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Evaluating The Impact Of An Exotic Plant Invasion On Rodent Community Richness And Abundance, Trinity N. Smith, Eric M. Gese, Bryan M. Kluever

Wildland Resources Faculty Publications

Cheatgrass (Bromus tectorum), Russian thistle (Salsola kali), and tall tumblemustard (Sisymbrium altissimum) are nonnative plants widely distributed throughout the desert and shrubsteppe communities of the western United States. The impact of these invaders on plant community structure, form, and function has been well documented, but investigations determining the impacts of this cumulative invasion on terrestrial vertebrates have not been undertaken. Our objective was to assess community-level rodent responses to changes in plant community features, with an emphasis on dominance of invasive plant species. We sampled rodent and plant communities in the Great Basin Desert …

Landscape Genomics: Natural Selection Drives The Evolution Of Mitogenome In Penguins, Barbara Ramos, Daniel González-Acuña, David Loyola, Warren Johnson, Patricia Parker, Melanie Massaro, Gisele Dantas, Marcelo Miranda, Juliana Vianna

Biology Department Faculty Works

BackgroundMitochondria play a key role in the balance of energy and heat production, and therefore the mitochondrial genome is under natural selection by environmental temperature and food availability, since starvation can generate more efficient coupling of energy production. However, selection over mitochondrial DNA (mtDNA) genes has usually been evaluated at the population level. We sequenced by NGS 12 mitogenomes and with four published genomes, assessed genetic variation in ten penguin species distributed from the equator to Antarctica. Signatures of selection of 13 mitochondrial protein-coding genes were evaluated by comparing among species within and among genera (Spheniscus, Pygoscelis, Eudyptula, Eudyptes and …

Novel Role Of Histone Deacetylase 11 (Hdac11) In Regulating Normal And Malignant Hematopoiesis, Jie Chen

USF Tampa Graduate Theses and Dissertations

During hematopoiesis, multilineage progenitor cells and the precursors are committed to individual hematopoietic lineages. In normal myelopoiesis, the immature myeloid cells (IMCs) differentiate into macrophages, neutrophils or dendritic cells. However, under tumor burden, these IMCs differentiate into myeloid derived suppressor cells (MDSCs) result in an up-regulation of immune suppressive factors and pro-tumor effect. The development of normal or malignant is tightly controlled by endogenous signals such as transcription factors and epigenetic regulations. HDAC11 is the newest identified members of the histone deacetylase (HDAC) family. Previous study in our group had identified HDAC11 as a negative regulator of interleukin 10 (IL-10) …

Is There A Link Between Aging And Microbiome Diversity In Exceptional Mammalian Longevity?, Graham M. Hughes, John Leech, Sebastien J. Puechmaille, Jose V. Lopez, Emma C. Teeling

Biology Faculty Articles

A changing microbiome has been linked to biological aging in mice and humans, suggesting a possible role of gut flora in pathogenic aging phenotypes. Many bat species have exceptional longevity given their body size and some can live up to ten times longer than expected with little signs of aging. This study explores the anal microbiome of the exceptionally long-lived Myotis myotis bat, investigating bacterial composition in both adult and juvenile bats to determine if the microbiome changes with age in a wild, long-lived non-model organism, using non-lethal sampling. The anal microbiome was sequenced using metabarcoding in more than 50 …

Feeding Immunity: Physiological And Behavioral Responses To Infection And Resource Limitation, Sarah A. Budischak, Christina B. Hansen, Quentin Caudron, Romain Garnier, Tyler R. Kartzinel, István Pelczer, Clayton E. Cressler, Anieke Van Leeuwen, Andrea L. Graham

School of Biological Sciences: Faculty Publications

Resources are a core currency of species interactions and ecology in general (e.g., think of food webs or competition). Within parasite-infected hosts, resources are divided among the competing demands of host immunity and growth as well as parasite reproduction and growth. Effects of resources on immune responses are increasingly understood at the cellular level (e.g., metabolic predictors of effector function), but there has been limited consideration of how these effects scale up to affect individual energetic regimes (e.g., allocation trade-offs), susceptibility to infection, and feeding behavior (e.g., responses to local resource quality and quantity). We experimentally rewilded laboratory mice (strain …

Crosstalk Among Lncrnas, Micrornas And Mrnas In The Muscle ‘Degradome’ Of Rainbow Trout, Bam Paneru, Ali Ali, Rafet Al-Tobasei, Brett Kenney, Mohamed Salem

Faculty & Staff Scholarship

In fish, protein-coding and noncoding genes involved in muscle atrophy are not fully characterized. In this study, we characterized coding and noncoding genes involved in gonadogenesis-associated muscle atrophy, and investigated the potential functional interplay between these genes. Using RNA- Seq, we compared expression pattern of mRNAs, long noncoding RNAs (lncRNAs) and microRNAs of atrophying skeletal muscle from gravid females and control skeletal muscle from age-matched sterile individuals. A total of 852 mRNAs, 1,160 lncRNAs and 28 microRNAs were differentially expressed (DE) between the two groups. Muscle atrophy appears to be mediated by many genes encoding ubiquitin- proteasome system, autophagy related …

Ontogeny Of Juvenile Freshwater Pearl Mussels, Margaritifera Margaritifera (Bivalvia: Margaritiferidae), Louise Lavictoire, Andrew D. Ramsey, Evelyn A. Moorkens, Graham Souch, M. Christopher Barnhart

College of Natural and Applied Sciences

The gills of juvenile freshwater bivalves undergo a complex morphogenesis that may correlate with changes in feeding ecology, but ontogenic studies on juvenile mussels are rare. Scanning electron microscopy was used to examine the ultrastructure and ontogeny of 117 juvenile freshwater pearl mussels (Margaritifera margaritifera) ranging in age from 1-44 months and length from 0.49-8.90 mm. Three stages of gill development are described. In Stage 1 (5-9 inner demibranch filaments), only unreflected inner demibranch filaments were present. In Stage 2 (9-17 inner demibranch filaments), inner demibranch filaments began to reflect when shell length exceeded 1.13 mm, at 13-16 months old. …

Genome-Wide Association Analysis With A 50k Transcribed Gene Snp-Chip Identifies Qtl Affecting Muscle Yield In Rainbow Trout, Mohamed Salem, Rafet Al-Tobasei, Ali Ali, Daniela Lourenco, Guangtu Gao, Yniv Palti, Brett Kenney, Timothy D. Leeds

Faculty & Staff Scholarship

Detection of coding/functional SNPs that change the biological function of a gene may lead to identification of putative causative alleles within QTL regions and discovery of genetic markers with large effects on phenotypes. This study has two-fold objectives, first to develop, and validate a 50K transcribed gene SNP-chip using RNA-Seq data. To achieve this objective, two bioinformatics pipelines, GATK and SAMtools, were used to identify ∼21K transcribed SNPs with allelic imbalances associated with important aquaculture production traits including body weight, muscle yield, muscle fat content, shear force, and whiteness in addition to resistance/susceptibility to bacterial cold-water disease (BCWD). SNPs ere …

Integrated Analysis Of Lncrna And Mrna Expression In Rainbow Trout Families Showing Variation In Muscle Growth And Fillet Quality Traits, Ali Ali, Rafet Al-Tobasei, Brett Kenney, Timothy D. Leeds, Mohamed Salem

Faculty & Staff Scholarship

Muscle yield and quality traits are important for the aquaculture industry and consumers. Genetic selection for these traits is difficult because they are polygenic and result from multifactorial interactions. To study the genetic architecture of these traits, phenotypic characterization of whole body weight (WBW), muscle yield, fat content, shear force and whiteness were measured in ~500 fish representing 98 families from a growth-selected line. RNA-Seq was used to sequence the muscle transcriptome of different families exhibiting divergent phenotypes for each trait. We have identified 240 and 1,280 differentially expressed (DE) protein-coding genes and long noncoding RNAs (lncRNAs), respectively, in fish …

In Utero Gene Expression In The Slc39a8(Neo/Neo) Knockdown Mouse, Jing Chen, Marina Galvez-Peralta, Xiang Zhang, Jingyuan Deng, Zijuan Liu, Daniel W. Nebert

Faculty & Staff Scholarship

Slc39a8 encodes ZIP8, a divalent cation/bicarbonate symporter expressed in pluripotent mouse embryonic stem cells, and therefore ubiquitous in adult tissues; ZIP8 influxes Zn2+, Mn2+ and Fe2+. Slc39a8(neo/neo) knockdown mice exhibit 10–15% of wild-type ZIP8 mRNA and protein levels, and show pleiotropic phenotype of stunted growth, neonatal lethality, multi-organ dysmorphogenesis, and dysregulated hematopoiesis manifested as severe anemia. Herein we performed RNA-seq analysis of gestational day (GD)13.5 yolk sac and placenta, and GD16.5 liver, kidney, lung, heart and cerebellum,comparing Slc39a8(neo/neo) with Slc39a8(+/+) wild-type. Meta-data analysis of differentially- expressed genes revealed 29 unique genes from all tissues — having enriched GO categories associated …

Genetic Assessment Of Inbred Chicken Lines Indicates Genomic Signatures Of Resistance To Marek's Disease, Lingyang Xu, Yanghua He, George E. Liu, Huanmin Zhang, Hans H. Cheng, Robert L. Taylor Jr, Jiuzhou Song

Faculty & Staff Scholarship

Background: Marek’s disease (MD) is a highly contagious pathogenic and oncogenic disease primarily affecting chickens. However, the mechanisms of genetic resistance for MD are complex and not fully understood. MD-resistant line 63 and MD-susceptible line 72 are two highly inbred progenitor lines of White Leghorn. Recombinant Congenic Strains (RCS) were developed from these two lines, which show varied susceptibility to MD.

Results: We investigated genetic structure and genomic signatures across the genome, including the line 63 and line 72, six RCSs, and two reciprocally crossed flocks between the lines 63 and 72 (F1 63 × 72 and F1 72 × …

The Effects Of Maternal Caffeine Intake On A Fetus, Jennifer Kahan

The Science Journal of the Lander College of Arts and Sciences

The United States has been noted as the country with the greatest caffeine consumption in the world. More than half of all Americans are said to consume caffeine on a daily basis. Caffeine is easily available in a variety of dietary products including coffee, tea, soft drinks, and chocolate. Many pregnant women are unaware of the potential risk that excessive caffeine consumption can have on their unborn child. The purpose of this paper is to explore the ramifications of caffeine intake on a fetus. The studies reviewed propose that heavy maternal caffeine consumption, that of more than 300 mg daily, …

Mechanisms Of Surviving Burial: Dune Grass Interspecific Differences Drive Resource Allocation After Sand Deposition, Joseph K. Brown, Julie C. Zinnert

Biology Publications

Sand dunes are important geomorphic formations of coastal ecosystems that are critical in protecting human populations that live in coastal areas. Dune formation is driven by ecomorphodynamic interactions between vegetation and sediment deposition. While there has been extensive research on responses of dune grasses to sand burial, there is a knowledge gap in understanding mechanisms of acclimation between similar, coexistent, dune-building grasses such as Ammophila breviligulata (C₃), Spartina patens (C₄), and Uniola paniculata (C₄). Our goal was to determine how physiological mechanisms of acclimation to sand burial vary between species. We hypothesize that (1) …

Low-Impact Yoga Improves Flexibility, But Has No Effect On Heart Rate Variability In Sedentary Adult Women, Lauren Marie Shafer

Browse all Theses and Dissertations

Heart disease is the leading cause of death among adults in the United States and more than 600,000 people per year die when the condition goes untreated. Many cardiovascular maladies, such as high blood pressure and heart disease, can be markedly improved with lifestyle changes, including eating a healthy diet and regular exercise. In this study, 15 sedentary adult women (aged 19-63 years) participated in a prescribed 12-week yoga program. Electrocardiography was used to measure Heart Rate Variability, a tool that assesses autonomic tone on the heart. Autonomic nervous system activity is assessed at VLF, LF, and HF spectral components. …

Nutrient Conservation Trait Responses Of Low Resource Adapted Chaparral Shrubs To Increased Resource Availability, Reina Lee Nielsen

Masters Theses

Traits that increase mean nutrient retention times are essential to plant performance in low resource environments, where multiple stressors (low water and nutrients) are present. Although physiological responses to either water or nutrient stress are well understood, fewer studies have investigated the interaction of these stressors from a phylogenetically-controlled, whole-plant perspective. This research focused on three, phylogenetically-controlled pairs of shrubby evergreen species from the California chaparral that either grow on or off serpentine soils, which differ in nutrient availability. Using greenhouse and field studies, the responses of these plants to altered water and nutrient availability were evaluated. The greenhouse study …

Environmental Effects On Drosophila Brain Development And Learning, Xia Wang, Amei Amei, J. Steven De Belle, Stephen P. Roberts

Biological Sciences Faculty Research & Creative Works

Brain development and behavior are sensitive to a variety of environmental influences including social interactions and physicochemical stressors. Sensory input in situ is a mosaic of both enrichment and stress, yet little is known about how multiple environmental factors interact to affect brain anatomical structures, circuits and cognitive function. In this study, we addressed these issues by testing the individual and combined effects of sub-adult thermal stress, larval density and early-adult living spatial enrichment on brain anatomy and olfactory associative learning in adult Drosophila melanogaster. In response to heat stress, the mushroom bodies (MBs) were the most volumetrically impaired among …

Investigating The Effects Of Antibiotics Perturbation On Lactobacillus Species Metabolomics Profiles, Sophia Lee, Kundi Yang, Jiangjiang (Chris) Zhu

Summer Research

Our gut microbiota contains a vast array of cells that influence human physiology, metabolism, nutrition and immune function. Lactobacillus is a group of Gram-positive, lactic acid bacteria that is naturally present in the human gastrointestinal tract. Some species are probiotics that provide beneficial health effects to humans. Many studies have investigated and noted their various health benefits to their human host, including prevention of certain diseases such as colon cancer, breaking down of food, and absorption of nutrients. Maintaining the balance of our normal flora is essential - even small perturbations to the microbiota can have significant health effects. It …

The Association Between Type Of Fat And The Risk Of Developing Cardiovascular Diseases, Dovid Leib Glassner

The Science Journal of the Lander College of Arts and Sciences

Objective: To determine the significance of various types of dietary fat in the progression of atherosclerosis leading to heart disease. Methods: Study inclusion criteria constituted relevance to the discussion topic and peer reviewed literature. Age of the published material was taken into account as well, with greater preference being given to more recent research as the topic of nutrition and its relation to chronic disease remains an emerging science. Results: This research review found an overall significant relationship between the type (monounsaturated, polyunsaturated, saturated and trans-fat) of dietary fat intake and the incidence of cardiovascular disease. While earlier research identified …

Lifelines Winter 2018, Southern Adventist University

Lifelines - Biology Department Newsletter

The Winter 2018 issue of Lifelines features articles on student missions in Peru, an alumni spotlight, and a pictorial directory of the 2018 biology and allied health graduates.

A Multi-Domain Approach To Prevention And Reversal Of Cognitive Decline, Chanah Oberlander

The Science Journal of the Lander College of Arts and Sciences

Incidence of dementia has been on the rise over the last few decades and it is projected that more than 130 million people will be affected by dementia worldwide by 2050. The underlying cause remains incompletely determined, and despite numerous clinical trials, no drug to date has proven effective in preventing or reversing symptoms of cognitive decline due to Alzheimer’s disease. The amyloid hypothesis as a basis for drug development of Alzheimer’s disease has thus far proven to be ineffective, suggesting that perhaps a new approach is required. New studies have shown the efficacy of a multi-domain approach which targets …

Energetic Consequences For A Northern, Range-Edge Lizard Population, Sean D. Powers, Matthew R. Mcternan, Donald R. Powers, Roger A. Anderson

Faculty Publications - Department of Biological & Molecular Science

Lizards at the northern, cool edge of their geographic range in the northern hemisphere should encounter environmental conditions that differ from those living near the core of their range. To better understand how modest climate differences affect lizard energetics, we compared daily feeding and metabolism rates of individual Sceloporus occidentalis in two populations during mid-summer. Chuckanut Beach (CB) was a cool, maritime climate in northern Washington State, and Sondino Ranch (SR) was a warmer, drier climate in southern, inland Washington. We found no difference between populations in daily energy expenditure (DEE), as calculated from doubly labeled water estimates. The CB …

Analysis Of The Transcription Factors Expressed In The Mature Seed Embryos Of Moringa Oleifera Lam. Using Rna-Sequencing And De Novo Transcriptome Assembly, Vivian A. Panes, R.D Baoas

Biology Faculty Publications

Moringa oleifera Lam. is well known for its numerous documented properties, particularly its significant applications in nutrition, therapeutics, biocontrol, energy, and bioremediation. These properties are the consequences of the vibrant physiological processes of the plant in the context of the ever-changing biotic and abiotic factors, in which transcription factors play substantial roles. Transcription factors (TFs) are the regulators of gene expression. Transcription factors enable the activation or repression of transcription. Along with the advent of ultrahighthroughput sequencing technologies such as RNA sequencing (RNA-Seq), in combination with bioinformatics techniques, the investigation of the TFs of M. oleifera was made possible. This …

Increasing Alligator Snapping Turtle Head-Starting Success Through Housing Enrichment And Inoculation Of Hatchlings With Digestive Microbiota, Kristen Erin Sardina

Graduate Theses/Dissertations

Due to historic overharvest and habitat degradation, the alligator snapping turtle (Macrochelys temminckii) has experienced population declines throughout its range. Tishomingo National Fish Hatchery in southern Oklahoma began a captive head-start program for this species in 2000 and has since released over 1,400 turtles in the region. However, there has been a recurring trend of turtles growing faster after release than while in captivity. My research sought to investigate this pattern by determining: 1) the influence of housing enrichment and housing density on juvenile growth rates and stress in indoor enclosures, and 2) the effects of supplementing hatchlings …

The Effect Of The Konjac1 And Konjac2 Proteins On Gdp-Glucose Pyrophosphorylase Activity Of Vtc1, Hafsah Jamil

Senior Honors Theses and Projects

Vitamin C Defective l (VTC I) is the major pyrophosphorylase involved in guanosine diphosphomannose (GDP-mannose) biosynthesis in the plantArabidopsis thaliana and it catalyzes the conversion of mannose I-phosphate and guanosine triphosphate (GTP) to GDP-mannose and pyrophosphate (PPi). The GDP-mannose pyrophosphorylase (GMPPase) activity of VTCI is enhanced by the proteins KONJACI (KJCI) and KONJAC2 (KJC2), which are homologs ofVTCl. The purpose of this study was to analyze the effect of the KJC proteins on the GDP-glucose pyrophosphorylase (GGPPase) activity of VTCl. We hypothesized that the GGPPase activity of VTCl may also be enhanced due to interactions with KJCI and/or KJC2 due …

Evaluation Of Dietary Phytochemicals As Rumen Modifiers In Lactating Dairy Cows, Sonia Rodriguez Jimenez

Electronic Theses and Dissertations

Phytochemicals such as tannins included in dairy cow nutritional programs, as a natural feed additive, promise to improve rumen bypass protein and consequently reduce the feeding cost by decreasing the amount of CP needed in the ration. Additionally, if tannins are fed along with high quality protein sources, this could improve the AA profile reaching the small intestine and potentially improving health and performance of dairy cows. The black pepper, specifically its alkaloid piperine, is a nontoxic, natural dietary compound with a broad range of physiological activity. Lactating dairy cows ingesting these phytochemicals (tannin extracts and black pepper) will potentially …

Evolutionary History Of Plant Hosts And Fungal Symbionts Predicts The Strength Of Mycorrhizal Mutualism, Jason D. Hoeksema, James D. Beaver, Sounak Chakraborty, V. Bala Chaudhary, Monique Gardes, Catherine A. Gehring, Miranda M. Hart, Elizabeth Ann Housworth, Wittaya Kaonongbua, John N. Klironomos, Marc J. Lajeunesse, James Meadow, Brook G. Milligan, Bridget J. Piculell, Anne Pringle, Megan A. Rúa, James Umbanhowar, Wolfgang Viechtbauer, Yen-Wen Wang, Gail W.T. Wilson, Peter C. Zee

Biological Sciences Faculty Publications

Most plants engage in symbioses with mycorrhizal fungi in soils and net consequences for plants vary widely from mutualism to parasitism. However, we lack a synthetic understanding of the evolutionary and ecological forces driving such variation for this or any other nutritional symbiosis. We used meta-analysis across 646 combinations of plants and fungi to show that evolutionary history explains substantially more variation in plant responses to mycorrhizal fungi than the ecological factors included in this study, such as nutrient fertilization and additional microbes. Evolutionary history also has a different influence on outcomes of ectomycorrhizal versus arbuscular mycorrhizal symbioses; the former …

Abundance Of Methanosaeta Concilii-Like Species In The Sediment Of Ledbetter Creek Embayment Of Kentucky Lake, Juanita Von Dwingelo

Murray State Theses and Dissertations

Reservoirs, including Kentucky Lake, are unique in that they do not follow a natural cycle of rising during the rainy seasons and dropping during the dry summers. The lake is manipulated, mainly for flood control and transportation, so that the water level is increased during the summer months and decreased during the winter months. This manipulation leaves the littoral sediment of the lake submerged in the summer and exposed in the winter. The seasonal water level, along with other factors, like farming practices in the watershed, contributes to the availability of nutrients for organisms inhabiting the sediment of the lake. …

Investigating The Effects Of Homocysteine As An Agonist On Invertebrate Glutamatergic Synapses, Elizabeth Grau, Alexandra E. Stanback, Alec Bradley, Danielle Cantrell, Samantha Eversole, Carolyn Grachen, Kaylee Hall, Danielle Hawthorne, Claire Kinmon, Paula Ortiz Guerrero, Bhavik Patel, Kaitlyn Samuels, Chinni Suryadevara, Gia Valdes, Samuel Wycoff, Robin L. Cooper

Biology Faculty Publications

Hyperhomocysteinemia (HHcy) in mammals can produce neurological deficits, such as memory loss. The cause of the neurological issues is assumed to be due to homocysteine (HCY) binding to glutamatergic receptors in the central nervous system (CNS). High levels of HCY in the CNS are also associated with Amyotrophic Lateral Sclerosis (ALS) and Parkinson’s disease. Thus, understanding the detailed mechanisms of HCY in model preparations could be useful in developing potential treatments to neurodegenerative diseases with overlapping symptoms to HHcy. The aim of this study is to investigate the efficacy of HCY as an agonist at glutamatergic synapses in invertebrates. The …

The Holobiont With Its Hologenome Is A Level Of Selection In Evolution, Scott F. Gilbert, E. Rosenberg, I. Zilber-Rosenberg

Biology Faculty Works

No abstract provided.

The Role Of Genomic Versatility In Multi-Niche Preferences Of Escherichia Coli, Gitanjali Nandakafle

Electronic Theses and Dissertations

Escherichia coli strains are naturally present as either commensals or pathogens in the gastrointestinal tract of mammals and some other vertebrates. Until recently, it was assumed that E. coli are solely associated with the gut and are unable to survive outside of a host for a long period of time, the basis of its use as an indicator organism. Recent reports suggest that E. coli can become naturalized to several tropical, subtropical or temperate soils and aquatic environments, where they have been isolated repeatedly. Several studies have shown that these strains are capable of surviving and proliferating in the environment …