Biology Commons^™

The Manhattant: Identification, Natural History, And Nutritional Ecology Of A Recently Introduced Pest In New York City, Lasius Emarginatus (Hymenoptera: Formicidae), Samantha Kennett

Master of Science in Integrative Biology Theses

New York City is one of the oldest and largest cities in North America, and it is a center for global trade and shipping. As such, it has also been the site of introduction for some of North America’s most damaging invasive pests, from chestnut blight to the Asian long-horned beetle. Despite these cautionary examples, there has been no formal research on a newly introduced ant species that was tentatively identified as a European ant species, Lasius cf. emarginatus. Since its discovery in 2011, L. cf. emarginatus has become among the most common urban ant species in New York …

Investigating The Sequence Landscape In The Drosophila Initiator Core Promoter Element Using An Enhanced Marz Algorithm, Jacqueline Dresch, Regan D. Conrad, Daniel Klonaros, Robert Drewell

Biology

The core promoter elements are important DNA sequences for the regulation of RNA polymerase II transcription in eukaryotic cells. Despite the broad evolutionary conservation of these elements, there is extensive variation in the nucleotide composition of the actual sequences. In this study, we aim to improve our understanding of the complexity of this sequence variation in the TATA box and initiator core promoter elements in Drosophila melanogaster. Using computational approaches, including an enhanced version of our previously developed MARZ algorithm that utilizes gapped nucleotide matrices, several sequence landscape features are uncovered, including an interdependency between the nucleotides in position 2 …

Examination Of Microplastics And Organic Contaminants In Tampa Bay’S Eastern Oyster (Crassostrea Virginica) Through Visual And Chemical Analysis, Andrea Murray

USF Tampa Graduate Theses and Dissertations

Microplastic pollution is an increasingly alarming concern with widespread global distribution in aquatic environments. Filter feeding organisms such as bivalves, have a heightened risk of microplastic ingestion through free floating particulates in the water. This can lead to bioaccumulation moving up through trophic levels to apex predators and humans. Spatial and temporal differences in microplastic abundance were evaluated in the Eastern Oyster, Crassostrea virginica, at six sites within Tampa Bay. Oyster tissue was digested using 30% hydrogen peroxide (H2O2) and microplastics were quantified using Nile Red dye and fluorescent particle excitement. A total of 3025 microplastics were found throughout six …

Acarosporaceae Of New Mexico: Eight New Species Of Acarospora And Sarcogyne, Kerry Knudsen, Jana Kocourková, Eva Hodková, Jiří Malíček, Yan Wang

Western North American Naturalist

Eight new species are described from the Chihuahuan Desert in southern New Mexico: Acarospora agos­tiniana, A. divisa, A. fissurata, A. ryanii, Sarcogyne brouardiana, S. coeruleonigricans, S. malpaiensis, and S. nogalensis. Three species, Acarospora coloradiana, A. peltastica, and A. utahensis are not treated as synonyms of A. strigata, a South American endemic. Thirty-four species of Acarosporaceae are reported from the Chihuahuan Desert in southern New Mexico. Fifty-six species of Acarosporaceae are reported from New Mexico. It is estimated that 416 species of described Acarosporales occur worldwide, most in need of revisions. …

Cytotoxic Activity Of Salvia Officinalis Extract Mediated By The Inhibition Of Jak2 In Breast Cancer, Salma Alawadi Dawood

Theses and Dissertations

Background: Breast cancer is the most common type of invasive cancer in women in their forties and fifties. Recent evidence suggests that JAK2/STAT3 signaling is constitutively active in breast cancer. Previous studies suggest that plant extracts, including Salvia Officinalis, have strong cytotoxic effects on breast cancer cells. The differential expression of miRNAs is also strongly linked to cancer development.

Aim: In the current study, we hypothesize that S. Officinalis extract suppresses JAK2 expression and has strong anticancer potential in MCF7 breast cancer cell lines.

Methods: GC-MS analysis showed the presence of flavonoids in dried leaf of …

Nutrient-Rich Submarine Groundwater Discharge Increases Algal Carbon Uptake In A Tropical Reef Ecosystem, Florybeth Flores La Valle, Julian M. Jacobs, Florence I. Thomas, Craig E. Nelson

All Faculty Open Access Publications

Submarine groundwater discharge (SGD) in high volcanic islands can be an important source of freshwater and nutrients to coral reefs. High inorganic nutrient content is generally thought to augment primary production in coastal systems but when this is delivered via a freshwater vector as is the case with SGD in this study, the effects on productivity are unclear. In the current literature, there is limited evidence for a direct association between SGD and primary productivity of reefs. To elucidate the response of primary productivity to SGD, we conducted spatially and temporally explicit in situ benthic chamber experiments on a reef …

It Pays To Be Bumpy: Drag Reducing Armor In The Pacific Spiny Lumpsucker, Eumicrotremus Orbis, R. C. Hoover, Olivia H. Hawkins, Jack Rosen, Conrad D. Wilson, Callie H. Crawford, Meghan Holst, Jonathan M. Huie, Adam P. Summers, Cassandra M. Donatelli, Karly E. Cohen

Engineering Faculty Articles and Research

Armor is a multipurpose set of structures that has evolved independently at least 30 times in fishes. In addition to providing protection, armor can manipulate flow, increase camouflage, and be sexually dimorphic. There are potential tradeoffs in armor function: increased impact resistance may come at the cost of maneuvering ability; and ornate armor may offer visual or protective advantages, but could incur excess drag. Pacific spiny lumpsuckers (Eumicrotremus orbis) are covered in rows of odontic, cone-shaped armor whorls, protecting the fish from wave driven impacts and the threat of predation. We are interested in measuring the effects of …

Pleurotus Spp. As Agents Of Mycoremediation: A Review, Colin Innes

University Honors Theses

Elemental and molecular contaminants of anthropogenic origin represent an increasing threat to virtually all terrestrial and aquatic environments as well as their surrounding atmosphere. The decontamination and restoration of these environments pose a significant and expensive challenge. Although chemical treatment or physical removal of contaminated substrates often is the most direct response to eliminate contaminants, due to the complexity and sensitivity of many natural systems, technologies involving biological remediation can provide viable alternatives. While plant, bacterial, and fungal organisms have the abilities to accumulate or to metabolize toxic compounds, fungal organisms are uniquely suited to do so. Their fast growth …

Evaluating Sport Fish Use Of Natural And Introduced Habitats In Nebraska Reservoirs, William Michael Schriener

Biology Theses, Dissertations, and Student Creative Activity

Reservoirs are often limited in habitat, and many habitats can be lost through natural decomposition, sedimentation, and as reservoir water elevations changes as reservoirs age. Aquatic managers recognize the importance of maintaining habitat in reservoirs and habitat augmentation projects are common. However, this study was designed to improve understanding surrounding the placement and use of added structures by exploring the following objectives: 1) Quantify the availability of different habitats and how that availability changes under different reservoir elevations; 2) Compare fish assemblages around different habitats; 3) Compare sportfish relative abundance and total lengths between habitats; of Harlan County Reservoir, and …

Periodically Disturbing Biofilms Reduces Expression Of Quorum Sensing-Regulated Virulence Factors In Pseudomonas Aeruginosa, Laura Garcia-Dieguez, Gabriela Diaz-Tang, Estefania Marin Meneses, Vanessa Cruise, Ivana M. Barraza, Travis J.A. Craddock, Robert P. Smith

Biology Faculty Articles

Pseudomonas aeruginosa uses quorum sensing to regulate the expression of virulence factors. In static environments, spatial structures, such as biofilms, can increase the expression of these virulence factors. However, in natural settings, biofilms are exposed to physical forces that disrupt spatial structure, which may affect the expression of virulence factors regulated by quorum sensing. We show that periodically disturbing biofilms composed of P. aeruginosa using a physical force reduces the expression of quorum sensing-regulated virulence factors. At an intermediate disturbance frequency, the expression of virulence factors in the las, rhl, and pqs regulons is reduced. Mathematical modeling suggests that perturbation …

Alternatives To Antibiotics In Veterinary Medicine: Considerations For The Management Of Johne's Disease, Laura M. O'Connell, Aidan Coffey, Jim O'Mahony

Dept. of Biological Sciences Preprints

Antibiotic resistance has become a major health concern globally, with current predictions expecting deaths related to resistant infections to surpass those of cancer by 2050. Major efforts are being undertaken to develop derivative and novel alternatives to current antibiotic therapies in human medicine. What appears to be lacking however, are similar efforts into researching the application of those alternatives, such as (bacterio)phage therapy, in veterinary contexts. Agriculture is still undoubtedly the most prominent consumer of antibiotics, with up to 70 % of annual antibiotic usage attributed to this sector, despite policies to reduce their use in food animals. This not …

Unlocking Complex Soil Systems As Carbon Sinks: Multi-Pool Management As The Key, Gerrit Angst, Kevin E. Mueller, Michael J. Castellano, Cordula Vogel, Martin Wiesmeier, Carsten W. Mueller

Biological, Geological, and Environmental Faculty Publications

Much research focuses on increasing carbon storage in mineral-associated organic matter (MAOM), in which carbon may persist for centuries to millennia. However, MAOM-targeted management is insufficient because the formation pathways of persistent soil organic matter are diverse and vary with environmental conditions. Effective management must also consider particulate organic matter (POM). In many soils, there is potential for enlarging POM pools, POM can persist over long time scales, and POM can be a direct precursor of MAOM. We present a framework for context-dependent management strategies that recognizes soils as complex systems in which environmental conditions constrain POM and MAOM formation.

The Mayfly Newsletter, Donna Giberson

The Mayfly Newsletter

The Mayfly Newsletter is the official newsletter of the Permanent Committee of the International Conferences on Ephemeroptera.

Variability In Billfish Vertical Distribution And Fishing Interactions Driven By Environmental Conditions In The Eastern Tropical Pacific Ocean, H. E. Blondin, D. E. Haulsee, Ryan Logan, Mahmood Shivji, E. R. Hoffmayer, J. H. Walker, J. M. Dean, E. L. Hazen, L. B. Crowder

Biology Faculty Articles

Blue marlin (Makaira nigricans) and sailfish (Istiophorus platypterus) are ecologically important predators and valuable species throughout the world’s recreational, commercial, and subsistence fisheries. Comparing multi-species vertical habitat use can inform ecological uncertainties such as inter-species competition, as well as relative vulnerabilities to fishing activities. In this study, we identified key differences in both depth use and which environmental variables drive these selections, which highlights the variability in the catchability both as target species in recreational fisheries and bycatch in commercial fisheries. To understand these two species’ vertical habitat use, we examined depth profiles from 26 sailfish …

Atomistic Assessment Of Drug-Phospholipid Interactions Consequent To Cancer Treatment: A Study Of Anthracycline Cardiotoxicity, Yara Elsayed Ahmed

Theses and Dissertations

Despite being one of the most effective chemotherapeutic agents developed to date, Anthracyclines are notorious for their cardiotoxicity. Their clinical use is frequently limited both in dosage and in prescription due to the severe cardiac damage they cause. The mechanism of anthracycline-induced cardiotoxicity is not yet fully understood. However, it is hypothesized that interactions with the myocardial membrane play an important role in imparting cardiotoxicity. In this study, we use molecular dynamics simulations and density functional theory calculations to study the anthracycline drug molecules and the interactions that they have with the myocardial membrane. We construct a myocardial membrane model …

The Digitization Of Eatonia, Peter M. Grant

Faculty Articles & Research

The June 2023 issue of The Mayfly Newsletter features this article written by Dr. Peter Grant about the digitization of Eatonia by SWOSU University Archivist and Special Collections Librarian, Phillip Fitzsimmons, and Digitization Technician, Ben Dressler.

Cry1 Expression During Postnatal Development Is Critical For The Establishment Of Normal Circadian Period, Aaron Schirmer, Vivek Kumar, Andrew Schook, Eun Joo Song, Michael S. Marshall, Joseph S. Takahashi

Biology Faculty Publications

The mammalian circadian system generates an approximate 24-h rhythm through a complex autoregulatory feedback loop. Four genes, Period1 (Per1), Period2 (Per2), Cryptochrome1 (Cry1), and Cryptochrome2 (Cry2), regulate the negative feedback within this loop. Although these proteins have distinct roles within the core circadian mechanism, their individual functions are poorly understood. Here, we used a tetracycline trans-activator system (tTA) to examine the role of transcriptional oscillations in Cry1 and Cry2 in the persistence of circadian activity rhythms. We demonstrate that rhythmic Cry1 expression is an important regulator of circadian period. We then define a critical period from birth to postnatal day …

The Polycomb Complex 2 Contributes To Developmental Delay When Histone Methylation Is Inappropriately Inherited, Sydney Morgan- Benitez

Master of Science in Integrative Biology Theses

Histone methylation is a post-transcriptional modification to the N-terminal tails of histone core proteins that regulates DNA accessibility, and consequently, gene expression. Like DNA, histone methylation can be inherited between generations, and is highly regulated during embryonic development. At fertilization, histone methylation must undergo maternal reprogramming to reset the epigenetic landscape in the new zygote. During maternal reprogramming of histone methylation in C. elegans, H3K4me is removed by the H3K4 demethylase, SPR-5, and H3K9me is subsequently added by the histone methyltransferase, MET-2. Recently, it was demonstrated that SPR- 5 and MET-2 maternal reprogramming antagonizes the H3K36 methyltransferase, MES-4, which …

Bio 013: Writing In The Sciences - Human Origins, Esther Muehlbauer

Open Educational Resources

Bio. 013: Writing in the Sciences - Human Origins is an OER syllabus for a College Writing 2 course that develops student writing for different audiences, following the trajectory of how scientists work: Scientists Writing for themselves (a field journal); Scientists writing for other scientists (a review article); Scientists writing for society (an essay for Natural History Magazine).

A Remote Sensing Approach To Assess The Historical Invasion Of Phragmites Australis In A Brackish Coastal Marsh, Jason S. Hagani, John Y. Takekawa, Steven C. Chappell, Richelle L. Tanner, Adrienne R. Ernst, Karin M. Kettenring

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Introduction: Coastal estuarine wetlands provide important habitats for a variety of endemic flora and fauna but are particularly vulnerable to biological invasions. Regular monitoring of changes in these vulnerable wetlands has become increasingly important for effective management, especially considering threats from climate change effects and human disturbance. Historical analyzes of plant invasions may guide targeted management strategies to eradicate harmful species. Estimating the distribution of invasive species has never been more accessible with the improved availability of high-resolution data and innovations in remote sensing, estimating the distribution of invasive species has never been more accessible.

Methods: We assessed the spread …

Measuring The Physiological Effects Of Methylobacterium Oryzae Foliar Inoculation Onto Salt-Stressed Tomatoes Grown In A Greenhouse Semi-Hydroponic System, Collin Dice

Master of Science in Integrative Biology Theses

Salinity stress has been shown to improve hydroponic produce quality such as that of tomato but at the trade-off of produce yield. In order to improve demand for hydroponic produce, techniques that improve salinity tolerance could offset declines in yield without altering the improved quality of produce. In two separate trials, we tested whether foliar inoculation of the ACC deaminase-producing bacteria Methylobacterium oryzae CBMB20 improved salt tolerance in tomatoes grown in a semi-hydroponic system using an indeterminate variety exposed to 26mM NaCl (Trial 1) and a determinate variety exposed to 17mM NaCl (Trial 2). We also tested how salinity and …

Dissolved Algal Toxins Along The Southern Coast Of British Columbia Canada, Ryan B. Shartau, Lenora D.M. Turcotte, Julia C. Bradshaw, Andrew R.S. Ross, Blair D. Surridge, Nina Nemcek, Stewart C. Johnson

Biology Faculty Publications and Presentations

Harmful algal blooms (HABs) in coastal British Columbia (BC), Canada, negatively impact the salmon aquaculture industry. One disease of interest to salmon aquaculture is Net Pen Liver Disease (NPLD), which induces severe liver damage and is believed to be caused by the exposure to microcystins (MCs). To address the lack of information about algal toxins in BC marine environments and the risk they pose, this study investigated the presence of MCs and other toxins at aquaculture sites. Sampling was carried out using discrete water samples and Solid Phase Adsorption Toxin Tracking (SPATT) samplers from 2017–2019. All 283 SPATT samples and …

Spatiotemporal Dynamics Of Ticks And Tick-Borne Disease At Neon Sites Across A Sub-Continental Scale, Ana Sofia Rivera

College of Science and Health Theses and Dissertations

Tick-borne diseases in humans such as Lyme disease cases in the United States have doubled between 2004 and 2016. Understanding the dynamics of infectious diseases has long been of interest for ecologists. Tick and tick-borne diseases are influenced by temperature and precipitation at local scales, indirectly through mast seeding in forest trees which increases the abundance of tick hosts (e.g., small mammals), as well as direct effects on survival. Most tick studies occur at local scales that comprise only a small part of their range. The aim of my thesis is to characterize spatiotemporal dynamics of ticks and tick-borne diseases …

Vertebrate Animal Behaviors And Abundances On Estuarine Shorelines Stabilized With Biodegradable Materials Utilizing Wildlife Cameras, Katherine Guise

The Pegasus Review: UCF Undergraduate Research Journal

Living shoreline stabilization is a restoration technique that utilizes natural materials as breakwaters, plus vegetation landward of the breakwaters, to protect coastlines. This research does not provide information about how new, biodegradable restoration materials affect vertebrates that utilize these shorelines. For this project, I monitored 18 restoration sites along Canaveral National Seashore with wildlife trail cameras: 3 made with cement-infused jute breakwaters, 3 with metal gabion oyster shell breakwaters, and 4 with previously used breakwaters manufactured from plastic mesh oyster shell bags. This project used 4 sites as positive controls (intact vegetation) and 4 as negative controls (highly eroded, no …

Relative Genetic Homogeneity Within A Phenotypically Diverse Group; A Case Of The Lake Tana Labeobarbus (Cyprinidae) Species Flock, Ethiopia, Kebede Beshera

Faculty Publications

The Lake Tana Labeobarbus species flock represents one of the world’s most famous examples of lacustrine species radiations. Previous studies of this group have resulted in the description of at least 15 species based on their differences in functional morphology and definition of two clades (lacustrine and riverine spawning clades) based on life history traits. A total of 166 fish representing 14 Labeobarbus species were genotyped using 10 lineage-specific hexaploid microsatellite loci. Six of these loci were developed for this study based on DNA sequence contigs derived from a microsatellite-enriched genomic library of Labeobarbus intermedius from Lake Tana; the remaining …

The City Blues Of An Iridescent Canary: Physiological, Behavioral, And Developmental Impacts Of Lead (Pb) On Songbirds Along An Urban-To-Rural Gradient, Michelle Ross

Master of Science in Integrative Biology Theses

Urbanization is rapidly changing the environment and creating new challenges in the lives of animals across the globe. Anthropogenic contaminants found commonly in old construction materials—including heavy metals like lead— persist within the environment for prolonged periods of time and present a widespread problem for all who live near contaminated areas. Despite the phase-out of lead usage, it continues to threaten the health of all organisms but especially those from urban areas where historical lead use was more common. Currently, the sub-lethal effects of lead on wildlife are not well understood, though lead is known to affect physiology and behavior …

Essential And Recurrent Roles For Hairpin Rnas In Silencing De Novo Sex Chromosome Conflict In Drosophila Simulans, Jeffrey Vedanayagam, Marion Herbette, Holly Mudgett, Ching-Jung Lin, Chun- Ming Lai, Caitlin Mcdonough-Goldstein, Stephen Dorus, Benjamin Loppin, Colin D. Meiklejohn, Raphaëlle Dubruille, Eric C. Lai

School of Biological Sciences: Faculty Publications

Meiotic drive loci distort the normally equal segregation of alleles, which benefits their own transmission even in the face of severe fitness costs to their host organism. However, relatively little is known about the molecular identity of meiotic drivers, their strategies of action, and mechanisms that can suppress their activity. Here, we present data from the fruitfly Drosophila simulans that address these questions. We show that a family of de novo, protamine- derived X-linked selfish genes (the Dox gene family) is silenced by a pair of newly emerged hairpin RNA (hpRNA) small interfering RNA (siRNA)-class loci, Nmy and Tmy. …

Utilizing Few-Shot Meta Learning Algorithms For Medical Image Segmentation, Nick Littlefield

Thinking Matters Symposium

Deep learning models can be difficult to train because they require large amounts of data, which we usually do not have or are too expensive to get or annotate. To overcome this problem, we can use few-shot meta-learning, which allows us to train deep learning models with little data. Using a few examples, meta-learning, or learning-to-learn, aims to use the experience learned during training to generalize to unknown tasks. Medical imaging is an industry where it is particularly useful, as there is limited publicly available data due to patient privacy concerns and annotating costs.

This project examines how meta-learning performs …

Patrolling The Border: Billfish Exploit The Hypoxic Boundary Created By The World's Largest Oxygen Minimum Zone, Ryan Logan, Jeremy J. Vaudo, Brad Wetherbee, Mahmood Shivji

Biology Faculty Articles

Pelagic predators must contend with low prey densities that are irregularly distributed and dynamic in space and time. Based on satellite imagery and telemetry data, many pelagic predators will concentrate horizontal movements on ephemeral surface fronts—gradients between water masses—because of enhanced local productivity and increased forage fish densities.
Vertical fronts (e.g. thermoclines, oxyclines) can be spatially and temporally persistent, and aggregate lower trophic level and diel vertically migrating organisms due to sharp changes in temperature, water density or available oxygen. Thus, vertical fronts represent a stable and potentially energy rich habitat feature for diving pelagic predators but remain little explored …

Playful Mouth-To-Mouth Interactions Of Belugas (Delphinapterus Leucas) In Managed Care, Jackson R. Ham, Malin K. Lilley, Riley J. Winchenski, Jesus Miranda, Ángel G. Velarde Dediós, Katie Kolodziej, Sergio M. Pellis, Heather M. Manitzas Hill

All Faculty Scholarship (Archived)

Belugas (Delphinapterus leucas) engage in many forms of play (e.g., object, water, locomotor), but no play is quite as curious as the unusual form of cooperative social play involving mouth-to-mouth interactions. These playful interactions are characterized by two belugas approaching each other head-to-head and interlocking their jaws, clasping one another, as if they were shaking hands. Observed in belugas both in the wild and in managed care, it is seemingly an important type of social play that offers a unique way of socializing with conspecifics. To describe this unusual behavior, a group of belugas in managed care was …