Physiological Insights from Cellular and Network Models of the Stomatogastric Nervous System of Lobsters and Crabs

SYNOPSIS. The stomatogastric nervous system of decapod crustaceansis an ideal system for the study of the processes underlyingthe generation of rhythmic movements by the nervous system.In this chapter we review recent work that uses mathematicalanalyses and computer simulations to understand: 1) the roleof individual currents in controlling the activity of neurons,and 2) the effects of electrical coupling on the activity ofneuronal oscillators. The aim of this review is to highlight,for the physiologist, what these studies have taught us aboutthe organization and function of single cell and multicellularneuronal oscillators.     

Mitotic Implantation of the Transcription Factor Prospero via Phase Separation Drives Terminal Neuronal Differentiation

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Some Models of Neuronal Variability

The pattern of nerve action potentials produced by unit permeability changes (quantal inputs) occurring at random is considered analytically and by computer simulation methods. The important parameters of a quantal input are size and duration. Varying both the mean and the probability density function of these parameters has calculable effects on the distribution of interspike intervals. Particular attention is paid to the relation between the mean rate of excitatory inputs and the mean frequency of nerve action potentials (input-output curve) and the relation between the coefficient of variation for the interval distribution and the mean interval (variability curve). In the absence of action potentials one can determine the parameters of the voltage distribution including the autocorrelation function and the power spectrum. These parameters can sometimes be used to approximate the variability of interspike intervals as a function of the threshold voltage. Different neuronal models are considered including one containing the Hodgkin-Huxley membrane equations. The negative feedback inherent in the Hodgkin-Huxley equations tends to produce a small negative serial correlation between successive intervals. The results are discussed in relation to the interpretation of experimental results.     

Variation in the Boldness of Courting Sand Fiddler Crabs (Uca pugilator)

Individuals can express boldness in their readiness to resume courtship signaling following a perceived threat. The degree of boldness that is selectively favored depends on the magnitude of costs and benefits that may vary across time and space. We examined within‐ and between‐individual variation in the boldness of courting male sand fiddler crabs, Uca pugilator, across an entire breeding season at a South Carolina (USA) salt marsh where courtship is restricted to supratidal embankments. Boldness was assessed by the time to re‐emergence and the number of re‐emergences of males who were purposely startled into their breeding burrows once every 3 min for a total of five times. The two measures of boldness were significantly positively correlated. Courting males are on average bolder when their density is high and when tidal conditions correspond to peaks in the number of females moving over the embankment surface. Time to re‐emergence increases with successive startles although some males consistently re‐emerge faster than others. Large males are not bolder than small males. When male density is high, nearest neighbors frequently re‐emerge at the same time, suggesting that males cue on the responses of other nearby males, perhaps by assessing substrate vibration. This may reduce the chance of losing a potential mate to a local competitor.     

Evidence of a Neural Inductive Phase in Limb Development

To demonstrate a causal relationship between neuronal damage and peripheral mesodermal anomalies, an operation was performed through oblique incisions in the dorsum of 247 chick embryos at stages 12–15 of development. In the region of the 24–30th presumptive somites, a three to four somite length of the right half of the neural tube was cut with fine glass sytlettes and removed with a 40μm glass pipette. Immediately after the operation and at intervals during continued incubation (37±, 75% R.H.), embryos were processed for histology. Fifty one embryos survived until day 14 when they were examined for malformations. Excision frequently resulted in a variety of reduction deformities: some embryos appeared normal; 31 displayed unilateral hemimelia or amelia. Examination of serially sectioned embryos fixed immediately and at varying intervals after the operation, demonstrated that this range of malformations was consistent with variation in the amount of neural tissue excised. Disruption of the mesoderm and regeneration of nervous tissue was minimal. It is concluded that the nervous system per se or some factor produced by the nervous system is essential for the development of the limb.     

Computer Simulation of Vapor-Liquid Phase Separation

Abstract

A late-time growth law of domains undergoing vapor-liquid phase separation is studied for two- and three-dimensional Lennard-Jones fluids by molecular dynamics simulations. The characteristic domain size shows a power law growth in a late stage with the growth exponent of ½ for both two- and three-dimensional fluids. This study concerns also the relationship between statistical properties of domain patterns and temperatures. The asymptotic form factor of each system is obtained using scaling and the asymptotic tail of the form factor is analyzed. This tail is related to the domain-wall structure. At low system temperatures, the form factor satisfies Porod's law; the asymptotic tail decreases as S(k) ～ k ^{?(D+ 1)} where D is the system dimensionality. However, it is found that the decay of the asymptotic tail becomes slower than that of the Porod tail at higher temperatures in both two- and three-dimensional systems. This indicates that the dimension of the domain wall is fractal and increases with increasing system temperature.     

Rich Phase Separation Behavior of Biomolecules

Phase separation is a thermodynamic process leading to the formation of compositionally distinct phases. For the past few years, numerous works have shown that biomolecular phase separation serves as biogenesis mechanisms of diverse intracellular condensates, and aberrant phase transitions are associated with disease states such as neurodegenerative diseases and cancers. Condensates exhibit rich phase behaviors including multiphase internal structuring, noise buffering, and compositional tunability. Recent studies have begun to uncover how a network of intermolecular interactions can give rise to various biophysical features of condensates. Here, we review phase behaviors of biomolecules, particularly with regard to regular solution models of binary and ternary mixtures. We discuss how these theoretical frameworks explain many aspects of the assembly, composition, and miscibility of diverse biomolecular phases, and highlight how a model-based approach can help elucidate the detailed thermodynamic principle for multicomponent intracellular phase separation.     

Assembly of Mitotic Structures through Phase Separation

Cells compartmentalize biochemical reactions using organelles, which can be membrane enclosed or built entirely of proteins and ribonucleic acids. Recent studies indicate that many organelles that lack membranes have liquid-like properties, including the ability to flow, fuse, and undergo rapid internal rearrangement. The assembly of these “biomolecular condensates” has been described as liquid–liquid phase separation, whereby their constituent components demix from the cytoplasm, similar to water separating from oil. Other studies suggest that protein phase separation followed by maturation, where intramolecular connections strengthen over time, can lead to gel- or glass-like states. This review discusses how the principles of phase separation might help to understand the assembly and behavior of organelles that operate in mitosis, when the cell assembles the mitotic spindle to segregate chromosomes. Special attention is given to the mitotic pericentriolar material of centrosomes and the spindle matrix.     

Semantics of Multimodal Network Models

A multimodal network (MMN) is a novel graph-theoretic formalism designed to capture the structure of biological networks and to represent relationships derived from multiple biological databases. MMNs generalize the standard notions of graphs and hypergraphs, which are the bases of current diagrammatic representations of biological phenomena, and incorporate the concept of mode. Each vertex of an MMN is a biological entity, a biot, while each modal hyperedge is a typed relationship, where the type is given by the mode of the hyperedge. The semantics of each modal hyperedge e is given through denotational semantics, where a valuation function f_{e} defines the relationship among the values of the vertices incident on e. The meaning of an MMN is denoted in terms of the semantics of a hyperedge sequence. A companion paper defines MMNs and concentrates on the structural aspects of MMNs. This paper develops MMN denotational semantics when used as a representation of the semantics of biological networks and discusses applications of MMNs in managing complex biological data.     

Intrinsic Up-Regulation of 2-AG Favors an Area Specific Neuronal Survival in Different In Vitro Models of Neuronal Damage

Background

The endocannabinoid 2-arachidonoyl glycerol (2-AG) acts as a retrograde messenger and modulates synaptic signaling e. g. in the hippocampus. 2-AG also exerts neuroprotective effects under pathological situations. To better understand the mechanism beyond physiological signaling we used Organotypic Entorhino-Hippocampal Slice Cultures (OHSC) and investigated the temporal regulation of 2-AG in different cell subsets during excitotoxic lesion and dendritic lesion of long range projections in the enthorhinal cortex (EC), dentate gyrus (DG) and the cornu ammonis region 1 (CA1).

Results

2-AG levels were elevated 24 h after excitotoxic lesion in CA1 and DG (but not EC) and 24 h after perforant pathway transection (PPT) in the DG only. After PPT diacylglycerol lipase alpha (DAGL) protein, the synthesizing enzyme of 2-AG was decreased when Dagl mRNA expression and 2-AG levels were enhanced. In contrast to DAGL, the 2-AG hydrolyzing enzyme monoacylglycerol lipase (MAGL) showed no alterations in total protein and mRNA expression after PPT in OHSC. MAGL immunoreaction underwent a redistribution after PPT and excitotoxic lesion since MAGL IR disappeared in astrocytes of lesioned OHSC. DAGL and MAGL immunoreactions were not detectable in microglia at all investigated time points. Thus, induction of the neuroprotective endocannabinoid 2-AG might be generally accomplished by down-regulation of MAGL in astrocytes after neuronal lesions.

Conclusion

Increase in 2-AG levels during secondary neuronal damage reflects a general neuroprotective mechanism since it occurred independently in both different lesion models. This intrinsic up-regulation of 2-AG is synergistically controlled by DAGL and MAGL in neurons and astrocytes and thus represents a protective system for neurons that is involved in dendritic reorganisation.     

Control of Neuronal Network in Caenorhabditis elegans

Caenorhabditis elegans, a soil dwelling nematode, is evolutionarily rudimentary and contains only ∼ 300 neurons which are connected to each other via chemical synapses and gap junctions. This structural connectivity can be perceived as nodes and edges of a graph. Controlling complex networked systems (such as nervous system) has been an area of excitement for mankind. Various methods have been developed to identify specific brain regions, which when controlled by external input can lead to achievement of control over the state of the system. But in case of neuronal connectivity network the properties of neurons identified as driver nodes is of much importance because nervous system can produce a variety of states (behaviour of the animal). Hence to gain insight on the type of control achieved in nervous system we implemented the notion of structural control from graph theory to C. elegans neuronal network. We identified ‘driver neurons’ which can provide full control over the network. We studied phenotypic properties of these neurons which are referred to as ‘phenoframe’ as well as the ‘genoframe’ which represents their genetic correlates. We find that the driver neurons are primarily motor neurons located in the ventral nerve cord and contribute to biological reproduction of the animal. Identification of driver neurons and its characterization adds a new dimension in controllability of C. elegans neuronal network. This study suggests the importance of driver neurons and their utility to control the behaviour of the organism.     

生物大分子相分离在植物中的研究进展

细胞中存在种类繁多的无膜细胞器,在感知环境信号,基因表达调控,RNA加工等过程中发挥了重要的作用,而生物大分子相分离被证明是无膜细胞器形成的主要方式。文章介绍了生物大分子相分离的概念与特征,总结了有关相分离在植物对环境信号响应中的研究进展,并对相分离在植物中的生物学功能进行了分类,以期解析相分离在植物生长发育和逆境适应中的作用机理,揭示植物无膜细胞器的本质与功能。     

神经元凋亡的离体模型及其检测技术

近年来,随着细胞凋亡研究的深入,神经元凋亡与神经退变病的关系愈发引人注目,已建立多种神经元凋亡的离体模型.多种因素如营养剥夺、自由基、谷氨酸、低钙及β-淀粉样蛋白等均可诱发神经元凋亡.凋亡的检测,可先从酶或蛋白质的变化判断神经元的损伤情况,再结合形态学观察,最后通过DNA电泳等确证.     

Neuronal Correlates of a Virtual-Reality-Based Passive Sensory P300 Network

P300, a positive event-related potential (ERP) evoked at around 300 ms after stimulus, can be elicited using an active or passive oddball paradigm. Active P300 requires a person’s intentional response, whereas passive P300 does not require an intentional response. Passive P300 has been used in incommunicative patients for consciousness detection and brain computer interface. Active and passive P300 differ in amplitude, but not in latency or scalp distribution. However, no study has addressed the mechanism underlying the production of passive P300. In particular, it remains unclear whether the passive P300 shares an identical active P300 generating network architecture when no response is required. This study aims to explore the hierarchical network of passive sensory P300 production using dynamic causal modelling (DCM) for ERP and a novel virtual reality (VR)-based passive oddball paradigm. Moreover, we investigated the causal relationship of this passive P300 network and the changes in connection strength to address the possible functional roles. A classical ERP analysis was performed to verify that the proposed VR-based game can reliably elicit passive P300. The DCM results suggested that the passive and active P300 share the same parietal-frontal neural network for attentional control and, underlying the passive network, the feed-forward modulation is stronger than the feed-back one. The functional role of this forward modulation may indicate the delivery of sensory information, automatic detection of differences, and stimulus-driven attentional processes involved in performing this passive task. To our best knowledge, this is the first study to address the passive P300 network. The results of this study may provide a reference for future clinical studies on addressing the network alternations under pathological states of incommunicative patients. However, caution is required when comparing patients’ analytic results with this study. For example, the task presented here is not applicable to incommunicative patients.     

Registered and Antiregistered Phase Separation of Mixed Amphiphilic Bilayers

We derive a mean-field free energy for the phase behavior of coupled bilayer leaflets, which is implicated in cellular processes and important to the design of artificial membranes. Our model accounts for amphiphile-level structural features, particularly hydrophobic mismatch, which promotes antiregistration, in competition with the direct transmidplane coupling usually studied, which promotes registration. We show that the phase diagram of coupled leaflets allows multiple metastable coexistences, and we illustrate the kinetic implications of this with a detailed study of a bilayer of equimolar overall composition. For approximate parameters estimated to apply to phospholipids, equilibrium coexistence is typically registered, but metastable antiregistered phases can be kinetically favored by hydrophobic mismatch. Thus, a bilayer in the spinodal region can require nucleation to equilibrate, in a novel manifestation of Ostwald’s rule of stages. Our results provide a framework for understanding disparate existing observations in the literature, elucidating a subtle competition of couplings and a key role for phase-transition kinetics in bilayer phase behavior.     

Phase Separation of Biomolecules in Polyoxyethylene Glycol Nonionic Detergents

Abstract

The advantage of aqueous two-phase systems based on polyoxyethylene detergents over other liquid-liquid two-phase systems lies in their capacity to fractionate membrane proteins simply by heating the solution over a biocompatible range of temperatures (20 to 37°C). This permits the peripheral membrane proteins to be effectively separated from the integral membrane proteins, which remain in the detergent-rich phase due to the interaction of their hydrophobic domains with detergent micelles. Since the first reports of this special characteristic of polyoxyethylene glycol detergents in 1981, numerous reports have consolidated this procedure as a fundamental technique in membrane biochemistry and molecular biology. As examples of their use in these two fields, this review summarizes the studies carried out on the topology, diversity, and anomalous behavior of transmembrane proteins on the distribution of glycosyl-phosphatidylinositol-anchored membrane proteins, and on a mechanism to describe the pH-induced translocation of viruses, bacterial endotoxins, and soluble cytoplasmic proteins related to membrane fusion.

In addition, the phase separation capacity of these polyoxyethylene glycol detergents has been used to develop quick fractionation methods with high recoveries, on both a micro- and macroscale, and to speed up or increase the efficiency of bioanalytical assays.     

The Frequency Response, Coherence, and Information Capacity of Two Neuronal Models

Two neuronal models are analyzed in which subthreshold inputs are integrated either without loss (perfect integrator) or with a decay which follows an exponential time course (leaky integrator). Linear frequency response functions for these models are compared using sinusoids, Poisson-distributed impulses, or gaussian white noise as inputs. The responses of both models show the nonlinear behavior characteristic of a rectifier for sinusoidal inputs of sufficient amplitude. The leaky integrator shows another nonlinearity in which responses become phase locked to cyclic stimuli. Addition of white noise reduces the distortions due to phase locking. Both models also show selective attenuation of high-frequency components with white noise inputs. Input, output, and cross-spectra are computed using inputs having a broad frequency spectrum. Measures of the coherence and information transmission between the input and output of the models are also derived. Steady inputs, which produce a constant “carrier” rate, and intrinsic sources, which produce variability in the discharge of neurons, may either increase or decrease coherence; however, information transmission using inputs with a broad spectrum is generally increased by steady inputs and reduced by intrinsic variability.