Biology Commons^™

A Metagenomic Study Of The Tick Midgut, Daniel T. Yuan

Dissertations and Theses (Open Access)

A Metagenomic Study of the Tick Midgut
Daniel Yuan, B.S.
Supervisory Professor : Steven J. Norris, Ph.D.
Southern tick–associated rash illness (STARI) or Master’s disease is a Lyme-like illness that occurs following bites by Amblyomma americanum, the lone-star tick. Clinical symptoms include a bull’s eye rash similar to the erythema migrans lesions of Lyme disease, as well as fever and joint pains. Lyme disease is caused by Borrelia burgdorferi and related spirochetes. However, B. burgdorferi has not been detected in STARI patients, or in ticks in the South Central U.S. The causative agent of STARI has not been identified, …

Modeling Sporadic Tumor Formation Driven By Telomere Dysfunction In The Gastrointestinal Tract, Suzanne S. Chan

Dissertations and Theses (Open Access)

Colorectal cancer is a complex disease that is thought to arise when cells accumulate mutations that allow for uncontrolled growth. There are several recognized mechanisms for generating such mutations in sporadic colon cancer; one of which is chromosomal instability (CIN). One hypothesized driver of CIN in cancer is the improper repair of dysfunctional telomeres. Telomeres comprise the linear ends of chromosomes and play a dual role in cancer. Its length is maintained by the ribonucleoprotein, telomerase, which is not a normally expressed in somatic cells and as cells divide, telomeres continuously shorten. Critically shortened telomeres are considered dysfunctional as they …

Meditation Acutely Improves Psychomotor Vigilance, And May Decrease Sleep Need, Prashant Kaul, Jason Passafiume, Craig R. Sargent, Bruce F. O'Hara

Biology Faculty Publications

BACKGROUND: A number of benefits from meditation have been claimed by those who practice various traditions, but few have been well tested in scientifically controlled studies. Among these claims are improved performance and decreased sleep need. Therefore, in these studies we assess whether meditation leads to an immediate performance improvement on a well validated psychomotor vigilance task (PVT), and second, whether longer bouts of meditation may alter sleep need.

METHODS: The primary study assessed PVT reaction times before and after 40 minute periods of mediation, nap, or a control activity using a within subject cross-over design. This study utilized novice …

Evolutionary Relationships In Afro-Malagasy Schefflera (Araliaceae) Based On Nuclear And Plastid Markers, Morgan Gostel

Theses and Dissertations

The genus Schefflera is the largest in Araliaceae, with approximately 900 species. Recent studies have shown that Schefflera is polyphyletic and represents no fewer than five distinct clades, each corresponding to a specific geographic region including Asia, continental Africa and Madagascar, Melanesia, the Neotropics, and a small clade distributed throughout several islands in the insular Pacific Ocean. The Afro-Malagasy clade contains nearly 50 species distributed throughout tropical, sub-Saharan Africa, Madagascar, the Comoros, and the Seychelles islands. Previous studies have suggested that this group is monophyletic, identifying two smaller subclades within Afro-Malagasy Schefflera corresponding roughly to informal groups identified as “Meiopanax” …

The Effects Of Hydrology And Vegetation On Microbial Community Structure And Soil Function In The Sediments Of Freshwater Wetlands, Christine Prasse

Theses and Dissertations

In wetland soils, hydrology is considered to be one of the primary factors shaping wetland function and microbial community structure, but plant-soil interactions are also important mechanisms affecting microbial nutrient transformations. The research presented here considered the interactive effect to describe how hydrology and the presence of plants alter the soil profile, the development of the bacterial community, and their associated functions. To achieve this goal, plots were established in three hydrologically-distinct regimes (Wet, Intermediate, and Dry) within a non-tidal freshwater wetland along the James River (Charles City County, Virginia). Inside each main plot, ten subplots were cleared of all …

Hnrnp A1 Interacts With The Genomic And Subgenomic Rna Promoters Of Sindbis Virus And Is Required For The Synthesis Of G And Sg Rna, Hongxing Gui, Chi Wei Lu, Sandra Adams, Victor Stollar, Mei Ling Li

Department of Biology Faculty Scholarship and Creative Works

Background. Sindbis virus (SV) is the prototype of alphaviruses which are a group of widely distributed human and animal pathogens. Heterogeneous nuclear ribonucleoprotein (hnRNP) A1 is an RNA-binding protein that shuttles between the nucleus and the cytoplasm. Our recent studies found that hnRNP A1 relocates from nucleus to cytoplasm in Sindbis virus (SV)-infected cells. hnRNP A1 binds to the 5' UTR of SV RNA and facilitates the viral RNA replication and translation. Methods. Making use of standard molecular techniques, virology methods and an in vitro system developed by our lab to assess the role of hnRNP A1 in SV positive …

Effects Of Alternative Prey As A Buffer To Predation Of Channel Catfish (Ictalurus Punctatus) By Largemouth Bass (Micropterus Salmoides), Shelley Nellis

Theses and Dissertations

Channel catfish have pectoral spines that lock to defend against gape-limited predators such as largemouth bass. Previous work indicated that spines increase survival of channel catfish exposed to bass but did not determine whether bass avoid catfish if less dangerous species are available. We presented bass with channel catfish and two alternatives, bluegill and goldfish, and compared order of ingestion, ingestion time, percent of successful strikes, and time spent chasing each prey species. We also presented the three species in a jar study that standardized position in the water column as well as in a net-pen study. The order of …

Barnacle Settlement And The Adhesion Of Protein And Diatom Microfouling To Xerogel Films With Varying Surface Energy And Water Wettability, John A. Finlay, Stephanie M. Bennett, Lenora H. Brewer, Anastasiya Sokolova, Gemma Clay, Nikhil Gunari, Anne E. Meyer, Gilbert C. Walker, Dean E. Wendt, Maureen E. Callow, James A. Callow, Michael R. Detty

Biological Sciences

Previous work has shown that organosilica-based xerogels have the potential to control biofouling. In this study, modifications of chemistry were investigated with respect to their resistance to marine slimes and to settlement of barnacle cyprids. Adhesion force measurements of bovine serum albumin (BSA)-coated atomic force microscopy (AFM) tips to xerogel surfaces prepared from aminopropylsilyl-, fluorocarbonsilyl-, and hydrocarbonsilyl-containing precursors, indicated that adhesion was significantly less on the xerogel surfaces in comparison to a poly(dimethylsiloxane) elastomer (PDMSE) standard. The strength of adhesion of BSA on the xerogels was highest on surfaces with the highest and the lowest critical surface tensions, gamma(C) and …

Plasticity In Cavitation Resistance And Mechanical Strength Of Stem Xylem In Heteromeles Arbutifolia, Adults Versus Post-Fire Resprouts, Iolana N. Kaneakua, B. A. Bergman, F. W. Ewers, S. D. Davis

Biology

Background/Questions/Methods

Many species of chaparral shrubs of California undergo vigorous resprout success after wildfire. We hypothesized that the water transport properties of resprouts, as well as their biomechanical strength would differ from adults. In addition, we hypothesized that irrigated and shaded resprouts would display reduced cavitation resistance and biomechanical strength in comparison to controls and adults. We tested these hypotheses by using a centrifuge method to compare the vulnerability of xylem to water stress induced cavitation. We used 50% loss in hydraulic conductivity due to water stress (PLC₅₀) as our estimate of vulnerability to cavitation. A Universal Materials …

The Role Of Multilevel Selection In The Evolution Of Sexual Conflict In The Water Strider Aquarius Remigis, Omar Tonsi Eldakar, David Sloan Wilson, Michael J. Dlugos, John W. Pepper

Biology Faculty Articles

In evolution, exploitative strategies often create a paradox in which the most successful individual strategy “within” the group is also the most detrimental strategy “for” the group, potentially resulting in extinction. With regard to sexual conflict, the overexploitation of females by harmful males can yield similar consequences. Despite these evolutionary implications, little research has addressed why sexual conflict does not ultimately drive populations to extinction. One possibility is that groups experiencing less sexual conflict are more productive than groups with greater conflict. However, most studies of sexual conflict are conducted in a single isolated group, disregarding the potential for selection …

Genomic Analysis Of Nematode-Environment Interaction, Bishwo Adhikari

Theses and Dissertations

The natural environments of organisms present a multitude of biotic and abiotic challenges that require both short-term ecological and long-term evolutionary responses. Though most environmental response studies have focused on effects at the ecosystem, community and organismal levels, the ultimate controls of these responses are located in the genome of the organism. Soil nematodes are highly responsive to, and display a wide variety of responses to changing environmental conditions, making them ideal models for the study of organismal interactions with their environment. In an attempt to examine responses to environmental stress (desiccation and freezing), genomic level analyses of gene expression …

Pharmacological And Genetic Reversal Of Age-Dependent Cognitive Deficits Attributable To Decreased Presenilin Function, S. M.J. Mcbride, C. H. Choi, B. P. Schoenfeld, A. J. Bell, D. A. Liebelt, D. Ferreiro, R. J. Choi, P. Hinchey, M. Kollaros, A. M. Terlizzi, N. J. Ferrick, E. Koenigsberg, R. L. Rudominer, A. Sumida, S. Chiorean, Kathleen King Siwicki, H. T. Nguyen, M. E. Fortini, T. V. Mcdonald, T. A. Jongens

Biology Faculty Works

Alzheimer's disease (AD) is the leading cause of cognitive loss and neurodegeneration in the developed world. Although its genetic and environmental causes are not generally known, familial forms of the disease (FAD) are attributable to mutations in a single copy of the Presenilin (PS) and amyloid precursor protein genes. The dominant inheritance pattern of FAD indicates that it may be attributable to gain or change of function mutations. Studies of FAD-linked forms of presenilin (psn) in model organisms, however, indicate that they are loss of function, leading to the possibility that a reduction in PS activity might contribute to FAD …

Factors Influencing The Abundance, Community Composition And Activity States Of Bacterioplankton From The Tidal Freshwater James River, Catherine Luria

Theses and Dissertations

Aquatic bacteria respond to changing environmental conditions through a variety of mechanisms including changes in abundance, shifts in community composition and variable activity states. In the tidal-freshwater James River, variation in bacterial abundance was linked to nutrient availability and autochthonous production with highest bacterial densities associated with low-nutrient, high-chlorophyll a conditions. Laboratory experiments revealed that bacterial growth rates were nutrient limited at the low-nutrient site, while co-limitation (nutrients, glucose, light) was apparent at the high nutrient site. Despite large differences in abundance, community composition was similar based on TRFLP and 16S rDNA pyrosequencing. Community similarity was lower among rRNA libraries …

Molecular Evolution Of Glutamine Synthetase Ii: Phylogenetic Evidence Of A Non-Endosymbiotic Gene Transfer Event Early In Plant Evolution, Sohini Ghoshroy, Manfred Binder, Aurélien Tartar, Deborah L. Robertson

Biology

Background. Glutamine synthetase (GS) is essential for ammonium assimilation and the biosynthesis of glutamine. The three GS gene families (GSI, GSII, and GSIII) are represented in both prokaryotic and eukaryotic organisms. In this study, we examined the evolutionary relationship of GSII from eubacterial and eukaryotic lineages and present robust phylogenetic evidence that GSII was transferred from -Proteobacteria (Eubacteria) to the Chloroplastida. Results. GSII sequences were isolated from four species of green algae (Trebouxiophyceae), and additional green algal (Chlorophyceae and Prasinophytae) and streptophyte (Charales, Desmidiales, Bryophyta, Marchantiophyta, Lycopodiophyta and Tracheophyta) sequences were obtained from public databases. In Bayesian and maximum likelihood …

Acute Responses To Estradiol Replacement In The Olfactory System Of Apoe-Deficient And Wild-Type Mice, Britto Nathan, Michael Tonsor, Robert Struble

Faculty Research & Creative Activity

Epidemiological studies suggest that estrogen therapy protects against clinical expression of chronic neurological diseases. These beneficial effects of estrogen therapy are highly modified by apolipoprotein E (apoE) through an unknown mechanism. We examined the short-term effects of estradiol replacement in ovariectomized mice on apoE expression and markers for cell proliferation, reactive gliosis, neuronal maturation, and synaptogenesis in the primary olfactory pathway of wild-type (WT) and apoE knockout (KO) mice. Three days of estradiol replacement increased apoE expression in the olfactory nerve and in the glomerular layer. Estradiol treatment also increased cell proliferation, total cell numbers, number of mature neurons in …

Acute Responses To Estradiol Replacement In The Olfactory System Of Apoe-Deficient And Wild-Type Mice, Britto P. Nathan, Michael Tonsor, Robert G. Struble

Faculty Research & Creative Activity

Epidemiological studies suggest that estrogen therapy protects against clinical expression of chronic neurological diseases. These beneficial effects of estrogen therapy are highly modified by apolipoprotein E (apoE) through an unknown mechanism. We examined the short-term effects of estradiol replacement in ovariectomized mice on apoE expression and markers for cell proliferation, reactive gliosis, neuronal maturation, and synaptogenesis in the primary olfactory pathway of wild-type (WT) and apoE knockout (KO) mice. Three days of estradiol replacement increased apoE expression in the olfactory nerve and in the glomerular layer. Estradiol treatment also increased cell proliferation, total cell numbers, number of mature neurons in …

A Correlation Of Teacher Understanding Of The Nature Of Science (Nos) With Student Understanding, David G. Kent

Theses and Dissertations

This is a study of how a teacher's understanding of the nature of science (NOS) correlates to student understanding of the nature of science. Participants are in semester long seventh grade science classes in a suburban school district. Seven strands of the nature of science were identified in the literature. Four strands were analyzed in this study. Teachers were ranked according to their understanding of the nature of science and compared to their corresponding students' average gain. There was no definitive pattern between the teacher's and corresponding students' gain. When broken down by strand, there still was no definitive pattern …

Investigation Of Potential Trapping Bias In Malaise Traps Due To Mesh Gauge, In Two Habitats, David Jensen Betts

Theses and Dissertations

Malaise traps are a common tool for collecting insects used by many researchers. Although there have been variations in the models and materials used for Malaise traps, the potential for sampling bias due to mesh gague has been explored inadequately. This study compared coarse and fine mesh Townes model Malaise traps in two habitats on the Grand Staircase-Escalante National Monument. The two habitats next to the Lick Wash trailhead were defined by dominant vegetation type – sagebrush and grasses or Piñon-Juniper. We collected from three sites per habitat type, over three consecutive days in June in both 2006 and 2007. …

Pcif1 Modulates Pdx1 Protein Stability And Pancreatic Β Cell Function And Survival In Mice, Kathryn C. Claiborn, Mira M. Sachdeva, Corey E. Cannon, David N. Groff, Jeffrey D. Singer, Doris A. Stoffers

Biology Faculty Publications and Presentations

The homeodomain transcription factor pancreatic duodenal homeobox 1 (Pdx1) is a major mediator of insulin transcription and a key regulator of the β cell phenotype. Heterozygous mutations in PDX1 are associated with the development of diabetes in humans. Understanding how Pdx1 expression levels are controlled is therefore of intense interest in the study and treatment of diabetes. Pdx1 C terminus–interacting factor-1 (Pcif1, also known as SPOP) is a nuclear protein that inhibits Pdx1 transactivation. Here, we show that Pcif1 targets Pdx1 for ubiquitination and proteasomal degradation. Silencing of Pcif1 increased Pdx1 protein levels in cultured mouse β cells, and Pcif1 …

Activated Rhoa Binds To The Pleckstrin Homology (Ph) Domain Of Pdz-Rhogef, A Potential Site For Autoregulation, Zhe Chen, Frank Medina, Mu-Ya Liu, Celestine Thomas, Stephen R. Sprang, Paul C. Sternweis

Biological Sciences Faculty Publications

Guanine nucleotide exchange factors (GEFs) catalyze exchange of GDP for GTP by stabilizing the nucleotide-free state of the small GTPases through their Dbl homology/pleckstrin homology (DH.PH) domains. Unconventionally, PDZ-RhoGEF (PRG), a member of the RGS-RhoGEFs, binds tightly to both nucleotide-free and activated RhoA (RhoA.GTP). We have characterized the interaction between PRG and activated RhoA and determined the structure of the PRG-DH.PH-RhoA.GTPgammaS (guanosine 5'-O-[gamma-thio]triphosphate) complex. The interface bears striking similarity to a GTPase-effector interface and involves the switch regions in RhoA and a hydrophobic patch in PRG-PH that is conserved among all Lbc RhoGEFs. The two surfaces that bind activated and …

Assessing Traditional Morphology- And Chemistry-Based Species Circumspections In Lichenized Ascomycetes: Character Evolution And Molecular Species Delimitation In Common Western North American Lichens, Steven Leavitt

Theses and Dissertations

Accurate species delimitation has critical implications for ecological and conservation studies; and for understanding factors driving diversification. However, a growing body of evidence indicates that morphology-based species circumspection in lichenized ascomycetes often fails to accurately represent the number of fungal species. The use of molecular data in lichen systematics provides an important alternative to traditional morphological characters for identifying natural groups and assessing evolutionary histories in challenging lichen taxa. In this work, I examined two common lichen-forming genera in western North America, Rhizoplaca and Xanthoparmelia, as models for investigating character evolution, species delimitation in morphologically and chemically diverse species, …

Landscape-Scale And Macrohabitat-Scale Variation In Growth And Survival Of Young June Sucker (Chasmistes Liorus) In Utah Lake, Joshua Daniel Kreitzer

Theses and Dissertations

The spatial scales at which ecological phenomena are viewed constrain the results of interactions between species and their environments. In lake ecosystems, important dynamics have been identified at the landscape scale and the macrohabitat scale. To determine if landscape-scale effects and macrohabitat-scale effects are important in survival and growth of young June suckers, we compared variation among sites in Utah Lake. Large semi-permeable cages were used to house June suckers in situ at five sites representing landscape-scale variation and two sites representing macrohabitat-scale variation in Utah Lake. We compared survival and growth among sites and related it to resource availability …

Grand Challenges In Comparative Physiology: Integration Across Disciplines And Across Levels Of Biological Organization, Donald L. Mykles, Cameron K. Galambor, Jonathon H. Stillman, Lars Tomanek

Biological Sciences

No abstract provided.

Effects Of Testosterone And Captivity On Medial And Dorsal Cortex Volumes And Neurogenesis In Adult Male Western Fence Lizards, Sceloporus Occidentalis, D. R. Pfau, S. Y. Potter, D. F. Denardo, E. N. Taylor, C. R. Strand

Biological Sciences

In lizards, the medial cortex and dorsal cortex are thought to be homologous to the hippocampus in birds and mammals, in that these regions are functionally involved with spatial memory and learning. In birds and mammals, neurogenesis continues into adulthood in these regions and is associated with ability of spatial memory tasks. Little is known about whether adult neurogenesis contributes to memory formation or spatial memory in lizards. In some lizards, territory size is correlated with testosterone (T) levels. If T affects these brain regions to help with spatial navigation, manipulating T levels may influence the medial or dorsal cortex …

Proteomic Analysis Of The Purple Sea Urchin, Strongylocentrotus Purpuratus, In Response To Acute Heat Stress, M. W. Webb, M. Devian, L. Tomanek

Biological Sciences

No abstract provided.

The Proteomic Response Of Mytilus Galloprovincialis And M. Trossulus To Acute Temperature Stress, Lars Tomanek, Marcus Zuzow

Biological Sciences

No abstract provided.

Nonspecific Phospholipase C Npc4 Promotes Responses To Abscisic Acid And Tolerance To Hyperosmotic Stress In Arabidopsis, Xuemin Wang, Carlotta Peters, Maoyin Li, Rama Narasimhan, Mary Roth, Ruth Welti

Biology Department Faculty Works

Diacyglycerol (DAG) is an important class of cellular lipid messengers, but its function in plants remains elusive. Here, we show that knockout of the Arabidopsis thaliana nonspecific phospholipase C (NPC4) results in a decrease in DAG levels and compromises plant response to abscisic acid (ABA) and hyperosmotic stresses. NPC4 hydrolyzes various phospholipids in a calcium-independent manner, producing DAG and a phosphorylated head group. NPC4 knockout (KO) plants display decreased ABA sensitivity in seed germination, root elongation, and stomatal movement and had decreased tolerance to high salinity and water deficiency. Overexpression of NPC4 renders plants more sensitive to ABA and more …

Rna Processing Of Nitrogenase Transcripts In The Cyanobacterium Anabaena Variabilis, Justin Ungerer, Brenda Pratte, Teresa Thiel

Biology Department Faculty Works

Little is known about the regulation of nitrogenase genes in cyanobacteria. Transcription of the nifH1 and vnfH genes, encoding dinitrogenase reductases for the heterocyst-specific Mo-nitrogenase and the alternative V-nitrogenase, respectively, was studied by using a lacZ reporter. Despite evidence for a transcription start site just upstream of nifH1 and vnfH, promoter fragments that included these start sites did not drive the transcription of lacZ and, for nifH1, did not drive the expression of nifHDK1. Further analysis using larger regions upstream of nifH1 indicated that a promoter within nifU1 and a promoter upstream of nifB1 both contributed to expression of nifHDK1, …

Elevated Levels Of Il-10 And G-Csf Associated With Asymptomatic Malaria In Pregnant Women, Winston Anderson

Department of Biology Faculty Publications

In sub-Saharan Africa, approximately 30 million pregnant women are at risk of contracting malaria annually. Nearly 36% of healthy pregnant women receiving routine antenatal care tested positive for Plasmodium falciparum HRP-II antigen in Ghana. We tested the hypothesis that asymptomatic HRP II positive pregnant women expressed a unique Th1 and Th2 phenotype that differs from healthy controls. Plasma from healthy (n = 15) and asymptomatic (n = 25) pregnant women were evaluated for 27 biomarkers (IL-1b, IL-1ra, IL-2, IL-4, IL-5, IL-6, IL-7, IL-8, IL-9, IL-10, IL-12, IL-13, IL-15, IL- 17, Eotaxin, bFGF-2, G-CSF, GM-CSF, IFN-gamma, IP-10, MCP-1, MIP-1alpha, MIP-1beta, PDGF-bb, …

Present Effects Of Past Wildfires On Leaf Litter Breakdown In Stream Ecosystems, Peter Koetsier, Teresa R. B. Krause, Quenton M. Tuckett

Biology Faculty Publications and Presentations

We investigated the present effects from a 10-year-old wildfire on leaf litter breakdown rates in 3 headwater streams in central Idaho. These systems experienced a massive debris flow one year after the fire. Based on soil instability and burn patterns, we identified 3 stream conditions: unburned, burned only, and burned/scoured. We placed leaf bags containing willow leaves (Salix sp.) in each stream type and removed bags at various time intervals until all bags were collected 100 days after their introduction. Leaf material was dried and weighed, and decay rate coefficients were calculated. Macroinvertebrates colonizing the bags were enumerated and identified, …