Publications by authors named "Alex Kolodkin"

To form functional circuits, neurons must settle in their appropriate cellular locations, and then project and elaborate neurites to contact their target synaptic neuropils. Laminar organization within the vertebrate retinal inner plexiform layer (IPL) facilitates pre- and postsynaptic neurite targeting, yet the precise mechanisms underlying establishment of functional IPL subdomains are not well understood. Here, we explore mechanisms defining the compartmentalization of OFF and ON neurites generally, and OFF and ON direction-selective neurites specifically, within the developing mouse IPL.

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Axon guidance molecules are frequently altered in pancreatic ductal adenocarcinoma (PDA) and influence PDA progression. However, the molecular mechanism remained unclear. Using genetically engineered mouse models to examine semaphorin 3D (SEMA3D), we identified a dual role for tumor- and nerve-derived SEMA3D in the malignant transformation of pancreatic epithelial cells and invasive PDA development.

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Article Synopsis
  • The optokinetic reflex (OKR) is an important behavioral response that helps stabilize images on the retina and aids in understanding visual system function across various animal species.
  • Previous methods for quantifying eye tracking during OKR are labor-intensive and subjective, leading to a need for a more efficient solution.
  • The new semi-automated analysis program, PyOKR, simplifies eye movement analysis by providing automated tracking, data organization, and faster measurements that improve the study of visual responses.
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Regulation of directed axon guidance and branching during development is essential for the generation of neuronal networks. However, the molecular mechanisms that underlie interstitial (or collateral) axon branching in the mammalian brain remain unresolved. Here, we investigate interstitial axon branching in vivo using an approach for precise labeling of layer 2/3 callosal projection neurons (CPNs).

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Visual system function depends upon the elaboration of precise connections between retinal ganglion cell (RGC) axons and their central targets in the brain. Though some progress has been made in defining the molecules that regulate RGC connectivity required for the assembly and function of image-forming circuitry, surprisingly little is known about factors required for intrinsically photosensitive RGCs (ipRGCs) to target a principal component of the non-image-forming circuitry: the suprachiasmatic nucleus (SCN). Furthermore, the molecules required for forming circuits critical for circadian behaviors within the SCN are not known.

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Purpose: The Retinal Ganglion Cell (RGC) Repopulation, Stem Cell Transplantation, and Optic Nerve Regeneration (RReSTORe) consortium was founded in 2021 to help address the numerous scientific and clinical obstacles that impede development of vision-restorative treatments for patients with optic neuropathies. The goals of the RReSTORe consortium are: (1) to define and prioritize the most critical challenges and questions related to RGC regeneration; (2) to brainstorm innovative tools and experimental approaches to meet these challenges; and (3) to foster opportunities for collaborative scientific research among diverse investigators.

Design And Participants: The RReSTORe consortium currently includes > 220 members spanning all career stages worldwide and is directed by an organizing committee comprised of 15 leading scientists and physician-scientists of diverse backgrounds.

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To form functional circuits, neurons must settle in their appropriate cellular locations and then project and elaborate neurites to contact their target synaptic neuropils. Laminar organization within the vertebrate retinal inner plexiform layer (IPL) facilitates pre- and postsynaptic neurite targeting, yet, the precise mechanisms underlying establishment of functional IPL subdomains are not well understood. Here we explore mechanisms defining the compartmentalization of OFF and ON neurites generally, and OFF and ON direction-selective neurites specifically, within the developing IPL.

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Article Synopsis
  • Axon guidance molecules, particularly semaphorin 3D (SEMA3D), are significantly altered in pancreatic ductal adenocarcinoma (PDA), but their role in tumor development remains unclear.
  • Using genetically engineered mouse models, researchers discovered that tumor-derived SEMA3D contributes to the malignant transformation of pancreatic cells, while nerve-derived SEMA3D plays a pivotal role in PDA development.
  • Findings suggested that SEMA3D impacts macrophage polarization in the tumor environment, promoting a pro-tumorigenic M2 state through lactate signaling, indicating a complex interaction between tumor and nerve-derived factors in PDA progression.
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Regulation of directed axon guidance and branching during development is essential for the generation of neuronal networks. However, the molecular mechanisms that underlie interstitial axon branching in the mammalian brain remain unresolved. Here, we investigate interstitial axon branching using an approach for precise labeling of layer 2/3 callosal projection neurons (CPNs), allowing for quantitative analysis of axonal morphology at high acuity and also manipulation of gene expression in well-defined temporal windows.

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Proper cortical lamination is essential for cognition, learning, and memory. Within the somatosensory cortex, pyramidal excitatory neurons elaborate axon collateral branches in a laminar-specific manner that dictates synaptic partners and overall circuit organization. Here, we leverage both male and female mouse models, single-cell labeling and imaging approaches to identify intrinsic regulators of laminar-specific collateral, also termed interstitial, axon branching.

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Article Synopsis
  • RGC death in glaucoma leads to permanent vision loss due to the limited ability of the central nervous system to regenerate, prompting interest in repopulating these cells to restore vision.
  • The RReSTORe Consortium was formed to tackle the complexities of repairing the visual pathway and focuses on five key areas: RGC development, transplantation methods, cell survival, retinal connections, and eye-to-brain communication.
  • Their collaborative approach aims to combine various scientific fields to overcome existing challenges and develop effective therapies for restoring vision impaired by optic neuropathies.
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Unlabelled: The study of murine behavioral responses to visual stimuli is a key component of understanding mammalian visual circuitry. One notable response is the optokinetic reflex (OKR), a highly conserved innate behavior necessary for image stabilization on the retina. The OKR provides a robust readout of image tracking ability and has been extensively studied to understand the logic of visual system circuitry and function in mice from different genetic backgrounds.

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Secreted semaphorin 3F (Sema3F) and semaphorin 3A (Sema3A) exhibit remarkably distinct effects on deep layer excitatory cortical pyramidal neurons; Sema3F mediates dendritic spine pruning, whereas Sema3A promotes the elaboration of basal dendrites. Sema3F and Sema3A signal through distinct holoreceptors that include neuropilin-2 (Nrp2)/plexinA3 (PlexA3) and neuropilin-1 (Nrp1)/PlexA4, respectively. We find that Nrp2 and Nrp1 are S-palmitoylated in cortical neurons and that palmitoylation of select Nrp2 cysteines is required for its proper subcellular localization, cell surface clustering, and also for Sema3F/Nrp2-dependent dendritic spine pruning in cortical neurons, both in vitro and in vivo.

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Rewiring and repairing neural circuitry has long been an important goal in neuroscience research. A new study employing clever genetic tools successfully restored synaptic connections in the adult mammalian outer retina and accompanying visually evoked behavior.

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Article Synopsis
  • In May, a diverse group of scientists met in Crete for the Molecular Neurobiology Workshop to discuss the assembly of the nervous system.
  • They shared data from various techniques to explore how the nervous system responds to a wide range of stimuli despite having a limited number of components.
  • Key ideas discussed included molecular cues, the importance of timing, switching mechanisms, and the context of neural responses.
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  • Synapses are critical connections between neurons that facilitate communication and are lost in various neurodegenerative diseases.
  • Researchers led by Suzuki have developed a synthetic protein aimed at linking pre- and postsynaptic membranes, which can enhance synapse formation.
  • This innovative method has shown promise in reversing synaptic deficits and improving symptoms in mouse models of Alzheimer's disease and spinal cord injuries.
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  • - The study investigates how sleep drive accumulates and is released, focusing on the R5 ellipsoid body neurons in Drosophila that signal sleep need through astrocytes and affect EPG neurons to promote sleep.
  • - Findings show that activating EPG neurons encourages sleep, while inhibiting them reduces sleep recovery, with increased firing in EPG neurons after sleep deprivation linked to external excitatory signals.
  • - The research suggests that R5 neurons enhance connections with EPG neurons during increased sleep need, facilitating cholinergic signals that lead to sleep activation, which may regulate the timing of sleep drive accumulation.
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The diversity of visual input processed by the mammalian visual system requires the generation of many distinct retinal ganglion cell (RGC) types, each tuned to a particular feature. The molecular code needed to generate this cell-type diversity is poorly understood. Here, we focus on the molecules needed to specify one type of retinal cell: the upward-preferring ON direction-selective ganglion cell (up-oDSGC) of the mouse visual system.

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  • Visual impairment due to retinal ganglion cell (RGC) axon damage is a significant issue worldwide, with ongoing research focused on promoting axon regrowth after injury.
  • A new mouse model was used to study the survival and regeneration of specific RGC types, On direction-selective RGCs (oDSGCs) and M1 intrinsically photosensitive RGCs (ipRGCs), after optic nerve crush.
  • Both RGC types showed resilience to injury but lacked long-distance axon regrowth; however, M1 ipRGCs displayed abnormal branching and misalignment in their axons post-injury, highlighting key differences in their injury response.
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Neurons of the mammalian central nervous system fail to regenerate. Substantial progress has been made toward identifying the cellular and molecular mechanisms that underlie regenerative failure and how altering those pathways can promote cell survival and/or axon regeneration. Here, we summarize those findings while comparing the regenerative process in the central versus the peripheral nervous system.

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  • The vertebrate retina has specialized neural circuits, known as direction-selective (DS) circuits, that are crucial for detecting motion and are found in species from zebrafish to primates.
  • This review traces the development of DS circuits, discussing cellular, molecular, and activity-based factors that guide their formation, including specific genetic programs and molecular interactions essential for motion detection.
  • DS circuits not only play vital roles in visual behavior but also have implications for understanding certain human visual diseases, making them a key model for studying neural connectivity.
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  • Neural guidance mechanisms play a crucial role in accurately directing neuronal growth cones to their targets, ensuring proper circuit function through targeted synaptogenesis.
  • These growth cones respond to various attractive and repulsive signals, and the timing and spatial regulation of these responses are vital for assembling neural circuits.
  • Recent research, using advanced techniques like genetics and single-cell analysis, has deepened our understanding of the complex molecular processes governing neural guidance and circuit organization.
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Oxidant stress can contribute to health and disease. Here we show that invertebrates and vertebrates share a common stereospecific redox pathway that protects against pathological responses to stress, at the cost of reduced physiological performance, by constraining Ca2+/calmodulin-dependent protein kinase II (CaMKII) activity. MICAL1, a methionine monooxygenase thought to exclusively target actin, and MSRB, a methionine reductase, control the stereospecific redox status of M308, a highly conserved residue in the calmodulin-binding (CaM-binding) domain of CaMKII.

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Molecules and cellular processes important for nervous system development can be repurposed in adulthood for the regulation of adult neurogenesis, synaptic plasticity, and neural regeneration following injury or degeneration. Efforts to recapitulate neural development in order to ameliorate injury or disease are promising, but these often fall short of functional restoration due in part to our incomplete understanding of how these damaged circuits initially developed. Despite these limitations, such strategies provide hope that harnessing developmental mechanisms can restore nervous system functions following damage or disease.

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