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Long Lasting Synchronization Of Calcium Oscillations By Cholinergic Stimulation In Isolated Pancreatic Islets, Min Zhang, Bernard Fendler, Bradford Peercy, Pranay Goel, Richard Bertram, Arthur Sherman, Leslie Satin

Pharmacology and Toxicology Publications

Abstract

Individual mouse pancreatic islets exhibit oscillations in [Ca²⁺]_i and insulin secretion in response to glucose in vitro, but how the oscillations of a million islets are coordinated within the human pancreas in vivo is unclear. Islet to islet synchronization is necessary, however, for the pancreas to produce regular pulses of insulin. To determine whether neurohormone release within the pancreas might play a role in coordinating islet activity, [Ca²⁺]_i changes in 4–6 isolated mouse islets were simultaneously monitored before and after a transient pulse of a putative synchronizing agent. The degree of synchronicity was …

A Synaptic Nidogen: Developmental Regulation And Role Of Nidogen-2 At The Neuromuscular Junction, Michael A. Fox, Matthew Sp Ho, Neil Smyth, Joshua R. Sanes

Anatomy and Neurobiology Publications

Background

The skeletal neuromuscular junction is a useful model for elucidating mechanisms that regulate synaptogenesis. Developmentally important intercellular interactions at the neuromuscular junction are mediated by the synaptic portion of a basal lamina that completely ensheaths each muscle fiber. Basal laminas in general are composed of four main types of glycosylated proteins: laminins, collagens IV, heparan sulfate proteoglycans and nidogens (entactins). The portion of the muscle fiber basal lamina that passes between the motor nerve terminal and postsynaptic membrane has been shown to bear distinct isoforms of the first three of these. For laminins and collagens IV, the proteins are …

Virginia Commonwealth University Fall Commencement Program [2008], Virginia Commonwealth University

VCU Commencement Programs

No abstract provided.

Accelerated Exchange Of Exon Segments In Viperid Three-Finger Toxin Genes (Sistrurus Catenatus Edwardsii; Desert Massasauga), Robin Doley, Susanta Pahari, Stephen P. Mackessy, R. Manjunatha Kini

Biochemistry and Molecular Biology Publications

Background Snake venoms consist primarily of proteins and peptides showing a myriad of potent biological activities which have been shaped by both adaptive and neutral selective forces. Venom proteins are encoded by multigene families that have evolved through a process of gene duplication followed by accelerated evolution in the protein coding region.

Results Here we report five gene structures of three-finger toxins from a viperid snake, Sistrurus catenatus edwardsii. These toxin genes are structured similarly to elapid and hydrophiid three-finger toxin genes, with two introns and three exons. Both introns and exons show distinct patterns of segmentation, and the insertion/deletion …

Primary Cultured Fibroblasts Derived From Patients With Chronic Wounds: A Methodology To Produce Human Cell Lines And Test Putative Growth Factor Therapy Such As Gmcsf, Harold Brem, Michael S. Golinko, Olivera Stojadinovic, Arber Kodra, Robert F. Diegelmann, Sasa Vukelic, Hyacinth Entero, Donald L. Coppock, Marjana Tomic-Canic

Biochemistry and Molecular Biology Publications

Background Multiple physiologic impairments are responsible for chronic wounds. A cell line grown which retains its phenotype from patient wounds would provide means of testing new therapies. Clinical information on patients from whom cells were grown can provide insights into mechanisms of specific disease such as diabetes or biological processes such as aging.

The objective of this study was 1) To culture human cells derived from patients with chronic wounds and to test the effects of putative therapies, Granulocyte-Macrophage Colony Stimulating Factor (GM-CSF) on these cells. 2) To describe a methodology to create fibroblast cell lines from patients with chronic …

Inflammatory And Coagulation Biomarkers And Mortality In Patients With Hiv Infection, Lewis H. Kuller, Russell Tracy, Waldo Belloso, Stephane De Wit, Fraser Drummond, H. Clifford Lane, Bruno Ledergerber, Jens Lundgren, Jacqueline Neuhaus, Daniel Nixon, Nicholas I. Paton, James D. Neaton

Internal Medicine Publications

Background

In the Strategies for Management of Anti-Retroviral Therapy trial, all-cause mortality was higher for participants randomized to intermittent, CD4-guided antiretroviral treatment (ART) (drug conservation [DC]) than continuous ART (viral suppression [VS]).

We hypothesized that increased HIV-RNA levels following ART interruption induced activation of tissue factor pathways, thrombosis, and fibrinolysis.

Methods and Findings

Stored samples were used to measure six biomarkers: high sensitivity C-reactive protein (hsCRP), interleukin-6 (IL-6), amyloid A, amyloid P, D-dimer, and prothrombin fragment 1+2. Two studies were conducted: (1) a nested case–control study for studying biomarker associations with mortality, and (2) a study to compare DC and …

Protocol: Streamline Cloning Of Genes Into Binary Vectors In Agrobacterium Via The Gateway® Topo Vector System, Ruqiang Xu, Qingshun Quinn Li

Anatomy and Neurobiology Publications

Background

In plant functional genomic studies, gene cloning into binary vectors for plant transformation is a routine procedure. Traditionally, gene cloning has relied on restriction enzyme digestion and ligation. In recent years, however, Gateway^® cloning technology (Invitrogen Co.) has developed a fast and reliable alternative cloning methodology which uses a phage recombination strategy. While many Gateway- compatible vectors are available, we frequently encounter problems in which antibiotic resistance genes for bacterial selection are the same between recombinant vectors. Under these conditions, it is difficult, if not sometimes impossible, to use antibiotic resistance in selecting the desired transformants. We have, …

Cellular Automata Simulation Of Topological Effects On The Dynamics Of Feed-Forward Motifs, Advait Apte, John W. Cain, Danail Bonchev, Stephen S. Fong

Chemical and Life Science Engineering Publications

Background

Feed-forward motifs are important functional modules in biological and other complex networks. The functionality of feed-forward motifs and other network motifs is largely dictated by the connectivity of the individual network components. While studies on the dynamics of motifs and networks are usually devoted to the temporal or spatial description of processes, this study focuses on the relationship between the specific architecture and the overall rate of the processes of the feed-forward family of motifs, including double and triple feed-forward loops. The search for the most efficient network architecture could be of particular interest for regulatory or signaling pathways …

Self-Assembled Deoxyguanosine Based Molecular Electronic Device On Gan Substrates, H. Liddar, J. Li, A. Neogi, P. B. Neogi, A. Sarkar, S. Cho, Hadis Morkoç

Electrical and Computer Engineering Publications

Nanoscale hybrid molecular organic photodetectors based on self-assembled guanosine molecules conjugated to wide-bandgap GaNsemiconductors has been realized in the ultraviolet wavelength regime. Metal-semiconductor-metal based photodetector is fabricated using ordering of modified guanosine based semiconductor nanowires which exhibit I-Vcharacteristics with high current response and higher rectification ratio compared to Si based hybrid photodetectors. Photocurrent response of a two-terminal device shows the typical characteristics of a semiconductorphotodiode with a cutoff wavelength at ∼325nm. The I-Vcharacteristics have been elucidated using the induced polarization properties of self-assembled guanosine semiconductor.

Dengue Virus Pathogenesis In Mouse Central Nervous System: Studies On Host Response To Dengue Virus Infection, Juliano Bordignon, Christian Probst, Ana Luiza P. Mosimann, Vanessa Stella, Daniela Pavoni, Gregory A. Buck, Paul Fawcett, Silvio M. Zanata, Lucia Noronha, Marco Krieger, Claudia Nunes Duarte Dos Santos

Microbiology and Immunology Publications

Dengue virus (DENV) causes a self-limiting fever (DF) or severe hemorrhagic fever/shock-syndrome (DHF/DSS). Recently, clinical profile of DENV infection is changing, and neurological manifestations are becoming frequent. We previously demonstrated that mutations on E and NS3 proteins may account for DENV neurovirulence for mice. To validate the involvement of the observed mutations in the appearance of neurovirulent viral phenotypes, we constructed cDNA infectious clones encompassing the observed mutations. Aiming to determine host response to infection with neurovirulent and parental strains of DENV-1, we used a Mus musculus biochip (Virginia Commonwealth University) encompassing whole mouse genome. Newborn Swiss mice were infected …

Virginia Commonwealth University Graduate And Professional Programs Bulletin [2008], Virginia Commonwealth University

VCU Bulletins

Graduate and professional programs bulletin for Virginia Commonwealth University for the academic year 2008-2009. It includes information on academic regulations, degree requirements, course offerings, faculty, academic calendar, and tuition and expenses for graduate programs.

Virginia Commonwealth University Undergraduate Bulletin Courses [2008], Virginia Commonwealth University

VCU Bulletins

Listing of undergraduate courses for 2008-2009.

Genome-Wide Association Identifies A Common Variant In The Reelin Gene That Increases The Risk Of Schizophrenia Only In Women, Sagiv Shifman, Martina Johannesson, Michal Bronstein, Sam X. Chen, David A. Collier, Nicholas J. Craddock, Kenneth S. Kendler, Tao Li, Michael C. O'Donovan, F. Anthony O'Neill, Michael J. Owen, Dermot Walsh, Daniel R. Weinberger, Cuie Sun, Jonathan Flint, Ariel Darvasi

Psychiatry Publications

Sex differences in schizophrenia are well known, but their genetic basis has not been identified. We performed a genome-wide association scan for schizophrenia in an Ashkenazi Jewish population using DNA pooling. We found a female-specific association with rs7341475, a SNP in the fourth intron of the reelin (RELN) gene (p = 2.9 × 10−5 in women), with a significant gene-sex effect (p = 1.8 × 10−4). We studied rs7341475 in four additional populations, totaling 2,274 cases and 4,401 controls. A significant effect was observed only in women, replicating the initial result (p = 2.1 × 10−3 in …

Breast Tumor Simulation And Parameters Estimation Using Evolutionary Algorithms, Manu Mital, Ramana M. Pidiparti

Mechanical and Nuclear Engineering Publications

An estimation methodology is presented to determine the breast tumor parameters using the surface temperature profile that may be obtained by infrared thermography. The estimation methodology involves evolutionary algorithms using artificial neural network (ANN) and genetic algorithm (GA). The ANN is used to map the relationship of tumor parameters (depth, size, and heat generation) to the temperature profile over the idealized breast model. The relationship obtained from ANN is compared to that obtained by finite element software. Results from ANN training/testing were in good agreement with those obtained from finite element model. After ANN validation, GA is used to estimate …

Virginia Commonwealth University Undergraduate Bulletin [2008], Virginia Commonwealth University

VCU Bulletins

Undergraduate bulletin for Virginia Commonwealth University for the academic year 2008-2009. It includes information on academic regulations, degree requirements, course offerings, faculty, academic calendar, and tuition and expenses for undergraduate programs.

Sequence And Structural Evolution Of The Ksga/Dim1 Methyltransferase Family, Heather Colleen O'Farrell, Zhili Xu, Gloria M. Culver, Jason P. Rife

Medicinal Chemistry Publications

Background One of the 60 or so genes conserved in all domains of life is the ksgA/dim1 orthologous group. Enzymes from this family perform the same post-transcriptional nucleotide modification in ribosome biogenesis, irrespective of organism. Despite this common function, divergence has enabled some family members to adopt new and sometimes radically different functions. For example, in S. cerevisiae Dim1 performs two distinct functions in ribosome biogenesis, while human mtTFB is not only an rRNA methyltransferase in the mitochondria but also a mitochondrial transcription factor. Thus, these proteins offer an unprecedented opportunity to study evolutionary aspects of structure/function relationships, especially with …

Virginia Dental Journal (Vol. 85, No. 1, 2008)

Virginia Dental Journal

No abstract provided.

The Ecology Of Fear: Colonization And Oviposition In Aquatic Systems [Poster], Leeanna Pletcher, Johanna Kraus, James R. Vonesh

Biology Presentations

Introduction

Amphibians and aquatic invertebrates have complex life histories that link aquatic and terrestrial food webs. It has been suggested that amphibian reproduction is an important source of carbon to some aquatic systems. Movement of organisms across the aquatic-terrestrial habitat boundary can represent important subsidies to the receiving habitat. Subsidies are organisms, nutrients, or detritus that cross habitat boundaries and are consumed, and these allochthonous inputs can affect food web structure. Predators can alter subsidies by consuming organisms that would otherwise move across habitat boundaries. Predator induced shifts in habitat selection are a well known non-lethal effect in aquatic systems. …

Virginia Commonwealth University Graduate And Professional Programs Bulletin Courses [2008], Virginia Commonwealth University

VCU Bulletins

Listing of professional and graduate courses for 2008-2009

Virginia Commonwealth University Commencement Program [2008], Virginia Commonwealth University

VCU Commencement Programs

No abstract provided.

Virginia Commonwealth University Fall Commencement Program [Corrected Copy] [2008], Virginia Commonwealth University

VCU Commencement Programs

No abstract provided.

Analysis Of The Nucleotide Sequence Of The Guinea Pig Cytomegalovirus (Gpcmv) Genome, Mark R. Schleiss, Alistair Mcgregor, K Yeon Choi, Shailesh V. Date, Xiaohong Cui, Michael Mcvoy

Pediatrics Publications

In this report we describe the genomic sequence of guinea pig cytomegalovirus (GPCMV) assembled from a tissue culture-derived bacterial artificial chromosome clone, plasmid clones of viral restriction fragments, and direct PCR sequencing of viral DNA. The GPCMV genome is 232,678 bp, excluding the terminal repeats, and has a GC content of 55%. A total of 105 open reading frames (ORFs) of > 100 amino acids with sequence and/or positional homology to other CMV ORFs were annotated. Positional and sequence homologs of human cytomegalovirus open reading frames UL23 through UL122 were identified. Homology with other cytomegaloviruses was most prominent in the central …

Li- And B-Decorated Cis-Polyacetylene: A Computational Study, S. Li, Puru Jena

Physics Publications

By using density functional theory and the generalized gradient approximation, we show that Li-decorated cis-polyacetylene meets some of the requirements of an ideal hydrogen storage material. Unlike Ti-doped cis-polyacetylene, Li resists clustering and can reversibly store up to 10.8 wt %hydrogen in molecular form. However, molecular dynamics simulations show that Li can retain hydrogen only at cryogenic temperatures. On the other hand, B-doped cis-polyacetylene can store up to 7.5 wt % hydrogen, but it binds to hydrogen too strongly to be suitable for room temperature applications. The results are compared to those in Ti-doped cis-polyacetylene.

Li- And B-Decorated Cis-Polyacetylene: A Computational Study, S. Li, Puru Jena

Physics Publications

By using density functional theory and the generalized gradient approximation, we show that Li-decorated cis-polyacetylene meets some of the requirements of an ideal hydrogen storage material. Unlike Ti-doped cis-polyacetylene, Li resists clustering and can reversibly store up to 10.8 wt %hydrogen in molecular form. However, molecular dynamics simulations show that Li can retain hydrogen only at cryogenic temperatures. On the other hand, B-doped cis-polyacetylene can store up to 7.5 wt % hydrogen, but it binds to hydrogen too strongly to be suitable for room temperature applications. The results are compared to those in Ti-doped cis-polyacetylene.

Cpg Island Density And Its Correlations With Genomic Features In Mammalian Genomes, Leng Han, Bing Su, Wen-Hsiung Li, Zhongming Zhao

Psychiatry Publications

Background CpG islands, which are clusters of CpG dinucleotides in GC-rich regions, are considered gene markers and represent an important feature of mammalian genomes. Previous studies of CpG islands have largely been on specific loci or within one genome. To date, there seems to be no comparative analysis of CpG islands and their density at the DNA sequence level among mammalian genomes and of their correlations with other genome features.

Results In this study, we performed a systematic analysis of CpG islands in ten mammalian genomes. We found that both the number of CpG islands and their density vary greatly …

Comparative Analysis Of Cpg Islands In Four Fish Genomes, Leng Han, Zhongming Zhao

Psychiatry Publications

There has been much interest in CpG islands (CGIs), clusters of CpG dinucleotides in GC-rich regions, because they are considered gene markers and involved in gene regulation. To date, there has been no genome-wide analysis of CGIs in the fish genome. We first evaluated the performance of three popular CGI identification algorithms in four fish genomes (tetraodon, stickleback, medaka, and zebrafish). Our results suggest that Takai and Jones' (2002) algorithm is most suitable for comparative analysis of CGIs in the fish genome. Then, we performed a systematic analysis of CGIs in the four fish genomes using Takai and Jones' algorithm, …

Shortest-Path Network Analysis Is A Useful Approach Toward Identifying Genetic Determinants Of Longevity, J. R. Managbanag, Tarynn M. Witten, Danail Bonchev, Lindsay A. Fox, Mitsuhiro Tsuchiya, Brian K. Kennedy, Matt Kaeberlein

Study of Biological Complexity Publications

Background

Identification of genes that modulate longevity is a major focus of aging-related research and an area of intense public interest. In addition to facilitating an improved understanding of the basic mechanisms of aging, such genes represent potential targets for therapeutic intervention in multiple age-associated diseases, including cancer, heart disease, diabetes, and neurodegenerative disorders. To date, however, targeted efforts at identifying longevity-associated genes have been limited by a lack of predictive power, and useful algorithms for candidate gene-identification have also been lacking.

Methodology/Principal Findings

We have utilized a shortest-path network analysis to identify novel genes that modulate longevity in Saccharomyces …

An Integrative Genomic And Epigenomic Approach For The Study Of Transcriptional Regulation, Maria E. Figueroa, Mark A. Reimers, Reid F. Thompson, Kenny Ye, Yushan Li, Rebecca R. Selzer, Jakob Fridriksson, Elisabeth Paietta, Peter Wiemik, Ronald D. Green, John M. Greally, Ari Melnick

Biostatistics Publications

The molecular heterogeneity of acute leukemias and other tumors constitutes a major obstacle towards understanding disease pathogenesis and developing new targeted-therapies. Aberrant gene regulation is a hallmark of cancer and plays a central role in determining tumor phenotype. We predicted that integration of different genome-wide epigenetic regulatory marks along with gene expression levels would provide greater power in capturing biological differences between leukemia subtypes. Gene expression, cytosine methylation and histone H3 lysine 9 (H3K9) acetylation were measured using high-density oligonucleotide microarrays in primary human acute myeloid leukemia (AML) and acute lymphocytic leukemia (ALL) specimens. We found that DNA methylation and …

Oceanography Professional Development In Virginia Via Collaboration, Field Integration, And Inquiry, K. St. John

Journal of Mathematics and Science: Collaborative Explorations

Seventy-nine in-service teachers completed one of six sections of a grant-funded, graduate-level, summer course entitled, Oceanography, that was offered at four different locations in Virginia between 2005 and 2007. The majority of the teachers enrolled with the objective of obtaining their add-on earth science endorsement through the Virginia Earth Science Collaborative (VESC). Oceanography was designed to integrate the following: 1) the ocean science disciplines of geology, chemistry, physics, and biology; 2) inquiry-based learning strategies, quantitative activities, and technology; and, 3) Virginia Institute of Marine Science (VIMS) field experience with classroom experiences. These design themes were informed by ocean science content …

Virginia Earth Science Collaborative Astronomy Course For Teachers, E. M. Murphy, H. Geller, M. Bentley

Journal of Mathematics and Science: Collaborative Explorations

We describe the development and implementation of a professional development course for teachers of grades 4-12 designed to increase their content knowledge in astronomy, space science, and the nature of science using interactive presentations, and hands-on and inquiry-based lessons. The course, Space Science for Teachers, encompasses the astronomy and nature of science components of the Virginia Standards of Learning for grades 4-12 [1]. In addition to increasing their content knowledge, teachers gain experience using innovative teaching technologies, such as an inflatable planetarium, planetarium computer software, and computer controlled telescopes. The courses included evening laboratory sessions where teachers learned the constellations, …