Chromatin-mediated cortical granule redistribution is responsible for the formation of the cortical granule-free domain in mouse eggs

A cortical granule-free domain (CGFD) overlies the metaphase chromatin in fully mature mouse eggs. Although a chromatin-induced localized release of cortical granules (CG) during maturation is thought to be a major contributing factor to its formation, there are indications that CG redistribution may also be involved in generating the CGFD. We performed experiments to determine the relative contributions of CG exocytosis and redistribution in generating the CGFD. We found that the CGFD-inducing activity was not specific to female germ cell chromatin and was heat stable but sensitive to DNase and protease treatment. Surprisingly, chelation of egg intracellular Ca(2+) levels did not prevent CGFD formation in response to microinjection of exogenous chromatin, suggesting that development of the CGFD was not a result of CG exocytosis. This finding was confirmed by the lack of CG exudate on the plasma membrane surface of the injected eggs and the absence of conversion of ZP2 to ZP2(f) during formation of the new CGFD. Moreover, clamping intracellular Ca(2+) did not prevent the formation of the CGFD during oocyte maturation, but did inhibit the maturation-associated release of CGs between metaphase I and II. Results of these experiments suggest that CG redistribution is the dominant factor in formation of the CGFD.     

Enhanced expression of RNase L as a novel intracellular signal generated by NMDA receptors in mouse cortical neurons

Recently we showed that the level of mitochondrial mRNA was decreased prior to neuronal death induced by glutamate. As the level of mRNA is regulated by ribonuclease (RNase), we examined RNase activity and its expression in the primary cultures of cortical neurons after glutamate treatment in order to evaluate the involvement of RNase in glutamate-induced neuronal death. A 15-min exposure of the cultures to glutamate at the concentration of 100muM produced marked neuronal damage (more than 70% of total cells) at 24-h post-exposure. Under the experimental conditions used, RNA degradation was definitely observed at a period of 4-12-h post-exposure, a time when no damage was seen in the neurons. Glutamate-induced RNA degradation was completely prevented by the N-methyl-d-aspartic acid (NMDA) receptor channel blocker MK-801 or the NR2B-containing NMDA receptor antagonist ifenprodil. Glutamate exposure produced enhanced expression of RNase L at least 2-12h later, which was absolutely abolished by MK-801. However, no significant change was seen in the level of RNase H1 mRNA at any time point post-glutamate treatment. Immunocytochemical studies revealed that RNase L expressed in response to glutamate was localized within the nucleus, mitochondria, and cytoplasm in the neurons. Taken together, our data suggest that expression of RNase L is a signal generated by NMDA receptor in cortical neurons. RNase L expression and RNA degradation may be events that cause neuronal damage induced by NMDA receptor activation.     

Phosphorylated MARCKS: a novel centrosome component that also defines a peripheral subdomain of the cortical actin cap in mouse eggs

MARCKS (myristoylated alanine-rich C-kinase substrate) is a major substrate for protein kinase C (PKC), a kinase that has multiple functions during oocyte maturation and egg activation, for example, spindle function and cytoskeleton reorganization. We examined temporal and spatial changes in p-MARCKS localization during maturation of mouse oocytes and found that p-MARCKS is a novel centrosome component based its co-localization with pericentrin and gamma-tubulin within microtubule organizing centers (MTOCs). Like pericentrin, p-MARCKS staining at the MI spindle poles was asymmetric. Based on this asymmetry, we found that one end of the spindle was preferentially extruded with the first polar body. At MII, however, the spindle poles had symmetrical p-MARCKS staining. p-MARCKS also was enriched in the periphery of the actin cap overlying the MI or MII spindle to form a ring-shaped subdomain. Because phosphorylation of MARCKS modulates its actin crosslinking function, this localization suggests p-MARCKS functions as part of the contractile apparatus during polar body emission. Our finding that an activator of conventional and novel PKC isoforms did not increase the amount of p-MARCKS suggested that an atypical isoform was responsible for MARCKS phosphorylation. Consistent with this idea, immunostaining revealed that the staining patterns of p-MARCKS and the active form of the atypical PKC zeta/lambda isoform(s) were very similar. These results show that p-MARCKS is a novel centrosome component and also defines a previously unrecognized subdomain of the actin cap overlying the spindle.     

Dipyridamole is neuroprotective for cultured rat embryonic cortical neurons

The effects of a clinically useful cardiovascular agent, dipyridamole, were examined in a rodent tissue culture model of neuroprotection. Dipyridamole effectively protected rat embryonic day 18 (E18) cortical neurons from either 48 h trophic deprivation or 48 h exposure to the glutathione synthesis inhibitor, L-buthionine (R,S) sulfoximine. The neuron sparing actions of dipyridamole were time- and concentration-dependent and mimicked the actions of exogenously applied glutathione. These results demonstrate that dipyridamole protects primary neuronal cultures against either trophic or chemically mediated insults, and suggest that dipyridamole has a potent antioxidant ability that compensates for glutathione depletion in neuronal cultures.     

A comparison of methods for measuring cortical bone thickness

Repeated measures of periosteal and endosteal widths of the left second metacarpal from two samples of radiographs were made independently with either a dial caliper or an electronic digitizer connected to a microcomputer. In addition, periosteal and endosteal bone widths of a common sample of radiographs were measured with dial calipers and the electronic digitizer. Dial calipers and an electronic digitizer are both very reliable, but intraobserver errors produced with the use of the digitizer are significantly less than those produced with the use of dial calipers. However, measurements made with the electronic digitizer are systematically larger than corresponding widths measured with dial calipers, but this difference is very small.     

Perivitelline space of marsupial oocytes: Extracellular matrix of the unfertilized oocyte and formation of a cortical granule envelope following the cortical reaction

The purpose of this study was to characterize the structure of the vestments surrounding unfertilized and cortical granule-reacted oocytes from a marsupial, the grey short-tailed opossum Monodelphis domestica and to determine if a cortical granule envelope (CGE) forms in the perivitelline space (PVS) following the cortical reaction. Unfertilized oocytes collected from mature ovarian follicles and oviducal oocytes that had undergone a cortical reaction were fixed for electron microscopy in the presence of ruthenium red which stabilizes extracellular matrices (ECM) and facilitates demonstration of a CGE. Unfertilized oocytes were surrounded by a zona pellucida and had a PVS which contained a thick ECM comprised of granules and filaments. This matrix appeared to attach to the oolemma and was structurally similar to matrices reported previously in the PVS of unfertilized oocytes from eutherian mammals and two other marsupials, the Virginia opossum and the fat-tailed dunnart. The cortex of unfertilized oocytes contained cortical granules which were absent in oocytes recovered from the oviducts of mated females. Oviducal oocytes which lacked cortical granules exhibited a new coat within the PVS between the zona pellucida and the tips of the oocyte microvilli. This coat, the CGE, appeared structurally similar to CGEs described previously around fertilized eutherian oocytes. The CGE of the grey short-tailed opossum is approximately 1 μm thick and is made up of numerous small dense granules. The coats of the opossum oocyte are compared to those present around other marsupial and eutherian oocytes. © 1995 Wiley-Liss, Inc.     

Oscillations and synchrony in a cortical neural network

In this paper, the oscillations and synchronization status of two different network connectivity patterns based on Izhikevich model are studied. One of the connectivity patterns is a randomly connected neuronal network, the other one is a small-world neuronal network. This Izhikevich model is a simple model which can not only reproduce the rich behaviors of biological neurons but also has only two equations and one nonlinear term. Detailed investigations reveal that by varying some key parameters, such as the connection weights of neurons, the external current injection, the noise of intensity and the neuron number, this neuronal network will exhibit various collective behaviors in randomly coupled neuronal network. In addition, we show that by changing the number of nearest neighbor and connection probability in small-world topology can also affect the collective dynamics of neuronal activity. These results may be instructive in understanding the collective dynamics of mammalian cortex.     

Mechanical role of a growing solid tumor on cortical folding

Cortical folding, or convolution of the brain, is a vital process in mammals that causes the brain to have a wrinkled appearance. The existence of different types of prenatal solid tumors may alter this complex phenomenon and cause severe brain disorders. Here we interpret the effects of a growing solid tumor on the cortical folding in the fetal brain by virtue of theoretical analyses and computational modeling. The developing fetal brain is modeled as a simple, double-layered, and soft structure with an outer cortex and an inner core, in combination with a circular tumor model imbedded in the structure to investigate the developmental mechanism of cortical convolution. Analytical approaches offer introductory insight into the deformation field and stress distribution of a developing brain. After the onset of instability, analytical approaches fail to capture complex secondary evolution patterns, therefore a series of non-linear finite element simulations are carried out to study the crease formation and the influence from a growing solid tumor inside the structure. Parametric studies show the dependency of the cortical folding pattern on the size, location, and growth speed of a solid tumor in fetal brain. It is noteworthy to mention that there is a critical distance from the cortex/core interface where the growing tumor shows its pronounced effect on the cortical convolution, and that a growing tumor decreases the gyrification index of cortical convolution while its stiffness does not have a profound effect on the gyrification process.     

Micromechanical modeling of elastic properties of cortical bone accounting for anisotropy of dense tissue

The paper analyzes the connection between microstructure of the osteonal cortical bone and its overall elastic properties. The existing models either neglect anisotropy of the dense tissue or simplify cortical bone microstructure (accounting for Haversian canals only). These simplifications (related mostly to insufficient mathematical apparatus) complicate quantitative analysis of the effect of microstructural changes – produced by age, microgravity, or some diseases – on the overall mechanical performance of cortical bone. The present analysis fills this gap; it accounts for anisotropy of the dense tissue and uses realistic model of the porous microstructure. The approach is based on recent results of Sevostianov et al. (2005) and Saadat et al. (2012) on inhomogeneities in a transversely-isotropic material. Bone?s microstructure is modeled according to books of Martin and Burr (1989), Currey (2002), and Fung (1993) and includes four main families of pores. The calculated elastic constants for porous cortical bone are in agreement with available experimental data. The influence of each of the pore types on the overall moduli is examined.     

Shunting inhibition, a silent step in visual cortical computation

Brain computation, in the early visual system, is often considered as a hierarchical process in which features extracted in a given sensory relay are not present in previous stages of integration. In particular, orientation preference and its fine tuning selectivity are functional properties shared by most cortical cells and they are not observed at the preceding geniculate stage. A classical problem is identifying the mechanisms and circuitry underlying these computations. Several organizational principles have been proposed, giving different weights to the feedforward thalamocortical drive or to intracortical recurrent architectures. Within this context, an important issue is whether intracortical inhibition is fundamental for the genesis of stimulus selectivity, or rather normalizes spike response tuning with respect to other features such as stimulus strength or contrast, without influencing the selectivity bias and preference expressed in the excitatory input alone. We review here experimental observations concerning the presence or absence of inhibitory input evoked by non-preferred orientation/directions. Intracellular current clamp and voltage clamp recordings are analyzed in the light of new methods allowing us (1) to increase the visibility of inhibitory input, and (2) to continuously measure the visually evoked dynamics of input conductances. We conclude that there exists a diversity of synaptic input combinations generating the same profile of spike-based orientation selectivity, and that this diversity most likely reflects anatomical non-homogeneities in input sampling provided by the local context of the columnar and lateral intracortical network in which the considered cortical cell is embedded.     

Learning of oscillatory correlated patterns in a cortical network by a STDP-based learning rule

In this paper, we propose an iterative learning rule that allows the imprinting of correlated oscillatory patterns in a model of the hippocampus able to work as an associative memory for oscillatory spatio-temporal patterns. We analyze the dynamics in the Fourier domain, showing how the network selectively amplify or distort the Fourier components of the input, in a manner which depends on the imprinted patterns. We also prove that the proposed iterative local rule converges to the pseudo-inverse rule generalized to oscillatory patterns.     

Biomolecular computation with molecular beacons for quantitative analysis of target nucleic acids

Molecular beacons are efficient and useful tools for quantitative detection of specific target nucleic acids. Thanks to their simple protocol, molecular beacons have great potential as substrates for biomolecular computing. Here we present a molecular beacon-based biomolecular computing method for quantitative detection and analysis of target nucleic acids. Whereas the conventional quantitative assays using fluorescent dyes have been designed for single target detection or multiplexed detection, the proposed method enables us not only to detect multiple targets but also to compute their quantitative information by weighted-sum of the targets. The detection and computation are performed on a molecular level simultaneously, and the outputs are detected as fluorescence signals. Experimental results show the feasibility and effectiveness of our weighted detection and linear combination method using molecular beacons. Our method can serve as a primitive operation of molecular pattern analysis, and we demonstrate successful binary classifications of molecular patterns made of synthetic oligonucleotide DNA molecules.     

Diffusion approximation and first passage time problem for a model neuron. II. Outline of a computation method

To account for nonstationary effects the customary diffusion approximations in neuro-biology have to be modified in order to include time-varying terms in the expressions of drift and infinitesimal variance. The evaluation of the statistics of the firing time thus generally requires the use of numerical procedures. In this paper it is shown how one can extend a method due to Durbin (1971) to the case of temporally inhomogeneous diffusion equations by employing a transformation technique. A few simple examples are briefly discussed.     

An interactive microcomputer program for the computation of most probable number

An interactive computer program for the rapid computation of Most Probable Numbers (MPN) with 95% confidence intervals and goodness-of-fit, is presented. The program, written in ‘MICROSOFT BASIC’ employs an iterative algorithm based on a modification of the Newton-Raphson method and accomodates any number of replicates up to ten dilutions. It is applicable to most microcomputers with little or no modification. Since the computed MPN, confidence interval,a nd goodness-of-fit tests are displayed simultaneously, MPN tables are no longer required.     

Perivitelline space of mammalian oocytes: extracellular matrix of unfertilized oocytes and formation of a cortical granule envelope following fertilization.

Extracellular matrices (ECM) present around unfertilized and fertilized mammalian oocytes were studied ultrastructurally in samples prepared in the presence of ruthenium red to facilitate stabilization of extracellular materials. Unfertilized mouse, hamster, and human oocytes have an ECM comprising granules and filaments in their perivitelline spaces (PVS). This matrix is more abundant in the human than in hamsters and mice. The granule/filament matrix appears identical to the matrix seen between cumulus and corona radiata cells following ruthenium red processing and previously shown to comprise protein and hyaluronic acid. By including ruthenium red during fixation, it is possible to demonstrate the existence of cortical granule exudate in the PVS of fertilized oocytes from hamsters, mice, and humans. Much of the cortical granule exudate is trapped in the PVS and forms a new coat around the fertilized oocyte. This material is particulate when stained with ruthenium red and appears to be uniformly dispersed around the entire oocyte surface. We refer to this new coat as the cortical granule envelope. This envelope is observed in the PVS of all developmental stages up to and including blastocysts in all three species. Following hatching of mouse and hamster blastocysts, the cortical granule envelope is no longer present. Possible functions of this envelope are discussed.     

Structural identifiability for a class of non-linear compartmental systems using linear/non-linear splitting and symbolic computation

Under certain controllability and observability restrictions, two different parameterisations for a non-linear compartmental model can only have the same input-output behaviour if they differ by a locally diffeomorphic change of basis for the state space. With further restrictions, it is possible to gain valuable information with respect to identifiability via a linear analysis. Examples are presented where non-linear identifiability analyses are substantially simplified by means of an initial linear analysis. For complex models, with four or more compartments, this linear analysis can prove lengthy to perform by hand and so symbolic computation has been employed to aid this procedure.     

Test for simultaneous divergence using approximate Bayesian computation

Comparative phylogeographic studies often reveal disparate levels of sequence divergence between lineages spanning a common geographic barrier, leading to the conclusion that isolation was nonsynchronous. However, only rarely do researchers account for the expected variance associated with ancestral coalescence and among-taxon variation in demographic history. We introduce a flexible approximate Bayesian computational (ABC) framework that can test for simultaneous divergence (TSD) using a hierarchical model that incorporates idiosyncratic differences in demographic history across taxon pairs. The method is tested across a range of conditions and is shown to be accurate even with single-locus mitochondrial DNA (mtDNA) data. We apply this method to a landmark dataset of putative simultaneous vicariance, eight geminate echinoid taxon pairs thought to have been split by the Isthmus of Panama 3.1 million years ago. The ABC posterior estimates are not consistent with a history of simultaneous vicariance given these data. Subsequent ABC estimates under a constrained model that assumes two divergence times across the eight taxon pairs suggests simultaneous divergence 3.1 million years ago in seven of the taxon pairs and a more recent divergence in the remaining taxon pair. These ABC estimates on the simultaneous divergence of the seven taxon pairs correspond to a DNA substitution rate of approximately 1.59% per lineage per million years at the mtDNA cytochrome oxidase I gene. This ABC framework can easily be modified to analyze single taxon-pair datasets and/or be expanded to include multiple loci, migration, recombination, and other idiosyncratic demographic histories. The flexible aspect of ABC and its built-in evaluation of estimator bias and statistical power has the potential to greatly enhance statistical rigor in phylogeographic studies.