Life Sciences Commons^™

A Cell Cycle-Aware Network For Data Integration And Label Transferring Of Single-Cell Rna-Seq And Atac-Seq

Faculty, Staff and Student Publications

In recent years, the integration of single-cell multi-omics data has provided a more comprehensive understanding of cell functions and internal regulatory mechanisms from a non-single omics perspective, but it still suffers many challenges, such as omics-variance, sparsity, cell heterogeneity, and confounding factors. As it is known, the cell cycle is regarded as a confounder when analyzing other factors in single-cell RNA-seq data, but it is not clear how it will work on the integrated single-cell multi-omics data. Here, a cell cycle-aware network (CCAN) is developed to remove cell cycle effects from the integrated single-cell multi-omics data while keeping the cell …

Metal Assisted O2-Dependent Carbon-Carbon Bond Cleavage Of Β-Diketones And Flavonols, Stephen N. Anderson

All Graduate Theses and Dissertations, Fall 2023 to Present

Almost everything we interact with on a daily basis has been synthesized by chemists ranging from plastics, food preservatives, and medications. The diversity of synthetic molecules are achieved by the formation of new bonds between existing molecules and/or through the cleaving of bonds found in a molecule. There are uncountable amount of conditions reported to facilitate chemical reactions which all depend on the nature of molecules being used and the environment it is used in.

In recent years, more attention has been paid to identify chemical reactions that can use more environmentally favorable conditions and reduce the use of limited …

Reburns Of High Severity Patches: Effects On Ponderosa Pine Regeneration And Plant Community Composition, Nadav Mouallem

All Graduate Theses and Dissertations, Fall 2023 to Present

The area burned in high severity fire as well as the proportion of fires burning at high severity have been increasing in southwestern ponderosa pine (Pinus ponderosa) forests since the 1980s. These fires often contain large patches (>100 ha) of 100% tree mortality, which are a concern as they can lead to the establishment of nonnative species and conversion to non-forest vegetation. And, with an increasing amount of fire on the landscape, high severity patches are reburning. However, information on the ecological trajectory of reburns of high-severity patches as well as the utility of remotely sensed burn severity metrics …

From Inbreeding To Admixture: How The Diverse Consequences Of Gene Flow Shape Evolutionary Dynamics And Population Viability, Amy L. Springer

All Graduate Theses and Dissertations, Fall 2023 to Present

When Homo sapiens traveled out of Africa and interbred with the Neanderthals of Europe, human genes spread into the Neanderthal population. Likewise, genes from Neanderthals spread into the human genome—genes humans still carry to this day. The process whereby genetic material from one population is spread to another is known as gene flow. Gene flow—or the absence thereof—can have critical consequences for a population’s health and survival. On one hand, if no gene flow occurs, mating among close relatives can lead to high levels of inbreeding. Inbreeding can have devastating consequences for the health of populations, in some cases even …

Citizen Science Project On Urban Canids Provides Different Results From Camera Traps But Generates Interest And Revenue, Neville F. Taraporevala

All Graduate Theses and Dissertations, Fall 2023 to Present

As more people live in cities, wildlife increasingly encounters people. Coyotes (Canis latrans) and red foxes (Vulpes vulpes) are two carnivores that have easily adapted to urban environments causing them to come into conflict with people and their pets. Citizen science, where members of the community aid scientists in the collection of data, has emerged as a low-cost method of studying these species that can provide benefits to management agencies but may provide different results than traditional methods. We analyzed data collected by citizen scientists and data collected via motion-triggered camera traps to see how each …

Impacts Of Anthropogenic Disturbances And Urbanization On The Behavior And Morphology Of Two Free-Living Lizard Species (Uta Stansburiana And Aspidoscelis Neotesselatus), Layne O. Sermersheim

All Graduate Theses and Dissertations, Fall 2023 to Present

Urbanization can alter wildlife, requiring species to adjust to anthropogenic changes via life history strategies. Reptiles are particularly vulnerable to these changes, as ectotherms directly rely on their environment to maintain their optimal homeostatic state. As urbanization changes the landscape, reptiles will have to adapt to anthropogenic change, but it is unclear what behaviors may be aiding in this adaptation and whether there are morphological tradeoffs existing to support this change. To analyze the impact of urbanization and anthropogenic disturbances on reptile behavior and morphology, I conducted three research studies on two different species – the common side-blotched lizard and …

Advancing Thermal Property Measurements And Water Management For Controlled Environment Agriculture On Earth And Beyond, Chihiro Dixon

All Graduate Theses and Dissertations, Fall 2023 to Present

Space exploration stands as one of humanity's most profound endeavors, and plant growth in space is essential for sustaining astronauts during long-duration missions. However, operating plant growth systems under reduced gravity conditions presents challenges, particularly in ensuring uniform water distribution in the root zone. Non-uniform water distribution such as excess water and/or insufficient water in the root zone can significantly impact plant yield, necessitating the need to accurately estimate water status in the root zone and understand the dynamics of water flow in plant growth media under reduced gravity conditions. The objectives of this research were to enhance the accuracy …

Elucidation Of Molecular Mechanisms Underlying Tumor Necrosis Factor (Tnf) Release From Mast Cells, Tolulope Eunice Ayo

Dissertations

Mast cells are one of the major producers of tumor necrosis factor-alpha (TNF), and mast cell-derived TNF (MC-TNF) is associated with pathological conditions such as rheumatoid arthritis, inflammatory bowel diseases, and allergic asthma. However, the molecular machinery underlying TNF release from mast cells has been unclear, despite the conserved nature of exocytosis. To delineate the exocytic machinery required for TNF release from mast cells, we systematically dissected the exocytic fusion machinery (e.g., Munc13, Munc18, and VAMP families) expressed in mast cells, using a combination of CRISPR-dependent knockout, RNA interference, confocal microscopy, lentiviral rescue experiments, and cell-based assays. Out of the …

Piecewise Fractional Derivatives And Wavelets In Epidemic Modeling, Mutaz Mohammad, Mohyeedden Sweidan, Alexander Trounev

All Works

In this paper, we propose a novel methodology for studying the dynamics of epidemic spread, focusing on the utilization of fundamental mathematical concepts related to piecewise differential and integral operators. These mathematical tools play a crucial role in the process of modeling epidemic phenomena, enabling us to investigate the behavior of infectious diseases within defined time intervals. Our primary objective is to enhance our understanding of epidemic dynamics and the underlying influencing factors. We introduce the Susceptible–Infectious–Recovered (SIR) model as the foundational framework, which is formulated as a system of differential equations. Our approach involves discretizing time and employing interpolation …

Response Surface Methodology-Based Optimization Of The Chitinolytic Activity Of Burkholderia Contaminans Strain 614 Exerting Biological Control Against Phytopathogenic Fungi, Imen Ben Slimene Debez, Hayet Houmani, Henda Mahmoudi, Khaoula Mkadmini, Pedro Garcia-Caparros, Ahmed Debez, Olfa Tabbene, Naceur Djébali, Maria Camino Urdaci

All Works

As part of the development of alternative and environmentally friendly control against phytopathogenic fungi, Burkholderia cepacia could be a useful species notably via the generation of hydrolytic enzymes like chitinases, which can act as a biological control agent. Here, a Burkholderia contaminans S614 strain exhibiting chitinase activity was isolated from a soil in southern Tunisia. Then, response surface methodology (RSM) with a central composite design (CCD) was used to assess the impact of five factors (colloidal chitin, magnesium sulfate, dipotassium phosphate, yeast extract, and ammonium sulfate) on chitinase activity. B. contaminans strain 614 growing in the optimized medium showed up …

Abstracts Of The 12th Annual Mississippi Association Of Entomologists, Nematologists, And Plant Pathologists Meeting, October 30 And 31, 2023, Mississippi Association Of Entomologists, Nematologists, And Plant Pathologists

Midsouth Entomologist

No abstract provided.

2023 Soybean Insect Losses In The United States, Fred R. Musser, Emily Bick, Sebe A. Brown, Whitney D. Crow, Jeffrey A. Davis, Christina Difonzo, Chase Floyd, Scott H. Graham, Jeremy K. Greene, Kelly A. Hamby, David Kerns, Sean Malone, David Owens, Dominic D. Reisig, Phillip M. Roberts, Nicholas J. Seiter, Adam J. Sisson, Benjamin C. Thrash, Kelley J. Tilmon, Raul T. Villanueva

Midsouth Entomologist

Estimated insect management costs and losses due to insects and other invertebrates in soybean during the 2023 growing season were collected and compiled from 19 states to provide a record of insect pressure and management practices for the year. These annual estimates provide a historical record of pest pressure and insect management and have been compiled in some states since 2004. Participating states represented 58% of soybean acreage grown in the United States, with near 100% participation in southern states. Overall, the stink bug complex was the costliest insect pest in soybean followed by corn earworm and soybean looper. Total …

Canine Parasites In Southern Nevada Urban Dog Parks: Paravec Study, Miklo Azrael A. Alcala

UNLV Theses, Dissertations, Professional Papers, and Capstones

While dogs are one of humans’ greatest companions, they also serve as hosts for a multitude of parasites. Urban dog parks serve as environments where the transmission of diseases is likely to occur. Exposure to infective agents, contained within the soil, intermediate hosts (e.g., rodents, rabbits), and feces, can directly affect the health of dogs and their owners. Other factors that can further influence canine health include age, previous diagnoses of parasites/diseases, and migration. Many dog owners visit dog parks to encourage socialization and exercise. Such activities are meant to improve health, but unawareness of microbiological organisms can lead to …

Interpretable And Evidential Deep Learning For Medical Image Analysis, Sai Chandra Kosaraju

UNLV Theses, Dissertations, Professional Papers, and Capstones

Automatic histopathological Whole Slide Image (WSI) analysis has been highlighted along with the advancements in microscopic imaging techniques, but manual examination and diagnosis of WSIs are time-consuming and tiresome. Recently, deep convolutional neural networks have succeeded in histopathological image analysis. Especially, Convolutional Neural Networks CNN models such as Inception and DenseNet have achieved effective performance. However, automatic histopathological WSI analysis still has significant drawbacks such as considering deep learning as black-box models, predicting disease independently on a small part of images (patch images) extracted from WSIs, limitations in predicting a single slide-based score for a patient, and capturing disease-specific morphology …

The Development Of Environmental Dna (Edna) Sampling For Arbovirus Vector Surveillance In Southern Nevada, Katharine Brooke Major

UNLV Theses, Dissertations, Professional Papers, and Capstones

Vector-borne diseases account for 17% of all infectious diseases worldwide and are responsible for more than 700,000 deaths annually. Two-thirds of the global population are at risk of arthropod-borne RNA viruses (arboviruses), spread by mosquitoes, ticks, and sandflies, with these pathogens accounting for 37% of all emerging human diseases. Arboviruses are becoming increasingly important causes of neurological disease in the United States, presenting a significant public health problem. In the absence of available vaccines and efficacious treatment options, accurate, rapid, and cost-effective surveillance of arbovirus vectors is critical for monitoring species distribution and mitigating disease transmission risk. Currently, mosquito vector …

Uvc And Planetary Habitability: Insights From Desert Lichens And Cyanobacteria, Tejinder Singh

UNLV Theses, Dissertations, Professional Papers, and Capstones

An important question in astrobiology is whether life can exist under the levels of UVC radiation found on Archean Earth, Mars, and exoplanets. We investigated this question by studying the UVC survival of colonial cyanobacterium and lichens that grow in harsh desert environments and possess natural sunscreens. We irradiated them nonstop in a desiccated state with a UVC flux closely representing the upper limit on those planets: 55-60 W/m². After irradiation, we rehydrated and assessed their survival using chlorophyll fluorometry and by counting the number of viable colonies that formed on agar plates. All three study organisms survived two to …

Effects Of Climate Change On (Semi)-Arid Ecosystems In The Southwestern United States, Charlotte Van Der Nagel

UNLV Theses, Dissertations, Professional Papers, and Capstones

Climate change is considered amongst the most severe threats to terrestrial and aquatic ecosystems globally. Ecosystems in the southwestern United States have specifically been impacted by intense drought conditions since 2000. Higher temperatures combined with altered precipitation stresses many ecosystems; however, ecosystem specific responses to such stressors may vary. Here, the effects of climate change on semi-arid ecosystems are analyzed for some of the most vulnerable ecosystems in the southwestern United States: lacustrine, riparian, and dryland ecosystems.

Lakes and reservoirs in arid environments often serve as drinking water sources and recreational areas where high water quality is essential. Climate change …

The Effects Of Non-Invasive Brain Stimulation On Excitability Of The Primary Motor Cortices And Complex Motor Task Learning, Erik Woodruff Wilkins

UNLV Theses, Dissertations, Professional Papers, and Capstones

Transcranial direct current stimulation (tDCS) and transcranial alternating current stimulation (tACS) are promising non-invasive brain stimulation techniques, particularly for clinical applications involving altered or impaired motor function, such as in stroke and Parkinson’s disease. Although tDCS and tACS are different modalities, both forms of stimulation operate on the same principle - weak electrical currents are delivered through electrodes placed on the scalp in specific configurations known as “montages”. The most commonly used montage for targeting the primary motor cortex (M1) is the M1-SO configuration. This montage leverages the established observation that cortical regions directly beneath the anode generally increase in …

Probing The Ecological Functions Of Thermophiles Using Cultivation-Dependent And Cultivation-Independent Techniques, Dengxun Lai

UNLV Theses, Dissertations, Professional Papers, and Capstones

High-temperature geothermal springs are ecosystems that resemble early Earth, offering insights into the origins and early evolution of life. In these unique ecosystems, thermophilic microorganisms thrive. However, our knowledge of thermophiles remains limited. A major challenge is that many thermophiles remain uncultivated. The primary goal of this dissertation was to explore the diversity, metabolism, and ecological functions of thermophiles using cultivation-dependent and cultivation-independent approaches. Chapter 1 provides a broad overview of geothermal spring ecosystems and thermophiles, along with a roadmap of the dissertation. Chapter 2 documents a study on the response of specific thermophiles from Gongxiaoshe (GXS) Hot Spring in …

Smokejumper Obituary: Whitaker, Floyd E. (Redding 1965), National Smokejumper Association

Smokejumper Obituaries

No abstract provided.

Atypical Brain Aging And Its Association With Working Memory Performance In Major Depressive Disorder, Natalie C.W. Ho, Richard A.I. Bethlehem, Jakob Seidlitz, Nikita Nogovitsyn, Paul Metzak, Pedro L. Ballester, Stefanie Hassel, Susan Rotzinger, Jordan Poppenk, John Blangero

Human Genetics Publications

Background: Patients with major depressive disorder (MDD) can present with altered brain structure and deficits in cognitive function similar to those seen in aging. However, the interaction between age-related brain changes and brain development in MDD remains understudied. In a cohort of adolescents and adults with and without MDD, we assessed brain aging differences and associations through a newly developed tool that quantifies normative neurodevelopmental trajectories. Methods: A total of 304 participants with MDD and 236 control participants without depression were recruited and scanned from 3 studies under the Canadian Biomarker Integration Network for Depression. Volumetric data were used to …

Diet Modification Reduces Pain And Improves Function In Adults With Osteoarthritis: A Systematic Review, Karen Stanfar, Corey Hawes, Mina Ghajar, Laura Byham-Gray, Diane R. Radler

Health & Biomedical Sciences Faculty Publications

Background

The effect of dietary modifications on pain and joint function in adults with osteoarthritis (OA) is an emerging area of study. This systematic review aimed to evaluate if adults with OA who consume diets with a higher proportion of plant phenols and omega-3 fatty acids would have less pain and improved joint function than those with a higher proportion of saturated fatty acids, omega-6 fatty acids and refined carbohydrates.

Methods

Database searches of CINAHL (EBSCO), Clinical Trials (NIH-NLM), Cochrane Library (Wiley), Dissertation & Thesis Global (ProQuest), Embase (Elsevier), Medline (OVID), PubMed (NLM), Scopus (Elsevier), Web of Sciences (Clarivate) for …

Analysis Of Malarial Impact: Understanding Disease Transmission, Epidemiology, And Effects On Fetal Life, Josey Sumpter

Graduate Student Dissertations, Theses, Capstones, and Portfolios

Malaria is a significant public health problem which mainly affects malaria endemic regions, such as parts of Africa, South America, and Western Asia. However, all hot and humid environments are susceptible to spread leading to a global scale. Malaria affects an estimated 200 million people each year, with about 600,000 cases resulting in death. Malaria is passed through the bites of infected female anopheles mosquitos, with one of the six Plasmodium genus parasites that are malarial causing. Once the parasite enters the blood stream it infects erythrocytes which can then spread throughout the entire body. Disease is often characterized by …

Documenting The Spatial And Temporal Dynamics Of Pair-Rule Genes In The Early Tribolium Embryo, Hasan Mahmud

Theses and Dissertations

Although Insects and vertebrates have different anatomical structures, they possess similar mechanisms for segmenting during embryogenesis. Clock and wavefront model exhibit a similar pattern of division as observed in Drosophila, like vertebrates, which emphasizes fundamental principles in the field of developmental biology. In contrast to Drosophila, the insect Tribolium castaneum exhibits posterior segmentation originating from the growth zone. The pair-rule genes’ expression is characterized by oscillatory patterns, which are controlled by a segmentation clock. Researchers found that the speed regulation model combines oscillatory and sequential gene activities to shape both elongating and non-elongating embryonic tissues. The adaptability of this model …

Biometric Assessment Of Spotted Seatrout (Cynoscion Nebulosus) From Recreational And Commercial Fisheries In Mississippi, Usa, Nimah Folake Osho-Abdulgafar

Master's Theses

Quantitative stock assessments for Mississippi’s Spotted Seatrout use length-, age-, and sex-composition data from fishery-independent sources as proxies to estimate biostatistical characteristics of fisheries harvests due to lack of sector-specific data. In Chapter 2, I examined the age, length, and sex composition of Spotted Seatrout from three fishery-dependent sectors. Between April and December 2023, I collected 210 fish (n = 19, 124, and 67 from private, charter, and commercial sectors, respectively). The length ranged between 373-535mm, 285-523mm, and 345-568mm TL, with mean ± SD lengths of 453 ± 51mm, 393 ± 57mm, and 442 ± 53mm TL, respectively. Age ranged …

Development Of A Flow Cytometry Method For The Identification And Enumeration Of Enterococcus Faecalis, Riza Magbitang

Master's Theses

A multi-color flow cytometry method coupled with fluorescent staining was developed to detect and quantify E. faecalis concentrations in coastal waters as an alternative to the traditional membrane filtration method. The developed method was used to characterize E. faecalis during batch growth and yielded consistent results across the various physiological states of the cells. Additionally, the application of propidium iodide (i.e., a viability stain), afforded the method the ability to differentiate between cells with intact and compromised cell membranes, which raises the potential of quantifying cells that are in viable-but-non-culturable (VBNC) state. Initial field test using natural seawater samples spiked …

Integration Of Matlab And Machine Learning To Accelerate Evaluation Of Biological Activity In Agricultural Soils And Promote Soil Health Improvement Goals, Andrew Stiven Ortiz Balsero

Department of Agricultural and Biological Systems Engineering: Dissertations, Theses, and Student Research

Traditionally, assessments of soil biological activity have been confined to laboratory settings, creating a disconnect with practical in-field methods. To bridge this gap, cotton fabric degradation has been used to illustrate soil microbial activity under different management practices. While effective, these demonstrations are subjective and labor-intensive.

Researchers have explored using image processing software like ImageJ and Adobe Photoshop to streamline this process. Although these tools accurately quantified fabric degradation under varying soil conditions, the methods remained labor-intensive and complex. Consequently, these methods were still not ideal for on-farm use by agricultural practitioners.

To further address labor and complexity limitations, the …

Development And Validation Of Aronia Melanocarpa Berry Recipes For Home Canning: Integrating Thermal Lethality Studies, Microbiological Safety, And Antioxidant Analysis, Juan Diego Villegas Posada

Department of Food Science and Technology: Dissertations, Theses, and Student Research

Aronia melanocarpa, also known as chokeberry, is gaining popularity for its high antioxidant content and health benefits, including reducing oxidative stress and inhibiting cancer gene expression. However, its characteristic bitterness and astringency limit its broader appeal. Chokeberry's low pH places it in the acid foods category, making it ideal for safe home canning. An acidic environment combined with heat treatment inhibits harmful bacteria like Clostridium botulinum. Home canning preserves food by sealing it in airtight containers and heating it to destroy spoilage microorganisms.

Developing safe and palatable recipes is essential for making chokeberries suitable for home canning. A …

Preschool Executive Control And Adolescent Dietary Outcomes: Highlighting The Role Of Context, Marla Lopez

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Research has identified executive control (EC) as an important predictor of dietary outcomes among youth. Executive control in preschool age has been shown to predict important outcomes across development for youth, indicating that good, foundational EC abilities are associated with successful development in later life. Dietary outcomes across adolescence, an important transitional period for establishing healthy eating behaviors, are understudied. Therefore, the current study sought to link two critical developmental periods, examining how preschool EC is associated with dietary trajectories across adolescence. Further, the study aimed to identify how contextual factors, specifically indices of socio-economic status and the home and …

Candida Albicans Farnesol Synthesis And Secretion, Daniel John Gutzmann

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Candida albicans is a polymorphic fungus and opportunistic commensal found primarily in the gastrointestinal and skin of healthy individuals. Several barriers prevent C. albicans from causing disease including a healthy immune system and microbiome. When these barriers become comprised, C. albicans can transition to a pathogen and disseminate through the intestinal mucosa leading to life-threatening bloodstream and invasive infections with mortality rates of up to 64%. Morphogenic plasticity is key to this transition and impacts virulence, adaptation to different host environments, and evasion of host immune responses. One regulator of morphogenesis is farnesol. Farnesol is a secondary metabolite …