Digital Commons Network^™

Interannual Variability And Seasonal Dynamics Of Evapotranspiration Of Arundo Donax L. And Populations Of Its Biological Control Agent (Tetramesa Romana), Alexis Racelis, Pradeep Wagle, Jose R. Escamilla Jr., John A. Goolsby, Prasanna Gowda

School of Earth, Environmental, & Marine Sciences Faculty Publications

Giant reed (Arundo donax L.), a woody grass native to the Mediterranean, has become a cause of concern for national water security in its invaded range of the arid southwestern United States, Australia, New Zealand, and South Africa. The main objective of this study was to provide the first, landscape-level estimates of water use by giant reed. The study utilized the eddy covariance method to quantify evapotranspiration (ET) throughout the 2014 and 2015 growing seasons along the Rio Grande River in Eagle Pass, Texas. We monitored ET concurrently with the implementation of a biological control program targeting giant reed. …

Intraspecific Variability In Thermal Tolerance Across Environmental Temperature Gradients In The Intertidal Periwinkle Littorina Saxatilis, Christopher Patrick Dwane

School of Biological and Marine Sciences Theses

Comparisons of thermal tolerance limits of organisms living across environmental temperature gradients represent a valuable means by which to study physiological adaptation. Intertidal organisms are subject to variation in levels of thermal stress both across latitude and shore height. However, our current understanding of how this variation relates to thermal adaptation is largely based on comparisons between species, and we lack a clear picture of the degree to which different populations from the same species display local adaptation along these temperature gradients. In this thesis, I investigate the extent and nature of intraspecific local adaptation of thermal tolerance across shore …

Utilizing The K18-Hace2 Mouse Model To Develop Protective Covid-19 Vaccines, Ting Y. Wong

Graduate Theses, Dissertations, and Problem Reports (ETD)

The ongoing Coronavirus Disease 2019 (COVID-19) pandemic is caused by the respiratory virus Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2). Similar to other respiratory viruses, SARS-CoV-2 is transmitted through inhalation of respiratory droplets and aerosols from infected individuals. Once inhaled, SARS-CoV-2 utilizes the receptor binding domain (RBD) on the spike protein to bind to human Angiotensin Converting Enzyme 2 (hACE2) receptor to gain entrance into host cells to begin viral replication. SARS-CoV-2 infection can result in mild to severe cases of COVID-19 ranging from asymptomatic infections, cold or flu like symptoms to respiratory failure. The onset of the pandemic in …

Associations Between Self-Reported Awe And Heart Rate, Laura E. Bernstein

Graduate Theses, Dissertations, and Problem Reports (ETD)

Fredrickson’s (1998, 2013) broaden and build theory states that positive emotions can expand our social and cognitive awareness and provide health benefits. Some positive emotions, such as awe, may operate differently. We sought to understand how subjective reports of awe, induced through videos, correlate with HR. We know that HR tends to decrease with age (Umetani et al., 1998), individuals have less physiological reactivity as they age (Blanchard-Fields, 2007), and older adults report more positive emotions than negative emotions (Mroczek & Kolarz, 1998). Given these findings, we were interested in understanding whether there were age differences in self-reported awe and …

Examining Evolutionary Rate In Xiphosura, Samantha B. Ocon

Graduate Theses, Dissertations, and Problem Reports (ETD)

Horseshoe crabs, a group of aquatic chelicerate arthropods of the class Xiphosura, are strongly linked with the concept of “living fossils” – a term colloquially used to refer to clades that display a consistently low rate of morphological evolution through time. The concept of living fossils has been hotly debated, as it is considered to simplify or obscure millennia of evolutionary change. Recent methodological and computational advances in the paleobiological sciences have allowed for the investigation of these claims. Xiphosura are a model taxon for this type of investigative study because they exhibit a complex evolutionary history, despite their reputation …

Examining The Pulmonary Response To Repeated Vishniacozyma Victoriae Exposure And Its Association With Allergic Airway Disease, Rachael Erin Rush

Graduate Theses, Dissertations, and Problem Reports (ETD)

Allergic airway diseases such as asthma continue to increase in incidence in industrialized nations like the United States. These diseases are complex inflammatory processes involving numerous cells and mediators and are strongly influenced by fungal exposures. Recent developments in fungal detection methods have highlighted the contribution of Basidiomycota yeast species in indoor environments such as Vishniacozyma (syn. Cryptococcus) victoriae. However, despite the high levels of this yeast detected in indoor environments, very little is known about it or its role in respiratory morbidity. V. victoriae is phylogenetically similar to pathogenic Cryptococcus neoformans but lacks a capsule and is …

Small Mammal Communities Of Restored And Natural Wetlands In West Virginia, Krista Noe

Graduate Theses, Dissertations, and Problem Reports (ETD)

Wetland restoration is commonly practiced as part of conservation programs or wetland mitigation, which attempts to offset human-created losses of natural wetlands. However, because of the intrinsic and human-derived value of wetlands, it is critical to determine whether these wetlands truly act similarly to natural wetlands. One role of wetlands is to provide habitat for a diverse array of wildlife species. Small mammals are often overlooked taxa in wetland restoration efforts. However, they are essential to the wetland system because they influence vegetation and are prey for higher trophic level wildlife. I discuss considerations of restored wetlands, wildlife responses to …

Examining The Relationship Among Perceived Academic Climate, Belongingness, And Engineering Identity, Sumaia Ali Raisa

Graduate Theses, Dissertations, and Problem Reports (ETD)

An attempt to cultivate an inclusive learning environment in engineering is trending as a response to women's underrepresentation and a lower retention rate than men undergraduates. This study was situated in such an undergraduate engineering program where interventions were embedded in the course curriculum focusing on cultivating an inclusive engineering identity. Following a sociocultural perspective, the present study aimed to examine the relation of engineering identity with perceived academic climate, sense of belonging, and gender among two engineering cohorts (before covid and during covid context). A total of 482 first-year engineering undergraduates' survey responses were analyzed in this study using …

Optimization And Analytics Of Decarbonized Forest And Biomass Supply Chains, Xufeng Zhang

Graduate Theses, Dissertations, and Problem Reports (ETD)

First, a data-driven holistic analysis framework was developed to aid the industrial development of forest biomass for bioenergy to promote the regional bioeconomy. Leveraging the existing but fragmented multi-source data, four components of industrial bioenergy development were integrated into the framework including spatial statistical analysis of biomass feedstock and bioenergy production, machine learning-based suitability assessment, bioenergy plant sites identification and ranking, and socio-economic impacts assessment. A case study was conducted for forest biomass to pellet fuel in the U.S. Mid-Atlantic region. Our results indicate that the great potential of forest biomass with high variation at the county level is primarily …

Transitions Between The Steps Of Group Iic Intron Forward And Reverse Splicing And Integration Into Dna, Claire Mae Smathers

Graduate Theses, Dissertations, and Problem Reports (ETD)

Group II introns are ancient ribozymes capable of self-excision and mobility into new genomic locations. As the ancestors of both the eukaryotic spliceosome and eukaryotic retroelements, these simple RNA machines serve as excellent models for understanding the mechanisms of both gene splicing and retroelement activity in eukaryotes. Although group II introns have been studied for decades, knowledge of the most unique and arguably evolutionarily relevant class of group II introns, IIC, is limited. Our knowledge is especially limited in terms of understanding how IIC introns mediate the transition between the two transesterification steps of forward splicing and reverse splicing into …

Getting To The Root Cause: The Genetic Underpinnings Of Root System Architecture And Rhizodeposition In Sorghum, Farren Smith

Graduate Theses, Dissertations, and Problem Reports (ETD)

Plants are some of the most diverse organisms on earth, consisting of more than 350,000 different species. To understand the underlying processes that contributed to plant diversification, it is fundamental to identify the genetic and genomic components that facilitated various adaptations over evolutionary history. Most studies to date have focused on the underlying controls of above-ground traits such as grain and vegetation; however, little is known about the “hidden half” of plants. Root systems comprise half of the total plant structure and provide vital functions such as anchorage, resource acquisition, and storage of energy reserves. The execution of these key …

Targeting Vulnerabilities In Cell State And Calcium Signaling For The Treatment Of Lung Cancer, Clark Jones

Graduate Theses, Dissertations, and Problem Reports (ETD)

Lung cancer remains the deadliest of all cancers due to the high mutational burden associated with the disease. Combating mutational drivers and drug resistance proves to be essential in the development of novel therapies to improve patient outcomes. A first-in-class cyclic peptide known as MTI-101 has been shown to induce necrotic cell death in a caspase independent manner. MTI-101 was derived from the linear peptide known as HYD1 that was found in a high throughput screen to block cell adhesion with the extracellular matrix. The compound was further optimized and cyclized to the currently used MTI-101 that was found to …

Methodology For Enhanced Filtration And Dewatering Of Fine-Grain Amd Precipitate Using Geocomposites For Rare Earth Elements Recovery, Iuri Lira Santos

Graduate Theses, Dissertations, and Problem Reports (ETD)

Research performed by the West Virginia Water Research Institute (WVWRI) in partnership with the Department of Energy (DOE) has identified that coal mining by-products contain significant amounts of Rare Earth Elements (REEs). REEs currently are in high demand, and extraction from coal mining reject presents a potential for commercialization if extraction is feasible. The coal mining reject include Acid Mine Drainage (AMD) in the aqueous phase and sludge from AMD treatment. A novel two split selective precipitation method was implemented to remove gangue metals, increasing the concentration of REEs in the sludge.

This process presents a two-fold benefit: 1) treatment …

Patch Dynamics Driven By Wave Exposure In Subtidal Temperate Seaweeds Are Exacerbated By Warming Oceans, Yannick Mulders, Lydiane Mattio, Julia C. Phillips, Paul S. Lavery, Gary A. Kendrick, Thomas Wernberg

Research outputs 2022 to 2026

Over the past decades, ocean temperatures have been steadily increasing and are projected to continue to do so, stressing many temperate marine organisms. Changing temperatures do not affect ecosystems in isolation, but interact with many other factors in shaping ecological communities. We investigated the changes over 2 decades in subtidal temperate seaweed communities over a wave exposure gradient in Western Australia, a global warming hotspot. We found higher diversity in the seaweed community and a higher proportion of biomass of species with a warm affinity (expressed as the tropicalization index: TI) over time. There was no decline in biomass of …

Bioturbation By Echidna (Tachyglossus Aculeatus) In A Forest Habitat, South-Western Australia, Shannon J. Dundas, Lara Osborne, Anna J. M. Hopkins, Katinka X. Ruthrof, Patricia A. Fleming

Research outputs 2022 to 2026

Bioturbation by digging animals is important for key forest ecosystem processes such as soil turnover, decomposition, nutrient cycling, water infiltration, seedling recruitment, and fungal dispersal. Despite their widespread geographic range, little is known about the role of the short-beaked echidna (Tachyglossus aculeatus) in forest ecosystems. We measured the density and size of echidna diggings in the Northern Jarrah Forest, south-western Australia, to quantify the contribution echidna make to soil turnover. We recorded an overall density of 298 echidna diggings per hectare, 21 % of which were estimated to be less than 1 month old. The average size of digs was …

Identification Of Leukocyte Surface P2x7 As A Biomarker Associated With Alzheimer's Disease, Yihan Li, Xin Huang, Christopher Fowler, Yen Y. Lim, Simon M. Laws, Noel Faux, James D. Doecke, Brett Trounson, Kelly Pertile, Rebecca Rumble, Vincent Doré, Victor L. Villemagne, Christopher C. Rowe, James S. Wiley, Paul Maruff, Colin L. Masters, Ben J. Gu

Research outputs 2022 to 2026

Alzheimer's disease (AD) has shown altered immune responses in the periphery. We studied P2X7 (a proinflammatory receptor and a scavenger receptor) and two integrins, CD11b and CD11c, on the surface of circulating leukocytes and analysed their associations with Aβ-PET, brain atrophy, neuropsychological assessments, and cerebrospinal fluid (CSF) biomarkers. Total 287 age-matched, sex-balanced participants were recruited in a discovery cohort and two validation cohorts through the AIBL study and studied using tri-colour flow cytometry. Our results demonstrated reduced expressions of P2X7, CD11b, and CD11c on leukocytes, particularly monocytes, in Aβ +ve cases compared with Aβ -ve controls. P2X7 and integrin downregulation …

Polygenic Resilience Scores Capture Protective Genetic Effects For Alzheimer’S Disease, Jiahui Hou, Jonathan L. Hess, Nicola Armstrong, Joshua C. Bis, Benjamin Grenier-Boley, Ida K. Karlsson, Ganna Leonenko, Katya Numbers, Eleanor K. O’Brien, Alexey Shadrin, Anbupalam Thalamuthu, Qiong Yang, Ole A. Andreassen, Henry Brodaty, Margaret Gatz, Nicole A. Kochan, Jean Charles Lambert, Simon M. Laws, Colin L. Masters, Karen A. Mather, Nancy L. Pedersen, Danielle Posthuma, Perminder S. Sachdev, Julie Williams, Alzheimer’S Disease Neuroimaging Initiative, Chun Chieh Fan, Stephen V. Faraone, Christine Fennema-Notestine, Shu-Ju Lin, Valentina Escott-Price, Peter Holmans, Sudha Seshadri, Ming T. Tsuang, William S. Kremen, Stephen J. Glatt

Research outputs 2022 to 2026

Polygenic risk scores (PRSs) can boost risk prediction in late-onset Alzheimer’s disease (LOAD) beyond apolipoprotein E (APOE) but have not been leveraged to identify genetic resilience factors. Here, we sought to identify resilience-conferring common genetic variants in (1) unaffected individuals having high PRSs for LOAD, and (2) unaffected APOE-ε4 carriers also having high PRSs for LOAD. We used genome-wide association study (GWAS) to contrast “resilient” unaffected individuals at the highest genetic risk for LOAD with LOAD cases at comparable risk. From GWAS results, we constructed polygenic resilience scores to aggregate the addictive contributions of risk-orthogonal common variants that promote resilience …

Sinking Seaweed In The Deep Ocean For Carbon Neutrality Is Ahead Of Science And Beyond The Ethics, Aurora M. Ricart, Dorte Krause-Jensen, Kasper Hancke, Nichole N. Price, Pere Masqué, Carlos M. Duarte

Research outputs 2022 to 2026

Sinking vast amounts of seaweed in the deep ocean is currently being proposed as a promising ocean carbon dioxide removal strategy as well as a natural-based solution to mitigate climate change. Still, marketable carbon offsets through large-scale seaweed sinking in the deep ocean lack documentation and could involve unintended environmental and social consequences. Managing the risks requires a number of urgent actions.

Stem Cell Therapy For Insulin-Dependent Diabetes: Are We Still On The Road?, Lu Yang, Zhu-Meng Hu, Fang-Xu Jiang, Wei Wang

Research outputs 2022 to 2026

In insulin-dependent diabetes, the islet β cells do not produce enough insulin and the patients must receive exogenous insulin to control blood sugar. However, there are still many deficiencies in exogenous insulin supplementation. Therefore, the replacement of destroyed functional β cells with insulin-secreting cells derived from functional stem cells is a good idea as a new therapeutic idea. This review introduces the development schedule of mouse and human embryonic islets. The differences between mouse and human pancreas embryo development were also listed. Accordingly to the different sources of stem cells, the important research achievements on the differentiation of insulin-secreting β …

Why Do Men With Prostate Cancer Discontinue Active Surveillance For Definitive Treatment? A Mixed Methods Investigation, Megan Mcintosh, Melissa J. Opozda, Michael O’Callaghan, Andrew D. Vincent, Daniel A. Galvão, Camille E. Short

Research outputs 2022 to 2026

Objectives: To explore the personal and/or medical reasons patients on active surveillance (AS) have, or consider having, further definitive treatment for their prostate cancer. Research suggests up to 50% of patients on AS will discontinue within 5 years, though reasons for discontinuation from the patient's perspective is under-explored. Methods: Prostate cancer patients who were or had been on AS for at least 6 months were recruited. A questionnaire assessed reasons for receiving/considering definitive treatment and the extent to which reasons were personal or medical. Clinical information was extracted from a state-level population registry. A subset of participants were interviewed to …

The Impact Of Skeletal Muscle Disuse On Distinct Echo Intensity Bands: A Retrospective Analysis, Zachary S. Logeson, Rob J. Maclennan, Gerard Kyle B. Abad, Johnathon M. Methven, Molly R. Gradl, Matheus D. Pinto, Ronei S. Pinto, Matt S. Stock

Research outputs 2022 to 2026

Echo intensity (EI) is a novel tool for assessing muscle quality. EI has traditionally been reported as the mean of the pixel histogram, with 0 and 255 arbitrary units (A.U.) representing excellent and poor muscle quality, respectively. Recent work conducted in youth and younger and older adults suggested that analyzing specific EI bands, rather than the mean, may provide unique insights into the effectiveness of exercise and rehabilitation interventions. As our previous work showed deterioration of muscle quality after knee joint immobilization, we sought to investigate whether the increase in EI following disuse was limited to specific EI bands. Thirteen …

Exploring Scientists’ Perceptions Of Citizen Science For Public Engagement With Science, Stephanie A. Collins, Miriam Sullivan, Heather J. Bray

Research outputs 2022 to 2026

It is often assumed that citizen science is inherently participatory in nature. However, citizen science projects exist along a continuum from data contribution to full co-creation. We invited 19 biologists to explore their conceptions of citizen science. Almost all participants defined citizen science as involving non-scientists in data collection. This definition acted as a barrier for scientists who did not see how citizen science could suit their research objectives. While interviewees perceived many societal and experiential benefits of contributory citizen science, deliberate design is needed to realise the full potential of citizen science for public engagement

Saturating Relationship Between Phytoplankton Growth Rate And Nutrient Concentration Explained By Macromolecular Allocation, Jongsun Kim, Gabrielle Armin, Keisuke Inomura

School of Earth, Environmental, & Marine Sciences Faculty Publications

Phytoplankton account for about a half of photosynthesis in the world, making them a key player in the ecological and biogeochemical systems. One of the key traits of phytoplankton is their growth rate because it indicates their productivity and affects their competitive capability. The saturating relationship between phytoplankton growth rate and environmental nutrient concentration has been widely observed yet the mechanisms behind the relationship remain elusive. Here we use a mechanistic model and metadata of phytoplankton to show that the saturating relationship between growth rate and nitrate concentration can be interpreted by intracellular macromolecular allocation. At low nitrate levels, the …

In Silico Integrative Analysis Of Multi-Omics Reveals Regulatory Layers For Diurnal Gene Expression In Mouse Liver, Chunjie Jiang, Panpan Liu, Cam Mong La, Dongyin Guan

Faculty, Staff and Students Publications

Diurnal oscillation persists throughout the body and plays an essential role in maintaining physiological homeostasis. Disruption of diurnal rhythm contributes to many diseases including type 2 diabetes. The regulatory mechanism of the transcription-translation feedback loop (TTFL) of core clock genes is well-established, while a systematic study across all regulatory layers of gene expression, including gene transcription, RNA translation, and DNA binding protein (DBP) activities, is still lacking. We comprehensively bioinformatics analyzed the rhythmicity of gene transcription, mature RNA abundance, protein abundance and DBP activity using publicly available omic-datasets from mouse livers. We found that the core clock genes,

Bias Impedes Progress In Physical Biology, Consciousness Studies And Quantum Gravity, Maurice Goodman

Articles

If scientists hope to make progress in consciousness studies they needs to accept that biased judgments have a major influence on the sciences, how we divide them up, how they are funded and this, in turn, has a profound impact on progress. The imbalance in funding, resulting from bias, in favour of the life and health sciences needs to be addressed as does why perversely little of this funding is devoted to a physics explanation of self-organisation and life on the mesoscopic scale? While life (the cell) is an outstanding example of self-organisation on the mesoscopic scale we need to …

Quantitative Raman Analysis Of Carotenoid Protein Complexes In Aqueous Solution, Joy Udensi, Ekaterina Loskutova, James Loughman, Hugh Byrne

Datasets

Carotenoids are naturally abundant fat-soluble pigmented compounds, with dietary, antioxidant and vision protection advantages. The dietary carotenoids, Beta Carotene, Lutein and Zeaxanthin, complexed with in bovine serum albumin (BSA) in aqueous solution, were explored using Raman spectroscopy to differentiate and quantify their spectral signatures. UV visible absorption spectroscopy was employed to confirm the linearity of responses over the concentration range employed (0.05-1mg/ml) and, of the 4 source wavelengths, 785nm, 660nm, 532nm, 473nm, 532nm was chosen to provide the optimal response. After preprocessing to remove water and BSA contributions, and correct for self-absorption, a partial least squares model with R^{2 …}

Solar Light Degradation Of Organic Dye Pollutants And Preparation Of Bis(Indolyl)Methanes Using Core-Shell Fe3o4@Sio2@Cuo Nanocomposite, Kaveh Parvanak Boroujen, Zeinab Tohidiyan, Mina Mirzaei

Turkish Journal of Chemistry

In this research, a new ferromagnetic-recoverable core-shell Fe3O4@SiO2@CuO nanocomposite of a certain size (20-25 nm) has been synthesized based on Cu(II) complex coated on Fe3O4@SiO2@CuO nanoparticles by facile and fast solid state microwave irradiation method. The photocatalytic activity of the nanocomposite was investigated for degradation of methylene blue (MB) and methyl orange (MO) dye pollutants in aqueous media under solar light irradiation. The nanocomposite could destroy these dyes with high efficiency in short time. With comparison of degradation percentages can be concluded that the nanocomposite shows better photocatalytic activity for MB dye (97% in 180 s). Kinetic study revealed higher …

Synthesis Of Modified Nanocomposite Material And Its Use On Removal Of Cesium Fromaqueous Media, Bi̇lal Çeti̇n, Mustafa Özcan, Bektaş Karakelle

Turkish Journal of Chemistry

A nanocomposite containing Fe3O4, chitosan (Ch), and hexacyanoferrate (HCF) was synthesized in the form of powder. The physicochemical properties of this nanocomposite are determined using different techniques including Fourier transform infrared spectroscopy (FTIR), X-ray diffraction (XRD), thermogravimetric analysis (TGA), scanning electron microscopy (SEM). The existence of Cs (Cs) ions onto the surface of the nanocomposite was verified by dispersive X-ray spectroscopy (EDX). FTIR spectra confirmed that the nanocomposite was well coordinated. The batch technique was applied to evaluate the influences of initial pH value, temperature, contact time, shaking rate, initial Cs concentration, and competing cations on the efficiency of Cs …

Virtual Screening, Drug-Likeness Analysis, And Molecular Docking Study Of Potentialsevere Acute Respiratory Syndrome Coronavirus 2 Main Protease Inhibitors, Nikola Nedeljkovic, Milos Nikolic, Ana Stankovic, Nevena Jeremic, Dusan Tomovic, Andriana Bukonjic, Gordana Radic, Marina Mijajlovic

Turkish Journal of Chemistry

Due to the length of time required to develop specific antiviral agents, the World Health Organization adopted the strategy of repurposing existing medications to treat Coronavirus disease 2019 infection. Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) main protease is possible biological target for potential antiviral drugs. We selected various compounds from PubChem database based on the structure of main protease inhibitors in Protein Data Bank database. Ten compounds showed nontumorigenic and nonmutagenic potential and met Egan's and Lipinski's rules. Molecular docking analysis was performed using AutoDock Vina software. Based on number and type of key binding interactions, as well as …

Recycled Human Hair-Derived Activated Carbon For Energy-Related Applications, Oğuzhan Kotan, Hati̇ce Bayrakçeken

Turkish Journal of Chemistry

Activated carbon, having high surface area and porosity, is a carbonaceous material that comes from organic main sources. In this work, activated carbon materials were produced from human hair that belongs to people who can be classified into two age groups (0-18 or 18-40 years). Activated carbons were characterized by nitrogen adsorption/desorption isotherms (BET), X-ray diffraction (XRD), Fourier Transform Infrared Spectroscopy (FTIR), Raman spectroscopy, scanning electron microscopy (SEM), and elemental analysis techniques. Capacitances of the synthesized materials were determined by using cyclic voltammetry (CV). Characterization results showed that the structural properties of activated carbon materials and capacitance values are changed …