Variations in DNA Methylation Patterns During the Cell Cycle of HeLa Cells

DNA methylation has been viewed as a stable component of the epigenome, which is established during development and fixed thereafter. We show here using nearest neighbor analysis, immunocytochemistry, and high performance capillary electrophoresis that the DNA methylation pattern varies in HeLa cells during a single cell cycle. Immunocytochemical analysis in primary human fibroblasts shows similar variations. The global levels of DNA methylation decreased in G1 and increase during the S phase of the cell cycle. Since there was little change in the DNA methylation levels in repetitive sequences throughout the cell cycle, we examined the DNA methylation pattern of unique sequences using a human CpG island microarray. Hybridization with methylated DNA from G1 and S phase of the cell cycle revealed that 174 CG-containing sequences were differentially methylated between G1 and S. 75% of all the variations in DNA methylation detected in unique sequences represented hypomethylation at G0, with changes occurring in both CpG islands and non-CpG islands. Bisulfite mapping confirmed these changes in methylation in the regions identified by the microarray. This is the first demonstration of a dynamic DNA methylation pattern within a single cell cycle of a mature somatic cell. These data are important for our understanding of the stability of DNA methylation patterns in somatic cells.     

Nonlinear Relationships in the Patterns of Neuronal Spiking in Cortical Neurons

The pattern of neuronal spiking of cortical neurons was investigated in an awake nonimmobilized rabbit. Thecharacteristics of the interspike intervals (total numberof intervals, mean interval, mean-square deviation) and of the burst (group) activity (burst number, mean spikefrequency in a burst, mean spike number for a burst, meanburst duration) were considered. Nonlinear relationshipbetween the values of mean interspike intervals and thenumber of spike bursts was found. A number of functionswere applied to describe the observed phenomena. On thebasis of regression analysis two populations of corticalneurons with distinct neuronal spiking patterns wereidentified. Bursts occur at a higher rate in one populationthan the other, although both populations exhibit burstsand are otherwise indistinguishable.     

Quantitative Peptidomics of Purkinje Cell Degeneration Mice

Cytosolic carboxypeptidase 1 (CCP1) is a metallopeptidase that removes C-terminal and side-chain glutamates from tubulin. The Purkinje cell degeneration (pcd) mouse lacks CCP1 due to a mutation. Previously, elevated levels of peptides derived from cytosolic and mitochondrial proteins were found in adult pcd mouse brain, raising the possibility that CCP1 functions in the degradation of intracellular peptides. To test this hypothesis, we used a quantitative peptidomics technique to compare peptide levels in wild-type and pcd mice, examining adult heart, spleen, and brain, and presymptomatic 3 week-old amygdala and cerebellum. Contrary to adult mouse brain, young pcd brain and adult heart and spleen did not show a large increase in levels of intracellular peptides. Unexpectedly, levels of peptides derived from secretory pathway proteins were altered in adult pcd mouse brain. The pattern of changes for the intracellular and secretory pathway peptides in pcd mice was generally similar to the pattern observed in mice lacking primary cilia. Collectively, these results suggest that intracellular peptide accumulation in adult pcd mouse brain is a secondary effect and is not due to a role of CCP1 in peptide turnover.     

Regional Patterns in Global Resource Extraction

This article presents an account of global resource extraction for the year 1999 by material groups, world regions, and development status. The account is based on materials flow analysis methodology and provides benchmark information for political strategies toward sustainable resource management. It shows that currently around 50 thousand megatons of resources are extracted yearly on a global scale, which results in a yearly global average resource use of around 8 tonnes per capita. Assuming further growth in world regions not yet close to the levels of resource use in the industrial cores—such as India or China—numbers could easily double once these parts of the world come to fully incorporate the industrial mode of production and consumption. This article contributes to information on resource use indicators, complementing and enriching information from economic accounting in order to facilitate political measures toward a sustainable use of resources.     

Regional differences in the ultrastructure of Purkinje cells of the rat

Summary In the albino rat, perikaryal diameter, volume density of the granular endoplasmic reticulum and Golgi apparatus, and lumenal diameter of cisternae of the granular endoplasmic reticulum are larger in Purkinje cells of lobule Via (neocerebellum) than in those of lobule X (archicerebellum). In contrast, only the surface density of cisternae of the granular endoplasmic reticulum is larger in Purkinje cells of lobule X. The cisternae of granular endoplasmic reticulum are arranged into conspicuous Nissl bodies parallel to the nuclear membrane, but the content of ribosomes and polysemes is markedly less in lobule-X cells than in cells from lobule VI a. These results indicate qualitative and quantitative differences between the metabolically important organelles in Purkinje cells of the neo- and archicerebellum (cf. Larsell 1952).Supported by a grant from the Deutsche Forschungsgemeinschaft (La 184/7)     

Cell lineage analysis of cerebellar Purkinje cells in mouse chimeras

Murine chimeras provide an experimental system in which cell lineage analysis of the mammalian central nervous system (CNS) can be accomplished. Utilizing a cell marker system that permits the identification of cells of each genotype in various cell populations present in histologic sections of the CNS at different developmental periods, fate maps of the mammalian CNS can be constructed. Thus, the presence or persistence of clones of cells can be readily visualized in simply organized CNS regions, like the cerebellar cortex. The electrophoretic variants of the glycolytic enzyme, glucosephosphate isomerase (GPI, E.C. 5.3.1.9; GPI-1A, GPI-1B), are the genotype-specific cell markers most commonly used by experimental mammalian embryologists in studies of cell lineage utilizing mammalian chimeras. We have adapted this cell marker system to permit the visualization and unequivocal identification of cells containing the GPI-1B variant throughout the CNS of adult $\text{BALB}\text{cBy}{}^{\mathrm{J}}\text{a3}\text{C57BL}\text{6J}$ chimeric mice. Utilizing allozyme-specific anti-GPI-1B antisera in immunocytochemical (PAP) staining techniques, we can score small as well as large cell populations, neurons as well as glia. We have reconstructed and statistically analyzed the location and distribution of chimerism present in the Purkinje cell population of four of these chimeric mice. We found the Purkinje cells in each of these animals existed as small (3–8) cell patches of like genotype that were not randomly arranged. This suggests that clones of cells may persist as contiguous groups of cells throughout mammalian cerebellar development.     

Intra-specific Variations in the Movement Patterns of Marine Animals

A wealth of information exists on the distribution and movementpatterns of marine animals, based chiefly on tagging experiments,research surveys and commercial catch records. Three basic patternsemerge from these studies: migration, dispersal and home range,with species-specific permutations on these patterns. This paperreviews and discusses some of the intra-specific variationson these general movement patterns. Variations may take theform of range expansions, manifestations of inter-annual variationin oceanographic conditions, population-specific patterns, andvariations apparently related to habitat quality, sex or age.     

Regional Variations in Biomass Distribution in Brazilian Savanna Woodland

The Cerrado, the savanna biome in central Brazil, mostly comprised of woodland savanna, is experiencing intense and fast land use changes. To understand the changes in Cerrado carbon stocks, we present an overview of biomass distribution in different Cerrado vegetation types (i.e., grasslands, shrublands and forestlands). We surveyed 26 studies including 170 Cerrado sites. The grasslands presented mean total biomass of 24 Mg/ha, with 70 percent allocated in the belowground portion. In shrublands, the mean total biomass was 58 Mg/ha being 58 percent in the belowground portion. Finally, in forestlands the mean total biomass was 98 Mg/ha with 18 percent as belowground biomass. The surveyed studies presented 12 allometric equations for biomass estimate, most involving both diameter and height. Data on wood density for Cerrado shrubs and trees are not abundant and the average value was 0.66 g/cm³, similar to that found in the central portion of the Amazon Forest. We also examined the relationship between total precipitation and dry‐season intensity with biomass variation in the Cerrado shrubland using data from tropical rainfall measurement mission (TRMM) for the period 2000–2010. Dry‐season precipitation amount in cerrado areas in severe drought regions explained 29 percent of the variation in aboveground woody biomass. This finding is important in the face of the predictions of longer and more severe dry seasons in the region due to climate change.     

The Analysis of Purkinje Cell Dendritic Morphology in Organotypic Slice Cultures

Purkinje cells are an attractive model system for studying dendritic development, because they have an impressive dendritic tree which is strictly oriented in the sagittal plane and develops mostly in the postnatal period in small rodents ³. Furthermore, several antibodies are available which selectively and intensively label Purkinje cells including all processes, with anti-Calbindin D28K being the most widely used. For viewing of dendrites in living cells, mice expressing EGFP selectively in Purkinje cells ¹¹ are available through Jackson labs. Organotypic cerebellar slice cultures cells allow easy experimental manipulation of Purkinje cell dendritic development because most of the dendritic expansion of the Purkinje cell dendritic tree is actually taking place during the culture period ⁴. We present here a short, reliable and easy protocol for viewing and analyzing the dendritic morphology of Purkinje cells grown in organotypic cerebellar slice cultures. For many purposes, a quantitative evaluation of the Purkinje cell dendritic tree is desirable. We focus here on two parameters, dendritic tree size and branch point numbers, which can be rapidly and easily determined from anti-calbindin stained cerebellar slice cultures. These two parameters yield a reliable and sensitive measure of changes of the Purkinje cell dendritic tree. Using the example of treatments with the protein kinase C (PKC) activator PMA and the metabotropic glutamate receptor 1 (mGluR1) we demonstrate how differences in the dendritic development are visualized and quantitatively assessed. The combination of the presence of an extensive dendritic tree, selective and intense immunostaining methods, organotypic slice cultures which cover the period of dendritic growth and a mouse model with Purkinje cell specific EGFP expression make Purkinje cells a powerful model system for revealing the mechanisms of dendritic development.     

Loss of Sulfoglucuronyl and Other Neolactoglycolipids in Purkinje Cell Abnormality Murine Mutants

A significant reduction in the content of two members of the sulfoglucuronyl-neolacto series of glycolipids (SGGLs), 3-sulfoglucuronyl-lacto-N-neotetraosylceramide (SGGL-1) and 3-sulfoglucuronyl lacto-N-norhexaosylceramide (SGGL-2), in the cerebellum of the Purkinje cell abnormality mutants, Purkinje cell degeneration (pcd/pcd), lurcher (Lc/+), and staggerer (sg/sg), was also confirmed in the mildly affected nervous (nr/nr) mutant. The expression of SGGLs was studied during development of the pcd/pcd mutant cerebellum, and it was shown that the rate of decline in the level of SGGLs practically coincided with the loss of Purkinje cell perikarya. This indicated that SGGLs are primarily localized in Purkinje cells and that initially, at least, there is no genetic defect in the biosynthesis of SGGLs in the mutant. The precursors of SGGLs, viz., lacto-N-neotetraosylceramide (paragloboside) and lacto-N-norhexaosylceramide, as well as other glycolipids derived from these precursors, such as X-determinant fucoglycolipids and disialosyllacto-N-neotetraosylceramide, were also present in normal cerebellum. Levels of paragloboside and its other derivatives, similar to SGGLs, were also significantly reduced in the Purkinje cell abnormality mutants pcd/pcd, sg/sg, Lc/+, and nr/nr but were normal in other cerebellar mutants, such as quaking (qk/qk), weaver (wv/wv), and reeler (rl/rl), where Purkinje cells are not involved. Thus, the entire paragloboside family of glycolipids is primarily associated with Purkinje cells in the cerebellum. Although levels of monoclonal antibody HNK-1-reactive glycolipids were reduced in the Purkinje cell abnormality mutants, HNK-1-reactive glycoproteins were not affected in these mutants.     

Independent Component Analysis in Spiking Neurons

Although models based on independent component analysis (ICA) have been successful in explaining various properties of sensory coding in the cortex, it remains unclear how networks of spiking neurons using realistic plasticity rules can realize such computation. Here, we propose a biologically plausible mechanism for ICA-like learning with spiking neurons. Our model combines spike-timing dependent plasticity and synaptic scaling with an intrinsic plasticity rule that regulates neuronal excitability to maximize information transmission. We show that a stochastically spiking neuron learns one independent component for inputs encoded either as rates or using spike-spike correlations. Furthermore, different independent components can be recovered, when the activity of different neurons is decorrelated by adaptive lateral inhibition.     

BK Channels Control Cerebellar Purkinje and Golgi Cell Rhythmicity In Vivo

Calcium signaling plays a central role in normal CNS functioning and dysfunction. As cerebellar Purkinje cells express the major regulatory elements of calcium control and represent the sole integrative output of the cerebellar cortex, changes in neural activity- and calcium-mediated membrane properties of these cells are expected to provide important insights into both intrinsic and network physiology of the cerebellum. We studied the electrophysiological behavior of Purkinje cells in genetically engineered alert mice that do not express BK calcium-activated potassium channels and in wild-type mice with pharmacological BK inactivation. We confirmed BK expression in Purkinje cells and also demonstrated it in Golgi cells. We demonstrated that either genetic or pharmacological BK inactivation leads to ataxia and to the emergence of a beta oscillatory field potential in the cerebellar cortex. This oscillation is correlated with enhanced rhythmicity and synchronicity of both Purkinje and Golgi cells. We hypothesize that the temporal coding modification of the spike firing of both Purkinje and Golgi cells leads to the pharmacologically or genetically induced ataxia.     

Calcitonin Gene-Related Peptide (CGRP) Stimulates Purkinje Cell Dendrite Growth in Culture

Previous reports described the transient expression during development of Calcitonin Gene-Related Peptide (CGRP) in rodent cerebellar climbing fibers and CGRP receptor in astrocytes. Here, mixed cerebellar cultures were used to analyze the effects of CGRP on Purkinje cells growth. Our results show that CGRP stimulated Purkinje cell dendrite growth under cell culture conditions mimicking Purkinje cell development in vivo. The stimulation was not blocked by CGRP8-37, a specific antagonist, suggesting the activation of other related receptors. CGRP did not affect survival of Purkinje cells, granule cells or astrocytes. The selective expression of Receptor Component Protein (RCP) (a component of CGRP receptor family) in astrocytes points to a role of these cells as mediators of CGRP effect. Finally, in pure cerebellar astrocyte cultures CGRP induced a transient morphological differentiation from flat, polygonal to stellate form. It is concluded that CGRP influences Purkinje cell dendrite growth in vitro, most likely through the involvement of astrocytes.     

Persistent Posttetanic Depression at Cerebellar Parallel Fiber to Purkinje Cell Synapses

Plasticity at the cerebellar parallel fiber to Purkinje cell synapse may underlie information processing and motor learning. In vivo, parallel fibers appear to fire in short high frequency bursts likely to activate sparsely distributed synapses over the Purkinje cell dendritic tree. Here, we report that short parallel fiber tetanic stimulation evokes a ∼7–15% depression which develops over 2 min and lasts for at least 20 min. In contrast to the concomitantly evoked short-term endocannabinoid-mediated depression, this persistent posttetanic depression (PTD) does not exhibit a dependency on the spatial pattern of synapse activation and is not caused by any detectable change in presynaptic calcium signaling. This persistent PTD is however associated with increased paired-pulse facilitation and coefficient of variation of synaptic responses, suggesting that its expression is presynaptic. The chelation of postsynaptic calcium prevents its induction, suggesting that post- to presynaptic (retrograde) signaling is required. We rule out endocannabinoid signaling since the inhibition of type 1 cannabinoid receptors, monoacylglycerol lipase or vanilloid receptor 1, or incubation with anandamide had no detectable effect. The persistent PTD is maximal in pre-adolescent mice, abolished by adrenergic and dopaminergic receptors block, but unaffected by adrenergic and dopaminergic agonists. Our data unveils a novel form of plasticity at parallel fiber synapses: a persistent PTD induced by physiologically relevant input patterns, age-dependent, and strongly modulated by the monoaminergic system. We further provide evidence supporting that the plasticity mechanism involves retrograde signaling and presynaptic diacylglycerol.     

Sensory-Driven Enhancement of Calcium Signals in Individual Purkinje Cell Dendrites of Awake Mice

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Patterns in Size-Related Variations in Current-Year Shoot Structure in Eight Deciduous Tree Species

SL ) and leaf display index (LDI: the ratio of leaf area to stem length) of current-year shoots are compared for eight deciduous tree species. Two patterns were found in the relationships. In seven species (Acer mono, Aesculus turbinata, Betula grossa, Carpinus tschonoskii, Fagus crenata, Pterocarya rhoifolia, and Quercus mongolica var. grosseserrata), LDI decreased exponentially with SL, which suggests that short current-year shoots favor leaf-display over space-acquisition, and the reverse for long current-year shoots. The decrease in LDI was much greater and sharper in B. grossa, which shows apparent differentiation of short and long shoots, than in the other six species, which do not show such differentiation. In another species that shows no differentiation of short and long shoots, Clerodendron trichotomum, LDI increased linearly and gradually with SL. This suggests that its long current-year shoots are superior to its short current-year shoots for both space-acquisition and leaf-display, and that the structural variation in its current-year shoots is small. The diverse patterns in the relationships between SL and LDI of current-year shoots are related to the variations among current-year shoots in the mean leaf number per unit stem length and the mean individual leaf area. Received 31 July 1998/ Accepted in revised form 7 June 1999     

Enzyme Kinetics: Systematic Generation of Valid King-Altman Patterns

One of the most generally applicable algorithms for the derivation of steady-state rate equations for complex enzyme reaction mechanisms is that of King and Altman. Several modifications of this algorithm have been suggested; however, each requires the generation of numerous valid and invalid patterns and the subsequent elimination of those that are invalid. A method is presented, employing topological theory of linear graphs, for the systematic generation of only those patterns which are valid. This method is readily adaptable to use on a digital computer. An independent method for the calculation of the number of valid patterns is also presented. This calculation can be used to substantiate the accuracy of the patterns obtained. This calculation is also adaptable to computerization. Examples are included to demonstrate both the generation of patterns and the calculation of their number for specific enzyme mechanisms.     

轮状病毒RNA基因图谱变异分析

用聚丙烯酰胺凝胶电泳法对轮状病毒(RV)标准株进行RNA基因图谱分析,发现人轮状病毒(HRV)Wa株在MA104细胞上连续传5代后,其RNA基因图谱由原来的4:2:3:2模式变为4:3:3:2模式。继续分别在CV-1、MA104细胞上传代后,基因图谱进一步演变为4:3:4:2模式。经比较电泳、病毒空斑纯化,初步证实RVWa有变异林存在。目前尚未见RV标准株变异的报告,有待进一步研究。同时对多个RV标准株及1939年南京市区婴幼儿秋季腹泻的RV流行株进行基因图谱分析,发现不同的人RV及牛RV标准株有相同的基因图谱;不同实验室来源的同一标准株有不同的基因图谱。此外,尚证实HRV是1989年南京市区婴幼儿秋季腹泻的主要病源,总检出率45.1％,电泳长型为流行优势株89.2％。本文尚对RV RNA基因图谱变异的原因及意义进行了讨论。