Biology Commons^™

A Potential Mate Influences Reproductive Development In Female, But Not Male, Pine Siskins, Heather E. Watts, Bruce Edley, Thomas P. Hahn

Biology Faculty Works

The role of photoperiod in avian reproductive timing has been well studied, and we are increasingly recognizing the roles of other environmental cues such as social cues. However, few studies have evaluated the extent to which males and females of the same species respond similarly to the same type of cue. Moreover, previous studies have rarely examined how variation in the quality or nature of a given social cue might modulate its effect. Here, we examine the sensitivity of male and female pine siskins (Spinus pinus) to a potential mate as a stimulatory cue for gonadal recrudescence, and …

Seasonal And Sex Differences In Responsiveness To Adrenocorticotropic Hormone Contribute To Stress Response Plasticity In Red-Sided Garter Snakes (Thamnophis Sirtalis Parietalis), Catherine A. Dayger, Deborah I. Lutterschmidt

Biology Faculty Publications and Presentations

Like many vertebrates, hormonal responses to stress vary seasonally in red-sided garter snakes (Thamnophis sirtalis parietalis). For example, males generally exhibit reduced glucocorticoid responses to a standard stressor during the spring mating season. We asked whether variation in adrenal sensitivity to adrenocorticotropic hormone (ACTH) explains why glucocorticoid responses to capture stress vary with sex, season, and body condition in red-sided garter snakes. We measured glucocorticoids at 0, 1, and 4 hours after injection with ACTH (0.1 IU/g body mass) or vehicle in males and females during the spring mating season and fall pre-hibernation period. Because elevated glucocorticoids can influence sex …

Paths Of Heritable Mitochondrial Dna Mutation And Heteroplasmy In Reference And Gas-1 Strains Of Caenorhabditis Elegans, Riana I. Wernick, Suzanne Estes, Dana K. Howe, Dee R. Denver

Biology Faculty Publications and Presentations

Heteroplasmy—the presence of more than one mitochondrial DNA (mtDNA) sequence type in a cell, tissue, or individual—impacts human mitochondrial disease and numerous aging-related syndromes. Understanding the trans-generational dynamics of mtDNA is critical to understanding the underlying mechanisms of mitochondrial disease and evolution. We investigated mtDNA mutation and heteroplasmy using a set of wild-type (N2 strain) and mitochondrial electron transport chain (ETC) mutant (gas-1) mutant Caenorhabditis elegans mutation-accumulation (MA) lines. The N2 MA lines, derived from a previous experiment, were bottlenecked for 250 generations. The gas-1 MA lines were created for this study, and bottlenecked in the laboratory for …

Biology And Management Of Billbugs (Coleoptera: Curculionidae) In Turfgrass, Madeleine Dupuy, Ricardo A. Ramirez

Biology Faculty Publications

Billbugs (Coleoptera: Curculionidae: Sphenophorus spp.) are a complex of weevil pests affecting turfgrass throughout the United States. Billbug larvae cause damage by feeding in stems, on roots, and on the crowns of turf, causing severe discoloration and eventual plant death. Monitoring efforts have focused on nondestructive pitfall sampling of ground-active billbug adults and on destructive sampling using soil cores for larval stages in the soil. Given the cryptic nature of the susceptible larval stages, billbugs are typically managed by preventive applications of long-residual, systemic insecticides, including neonicotinoids and anthranilic diamides. Despite knowledge of effective management practices including pest-resistant turf varieties, …

Synthesis And Immobilization Of Silver Nanoparticles On Aluminosilicate Nanotubes And Their Antibacterial Properties, G. Ipek Yucelen, Rachel E. Connell, Jessica R. Terbush, David J. Westenberg, Fatih Dogan

Biological Sciences Faculty Research & Creative Works

A novel colloidal method is presented to synthesize silver nanoparticles on aluminosilicate nanotubes. The technique involves decomposition of AgNO₃ solution to Ag nanoparticles in the presence of aluminosilicate nanotubes at room temperature without utilizing of reducing agents or any organic additives. Aluminosilicate nanotubes are shown to be capable of providing a unique chemical environment, not only for in situ conversion of Ag⁺ into Ag⁰, but also for stabilization and immobilization of Ag nanoparticles. The synthesis strategy described here could be implemented to obtain self-assembled nanoparticles on other single-walled metal oxide nanotubes for unique applications. Finally, we …

Bacterial Diversity And Community Composition From Seasurface To Subseafloor, Emily A. Walsh, John B. Kirkpatrick, Scott Rutherford, David C. Smith, Mitchell Sogin, Steven D'Hondt

Arts & Sciences Faculty Publications

We investigated compositional relationships between bacterial communities in the water column and those in deep-sea sediment at three environmentally distinct Pacific sites (two in the Equatorial Pacific and one in the North Pacific Gyre). Through pyrosequencing of the v4-v6 hypervariable regions of the 16S ribosomal RNA gene, we characterized 450 104 pyrotags representing 29 814 operational taxonomic units (OTUs, 97% similarity). Hierarchical clustering and non-metric multidimensional scaling partition the samples into four broad groups, regardless of geographic location: a photic-zone community, a subphotic community, a shallow sedimentary community and a subseafloor sedimentary community (≥1.5 meters below seafloor). Abundance-weighted community compositions …

Anti-Predator Responses Of Squid Throughout Ontogeny, Carly Anne York

Biological Sciences Theses & Dissertations

Multiple sensory modalities and a complex array of escape behaviors have evolved as components of anti-predator responses in squids. The goals of this study include: (1) examine the role of the lateral line analogue and vision in successful predator evasion; (2) measure kinematics of escape jetting; (3) document how chromatic patterning, posturing and inking in squid change in response to predators; and (4) investigate escape jet hydrodynamics of squid. Given that squids undergo considerable morphological, ecological, and behavioral changes throughout ontogeny, the goals above were all investigated across different life history stages. To test the respective roles of vision and …

Characterization Of Soundscapes In Shallow Water Habitats Of The Florida Keys (Usa) And Their Influence On The Settlement Of Larval Fish And Invertebrates, John R. Butler

Biological Sciences Theses & Dissertations

In recent decades, changes in climate and water quality in Florida Bay and the Florida Keys (FL, USA) caused expansive cyanobacteria blooms that in turn precipitated massive sponge die-offs that drastically altered sponge-dominated hard-bottom communities in south-central Florida Bay. This area served as a model system to explore the effect of ecosystem change and habitat restoration on underwater soundscapes and larval recruitment. I had four main objectives: (1) characterize the underwater soundscapes of three near-shore, benthic habitats: mangrove islands, seagrass meadows, and hard-bottom (Chapter 2); (2) quantify larval settlement within healthy, degraded, and restored hard-bottom areas to test whether habitat …

A Hitchhiker’S Guide To Invasion Biology: Describing The Ecological Mechanisms Underlying The Range Expansions Of Two Ixodid Tick Species, Robyn M. Nadolny

Biological Sciences Theses & Dissertations

Increasing incidence of many tick-borne diseases have been linked to recent expansions of tick species distributions. Many tick species are expanding their ranges because of anthropogenic changes in the landscape, shifting climatic variables, and increasing populations of suitable host species and tick habitat. Few empirical studies have been performed, however, investigating the ecological mechanisms underlying these range expansions. Ticks are parasitic organisms that disperse across landscape by hitchhiking on hosts, but must then survive in the environment for long periods of time between bloodmeals. Two species of ixodid tick, Ixodes affinis and Amblyomma maculatum, are simultaneously expanding their ranges throughout …

Naturalization Of Salt Marsh Restoration Sites In The Elizabeth River, Virginia, Assessed By Feeding Activity And Trophic Level Of Mummichogs (Fundulus Heteroclitus), Moriah Anne Good

Biological Sciences Theses & Dissertations

Recent efforts to mitigate environmental issues within the Southern Branch of the Elizabeth River, Virginia, designated a “Region of Concern” by the Chesapeake Bay Program, include several salt marsh restorations. By examining gut contents and stable isotopes values (δ13C and δ15N) from mummichogs (Fundulus heteroclitus), the functional equivalency of restored salt marshes compared to natural marshes was measured. In July 2013 I collected mummichogs from three restored and three reference salt marshes in the Southern Branch. Fish were collected for gut content analysis and were analyzed for stable isotopes (δ13C and δ15N).

I removed gut contents from 16 fish per …

Non-Thermal Atmospheric-Pressure Plasma For Sterilization Of Surfaces And Biofilms, Johanna Ursula Neuber

Electrical & Computer Engineering Theses & Dissertations

Bacterial resistance to antimicrobial methods is a critical issue in many fields of medicine. This work describes the studies performed to characterize and optimize the bacterial inactivation effects of a non-thermal atmospheric-pressure plasma brush and plasma jet on a laminate surface inoculated with Acinetobacter baumannii and Staphylococcus aureus, and a cultivated Enterococcus faecalis biofilm, respectively. These treatments are pilot studies for eventual application to surface sterilization in hospitals and root canal disinfection. To evaluate bacterial inactivation, after treatment and recovery, the bacterial colony forming units (CFUs) are counted. Several different methods are used to optimize the antimicrobial effect. For the …

Computational Modeling Intervention: Using Dynamical Models To Teach Complex Biological Processes, Audrey J. Crowther, Tomáš Helikar, Nicholas Galt, Joseph Dauer, Heather Berganr, Bryan Kowal

UCARE: Research Products

The Unites States, while being one of the richest countries in the world, ranks 17th in science proficiency out of 31 countries. New techniques for teaching are needed if the US wants to keep up with increasing global competition. Often the problem with traditional methods for teaching biological processes is that they present the material as linear or causal, when in fact there is a much wider network at play. For example, cellular respiration is often represented as a linear process that always starts with glucose and always ends with ATP and water. However, there are several entry and exit …

Liana Canopy Cover Mapped Throughout A Tropical Forest With High-Fidelity Imaging Spectroscopy, David C. Marvin, Gregory P. Asner, Stefan A. Schnitzer

Biological Sciences Faculty Research and Publications

Increasing size and abundance of lianas relative to trees are pervasive changes in Neotropical forests that may lead to reduced forest carbon stocks. Yet the liana growth form is chronically understudied in large-scale tropical forest censuses, resulting in few data on the scale, cause, and impact of increasing lianas. Satellite and airborne remote sensing provide potential tools to map and monitor lianas at much larger spatial and rapid temporal scales than are possible with plot-based forest censuses. We combined high-resolution airborne imaging spectroscopy and a ground-based tree canopy census to investigate whether tree canopies supporting lianas could be discriminated from …

A Model Of Blood Pressure, Heart Rate, And Vaso-Vagal Responses Produced By Vestibulo-Sympathetic Activation, Theodore Raphan, Bernard Cohen, Yongqing Xiang, Sergei B. Yakushin

Publications and Research

Blood Pressure (BP), comprised of recurrent systoles and diastoles, is controlled by central mechanisms to maintain blood flow. Periodic behavior of BP was modeled to study how peak amplitudes and frequencies of the systoles are modulated by vestibular activation. The model was implemented as a relaxation oscillator, driven by a central signal related to Desired BP. Relaxation oscillations were maintained by a second order system comprising two integrators and a threshold element in the feedback loop. The output signal related to BP was generated as a nonlinear function of the derivative of the first state variable, which is a summation …

Fine-Scale Spatial Ecology Drives Kin Selection Relatedness Among Cooperating Amoebae, Jeff Smith, Joan E. Strassmann, David C. Queller

Biology Faculty Research

Cooperation among microbes is important for traits as diverse as antibiotic resistance, pathogen virulence, and sporulation. The evolutionary stability of cooperation against “cheater” mutants depends critically on the extent to which microbes interact with genetically similar individuals. The causes of this genetic social structure in natural microbial systems, however, are unknown. Here, we show that social structure among cooperative Dictyostelium amoebae is driven by the population ecology of colonization, growth, and dispersal acting at spatial scales as small as fruiting bodies themselves. Despite the fact that amoebae disperse while grazing, all it takes to create substantial genetic clonality within multicellular …

Byu Undergraduates Execute A Familial Study Of Non-Demented Individuals In High-Risk Alzheimer’S Disease Pedigrees, John S. K. Kauwe

Journal of Undergraduate Research

Successful enrollment in and completion of graduate programs requires a constellation of skills. Students must be prepared to plan and execute experiments, present their findings both verbally and in manuscript form and interact effectively with senior scientists in the field of their choice. In this MEG I will mentor four undergraduate students (Kevin Boehme, Lyndsay Staley, Kaitlin Bell and Mark Wadsworth) as they develop skills in study design, data analysis, manuscript preparation, presentation and networking while identifying genetic factors that protect individuals from Alzheimer’s disease.

Neofunctionalization Of Dual-Targeted Plant Organelle Dna Replication Proteins

Journal of Undergraduate Research

Neofunctionalization is the process by which genes gain a new or modified function as a result of gene duplication and modification of one or more of the new genes. This exciting area of research helps explain the diversification of protein functions in cells. The number of documented examples has increased in recent years in all classes of organisms (Deng et al., 2010; Han et al. 2011; Cannela et al. 2014; Sakuma et al. 2013; Zhang et al. 2014). In some cases a protein that was previously thought to function in only one cellular compartment has been shown to also function …

Improved Pcr-Based Detection Of Soil Transmitted Helminth Infections Using A Next-Generation Sequencing Approach To Assay Design, Nils Pilotte, Marina Papaiakovou, Jessica R. Grant, Lou Ann Bierwert, Stacey Llewllyn, James S. Mccarthy, Steven A. Williams

Biological Sciences: Faculty Publications

The soil transmitted helminths are a group of parasitic worms responsible for extensive mor- bidity in many of the world’s most economically depressed locations. With growing empha- sis on disease mapping and eradication, the availability of accurate and cost-effective diagnostic measures is of paramount importance to global control and elimination efforts. While real-time PCR-based molecular detection assays have shown great promise, to date, these assays have utilized sub-optimal targets. By performing next-generation sequencing- based repeat analyses, we have identified high copy-number, non-coding DNA sequences from a series of soil transmitted pathogens. We have used these repetitive DNA elements as targets …

Identification Of A Mycobacterium Sp. As The Causative Agent Of Orange Nodular Lesions In The Atlantic Sea Scallop Placopecten Magellanicus, Catherine Grimm, Carl Huntsberger, Kathryn Markey, Susan Inglis, Roxanna Smolowitz

Arts & Sciences Faculty Publications

The Atlantic sea scallop Placopecten magellanicus is an economically important species in the offshore fisheries on the east coast of the USA. Recently, animals collected from waters ranging from Massachusetts to Maryland have shown variably sized (up to 1 cm in diameter) orange nodular foci, predominantly in the adductor muscle tissue, but also in other organs. Histological evaluation of the nodular lesions showed rod-shaped bacteria that stain acid-fast positive and Gram-positive. PCR methodology was employed to identify the causative organism of the nodules as a Mycobacterium sp. using analysis of the partial 16S gene and the 16S-23S internal transcribed spacer …

Surveys For The Alabama Map Turtle (Graptemys Pulchra) In The Coosa River, Georgia, John B. Jensen

Georgia Journal of Science

The Alabama Map Turtle, found only in Mobile Bay drainages, is state-listed in Georgia as “rare” and has been petitioned for federal listing as “threatened.” Because this species has been poorly studied in Georgia and in the Coosa River especially, a survey was undertaken to determine its status in the Coosa to help inform the federal listing decision. The 2014-2015 survey involved counting basking turtles from a motorboat with the aid of binoculars. The Alabama Map Turtle was the third most abundantly observed turtle species during the survey, preceded by only the Slider and River Cooter. All size/age classes were …

Does Habitat Restoration Increase Coexistence Of Native Stream Fishes With Introduced Brown Trout: A Case Study On The Middle Provo River, Utah, Usa, Mark C. Belk, Eric J. Billman, Craig Ellsworth, Brock R. Mcmillan

Faculty Publications

Restoration of altered or degraded habitats is often a key component in the conservation plan of native aquatic species, but introduced species may influence the response of the native community to restoration. Recent habitat restoration of the middle section of the Provo River in central Utah, USA, provided an opportunity to evaluate the effect of habitat restoration on the native fish community in a system with an introduced, dominant predator—brown trout (Salmo trutta). To determine the change in distribution of fish species and community composition, we surveyed 200 m of each of the four study reaches both before …

Byu Undergraduates Explore The Flipped Classroom In Search Of The Best Pedagogy For Introductory Biology, Jamie Jensen

Journal of Undergraduate Research

This report will outline how effectively we met our academic and mentoring objectives.I have listed below both the academic and mentoring objectives put forth in the original proposal and have outlined how they were met or modified over the course of the past two years.

Academic Objective: To test two hypotheses about the causal mechanisms behind the flipped classroom.

2013-2014 Final Report : Ephedra (Each Person Has Essential Disciplinary Research Abilities) In Interdisciplinary Climate Change Studies, Richard Gill

Journal of Undergraduate Research

The central aim of this proposal was to provide opportunities for students from diverse academic backgrounds to work collaboratively on a number of federally funded projects that include Colorado Plateau grasslands, the Mojave Desert, the Great Basin sagebrush steppe, and the Uintah Mountains. This proposal funded a portion of the salary for 9 students from life sciences, and engineering. The mentoring environment and plan focused on allowing students with diverse interests and training to work together on complex problems with frequent interaction with faculty and graduate students. We have a novel undergraduate lab that integrates training in science across the …

The Effect Of Degrading The Transcription Factor Nf-Kb Subunit Proteins On Nf-Kb' S Oncological Activity, Seongmin Lee

Honors Theses

Nuclear factor-kappa B (NF-κB) is a transcription factor that becomes functional when any two of its five component proteins (p50, p52, p65, c-Rel, and RelB) join together. NF-κB plays an important role in bringing out cell proliferation, or cell growth. When NF-κB malfunctions and becomes hyperactive, excessive NF-κB activity promotes abnormally high cell growth, which is a symptom of cancer. Because of its tie to cancer, NF-κB is commonly subjected to modification to curb cancer growth. In this project, each component protein of NF- κB was degraded via a method called RNAi to see if it would have any negative …

Determining The Concentration Of Nitric Oxide In Solvent, Emily-Jean E. Bankes

Honors Theses

The body creates nitric oxide (NO) for signaling. One way that researchers study NO signaling is through the use of model complexes, or molecules that have the same metal ion and a similar molecular shape as biological molecules and are easy to synthesize. Currently researchers have limited ways to deliver precisely-known small quantities of NO to an experiment where they are trying to investigate NO-binding to a transition metal complex. A peak shift in the absorption spectrum at ~530 nm makes it possible for UV-Vis spectroscopy to observe NO binding to cobalt tetraphenylporphyrin (CoTPP). This makes it possible to measure …

A Compartmental Model Of Animal Behavior, Saharsh Dass

Honors Theses

Animal behavior is integral to fitness and arises from complex interactions between internal and external factors. An understanding of how external environmental factors drive animal behavior is important for understanding the way organisms adapt to environmental perturbations such as climate change. Glaucous-winged gulls (Larus glaucescens) at Protection Island, Strait of Juan de Fuca, Washington display a variety of behaviors on the colony during the breeding season. The most common gull behaviors are sleeping, preening, and resting. I used a system of four differential equations to predict numbers of sleeping, preening, and resting gulls on the colony as a function of …

The Effects Of Omega-3 Fatty Acids On Intracellular Inositol Levels In Saccharomyces Cerevisiae, Jee Yeon (Joanne) Lee

Honors Theses

Bipolar disorder is a severe and chronic debilitating mental disorder characterized by extreme mood swings between mania and depression. The current medications for bipolar disorder, lithium and valproate, have been associated with numerous negative side effects. Although the therapeutic mechanism by which lithium and valproate (VPA) exert their effect is unknown, a leading hypothesis implicates inositol depletion as a mechanism of action. On the other hand, omega-3-fatty acids have been shown to relieve symptoms of bipolar disorder. In this study, we compare the effects of VPA to the effects of decosahexaenoic acid (DHA) on Saccharomyces cerevisiae growth and intracellular inositol …

Recovery Of Forest Floor Diversity After Removal Of The Nonnative, Invasive Plant Euonymus Fortunei, Kali Z. Mattingly, Ryan W. Mcewan, Robert D. Paratley, Sarah R. Bray, James R. Lempke, Mary A. Arthur

Biology Faculty Publications

The vine Euonymus fortunei (Turcz.) Hand.-Mazz. is invading forests of the eastern United States; as a result, removal of E. fortunei has become a priority of resource managers. This study examined the effectiveness of five techniques for eliminating E. fortunei, restoring plant species richness, and enhancing recolonization by woody species. In 2003, the following five treatments were applied: burn with a propane torch, light exclusion by plastic tarp, burn and glyphosate application, cut (simulated grazing) and glyphosate application, mow and glyphosate application, plus an untreated control. Each treatment was replicated four times in a randomized block design located in …

Interactions Of A Captive Maturing Female Hamadryas Baboon, Jordyn Kessler, Janice L. Chism Ph.D.

The Winthrop McNair Research Bulletin

In the wild, hamadryas baboons (Papio hamadryas hamadryas) typically practice male philopatry, where females transfer out of natal units to avoid inbreeding (Swedell et al. 2011). However, little is known about hamadryas female transfer in captivity. In this study, we used focal animal sampling (Altmann 1974) to observe female transfer in a captive group comprised of two one-male units. The group includes a subadult female, whom we expected to transfer to the non-natal unit soon after reaching sexual maturity. We recorded the proximity between the subadult female and all other individuals, as well as affiliative and agonistic behavior …

Brain-Penetrating Histone Deacetylase Inhibitor Rg2833: A Potential Malignant Melanoma Growth Suppressor, Lauren A. Green, Matthew M. Stern

The Winthrop McNair Research Bulletin

Histone deacetylases (HDACs) play an important role in the epigenetic control of gene expression in both normal and cancer cells. Previous studies have demonstrated that pharmaceutical inhibition of HDACs can kill and/or suppress the growth of cancer cells. RG2833 is a HDAC inhibitor that targets specific HDACs known to be active in cancer cells. Melanoma cells have previously been shown to respond to HDAC inhibitors that are structurally similar to RG2833. We hypothesized that the inhibition of HDAC activity by RG2833 would result in the reduced growth and/or death of cells from the malignant melanoma cell lines SK-MEL-5 and SK-MEL-28. …