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EicosaCell An Immunofluorescent-Based Assay to Localize Newly Synthesized Eicosanoid Lipid Mediators at Intracellular Sites

Eicosanoids (prostaglandins, leukotrienes and lipoxins) are a family of signaling lipids derived from arachidonic acid that have important roles in physiological and pathological processes. Over the past years, it has been established that successful eicosanoid production is ...

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Nestin-Driven Green Fluorescent Protein as an Imaging Marker for Nascent Blood Vessels in Mouse Models of Cancer

A transgenic mouse, in which the regulatory elements of the stem cell marker, nestin drive green fluorescent protein (ND-GFP), expresses GFP in nascent blood vessels. Red fluorescent protein (RFP)-expressing tumors transplanted to nestin-GFP mice enable specific visualization of ...

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Imaging Calcium Sparks in Cardiac Myocytes

Calcium ions play fundamental roles in many cellular processes in virtually all type of cells. The use of Ca2+ sensitive fluorescent indicators has proven to be an indispensable tool for studying the spatio-temporal dynamics of intracellular calcium (i). With the aid of laser scanning conf ...

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Light Microscopy in Aquatic Ecology: Methods for Plankton Communities Studies

Planktonic organisms dominate waters in ponds, lakes and oceans. Because of their short life cycles, plankters respond quickly to environmental changes and the variability in their density and composition are more likely to indicate the quality of the water mass in which they are found. Plan ...

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Fluorescence Immunohistochemistry in Combination with Differential Interference Contrast Microscopy for Studies of Semi-ultrathin Specimens of Epoxy R

We have developed a technique, using a combination of immunofluorescent staining of semi-ultrathin sections of epoxy resin-embedded samples and the corresponding differential interference contrast (DIC) images obtained by light microscopy that provides detailed inform ...

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Using the Fluorescent Styryl Dye FM1-43 to Visualize Synaptic Vesicles Exocytosis and Endocytosis in Motor Nerve Terminals

The styryl dye FM1-43 is a powerful tool to track exocytosis, endocytosis and recycling of secretory granules or vesicles. Due to its unique structure, dye molecules reversibly partition into the outer leaflet of surface membrane without permeating due to two cationic charges located in th ...

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Introduction to Fluorescence Microscopy

This chapter is an overview of basic principles of fluorescence microscopy, including a brief history on the invention of this type of microscopy. The chapter highlights important points related to properties of fluorochromes, resolution in fluorescence microscopy, phase contra ...

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Transgenic Reporter Tools Tracing Endogenous Canonical Wnt Signaling in Xenopus

Activation of the canonical Wnt pathway leads to the transcriptional activation of a particular subset of downstream Wnt target genes. To track this localized cellular output in a living organism, reporter constructs can be designed containing multimerized consensus lymphoid enh ...

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Detection of Nuclear -catenin in Xenopus Embryos

Immunodetection of β-catenin accumulation in the nucleus is the most direct and reliable method to determine the intensity and the spatial/temporal patterns of Wnt-dependent signaling activity. Due to the large size of the Xenopus embryo, staining must be done on sections. We present here a s ...

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Analysis of Gene Expression in Xenopus Embryos

Determining the expression pattern of a gene of interest is critical to understanding when, where, and how it may function during development. This chapter describes methods for determining the localization and expression levels for both mRNA and protein. Some of these methods can be descr ...

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Studying Wnt Signaling in Xenopus

Xenopus is an established and powerful model system for the study of Wnt signaling in vertebrates. Above all, the relatively large size of the embryos enables microinjection experiments, which have led to key discoveries not only about the functional role of Wnt signaling in vertebrate embr ...

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Neural Patterning and CNS Functions of Wnt in Zebrafish

Wnt signaling plays several important roles in the development of the zebrafish central nervous system (CNS). This chapter outlines both the known and postulated roles of Wnts from the earliest step of neural plate induction to relatively late events such as axon pathfinding and synaptoge ...

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Manipulation of Gene Expression During Zebrafish Embryonic Development Using Transient Approaches

The rapid embryonic development and high fecundity of zebrafish contribute to the great advantages of this model for the study of developmental genetics. Transient disruption of the normal function of a gene during development can be achieved by microinjecting mRNA, DNA or short chemica ...

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Determination of mRNA and Protein Expression Patterns in Zebrafish

Optically transparent zebrafish embryos provide an excellent vertebrate model system in which to reveal specific mRNA and protein expression patterns during development. Whole-mount preparations can be used to generate three-dimensional color or fluorescent readouts of t ...

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Rule-Based Modeling of Signal Transduction: A Primer

Biological cells accomplish their physiological functions using interconnected networks of genes, proteins, and other biomolecules. Most interactions in biological signaling networks, such as bimolecular association or covalent modification, can be modeled in a physic ...

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Splice Redirection as a Convenient Assay to Monitor CPPON Efficiency and Mechanism

Several strategies based on synthetic oligonucleotides (ON) have been proposed to control gene expression. As for most biomolecules, however, delivery has remained a major roadblock for in vivo applications. Conjugation of steric-block neutral DNA mimics, such as peptide nucleic a ...

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Characterization of Cellular Internalization Pathways for CPP-Mediated Oligonucleotide Delivery

The methods for evaluating internalization pathways of cellular CPP-mediated ON delivery utilizing a pre-mRNA splice correction assay and fluorescence-based quantification are described. Examples for characterization of CPP uptake routes, employing various endocyt ...

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Peptide Assay of Protein Kinases and Use of Variant Peptides to Determine Recognition Motifs

It is now clear that the major mechanism by which cellular function is switched from one state to another in eukaryotic cells, including the response to cellular stress (1), is via changes in phosphorylation of key proteins. This is usually achieved by modulation of the activity of pre-existing pr ...

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Light, Photoreceptors, and Circadian Clocks

Research over the past decade has focused increasingly on the photoreceptor mechanisms that regulate the circadian system in all forms of life. Some of the results to emerge are surprising. For example, the rods and cones within the mammalian eye are not required for the alignment (entrainment) ...

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Computer Simulation of the Metastatic Progression

A novel computer model based on a discrete event simulation procedure describes quantitatively the processes underlying the metastatic cascade. Analytical functions describe the size of the primary tumor and the metastases, while a rate function models the intravasation events of ...

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