183 research outputs found
Dynamic motion of two-link arms with different link lengths using singularities
The 11th International Symposium on Adaptive Motion of Animals and Machines. Kobe University, Japan. 2023-06-06/09. Adaptive Motion of Animals and Machines Organizing Committee.Poster Session P3
The critical balance between dopamine D2 receptor and RGS for the sensitive detection of a transient decay in dopamine signal
In behavioral learning, reward-related events are encoded into phasic dopamine (DA) signals in the brain. In particular, unexpected reward omission leads to a phasic decrease in DA (DA dip) in the striatum, which triggers long-term potentiation (LTP) in DA D2 receptor (D2R)-expressing spiny-projection neurons (D2 SPNs). While this LTP is required for reward discrimination, it is unclear how such a short DA-dip signal (0.5–2 s) is transferred through intracellular signaling to the coincidence detector, adenylate cyclase (AC). In the present study, we built a computational model of D2 signaling to determine conditions for the DA-dip detection. The DA dip can be detected only if the basal DA signal sufficiently inhibits AC, and the DA-dip signal sufficiently disinhibits AC. We found that those two requirements were simultaneously satisfied only if two key molecules, D2R and regulators of G protein signaling (RGS) were balanced within a certain range; this balance has indeed been observed in experimental studies. We also found that high level of RGS was required for the detection of a 0.5-s short DA dip, and the analytical solutions for these requirements confirmed their universality. The imbalance between D2R and RGS is associated with schizophrenia and DYT1 dystonia, both of which are accompanied by abnormal striatal LTP. Our simulations suggest that D2 SPNs in patients with schizophrenia and DYT1 dystonia cannot detect short DA dips. We finally discussed that such psychiatric and movement disorders can be understood in terms of the imbalance between D2R and RGS
Dysconnection in schizophrenia: from abnormal synaptic plasticity to failures of self-monitoring
Over the last 2 decades, a large number of neurophysiological and neuroimaging studies of patients with schizophrenia have furnished in vivo evidence for dysconnectivity, ie, abnormal functional integration of brain processes. While the evidence for dysconnectivity in schizophrenia is strong, its etiology, pathophysiological mechanisms, and significance for clinical symptoms are unclear. First, dysconnectivity could result from aberrant wiring of connections during development, from aberrant synaptic plasticity, or from both. Second, it is not clear how schizophrenic symptoms can be understood mechanistically as a consequence of dysconnectivity. Third, if dysconnectivity is the primary pathophysiology, and not just an epiphenomenon, then it should provide a mechanistic explanation for known empirical facts about schizophrenia. This article addresses these 3 issues in the framework of the dysconnection hypothesis. This theory postulates that the core pathology in schizophrenia resides in aberrant N-methyl-D-aspartate receptor (NMDAR)–mediated synaptic plasticity due to abnormal regulation of NMDARs by neuromodulatory transmitters like dopamine, serotonin, or acetylcholine. We argue that this neurobiological mechanism can explain failures of self-monitoring, leading to a mechanistic explanation for first-rank symptoms as pathognomonic features of schizophrenia, and may provide a basis for future diagnostic classifications with physiologically defined patient subgroups. Finally, we test the explanatory power of our theory against a list of empirical facts about schizophrenia
Dendritic signals from rat CA1 neurons during coincident pre- and post-synaptic activity : a combined voltage- and calcium-imaging study
Author Posting. © The Authors, 2006. This is the author's version of the work. It is posted here by permission of Physiological Society for personal use, not for redistribution. The definitive version was published in Journal of Physiology 580 (2007): 463-484, doi:10.1113/jphysiol.2006.125005.The non-linear and spatially inhomogeneous interactions of dendritic membrane potential
signals that represent the first step in the induction of activity dependent long-term
synaptic plasticity are not fully understood, particularly in dendritic regions which are
beyond the reach of electrode measurements. We combined voltage-sensitive-dye
recordings and Ca2+-imaging of hippocampal CA1 pyramidal neurons to study large
regions of the dendritic arbor, including branches of small diameter (distal apical and
oblique dendrites). Dendritic membrane potential transients were monitored at high spatial resolution and correlated with supra-linear [Ca2+]i changes during one cycle of a repetitive patterned stimulation protocol that typically results in the induction of long-term potentiation (LTP). While the increase in the peak membrane depolarization during coincident pre- and post-synaptic activity was required for the induction of supra-linear [Ca2+]i-signals shown to be necessary for LTP, the change in the baseline-to-peak amplitude of the backpropagating dendritic action potential (bAP) was not critical in this
process. At different dendritic locations, the baseline-to-peak amplitude of the bAP could be either increased, decreased or unaltered at sites where EPSP-AP pairing evoked supra-linear summation of [Ca2+]i-transients. We suggest that modulations in the bAP baseline-to-
peak amplitude by local EPSPs act as a mechanism that brings the membrane potential
into the optimal range for Ca2+-influx through NMDA receptors (0 to -15 mV); this may require either boosting or the reduction of the bAP, depending on the initial size of both signals.This work was supported by NIH grant RO1NS42739 and by Kavli Institute for Neuroscience, Yale University School of Medicine
Induction of Toll-Like Receptor 3-Mediated Immunity during Gestation Inhibits Cortical Neurogenesis and Causes Behavioral Disturbances
Maternal infection during pregnancy with a wide range of RNA and DNA viruses is associated with increased risk for schizophrenia and autism in their offspring. A common feature in these exposures is that virus replication induces innate immunity through interaction with Toll-like receptors (TLRs). We employed a mouse model wherein pregnant mice were exposed to polyinosinic-polycytidylic acid [poly(I ⋅ C)], a synthetic, double-stranded RNA molecular mimic of replicating virus. Poly(I ⋅ C) inhibited embryonic neuronal stem cell replication and population of the superficial layers of the neocortex by neurons. Poly(I ⋅ C) also led to impaired neonatal locomotor development and abnormal sensorimotor gating responses in adult offspring. Using Toll-like receptor 3 (TLR3)-deficient mice, we established that these effects were dependent on TLR3. Inhibition of stem cell proliferation was also abrogated by pretreatment with the nonsteroidal anti-inflammatory drug (NSAID) carprofen, a cyclooxygenase (COX) inhibitor. Our findings provide insights into mechanisms by which maternal infection can induce subtle neuropathology and behavioral dysfunction, and they may suggest strategies for reducing the risk of neuropsychiatric disorders subsequent to prenatal exposures to pathogens and other triggers of innate immunity
Atomic-accuracy prediction of protein loop structures through an RNA-inspired ansatz
Consistently predicting biopolymer structure at atomic resolution from
sequence alone remains a difficult problem, even for small sub-segments of
large proteins. Such loop prediction challenges, which arise frequently in
comparative modeling and protein design, can become intractable as loop lengths
exceed 10 residues and if surrounding side-chain conformations are erased. This
article introduces a modeling strategy based on a 'stepwise ansatz', recently
developed for RNA modeling, which posits that any realistic all-atom molecular
conformation can be built up by residue-by-residue stepwise enumeration. When
harnessed to a dynamic-programming-like recursion in the Rosetta framework, the
resulting stepwise assembly (SWA) protocol enables enumerative sampling of a 12
residue loop at a significant but achievable cost of thousands of CPU-hours. In
a previously established benchmark, SWA recovers crystallographic conformations
with sub-Angstrom accuracy for 19 of 20 loops, compared to 14 of 20 by KIC
modeling with a comparable expenditure of computational power. Furthermore, SWA
gives high accuracy results on an additional set of 15 loops highlighted in the
biological literature for their irregularity or unusual length. Successes
include cis-Pro touch turns, loops that pass through tunnels of other
side-chains, and loops of lengths up to 24 residues. Remaining problem cases
are traced to inaccuracies in the Rosetta all-atom energy function. In five
additional blind tests, SWA achieves sub-Angstrom accuracy models, including
the first such success in a protein/RNA binding interface, the YbxF/kink-turn
interaction in the fourth RNA-puzzle competition. These results establish
all-atom enumeration as a systematic approach to protein structure that can
leverage high performance computing and physically realistic energy functions
to more consistently achieve atomic resolution.Comment: Identity of four-loop blind test protein and parts of figures 5 have
been omitted in this preprint to ensure confidentiality of the protein
structure prior to its public releas
Integration of rule-based models and compartmental models of neurons
Synaptic plasticity depends on the interaction between electrical activity in
neurons and the synaptic proteome, the collection of over 1000 proteins in the
post-synaptic density (PSD) of synapses. To construct models of synaptic
plasticity with realistic numbers of proteins, we aim to combine rule-based
models of molecular interactions in the synaptic proteome with compartmental
models of the electrical activity of neurons. Rule-based models allow
interactions between the combinatorially large number of protein complexes in
the postsynaptic proteome to be expressed straightforwardly. Simulations of
rule-based models are stochastic and thus can deal with the small copy numbers
of proteins and complexes in the PSD. Compartmental models of neurons are
expressed as systems of coupled ordinary differential equations and solved
deterministically. We present an algorithm which incorporates stochastic
rule-based models into deterministic compartmental models and demonstrate an
implementation ("KappaNEURON") of this hybrid system using the SpatialKappa and
NEURON simulators.Comment: Presented to the Third International Workshop on Hybrid Systems
Biology Vienna, Austria, July 23-24, 2014 at the International Conference on
Computer-Aided Verification 201
Cooperative binding mitigates the high-dose hook effect
Background: The high-dose hook effect (also called prozone effect) refers to the observation that if a multivalent protein acts as a linker between two parts of a protein complex, then increasing the amount of linker protein in the mixture does not always increase the amount of fully formed complex. On the contrary, at a high enough concentration range the amount of fully formed complex actually decreases. It has been observed that allosterically regulated proteins seem less susceptible to this effect. The aim of this study was two-fold: First, to investigate the mathematical basis of how allostery mitigates the prozone effect. And second, to explore the consequences of allostery and the high-dose hook effect using the example of calmodulin, a calcium-sensing protein that regulates the switch between long-term potentiation and long-term depression in neurons. Results: We use a combinatorial model of a “perfect linker protein” (with infinite binding affinity) to mathematically describe the hook effect and its behaviour under allosteric conditions. We show that allosteric regulation does indeed mitigate the high-dose hook effect. We then turn to calmodulin as a real-life example of an allosteric protein. Using kinetic simulations, we show that calmodulin is indeed subject to a hook effect. We also show that this effect is stronger in the presence of the allosteric activator Ca 2+/calmodulin-dependent kinase II (CaMKII), because it reduces the overall cooperativity of the calcium-calmodulin system. It follows that, surprisingly, there are conditions where increased amounts of allosteric activator actually decrease the activity of a protein. Conclusions: We show that cooperative binding can indeed act as a protective mechanism against the hook effect. This will have implications in vivo where the extent of cooperativity of a protein can be modulated, for instance, by allosteric activators or inhibitors. This can result in counterintuitive effects of decreased activity with increased concentrations of both the allosteric protein itself and its allosteric activators. Electronic supplementary material The online version of this article (doi:10.1186/s12918-017-0447-8) contains supplementary material, which is available to authorized users
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