.2 elements per spine in layer 2 apical spines to 12.5 {+/-} 3.1 in layer 5 basal spines. A linear mixed model with a random intercept per neuron confirmed a strong effect of layer (p = 4.3 x 10-5) with large effect sizes (Cohen's d up to 1.45) and no effect of polarity. The minimum spine-to-neighbor distance stayed uniform, near 30 nm in every group, and although some depth-related contrasts were significant, all effect sizes were negligible (Cohen's d below 0.21). We conclude that cortical depth, and not pyramidal neuron polarity, was related to the number of neuronal elements neighboring the spine. We suggest that vicinome crowding could offer a measurable observable for comparison across regions, ages, species, and disease.

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Comparative effects of perfusate composition on rat brain histology following transcardial perfusion fixation

Beck, A.; Slaughter, A.; Sedgewick, S.; Garrood, M.; Hedden, K.; McKenzie, A. T.

2026-09-22 neuroscience 10.64898/2026.09.16.752015 medRxiv
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Background: Transcardial perfusion fixation is widely used to preserve rodent brains for histological and ultrastructural analysis, but protocols can vary in the use of pre-fixation washout, fixative formulation, and osmotic additives. Relatively few studies have directly compared how the chemical composition of the perfusate affects tissue preservation. Methods: Male Sprague-Dawley rats underwent transcardial perfusion using a series of aldehyde-based fixative formulations that varied in fixative composition, use of a phosphate buffered saline washout, and the addition of mannitol or polyethylene glycol 35 kDa (PEG35). Perfusion outcomes were assessed using gross brain morphology, semi-quantitative grading of vascular blood clearance, quantitative detection of residual erythrocytes in whole-slide histological images, and light microscopic measures of cellular visualization and morphology. Perfusate osmolality was measured, and selected specimens were examined by electron microscopy. Results: Substantial vascular blood clearance was frequently achieved with fixative-only perfusion, indicating that a pre-fixation washout was not required to achieve high levels of blood clearance under the conditions tested. Routine light microscopy-based measures of cellular visibility and morphology were broadly similar across treatment groups. Adding mannitol and PEG35 to the fixative solution both led to concentration-dependent gross tissue shrinkage, particularly with PEG35, without correspondingly large or consistent changes on light microscopy. A substantial degree of case-to-case variation in perfusion quality was also observed among animals undergoing nominally similar procedures. Conclusions: Substantial variation in perfusate composition produced relatively modest differences in the light microscopy outcomes examined, despite pronounced effects of osmotic additives on gross brain morphology. There were some cases where perfusion with fixative alone led to near-complete blood vessel clearance, and the use of a preceding phosphate buffered saline washout was not associated with higher vascular clearance scores. The degree of case-to-case variability observed within treatment conditions suggests that procedural factors can play an important role on perfusion quality in addition to perfusate composition.

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Ultrastructural comparison of fixation and cryopreservation methods for brain preservation

German, A.; Fluegel-Koch, C.; Paulsen, F.; Winkler, J.; McKenzie, A. T.

2026-09-24 neuroscience 10.64898/2026.09.18.751896 medRxiv
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Maximizing the morphological and molecular fidelity of preserved mammalian brain tissue is essential for basic neuroscience and brain banking, where tissue quality determines the reliability of downstream analyses. Aldehyde fixation and cryogenic storage are the most powerful preservation techniques available. However, how to best combine them is incompletely characterized. Here, we tested twelve different approaches to preserve the murine brain, including standard aldehyde perfusion fixation, variants of aldehyde-stabilized cryopreservation (ASC) using ethylene glycol (EG), aldehyde fixation followed by unprotected freezing, and several cryopreservation protocols without preceding aldehyde fixation, such as interleaved equilibration with vitrification solution. Preservation quality was assessed using light microscopy, transmission electron microscopy, and patch-level feature analysis with the DINOv2 vision foundation model. We found that ASC with sodium dodecyl sulfate (SDS)-mediated blood-brain barrier permeabilization preserved nuclear morphology, myelin periodicity, and neuropil texture comparable to standard aldehyde perfusion fixation, providing the first independent replication of ASC. Omitting SDS caused severe parenchymal dehydration, due to a mismatch between water and cryoprotectant transport. Aldehyde fixation followed by unprotected slow freezing confined ice damage primarily to perivascular zones, while fast freezing led to intranuclear clefts and cavities. Among non-fixation protocols, interleaved equilibration with vitrification solution preserved myelinated axon profiles and chromatin patterns, but induced perivascular edema. High concentration glycerol perfusion caused significant osmotic dehydration. Straight freezing of unfixed tissue without cryoprotectant was followed by membrane disruption, but resulted in the visualization of more structure than expected, likely as a result of structural restitution upon thawing. Taken together, our results provide a framework for matching preservation strategies to the needs of different types of brain banking and neuroscience research.

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Anatomical mapping of dopamine D1 and muscarinic M4 receptor

Garland, R.; Dickson, M.; Lee, A.; Noorouzi, A.; Umaoka, H.; Semeano, A.; Monaghan, J. R.; Yano, H.

2026-10-02 neuroscience 10.64898/2026.09.27.754786 medRxiv
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Dopamine D1 receptors (D1R) and muscarinic M4 receptors (M4R) regulate overlapping functions in the cortex and the striatum, but the cellular relationship between D1R- and M4R-associated populations across brain regions remains incompletely defined. Using D1R-tdTomato/M4R-EGFP double-reporter mice, we quantified tdTomato-only, EGFP-only, and coexpressing cellular populations across the dorsal striatum, nucleus accumbens, and medial prefrontal cortex in 18 animals. Reporter composition differed strongly by anatomical region. Coexpression was prominent throughout the dorsal striatum and greatest in the dorsomedial striatum, whereas the nucleus accumbens shifted toward greater tdTomato-only and reduced EGFP-only representation, particularly in the core. In contrast, the medial prefrontal cortex was dominated by EGFP-only cells. These regional patterns were broadly retained across sex and age. HCR-FISH further supported spatial correspondence between endogenous Drd1 and Chrm4 transcript signal and the respective fluorescent reporters. Together, these findings demonstrate region-dependent organization of D1R- and M4R-associated cellular populations across the cortex and striatum and define distinct anatomical contexts in which M4R-directed signaling may influence D1R-associated neurons.

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Mitochondrial ATP-dependent K+ channels downregulate ionotropic glutamate receptors during hypoxia in retinal horizontal cells of goldfish

Ramadan, M.; Rosales, C. A.; Smith, J. C.; Jonz, M. G.

2026-10-02 physiology 10.64898/2026.09.28.754954 medRxiv
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Retinal neurons rely on continuous oxygen supply to maintain function, yet some species, like goldfish, withstand prolonged hypoxia due to adaptations that remain unclear. Horizontal cells (HCs) are inhibitory interneurons of the retina that express ionotropic glutamate receptors (iGluRs) and secrete gama-aminobutyric acid (GABA), allowing them to shape visual signalling by feeding back to photoreceptors. We investigated whether iGluRs in dissociated goldfish HCs are suppressed during hypoxia, and whether this process is mediated by oxygen-sensitive activation of mitochondrial ATP-sensitive K+ (mKATP) channels. Through perforated patch-clamp electrophysiology, we determined that 20 min of hypoxia reduced peak inward current density associated with glutamate application by ~25% (P = 0.0059). When mKATP channels were selectively blocked with 100 microM glibenclamide, hypoxic suppression of iGluRs was abolished. Inhibiting mitochondrial Ca2+ uptake via the mitochondrial Ca2+ uniporter with ruthenium red, or blocking Ca2+ release through ryanodine receptors in the endoplasmic reticulum, also abolished the hypoxia-induced suppression. Similarly, inhibition of calmodulin with calmidazolium, or of protein phosphatase 1 and 2A (PP1/PP2A) activity with calyculin A, prevented the hypoxia-induced suppression of iGluRs. Taken together, these results indicate that mKATP activation is required to mediate an intracellular Ca2+ signal that downregulates iGluR activity during hypoxia. Through the reduction of iGluR activity, HCs may lower their metabolic demand, allowing them to maintain cell function during hypoxia. Additionally, GABA release from HCs, as measured by mass spectrometry, was not affected by hypoxia, and we propose that downregulation of iGluR may account for hypoxic suppression of the retina in hypoxia-tolerant organisms.