Research Methods in Life Sciences Commons^™

A Biological Assessment Of Water Quality In El Placer, Ecuador: The Effect Of Agriculture On Stream Health And The Quality Of Historical Versus Current Drinking Water Sources, Danielle Kleinberg

Independent Study Project (ISP) Collection

Although fresh water is one of Ecuador’s most abundant resources, high quality drinking water for its inhabitants is scarce (Wingfield et al., 2021). The most prevalent sources of water pollution in Ecuador are domestic waste, silver and gold mining, oil production, and agricultural chemicals (Buckalew et al., 1997). El Placer, a village located in Tungurahua, Ecuador, is highly dependent on agriculture as a source of income. The first objective of this study was to determine the effect of agriculture on the El Placer’s Tía Anita Stream through comparing the water quality at three sites with varying agricultural influence. The second …

Beach Suitability For Nesting Olive Ridley Sea Turtles (Lepidochelys Olivacea), Playa Malena, Azuero Peninsula, Panama, Soleil Foy

Independent Study Project (ISP) Collection

Sea turtle species all over the world are facing continuous declines in their populations partly due to diminished viable nesting habitat. Understanding sea turtle nesting preferences and the suitability of beaches for reproductive success is necessary in order to sustain their populations and ensure their conservation. Olive ridley sea turtles (Lepidochelys olivacea) are one of the species experiencing this trend, especially in the Eastern Pacific. This study examined the beach suitability of a site known as Playa Malena in the Azuero Peninsula in Panama for Olive ridley nesting. This site was compared to the suitability of 7 other …

Abundance, Foraging Levels, And Dietary Preferences Of Chaetodon Capistratus On Reefs Surrounding Porvenir Island In The Guna Yala Comarca Of Panamá, Eleanor Ann Casement

Independent Study Project (ISP) Collection

Reef fish are a physically and functionally diverse group of organisms that live in close association with coral reef habitats. Chaetodontidae represents the most species rich family of corallivorous fish, and their reliance on corals as food resources has led to their designation as indicator species of coral cover and health. However, the majority of research on the foraging ecology of Caribbean Chaetodontids dates back several decades, and therefore does not account for recent changes in coral community composition as the result of disease, climate change, and other stressors. As the novel and deadly stony coral tissue loss disease (SCTLD) …

An Eventful Past Predicting A Bizarre Future: Assessing The Influence Of Ocean Circulation On Key Fish Species In Icelandic Waters. An Analysis Of Past Circulation Records In Order To Predict The State Of Demersal Fish Stocks In Future Climate Scenarios, Matthew Engfer

Independent Study Project (ISP) Collection

Feedback-driven changes in North Atlantic Ocean circulation are affecting marine ecosystems off the coast of Iceland and are predicted to have differing outcomes by 2100. In this study, data reflecting Icelandic fish stock distributions was compiled on a map with oceanographic temperature and depth in order to observe patterns of population changes with changes in ocean currents. After evaluating past temperature effects on demersal fish stocks, future habitat predictions were estimated in weaker ocean circulation scenarios. A number of assumptions were made in order to pinpoint a correlation between ocean temperature and fish habitat. Iceland’s unique location and climate offers …

Ten Strategies For Avoiding And Overcoming Authorship Conflicts In Academic Publishing, S J. Cooke, N Young, M R. Donaldson, E A. Nyboer, D G. Roche, C L. Madliger, R J. Lennox, J M. Chapman, Zen Faulkes, J R. Bennett

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Biology)

For better or for worse, authorship is a currency in scholarly research and advancement. In scholarly writing, authorship is widely acknowledged as a means of conferring credit but is also tied to concepts such as responsibility and accountability. Authorship is one of the most divisive topics both at the level of the research team and more broadly in the academy and beyond. At present, authorship is often the primary way to assert and receive credit in many scholarly pursuits and domains. Debates rage, publicly but mostly privately, regarding authorship. Here we attempt to clarify key concepts related to authorship informed …

Eradicating Zebra Mussels: What Works?, Elijah Davies

Symposium of Student Scholars

The invasion of U.S lakes and rivers by the invasive species of zebra mussels called Dreissena polymorpha has caused catastrophic harm to the local ecosystem by reproducing and outcompeting native mussel species as well as harm to pipes leading into water sources by binding to surfaces and reproducing to the point that the mussels clog pipes. In addition, recreation areas must be closed due to the sharp shells making areas unusable. In the past, research has focused on individual molluscicides and their eradication of zebra mussels, as well as their effect on native flora and fauna. My research will contrast …

Blood–Brain Barrier Breakdown And Astrocyte Reactivity Evident In The Absence Of Behavioral Changes After Repeated Traumatic Brain Injury, Celeste Dunn, Nasya Sturdivant, Sara Venier, Syed Ali, Jeffery Wolchok, Kartik Balachandran

Biomedical Engineering Faculty Publications and Presentations

Repeated traumatic brain injuries (TBIs) cause debilitating effects. Without understanding the acute effects of repeated TBIs, treatment options to halt further degeneration and damage cannot be developed. This study sought to examine the acute effects of blood–brain barrier (BBB) dysfunction, edema, inflammation and behavioral changes after either a single or double TBI using a C57BL/6 mouse model. We examined the effects of one or two TBIs, of either a mild or moderate severity. Double injuries were spaced 7 days apart, and all analysis was performed 24 h post-injury. To examine edema and inflammation, protein levels of glial fibrillary acidic protein …

Anything For A Cheerio: Brown Capuchins (Sapajus [Cebus] Apella) Consistently Coordinate In An Assurance Game For Unequal Payoffs, Lauren M. Robinson, Mayte Martínez, Kelly L. Leverett, Mattea S. Rossettie, Bart J. Wilson, Sarah F. Brosnan

ESI Publications

Unequal outcomes disrupt cooperation in some situations, but this has not been tested in the context of coordination in economic games. To explore this, we tested brown capuchins (Sapajus [Cebus] apella) on a manual version of the Stag Hunt (or Assurance) Game, in which individuals sequentially chose between two options, Stag or Hare, and were rewarded according to their choices and that of their partner. Typically, coordination on Stag results in an equal highest payout, whereas coordinating on Hare results in a guaranteed equal but lower payoff and uncoordinated play results in the lowest payoff when playing …

Uplc-Ms/Ms Analysis Of The Michaelis-Menten Kinetics Of Cyp3a-Mediated Midazolam 1′- And 4-Hydroxylation In Rat Brain Microsomes, Devaraj Venkatapura Chandrashekar, Barent Dubois, Reza Mehvar

Pharmacy Faculty Articles and Research

Midazolam (MDZ) is a short-acting benzodiazepine with rapid onset of action, which is metabolized by CYP3A isoenzymes to two hydroxylated metabolites, 1′-hydroxymidazolam and 4-hydroxymidazolam. The drug is also commonly used as a marker of CYP3A activity in the liver microsomes. However, the kinetics of CYP3A-mediated hydroxylation of MDZ in the brain, which contains much lower CYP content than the liver, have not been reported. In this study, UPLC-MS/MS and metabolic incubation methods were developed and validated for simultaneous measurement of low concentrations of both hydroxylated metabolites of MDZ in brain microsomes. Different concentrations of MDZ (1–500 µM) were incubated with …

Insights Into The Mechanisms Of Brain Endothelial Erythrophagocytosis, Jiahong Sun, Prema Vyas, Samar Mann, Annlia Paganini-Hill, Ane C. F. Nunes, Wei Ling Lau, David H. Cribbs, Mark J. Fisher, Rachita K. Sumbria

Pharmacy Faculty Articles and Research

The endothelial cells which form the inner cellular lining of the vasculature can act as non-professional phagocytes to ingest and remove emboli and aged/injured red blood cells (RBCs) from circulation. We previously demonstrated an erythrophagocytic phenotype of the brain endothelium for oxidatively stressed RBCs with subsequent migration of iron-rich RBCs and RBC degradation products across the brain endothelium in vivo and in vitro, in the absence of brain endothelium disruption. However, the mechanisms contributing to brain endothelial erythrophagocytosis are not well defined, and herein we elucidate the cellular mechanisms underlying brain endothelial erythrophagocytosis. Murine brain microvascular endothelial cells (bEnd.3 …

Investigations In The Cellular And Molecular Biology Of Human Airway Mucociliary Tissue, Vincent Manna

Graduate School of Biomedical Sciences Theses and Dissertations

Our laboratory has integrated the use of a human-derived, in vitro model of airway mucociliary tissue. We isolate human nasal epithelial cells (HNECs) from the nasal mucociliary tissue of donors with a small brush and expand the airway progenitor cells in culture. The HNECs are then seeded onto semi-permeable transwell inserts. The inserts are in contact with the media in the lower chamber but don’t contain media in the upper chamber therefore the cells are exposed to the air while drawing nutrients from the media below, this is called the Air-Liquid Interface (ALI). HNECs cultured at the ALI initiate a …

Targeting Plasma Membrane Phosphatidylserine Content To Inhibit Oncogenic Kras Function, Walaa E. Kattan

Dissertations and Theses (Open Access)

The small GTPase KRAS, which is frequently mutated in human cancers, must be localized to the plasma membrane (PM) for biological activity. We recently showed that the KRAS C-terminal membrane anchor exhibits exquisite lipid-binding specificity for select species of phosphatidylserine (PtdSer). We therefore investigated whether reducing PM PtdSer content is sufficient to abrogate KRAS oncogenesis. Oxysterol-related binding proteins ORP5 and ORP8 exchange PtdSer synthesized in the ER for phosphatidylinositol-4-phosphate (PI4P) synthesized in the PM. We show that depletion of ORP5 or ORP8 reduced PM PtdSer levels, resulting in extensive mislocalization of KRAS from the PM. Concordantly, ORP5 or ORP8 depletion …

Modulation Of Glucose Homeostasis By Nucleotide P2y2 Receptor And Biological Sex, Hailee Anne Marino

Graduate Theses/Dissertations

Recent insights into the pathological role of Nucleotide P2Y₂ receptor suggest P2Y₂R involvement in high fat diet-induced obesity and potentiates insulin resistance. However, these recent insights do not demonstrate how P2Y₂R modulates glucose homeostasis under physiological conditions. Further, it remains unknown how sex biological factors influence P2Y₂R receptor signaling in the regulation of glucose homeostasis. The research objective for the present study is to elucidate the novel roles of P2Y₂ in fasting blood glucose and glucose tolerance (basal insulin sensitivity) under resting conditions in males and females. We expected that under physiological …

Combination Of Oncolytic Adenoviruses, T-Cell Activation, And Blockade Of Ido Metabolic Circuitry For The Treatment Of Glioma, Teresa Nguyen

Dissertations and Theses (Open Access)

Glioblastoma is the most common malignant primary brain tumor in adults; the current aggressive treatment results in a 5% five-year survival rate. More effective therapies should be developed. One promising alternative is oncolytic adenovirus, Delta-24-RGD, which elicits cancer cell lysis and immunogenic cell death. In fact, Delta-24-RGD produced complete responses in 20% of recurrent glioblastoma patients through immune mechanisms that activate anti-tumor cytotoxic properties of T-cells. This cytolytic effect can further be enhanced by adding immune agonists, namely OX40L, which engages the OX40 receptor to co-stimulate activated T cells for enhanced proliferation. Hence, we produced the next generation of Delta-24-RGD, …

Developing Pandemic Comics For Youth Audiences, Judy Diamond, Amy Spiegel, Patricia Wonch Hill, Elizabeth Vanwormer, Judi M. Gaiashkibos, Bob Hall, Aaron Sutherlen, Julia Mcquillan

University of Nebraska State Museum: Staff and Affiliates, Publications

In spring 2020 our team received funding from the Rapid Response Research program of the National Science Foundation to develop comics that would help youth understand the COVID-19 pandemic. Our project built on a decade of expertise creating comics about the biology of viruses. In collaboration with virologists and artists, we developed three comic stories about COVID-19 during the pandemic and posted them on-line during the last half of 2020. The fictional narratives address fundamental issues in biology, virology, and network science, in order to help readers understand the complexities of living through a viral pandemic. The stories focus on …

Flow Cytometry For Identification Of Prdm1-Eyfp Transgenic Mice, Kayla M. Hufford, Olyvia D. Weaver, Nicole M. Young, Aspen E. King, Gregory K. Dekrey

Ursidae: The Undergraduate Research Journal at the University of Northern Colorado

The goal of this study was to determine if flow cytometry could be used to identify transgene carrier mice [B6.Cg-Tg(Prdm1-EYFP)1Mnz/J] by their expression of the enhanced yellow fluorescent protein (eYFP) in peripheral blood lymphocytes. In these mice, eYFP expression is under the control of the Prdm1 gene promoter. Littermates were identified as being either wild type or transgene carriers using a polymerase chain reaction (PCR) analysis of tail tissue. Peripheral blood leukocytes were isolated from each of the mice, and both the percent and mean fluorescence intensity (MFI) were determined for eYFP expression by lymphocytes. We found that blood lymphocytes …

Directed Genome Evolution To Identify Genes For Macrophage Survival By Staphylococcus Agnetis, Sonali Lakshika Anne Lenaduwe Lokuge

Graduate Theses and Dissertations

Bacterial Chondronecrosis with Osteomyelitis (BCO) is a debilitating infection that negatively impacts animal welfare and costs the broiler industry billions of dollars annually. We have previously isolated Staphylococcus agnetis 908 from BCO samples obtained from broilers at the University of Arkansas research farm. This isolate can induce BCO lameness at greater than 50% in broilers exposed to the pathogen in drinking water. We found that S. agnetis 908 is capable of surviving and escaping macrophages compared to a closely related cattle isolate,1379. Through Directed Genome Evolution (DGE) we identified that this difference is at least partially associated with an alanine …

Host-Parasite Interactions Within Food Webs, Adam Zvanut Hasik

Graduate Theses and Dissertations

Parasitism is one of the most common life history strategies employed in nature, yet the effects of parasites are often thought to be minimal, and the vast majority of studies fail to consider parasites and their effects on host organisms. This is likely a problem, as the magnitude of parasite-mediated effects on their hosts can be quite large. Additionally, the effects of parasites are known to extend beyond the host to affect other species interactions. I used a series of approaches to gain a more integral understanding of host-parasite interactions by studying (1) the effects of parasites on biotic interactions …

Microfabrication And Electrochemical Characterization Of A Novel Su-8 Probe With An Array Of Individually Addressable Electrodes Suitable For Redox Cycling Experiments In Ultra-Small Volumes, Mahsa Lotfi Marchoubeh

Graduate Theses and Dissertations

Redox cycling is an electrochemical technique that utilizes closely spaced generator and collector electrodes to cycle reversible redox species between their oxidative states. With advantages in signal amplification, selectivity of species based on their electrochemical reaction mechanism, and limited or no background subtraction, this technique is well suited for selective detection of important electrochemically active molecules such as dopamine at basal or slowly changing levels.

Miniaturized medical devices have become an area of great interest for measurement of chemicals in limited volumes with low concentrations or in sensitive tissues. A probe on a polymeric SU-8 substrate with suitable dimensions and …

The Neurological Asymmetry Of Self-Face Recognition, Aleksandra Janowska, Brianna Balugas, Matthew Pardillo, Victoria Mistretta, Katherine Chavarria, Janet Brenya, Taylor Shelansky, Vanessa Martinez, Kitty Pagano, Nathira Ahmad, Samantha Zorns, Abigail Straus, Sarah Sierra, Julian Keenan

Department of Biology Faculty Scholarship and Creative Works

While the desire to uncover the neural correlates of consciousness has taken numerous directions, self-face recognition has been a constant in attempts to isolate aspects of self-awareness. The neuroimaging revolution of the 1990s brought about systematic attempts to isolate the underlying neural basis of self-face recognition. These studies, including some of the first fMRI (functional magnetic resonance imaging) examinations, revealed a right-hemisphere bias for self-face recognition in a diverse set of regions including the insula, the dorsal frontal lobe, the temporal parietal junction, and the medial temporal cortex. In this systematic review, we provide confirmation of these data (which are …

Science Forum: A Community-Led Initiative For Training In Reproducible Research, Susann Auer, Nele A. Haeltermann, Tracey L. Weissberger, Jeffrey C. Erlich, Damar Susilaradeya, Magdalena Julkowska, Małgorzata Anna Gazda, Benjamin Schwessinger, Nafisa M. Jadavji, Angela Abitua, Anzela Niraulu, Aparna Shah, April Clyburne-Sherinb, Benoit Guiquel, Bradly Alicea, Caroline Lamanna, Diep Ganguly, Eric Perkins, Helena Jambor, Ian Man Ho Li, Jennifer Tsang, Joanne Kamens, Lenny Teytelman, Mariella Paul, Michelle Cronin, Nicolas Schmelling, Peter Crisp, Rintu Kutum, Santosh Phuyal, Sarvenaz Sarabipour, Sonali Roy, Susanna M. Bachle, Tuan Tran, Tyler Ford, Vicky Steeves, Vinodh Ilangovan, Ana Baburamani

Agricultural and Environmental Sciences Faculty Research

Open and reproducible research practices increase the reusability and impact of scientific research. The reproducibility of research results is influenced by many factors, most of which can be addressed by improved education and training. Here we describe how workshops developed by the Reproducibility for Everyone (R4E) initiative can be customized to provide researchers at all career stages and across most disciplines with education and training in reproducible research practices. The R4E initiative, which is led by volunteers, has reached more than 3000 researchers worldwide to date, and all workshop materials, including accompanying resources, are available under a CC-BY 4.0 license …

A Qualitative Study On The Factors Affecting The Willingness Of 3rd Level Students To Register As Organ Donors In Ireland, Evelyn Hayes, Erika Horan, Cian Lally, Aisling Murphy

International Undergraduate Journal of Health Sciences

A wide range of factors contribute to an individual’s choice whether or not to register as an organ donor. The knowledge of the Irish population at large around the area of donation and transplantation is varied. A research survey was designed to be completed by third level students. The purpose of the research was to determine the most important factors that played a role in their decisions regarding opting-in to organ donation. A second aim of the survey was to determine the participants’ levels of knowledge and understanding on the ‘opt in’ donation system in place here in Ireland.

The …

Full Issue: The International Undergraduate Journal Of Health Sciences, Volume 1, Issue 1, June 2021, Iujhs Full Issue

International Undergraduate Journal of Health Sciences

The full June 2021 issue (Volume 1, Issue 1) of the International Undergraduate Journal of Health Sciences

Biodiversity Monitoring And Volunteer Motivations: A Case Study On The Imagined Communities Of Citizen Scientists In Meinung, Taiwan, Serena May Calcagno

Master's Projects and Capstones

The Asia Pacific’s biodiversity is under threat. One significant step that can improve conservation is gathering data on what species exist in different areas over time, which can provide insight into ecosystem health. This is especially important in biodiversity hotspots, where high levels of endemism and anthropogenic risk overlap. Though it is one of the few places in the Pacific not classified as a biodiversity hotspot, Taiwan has an unusually high saturation in terms of biodiversity data points. Investigating the motives of biodiversity monitoring volunteerism is already a topic of growing scholarly interest, but relatively few studies have focused on …

Larval Chondrocranial And Internal Oral Morphology Of The Neotropical Treefrog Boana Crepitans (Wied-Neuwied, 1824; Amphibia, Anura, Hylidae), Marianna Isabella Rosa Rodrigues De Oliveira, Luiz Norberto Weber, Johnny Sousa Ferreira, Anna Evelin Coimbra Liborio, André Masahide Guimaraes Takazone, Rafael O. De Sá

Biology Faculty Publications

We describe the internal oral morphology and chondrocranial anatomy for Boana crepitans tadpoles, and compare them with available descriptions for other species in the subfamily Cophomantinae. Among species of the Boana faber group, the chondrocranial anatomy has been reported only for one species internal oral morphology and cranial anatomy are similar to other described species of Boana and Cophomantinae. B. crepitans lacks unique features in the oral cavity and chondrocranium that would distinguish it from other congeneric species. We identify six characters from the internal oral anatomy of tadpoles unique for Cophomantinae. In addition, Boana has infralabial papillae projections, buccal …

Mapping The Little Brain At The Heart By An Interdisciplinary Systems Biology Team., Rajanikanth Vadigepalli, James S. Schwaber

Department of Pathology, Anatomy, and Cell Biology Faculty Papers

No abstract provided.

Cnd-1/Neurod Is Required For Rme Head Neuron Cell Fate Specification In The Nematode Caenorhabditis Elegans., Genevieve Doxakis

Symposium of Student Scholars

cnd-1/NeuroD is required for RME head neuron cell fate specification in the nematode Caenorhabditis elegans.

Genevieve Doxakis (1), Illyana Weitzel (2), Amber Baldwin (1), Davron Hanley (1), and Martin L. Hudson (1)

(1) Department of Molecular and Cellular Biology, Kennesaw State University

(2) STEM Magnet Program, Wheeler High School

Transcription factors are proteins that control gene transcription. NeuroD is a deeply conserved transcription factor that regulates neuronal differentiation and pancreatic development. Mutations in this gene correlate with several neurological disorders, creating an imperative for further study. The nematode Caenorhabditis elegans has a NeuroD ortholog, cnd-1, which means we can use …

The Effects Of Mapk Signaling On The Development Of Cerebellar Granule Cells, Kerry Morgan

University Scholar Projects

The granule cells are the most abundant neuronal type in the human brain. Rapid proliferation of granule cell progenitors results in dramatic expansion and folding of the cerebellar cortex during postnatal development. Mis-regulation of this proliferation process causes medulloblastoma, the most prevalent childhood brain tumor. In the developing cerebellum, granule cells are derived from Atoh1-expressing cells, which arise from the upper rhombic lip (the interface between the roof plate and neuroepithelium). In addition to granule cells, the Atoh1 lineage also gives rise to different types of neurons including cerebellar nuclei neurons. In the current study, I have investigated the …

The Effects Of Mapk Signaling On The Development Of Cerebellar Granule Cells, Kerry Morgan

Honors Scholar Theses

The granule cells are the most abundant neuronal type in the human brain. Rapid proliferation of granule cell progenitors results in dramatic expansion and folding of the cerebellar cortex during postnatal development. Mis-regulation of this proliferation process causes medulloblastoma, the most prevalent childhood brain tumor. In the developing cerebellum, granule cells are derived from Atoh1-expressing cells, which arise from the upper rhombic lip (the interface between the roof plate and neuroepithelium). In addition to granule cells, the Atoh1 lineage also gives rise to different types of neurons including cerebellar nuclei neurons. In the current study, I have investigated the …

Biomedical Porcine Models For The Study Of Surgical Hemostasis, Hindlimb Ischemia, And Pancreatic Cancer, Shruthishree Aravind

Theses & Dissertations

Murine models have dominated the world of biomedical research and comparative medicine since their development in the early 1900s. [1] While they may be suitable models to study proteomics and genomics, they may not serve as effective translational models. [2-4] Murine models do not accurately model the pathophysiology of human disease and are limited by their size, application of medical imaging and intervention, which reduces their overall preclinical predictive value. [2-4]

Porcine models on the other hand, are slowly and steadily bridging the gap between murine models and human patients. [5] Pigs …