Biology subjects

Mikhaylova, M.

Publications and source records attributed to Mikhaylova, M..

At least 19 recordsLinked to original sources

bioRxiv2026

The gut microbiota-derived metabolite queuosine regulates neuronal development and network function through tRNA modification

Queuosine (Q) modification is a hypermodified nucleoside derived from guanine on tRNAs that enhances the decoding of codons and equilibrates translational speed. Q is biosynthesized in bacteria, and eukaryotes salvage Q and the nucleobase queuine from the diet and the gut microbiome. In animals, Q deficiency causes impaired proteostasis, mitochondrial dysfunction, and neurological phenotypes, possibly due to the longevity and high metabolic demand of neurons. Yet, how Q affects isolated neurons has not been explored yet. Here, primary rat cortical neurons were cultured in Q-free synthetic medium to directly modulate Q modification levels independently of genetic perturbation, enabling assessment of its effects on neuronal development, survival, morphology, synaptic organization, and activity. Importantly, we found that the presence of Q modification facilitated neuronal arborization, decreased inhibitory synaptic density, and increased the frequency of spontaneous calcium transients, showing that tRNA Q modification enhances neuronal structural maturation and synaptic activity. Thus, the fine-tuning of neuronal translation programs by Q-tRNAs is required for proper network development and may influence neuronal resilience and synaptic function.

neuroscience↗

bioRxiv2026

SHANK3-CAMSAP2 interaction links synapses to dendritic microtubule organisation in PV neurons

The microtubule cytoskeleton plays an essential role in establishing and maintaining neuronal polarity. In neurons, microtubules are initially generated at the centrosome which gradually loses this role in development. In mature neurons, microtubules are stabilised by the microtubule minus end-binding protein CAMSAP2. How and where microtubule minus ends are anchored within dendrites of mammalian neurons remains an open question. Here, we show that microtubules are directly attached to the postsynaptic density of excitatory synapses through an interaction of CAMSAP2 with the scaffolding protein SHANK3. This process is particularly relevant in parvalbumin-positive GABAergic neurons, in which excitatory synapses are predominantly located directly on the dendritic shaft in direct proximity to microtubules. Notably, this association is strongly enhanced by the Autism Spectrum Disorder (ASD)-associated SHANK3L68P mutation, leading to an increase of synaptic levels of CAMSAP2. This promotes an increased microtubule association with the synapse and alters microtubule dynamics. Downregulation of CAMSAP2 in SHANK3L68P parvalbumin neurons tips the balance between site-specific microtubule stabilisation and dynamics, reshaping dendritic architecture, connecting SHANK3-CAMSAP2 dependent microtubule regulation to synaptic ASD pathology. TeaserInteraction between synapses and microtubules is enhanced in parvalbumin neurons bearing the ASD-associated SHANK3 L68P mutation.

neuroscience↗

bioRxiv2025

Shaft versus spine localization affects the structural plasticity of glutamatergic synapses

In the early stages of development, most excitatory synapses are formed directly on dendritic shafts. As neurons mature, these sites gradually shift from the shaft to dendritic spines. In fully developed excitatory neurons, the majority of glutamatergic postsynaptic sites containing the postsynaptic density (PSD) molecules reside on dendritic spines. However, some glutamatergic synapses remain as shaft synapses, yet their characteristics have remained unexplored. Here, we show that the molecular composition of the shaft PSDs closely resembles that of spine PSDs. Key components such as AMPARs, NMDARs, CaV1.2 channels, and F-actin interacting proteins, SynGAP, as well as cortactin, are present in comparable amounts in both synapse types. The major distinction between shaft and spine PSDs lies in the lower abundance of the scaffold proteins Shanks and Homer in shaft PSDs. Shaft synapses are not merely passive structures but actively participate in synaptic transmission. Their structure and function are modulated by changes in neuronal activity. Long-term live imaging combined with a cLTP protocol revealed that shaft PSDs were potentiated but rarely underwent a transition to spine synapses. In contrast, during LTD, shaft PSDs were eliminated more frequently than their spine counterparts. Together, these findings highlight excitatory shaft synapses as a distinct, and notably less stable, synapse type.

neuroscience↗

bioRxiv2025

mTORC1-Dependent Signaling in Layer 5b Neurons Is Required for Memory Consolidation

Memory consolidation relies on activity-dependent neuronal plasticity, particularly in deep-layer cortical neurons that integrate long-range inputs from medial temporal lobe (MTL) structures. In the neocortex, apical tuft dendrites of layer 5b pyramidal neurons receive direct input from the MTL within cortical layer 1, and their activation is critical for associative learning. However, the molecular mechanisms that enable learning-induced plasticity in these neurons remain poorly understood. Here, we demonstrate that activity-dependent, mTORC1-regulated translation in layer 5b neurons contributes to learning and memory. Using in vivo paradigms such as exposure to an enriched environment (EE) and in vitro models of network activation by chemical long-term potentiation (cLTP), combined with cell type-specific translational profiling (RiboTag), we identify candidate mRNAs associated with experience-dependent plasticity. We further show that pharmacological inhibition of canonical mTORC1 signaling during memory-relevant tasks abrogated memory consolidation. Our findings identify the mTORC1 pathway as a central regulator of learning-induced protein translation and cortical plasticity.

neuroscience↗

bioRxiv2025

The Molecular Architecture of Somatic Spines of the Lateral Septum

The lateral septum is a key subcortical structure and has been implicated in kinship memory. Across species, the ability to recognise relatives is conserved and is reflected in stable, lifelong memories. The molecular mechanisms underlying kinship memory remain elusive. Here we investigate the synaptic architecture of septal circuits and focus on somatic spines, an apparent synaptic specialisation of this mainly GABAergic structure. We uncover the molecular organisation of septal somatic spines found in the lateral septum using a combination of unbiased imaging methods and confocal microscopy. We used classical label-free methods such as transmission electron microscopy and Golgi stainings and established new culturing methods for dissociated and organotypic septal slice cultures that were kept in culture over multiple weeks. We describe the presence, morphology, ultrastructure and molecular composition of excitatory somatic spines across multiple developmental stages in various model systems. While smaller than dendritic spines, somatic spines exhibited distinct features, frequently containing secretory organelles such as phagophores and endosomes, but often lack a spine apparatus and ribosomes. Our findings offer insights on the molecular architecture of septal somatic spines and establish a basis for further investigations on the somatic spines of the lateral septum and their role in kinship memory. Significance statementSpine synapses represent stable synaptic connections that allow neurons to chemically communicate with each other. Although known for decades, the unusual spine synapses found directly on neuronal cell bodies in the lateral septum have not been characterised in detail. Using traditional, unbiased approaches such as electron microscopy and Golgi stainings, we replicate the initial findings. Additionally, using fluorescent microscopy of dissociated and organotypic septal cultures, we characterise the development and composition of septal somatic spines. We find that they are excitatory, contain membranous organelles and develop independently of extra-septal input. We thus describe model systems suitable for the investigation of somatospiny neurons of the lateral septum.

neuroscience↗

bioRxiv2025

Dynamic regulation of neuronal Vault trafficking and RNA cargo by the noncoding RNA, Vaultrc5

Vaults are large ribonucleoprotein complexes of unknown function. Here, we report that the vault-associated noncoding RNA, Vaultrc5, is highly enriched at the synapse and is required for activity-dependent vault trafficking in primary cortical neurons. We have discovered that vaults are comprised of unique populations of coding and non-coding RNA, and that this cargo varies dynamically between subcellular compartments. In addition, Vaultrc5 knockdown at the synapse shifts the RNA cargo toward transcripts associated with immune surveillance, and Vaultrc5 knockdown, in vivo, leads to altered fear extinction learning. These findings suggest that the Vaultrc5 is critically involved in coordinating the experience-dependent trafficking of vaults and related RNA cargo, which may represent a novel feature of neuronal plasticity associated with learning and memory.

neuroscience↗

bioRxiv2024

Non-canonical function of ADAM10 in presynaptic plasticity

A Disintegrin And Metalloproteinase 10 (ADAM10) plays a pivotal role in shaping neuronal networks by orchestrating the activity of numerous membrane proteins through the shedding of their extracellular domains. Despite its significance in the brain, the specific cellular localization of ADAM10 remains not well understood due to a lack of appropriate tools. Here, using a specific ADAM10 antibody suitable for immunostainings, we discover that ADAM10 is localized to presynapses and especially enriched at presynaptic vesicles of mossy fiber (MF)-CA3 synapses in the hippocampus. These synapses undergo pronounced frequency facilitation of neurotransmitter release, a process that play critical roles in information transfer and neural computation. We demonstrate, that in conditional ADAM10 knockout mice the ability of MF synapses to undergo this type of synaptic plasticity is greatly reduced. The loss of facilitation depends on the cytosolic domain of ADAM10 and association with the calcium sensor synaptotagmin 7 rather than its proteolytic activity. Our findings unveil a new pathway contributing to the regulation of synaptic vesicle exocytosis.

neuroscience↗

bioRxiv2024

Myosin VI controls localization of Golgi satellites at active presynaptic boutons

Neurons, as long-living non-dividing cells with complex morphology, depend on highly elaborate secretory trafficking system which ensures the constant delivery, removal and recycling of proteins and membranes. Previously, we have shown that simplified Golgi-related structures called Golgi satellites (GS), distinct from the somatic Golgi complex, are present in dendrites of primary hippocampal neurons and are involved in glycosylation and local forward trafficking of membrane proteins. However, whether GS are also targeted to axons of principal neurons have not been explored. Here, we investigate the subcellular distribution of GS in adult hippocampal neurons and discover that mobile and stationary GS are present along the entire axonal length, extending to the distal tips of the growth cone. Live imaging experiments revealed that neuronal firing modulates the switch between long range transport mediated by kinesin and dynein and stalling. We found that GS frequently pause or stop at pre-synaptic sites in activity-dependent manner. This behavior depends on the actin cytoskeleton and the actin-based motor protein myosin VI. Overall, our study demonstrates that neuronal activity can dynamically regulate the positioning of GS in the axon, shedding light on the intricate mechanisms underlying organelle trafficking in neurons. Significance statementOur study unveils the presence and dynamic behavior of Golgi satellites (GS), specialized organelles implicated in glycosylation and membrane protein trafficking, within axons of adult neurons. We found that mobile and stationary GS are present throughout the axonal length, including distal growth cone regions. GS are transported bidirectionally and their preferential pausing at presynaptic sites is regulated by neuronal firing. GS positioning at presynaptic boutons relies on the actin cytoskeleton and the myosin VI motor protein. This work elucidates how neuronal activity modulates GS distribution, shedding light on fundamental mechanisms of organelle trafficking in neurons.

neuroscience↗

bioRxiv2023

Efficient axonal trafficking of endolysosomes depends on the balanced ratio of microtubule tyrosination and detyrosination

In neurons, the microtubule (MT) cytoskeleton forms the basis for long-distance protein transport from the cell body into and out of dendrites and axon. To maintain neuronal polarity, the axon initial segment (AIS) serves as a physical barrier, separating the axon from the somatodendritic compartment and acting as a filter for axonal cargo. Selective trafficking is further instructed by axonal enrichment of MT post-translational modifications, which affect MT dynamics and the activity of motor proteins. Here, we compared two knockout mouse lines lacking the respective enzymes for MT tyrosination and detyrosination and we found that both knockouts led to a shortening of the AIS. Neurons from both lines also showed an increased immobile fraction of endolysosomes present in the axon, whereas mobile organelles displayed shortened run distances in the retrograde direction. Overall, our results highlight the importance of maintaining the balance of tyrosinated/detyrosinated MT for proper AIS length and axonal transport processes. Summary StatementDespite opposite effects on microtubule dynamics, shifting the balance of microtubule tyrosination/detyrosination in either direction resulted in surprisingly similar defects in axonal organelle transport.

neuroscience↗

bioRxiv2023

Unveiling the cell biology of hippocampal neurons with dendritic axon origin

In mammalian axon-carrying-dendrite (AcD) neurons, the axon emanates from a basal dendrite, instead of the soma, to create a privileged route for action potential generation at the axon initial segment (AIS). However, it is unclear how such unusual morphology is established and whether the structure and function of the AIS in AcD neurons is preserved. Here, we show that the AcD neurons follow an intrinsically encoded developmental program where a single precursor neurite first gives rise to the axon and then to the AcD. The AIS possesses a similar cytoskeletal architecture as the canonical AIS that stems from the soma, and similarly functions as a trafficking barrier to retain axon-specific molecular composition. However, unlike soma-derived AIS, the AIS of AcD neurons does not undergo homeostatic-plasticity, contains less cisternal organelles and receives fewer inhibitory inputs. These distinct features of the AIS could account for the higher intrinsic excitability of AcD neurons. HighlightsO_LIThe development of AcD neurons is intrinsically driven and does not depend on specific connectivity patterns C_LIO_LIAcD neurons generate the axon and AcD from the same precursor neurite C_LIO_LIThe stem dendrite of an AcD neuron displays axon-like microtubule organization C_LIO_LISimilar to the AIS emerging from the soma, the AIS of AcD neurons can selectively filter dendritic cargo C_LIO_LIThe AIS of AcD neurons does not undergo chronic homeostatic plasticity and receives fewer inhibitory inputs C_LI

neuroscience↗

bioRxiv2022

KIF21B binds Myosin Va for Spine Entry and regulates Actin Dynamics to control Homeostatic Synaptic Downscaling

Homeostatic synaptic plasticity adjusts the strength of synapses to restrain neuronal activity within a physiological range. Postsynaptic GKAP controls the bidirectional synaptic scaling of AMPA receptors (AMPARs) however how chronic activity triggers postsynaptic protein remodeling to downscale synaptic transmission is barely understood. Here we report that the microtubule-dependent kinesin motor KIF21B interacts with GKAP and likewise enters dendritic spines in a myosin Va- and activity-dependent manner. We observed that under conditions of chronic activity KIF21B regulates actin dynamics in spines, triggers spine removal of GluA2-containing AMPA receptors, and mediates homeostatic synaptic downscaling of AMPA receptor-mediated mEPSC amplitudes. Our data highlight a myosin-kinesin interaction that enables the entry of the microtubule-dependent motor KIF21B into actin-rich spine compartments. A slow actin turnover rate might be beneficial for efficient protein removal from excitatory synapses, suggesting a functional role of KIF21B in a GKAP- and AMPA receptor-dependent mechanism, underlying homeostatic downscaling of neuronal firing.

neuroscience↗

bioRxiv2021

Calpains are required for efficient microtubule detyrosination

Detyrosination is a major post-translational modification of microtubules (MT), which has significant impact on MT function in cell division, differentiation, growth, migration, polarity, and intracellular trafficking. Detyrosination of -tubulin occurs via the recently identified complex of vasohibin 1/2 (vash1/2) and small vasohibin binding protein (SVBP). However, there is still remaining detyrosinating activity in the absence of vash1/2/SVBP, and little is known about the regulation of detyrosination. Using cellular and cell-free assays we showed that the calcium-dependent proteases calpains 1 and 2 regulate MT detyrosination. We identified new calpain cleavage sites in the N-terminal disordered region of vash1 using in vitro proteolysis followed by mass spectrometry. However, this cleavage did not affect the detyrosination activity of vasohibin. In conclusion, the regulation of MT detyrosination by calpains occurs via another yet unknown tubulin carboxypeptidase. Importantly, calpains calcium dependency could allow a fine regulation of MT detyrosination. Thus, identifying the calpain-regulated pathway of MT detyrosination can be of major importance for several basic and clinical research and should be focused on in future studies. Summary StatementThe conventional calpains 1 and 2 play an important role in the regulation of microtubule detyrosination in a vasohibin independent way. Thus, they possibly control another still unknown tubulin carboxypeptidase.

cell biology↗

bioRxiv2021

Ligands binding to the cellular prion protein induce its protective proteolytic release with therapeutic potential in neurodegenerative proteinopathies

The cellular prion protein (PrPC) is a central player in neurodegenerative diseases caused by protein misfolding, such as prion diseases or Alzheimers disease (AD). Expression levels of this GPI-anchored glycoprotein, especially at the neuronal cell surface, critically correlate with various pathomechanistic aspects underlying these diseases, such as templated misfolding (in prion diseases) and neurotoxicity and, hence, with disease progression and severity. In stark contrast to cell-associated PrPC, soluble extracellular forms or fragments of PrP are linked with neuroprotective effects, which is likely due to their ability to interfere with neurotoxic disease-associated protein conformers in the interstitial fluid. Fittingly, the endogenous proteolytic release of PrPC by the metalloprotease ADAM10 ( shedding) was characterized as a protective mechanism. Here, using a recently generated cleavage-site specific antibody, we shed new light on earlier studies by demonstrating that shed PrP (sPrP) negatively correlates with conformational conversion (in prion disease) and is markedly redistributed in murine brain in the presence of prion deposits or AD-associated amyloid plaques indicating a blocking and sequestrating activity. Importantly, we reveal that administration of certain PrP-directed antibodies and other ligands results in increased PrP shedding in cells and organotypic brain slice cultures. We also provide mechanistic and structural insight into this shedding-stimulating effect. In addition, we identified a striking exception to this, as one particular neuroprotective antibody, due to its special binding characteristics, did not cause increased shedding but rather strong surface clustering followed by fast endocytosis and degradation of PrPC. Both mechanisms may contribute to the beneficial action described for some PrP-directed antibodies/ligands and pave the way for new therapeutic strategies against devastating and currently incurable neurodegenerative diseases.

neuroscience↗

bioRxiv2021

Autism associated SHANK3 missense point mutations impact conformational fluctuations and protein turnover at synapses

Members of the SH3- and ankyrin-rich repeat (SHANK) protein family are considered as master scaffolds of the post-synaptic density of glutamatergic synapses. Several missense mutations within the canonical SHANK3 isoform have been proposed as causative for the development of autism spectrum disorders (ASDs). However, there is a surprising paucity of data linking missense mutation-induced changes in protein structure and dynamics to the occurrence of ASD-related synaptic phenotypes. In this work, we focus on two ASD-associated point mutations, both located within the same domain of SHANK3. In a proof-of-principle study we demonstrate that both mutant proteins show indeed distinct changes in secondary and tertiary structure as well as higher conformational fluctuations. Local and surprisingly also distal structural disturbances of protein folding result in altered synaptic targeting and changes of protein turnover at synaptic sites.

neuroscience↗

bioRxiv2020

Synaptic anchoring of the endoplasmic reticulum depends on myosin V and caldendrin activity

Excitatory synapses of principal hippocampal neurons are frequently located on dendritic spines. The dynamic strengthening or weakening of individual inputs results in a great structural and molecular diversity of dendritic spines. Active spines with large Ca2+ transients are frequently invaded by a single protrusion from the endoplasmic reticulum (ER), which is dynamically transported into and out of spines by the actin-based motor myosin V. An increase in synaptic strength often correlates with stable anchoring of the ER, followed by the formation of the spine apparatus organelle. Here we show that synaptic ER stabilization depends on the interplay of two Ca2+-binding proteins: calmodulin serves as a light chain of myosin V and activates the motor function, whereas caldendrin acts as an inhibitor which transforms myosin into a stationary F-actin tether. Together, they provide a Ca2+-sensing module for fine-tuning myosin V activity and thereby regulate the formation of the spine apparatus in a subset of active dendritic spines.

neuroscience↗

bioRxiv2019

Long vs short-term synaptic learning rules after optogenetic spike-timing-dependent plasticity

Spike-timing-dependent plasticity (STDP) is a candidate mechanism for information storage in the brain, but the whole-cell recordings required for the experimental induction of STDP are typically limited to one hour. This mismatch of time scales is a long-standing weakness in synaptic theories of memory. Here we use spectrally separated optogenetic stimulation to fire precisely timed action potentials (spikes) in CA3 and CA1 pyramidal cells. Twenty minutes after optogenetic induction of STDP (oSTDP), we observed timing-dependent depression (tLTD) and timing-dependent potentiation (tLTP), depending on the sequence of spiking. As oSTDP does not require electrodes, we could also assess the strength of these paired connections three days later. At this late time point, late tLTP was observed for both causal (CA3 before CA1) and anti-causal (CA1 before CA3) timing, but not for asynchronous activity patterns ({Delta}t = 50 ms). Blocking activity after induction of oSTDP prevented stable potentiation. Our results confirm that neurons wire together if they fire together, but suggest that synaptic depression after anti-causal activation (tLTD) is a transient phenomenon. HighlightsO_LIOptogenetic induction of spike-timing-dependent plasticity at Schaffer collateral synapses C_LIO_LICausal pairing induces potentiation whereas anti-causal pairing induces depression during patch-clamp recordings. C_LIO_LIThree days after optogenetic induction, the consequence of STDP is potentiation (tLTP) irrespective of spiking order. C_LIO_LILate tLTP requires ongoing activity in the days following oSTDP. C_LI Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=138 SRC="FIGDIR/small/863365v4_ufig1.gif" ALT="Figure 1"> View larger version (19K): org.highwire.dtl.DTLVardef@1937ad5org.highwire.dtl.DTLVardef@16566f8org.highwire.dtl.DTLVardef@4b4a73org.highwire.dtl.DTLVardef@104fc97_HPS_FORMAT_FIGEXP M_FIG C_FIG

neuroscience↗

bioRxiv2019

CAP2 is a novel regulator of Cofilin in synaptic plasticity and Alzheimer’s disease

Cofilin is one of the major regulators of actin dynamics in spines where it is required for structural synaptic plasticity. However, our knowledge of the mechanisms controlling Cofilin activity in spines remains still fragmented. Here, we describe the cyclase-associated protein 2 (CAP2) as a novel master regulator of Cofilin localization in spines. The formation of CAP2 dimers through its Cys32 is important for CAP2 binding to Cofilin and for normal spine actin turnover. The Cys32-dependent CAP2 homodimerization and association to Cofilin are triggered by long-term potentiation (LTP) and are required for LTP-induced Cofilin translocation into spines, spine remodeling and the potentiation of synaptic transmission. This mechanism is specifically affected in the hippocampus, but not in the superior frontal gyrus, of both Alzheimers Disease (AD) patients and APP/PS1 mice, where CAP2 is down-regulated and CAP2 dimer synaptic levels are reduced. In AD hippocampi, Cofilin preferentially associates with CAP2 monomer and is aberrantly localized in spines. Taken together, these results provide novel insights into structural plasticity mechanisms that are defective in AD.

neuroscience↗

bioRxiv2019

F-actin patches associated with glutamatergic synapses control positioning of dendritic lysosomes

Organelle positioning within neurites is required for proper neuronal function. In dendrites with their complex cytoskeletal organization, transport of organelles is guided by local specializations of the microtubule and actin cytoskeleton, and by coordinated activity of different motor proteins. Here, we focus on the actin cytoskeleton in the dendritic shaft and describe dense structures consisting of longitudinal and branched actin filaments. These actin patches are devoid of microtubules and are frequently located at the base of spines, or form an actin mesh around excitatory shaft synapses. Using lysosomes as an example, we demonstrate that the presence of actin patches has a strong impact on dendritic organelle transport, as lysosomes frequently stall at these locations. We provide mechanistic insights on this pausing behavior, demonstrating that actin patches form a physical barrier for kinesin-driven cargo. In addition, we identify myosin Va as an active tether which mediates long-term stalling. This correlation between the presence of actin meshes and halting of organelles could be a generalized principle by which synapses control organelle trafficking.

neuroscience↗