Biology Commons^™

A Comparison Of Techniques Measuring Stress In Birds, Deborah A. O'Dell, Michael A. Carlo, Abigail Kimmitt, Ellen Bikowski, Katherine R. Morris, Andrew Dolby

Virginia Journal of Science

Free-living birds are subjected to both external and internal stresses which can affect their health, activity, and reproductive success. To study stress in free living birds, they must be captured in nets and handled by the researcher to take blood samples for commonly used measures of stress, an activity which itself can induce stress and confound results. This study compares the effects of handling time on three different measures of stress: levels of the stress hormone corticosterone (CORT), levels of Heat Shock Protein 60 (HSP 60) and the ratio of heterophils to lymphocytes (H/L ratio) in tufted titmouse (Baeolophus bicolor …

Epidemic Surveillance Using An Electronic Medical Record: An Empiric Approach To Performance Improvement, Hongzhang Zheng, Holly Gaff, Gary Smith, Sylvain Delisle

Biological Sciences Faculty Publications

BACKGROUNDS: Electronic medical records (EMR) form a rich repository of information that could benefit public health. We asked how structured and free-text narrative EMR data should be combined to improve epidemic surveillance for acute respiratory infections (ARI).

METHODS: Eight previously characterized ARI case detection algorithms (CDA) were applied to historical EMR entries to create authentic time series of daily ARI case counts (background). An epidemic model simulated influenza cases (injection). From the time of the injection, cluster-detection statistics were applied daily on paired background+injection (combined) and background-only time series. This cycle was then repeated with the injection shifted to each …

Transcriptome Of The Female Synganglion Of The Black-Legged Tick Ixodes Scapularis (Acari: Ixodidae) With Comparison Between Illumina And 454 Systems, Noble Egekwu, Daniel E. Sonenshine, Brooke W. Bissinger, R. Michael Roe

Biological Sciences Faculty Publications

Illumina and 454 pyrosequencing were used to characterize genes from the synganglion of female Ixodes scapularis. GO term searching success for biological processes was similar for samples sequenced by both methods. However, for molecular processes, it was more successful for the Illumina samples than for 454 samples. Functional assignments of transcripts predicting neuropeptides, neuropeptide receptors, neurotransmitter receptors and other genes of interest was done, supported by strong e-values (<-6), and high consensus sequence alignments. Transcripts predicting 15 putative neuropeptide prepropeptides ((allatostatin, allatotropin, bursicon α, corticotropin releasing factor (CRF), CRF-binding protein, eclosion hormone, FMRFamide, glycoprotein A, insulin-like peptide, ion transport peptide, myoinhibitory peptide, inotocin ( = neurophysin-oxytocin), Neuropeptide F, sulfakinin and SIFamide)) and transcripts predicting receptors for 14 neuropeptides (allatostatin, calcitonin, cardioacceleratory peptide, corazonin, CRF, eclosion hormone, gonadotropin-releasing hormone/AKH-like, insulin-like peptide, neuropeptide F, proctolin, pyrokinin, SIFamide, sulfakinin and tachykinin) are reported. Similar to Dermacentor variabilis, we found transcripts matching pro-protein convertase, essential for converting neuropeptide hormones to their mature form. Additionally, transcripts predicting 6 neurotransmitter/neuromodulator receptors (acetylcholine, GABA, dopamine, glutamate, octopamine and …

Improving Structural Features Prediction In Protein Structure Modeling, Ashraf Yaseen

Computer Science Theses & Dissertations

Proteins play a vital role in the biological activities of all living species. In nature, a protein folds into a specific and energetically favorable three-dimensional structure which is critical to its biological function. Hence, there has been a great effort by researchers in both experimentally determining and computationally predicting the structures of proteins.

The current experimental methods of protein structure determination are complicated, time-consuming, and expensive. On the other hand, the sequencing of proteins is fast, simple, and relatively less expensive. Thus, the gap between the number of known sequences and the determined structures is growing, and is expected to …

Section Abstracts: Biology With Microbiology And Molecular Biology

Virginia Journal of Science

Abstracts of the Biology with Microbiology and Molecular Biology Section for the 92nd Annual Meeting of the Virginia Academy of Science, May 13-15, 2014, Virginia Commonwealth University, Richmond, Virginia

Section Abstracts: Natural History And Biodiversity

Virginia Journal of Science

Abstracts of the Section Abstracts: Natural History and Biodiversity Section for the 92nd Annual Meeting of the Virginia Academy of Science, May 13-15, 2014, Virginia Commonwealth University, Richmond, Virginia

Benthic And Planktonic Microalgal Community Structure And Primary Productivity In Lower Chesapeake Bay, Matthew Reginald Semcheski

Biological Sciences Theses & Dissertations

Microalgal populations are trophically important to a variety of micro- and macroheterotrophs in marine and estuarine systems. In Chesapeake Bay, microalgae facilitate the survival and development of ecologically and economically relevant fauna, including shellfish and finfish populations. While regarded as significant components of coastal environments, microphytobenthic communities are historically understudied. In Chesapeake Bay, the importance of phytoplankton to the ecosystem is understood, but the contribution of microphytobenthos remains unclear. This project surveys intertidal microphytobenthic communities, in relation to phytoplankton communities, around lower Chesapeake Bay describing the taxonomic makeup of these populations, coupled with quantification of cell abundance, biomass, and primary …

Bulk Elastic Moduli And Solute Potentials In Leaves Of Freshwater, Coastal, And Marine Hydrophytes. Are Marine Plants More Rigid?, Brant W. Touchette, Sarah E. Marcus, Emily C. Adams

Biological Sciences Faculty Publications

Bulk modulus of elasticity (ɛ), depicting the flexibility of plant tissues, is recognized as an important component in maintaining internal water balance. Elevated ɛ and comparatively low osmotic potential (Ψ_π) may work in concert to effectively maintain vital cellular water content. This concept, termed the ‘cell water conservation hypothesis’, may foster tolerance for lower soil-water potentials in plants while minimizing cell dehydration and shrinkage. Therefore, the accumulation of solutes in marine plants, causing decreases in Ψ_π, play an important role in plant–water relations and likely works with higher ɛ to achieve favourable cell …

Disassembly Of Actin Structures By Nanosecond Pulsed Electric Field Is A Downstream Effect Of Cell Swelling, Andrei G. Pakhomov, Shu Xiao, Olga N. Pakhomova, Iurii Semenov, Marjorie A. Kuipers, Bennett L. Ibey

Bioelectrics Publications

Disruption of the actin cytoskeleton structures was reported as one of the characteristic effects of nanosecond-duration pulsed electric field (nsPEF) in both mammalian and plant cells. We utilized CHO cells that expressed the monomeric fluorescent protein (mApple) tagged to actin to test if nsPEF modifies the cell actin directly or as a consequence of cell membrane permeabilization. A train of four 600-ns pulses at 19.2 kV/cm (2 Hz) caused immediate cell membrane poration manifested by YO-PRO-1 dye uptake, gradual cell rounding and swelling. Concurrently, bright actin features were replaced by dimmer and uniform fluorescence of diffuse actin. To block the …

Bipolar Nanosecond Electric Pulses Are Less Efficient At Electropermeabilization And Killing Cells Than Monopolar Pulses, Bennett L. Ibey, Olga N. Pakhomova, Caleb C. Roth, Shu Xiao, Karl Schoenbach, Andrei G. Pakhomov

Bioelectrics Publications

Multiple studies have shown that bipolar (BP) electric pulses in the microsecond range are more effective at permeabilizing cells while maintaining similar cell survival rates as compared to monopolar (MP) pulse equivalents. In this paper, we investigated whether the same advantage existed for BP nanosecond-pulsed electric fields (nsPEF) as compared to MP nsPEF. To study permeabilization effectiveness, MP or BP pulses were delivered to single Chinese hamster ovary (CHO) cells and the response of three dyes, Calcium Green-1, propidium iodide (PI), and FM1-43, was measured by confocal microscopy. Results show that BP pulses were less effective at increasing intracellular calcium …

Modelling Cholera In Periodic Environments, Drew Posny, Jin Wang

Mathematics & Statistics Faculty Publications

We propose a deterministic compartmental model for cholera dynamics in periodic environments. The model incorporates seasonal variation into a general formulation for the incidence (or, force of infection) and the pathogen concentration. The basic reproduction number of the periodic model is derived, based on which a careful analysis is conducted on the epidemic and endemic dynamics of cholera. Several specific examples are presented to demonstrate this general model, and numerical simulation results are used to validate the analytical prediction.

Reproductive Phase Determination In Male Meagre (Argyrosomus Regius, Sciaenidae): Testis Development And Histologic Corroboration Of A Gross Anatomical Scale, Nuno Prista, Leonel Gordo, José Lino Costa, Maria José Costa, Cynthia Jones

OES Faculty Publications

Reproductive stage determination of male gonads has received sparse attention in fish biology literature with few studies detailing the building of gross anatomical- and histologic scales. The meagre (Argyrosomus regius) is one of the world's largest sciaenids and supports a significant regional fishery in European and North African waters whose reproductive patterns are yet to be fully investigated. In the present study, we derive a macroscopic grading system for meagre testis using semi-quantitative graphs that feature the testis variability along the species size range and time of the year. We then describe the histological stages and reproductive phases of male …

Basin Isolation And Oceanographic Features Influencing Lineage Divergence In The Humbug Damselfish (Dascyllus Aruanus) In The Coral Triangle, J. M. Raynal, E. D. Crandall, P. H. Barber, G. N. Mahardika, M. C. Lagman, Kent E. Carpenter

Biological Sciences Faculty Publications

The Coral Triangle is a hotspot for marine species diversity as well as for intraspecific genetic diversity. Here, we used nuclear RAG2 and mitochondrial D-Loop genes to identify deep genetic divergence among Dascyllus aruanus (Linnaeus, 1758) populations across relatively short scales within the Coral Triangle. Mitochondrial clades different by >20 mutational steps were completely isolated from one another across the distance between Java and the Lesser Sunda Islands, and also showed frequency differences in the eastern and western Philippines. Evidence for population structure in the Sulu Sea and at the Lesser Sunda Islands was also identified. Our results suggest that …

Wild Bees Preferentially Visit Rudbeckia Flower Heads With Exaggerated Ultraviolet Absorbing Floral Guides, Lisa Horth, Laura Campbell, Rebecca Bray

Biological Sciences Faculty Publications

Here, we report on the results of an experimental study that assessed the visitation frequency of wild bees to conspecific flowers with different sized floral guides. UV absorbent floral guides are ubiquitous in Angiosperms, yet surprisingly little is known about conspecific variation in these guides and very few studies have evaluated pollinator response to UV guide manipulation. This is true despite our rich understanding about learning and color preferences in bees. Historical dogma indicates that flower color serves as an important long-range visual signal allowing pollinators to detect the flowers, while floral guides function as close-range signals that direct pollinators …

Quantitative Factors Proposed To Influence The Prevalence Of Canine Tick-Bourne Disease Agents In The United States, Roger W. Stich, Byron L. Blagburn, Dwight D. Bowman, Christopher Carpenter, M. Roberto Cortinas, Sidney A. Ewing, Desmond Foley, Holly Gaff, Graham J. Hickling, R. Ryan Lash

Biological Sciences Faculty Publications

The Companion Animal Parasite Council hosted a meeting to identify quantifiable factors that can influence the prevalence of tick-borne disease agents among dogs in North America. This report summarizes the approach used and the factors identified for further analysis with mathematical models of canine exposure to tick-borne pathogens.

Comparison Of Phenology And Pathogen Prevalence, Including Infection With The Ehrlichia Muris-Like (Eml) Agent, Of Ixodes Scapularis Removed From Soldiers In The Midwestern And Northeastern United States Over A 15 Year Period (1997-2012), Ellen Stromdahl, Sarah Hamer, Sarah Jenkins, Lynne Sloan, Phillip Williamson, Erik Foster, Robyn Nadolny, Chad Elkins, Mary Vince, Bobbi Pritt

Biological Sciences Faculty Publications

Background: Since 1997, human-biting ticks submitted to the Department of Defense Human Tick Test Kit Program (HTTKP) of the US Army Public Health Command have been tested for pathogens by PCR. We noted differences in the phenology and infection prevalence among Ixodes scapularis ticks submitted from military installations in different geographic regions. The aim of this study was to characterize these observed differences, comparing the phenology and pathogen infection rates of I. scapularis submitted from soldiers at two sites in the upper Midwest ( Camp Ripley, MN, and Ft. McCoy, WI) and one site in the northeastern US (Ft. Indiantown …

Multiplexing With Three-Primer Pcr For Rapid And Economical Microsatellite Validation, Salla Vartia, Patrick C. Collins, Thomas F. Cross, Richard D. Fitzgerald, David T. Gauthier, Philip Mcginnity, Luca Mirimin, Jens Carlsson

Biological Sciences Faculty Publications

The next generation sequencing revolution has enabled rapid discovery of genetic markers, however, development of fully functioning new markers still requires a long and costly process of marker validation. This study reports a rapid and economical approach for the validation and deployment of polymorphic microsatellite markers obtained from a 454 pyrosequencing library of Atlantic cod, Gadus morhua, Linnaeus 1758. Primers were designed from raw reads to amplify specific amplicon size ranges, allowing effective PCR multiplexing. Multiplexing was combined with a three-primer PCR approach using four universal tails to label amplicons with separate fluorochromes. A total of 192 primer pairs …

Mouse Oocyte Maturation And Embryo Development After Exposure To Vemurafenib (Plx4032), An Anti-Melanoma B-Raf V600e Inhibitor, Bo Liu

Theses and Dissertations in Biomedical Sciences

Vemurafenib is a selective B-Raf^V600E inhibitor in melanoma targeted therapy which also inhibits the wild type B- and C-Raf. In oocyte maturation, the C-Raf/MAPK pathway acts as an important self-enhancing and promoting system, w hereas in embryo development, the C-Raf/M APK pathway participates in pre- and post- implantation embryo proliferation and differentiation.

The hypothesis: Vemurafenib has detrimental effects on oocyte maturation and/or embryo development. Mouse oocytes and one cell (1C) mouse embryos were tested by ex vivo culturing with Vemurafenib in serial dilution. Oocytes were evaluated by cell cycle morphology, spindle formation and chromosomal alignment by im munofluorescence (IF) …