Life Sciences Commons^™

Functional & Evolutionary Analysis Of Tbx2a And Tbx2b In Zebrafish Heart Development, Maliha Tasnim

Theses and Dissertations

Congenital Heart Disease (CHD) is the most common birth defect, affecting approximately 1% of live births. This dissertation explores the genetic mechanisms underlying CHD, focusing on the T-box transcription factors Tbx2a and Tbx2b in zebrafish. Utilizing advanced bioinformatics techniques, we reconstructed the ancestral sequences of these genes to understand their evolutionary trajectory and functional divergence. Our analysis highlights the evolutionary conservation of the DNA-binding domain in tbx2a and tbx2b, suggesting its crucial role in maintaining correct gene expression patterns during development. We observed unique and shared amino acid substitutions in these proteins, indicating potential adaptive changes and conserved functions. Comparative …

Cherokia Georgiana Mitogenome Sequencing And Analysis, William Wittstock

Biology Theses

Despite the vast diversity of millipedes, complete genomic and mitogenomic data available in public databases is limited, hindering comprehensive studies on their classification, evolution, and genetics. Among the underrepresented taxa are the Xystodesmidae, a family comprising approximately 500 species with minimal mitogenomic data, and no complete genomes sequenced. Our research involves sequencing the mitochondrial genome of Cherokia georgiana, a representative of this diverse family with interesting traits that are not clearly defined at a genetic level. This research also serves as a pilot study to develop DNA extraction methods and protocols for whole genome sequencing. Multiple DNA extraction kits …

Safer: Sub-Hypergraph Attention-Based Neural Network For Predicting Effective Responses To Dose Combinations, Xiaoqian Jiang

Faculty, Staff and Student Publications

BACKGROUND: The potential benefits of drug combination synergy in cancer medicine are significant, yet the risks must be carefully managed due to the possibility of increased toxicity. Although artificial intelligence applications have demonstrated notable success in predicting drug combination synergy, several key challenges persist: (1) Existing models often predict average synergy values across a restricted range of testing dosages, neglecting crucial dose amounts and the mechanisms of action of the drugs involved. (2) Many graph-based models rely on static protein-protein interactions, failing to adapt to dynamic and higher-order relationships. These limitations constrain the applicability of current methods.

RESULTS: We introduce …

Connecting Climate And Geography With Diversification And Conservation Of A Western North American Endemic Mammal, Sorex Monticola, Antonia Androski

Biology ETDs

Repeated glacial cycles of the Pleistocene initiated complex sequences of divergence and secondary contact with gene flow for many North American species. In my first chapter, I expand our understanding of the phylogeography of the montane shrew, Sorex monticola, with range-wide genetic sampling and geospatial analyses to reconstruct the history of clades within this species and test whether evolutionarily divergent clades occupy distinct abiotic niches. In my second chapter, I build upon these hypotheses, providing the first estimates of evolutionary relationships and timing of diversification based on genome-wide markers. In my third chapter, I use a systematic review of the …

Adaptive Immune Profiling Of Sin Nombre Hantavirus And Severe Acute Respiratory Syndrome Coronavirus 2 Infection, Tonilynn M. Baranowski

Biomedical Sciences ETDs

Hantaviruses are causative agents of potentially fatal respiratory illness and/or organ failure in humans worldwide. In the United States, the predominant hantavirus species, Sin Nombre hantavirus (SNV), causes a severe disease pathology, called hantavirus cardiopulmonary syndrome (HCPS). Infection with SNV and subsequent clinical manifestations of HCPS lends itself to case fatality rates approaching 40%, even under supportive care. This is partially due to the lack of FDA-approved vaccines and antivirals, in addition to a deficit in our knowledge regarding the human immune response to SNV. Further investigation of the adaptive immune response may reveal key targets to mediate disease outcome. …

Consumer Perceptions And Preferences For Utah Fresh And Packaged Fruit, Makaylie Langford, Kynda R. Curtis, Marcelo Pignatari

All Current Publications

In this fact sheet, we discuss the results of a 2023 study examining Utah consumer perceptions and preferences for Utah fresh and packaged fruit products. Study data were collected online via a Qualtrics survey, and 384 Utah adults completed the survey. Utah consumer food behaviors and attitudes, including participation in food and agricultural tourism activities, are discussed. We analyze the most consumed fruits and the preferred purchasing options for various fruit types, such as packaged, frozen, canned, and fresh. Additionally, we explore the factors influencing consumers’ decisions when buying fruit and review the product information they rely on. Overall, the …

Fruit Production And Opportunities For Growers In Utah, Makaylie Langford, Kynda R. Curtis

All Current Publications

This fact sheet discusses the state of the fruit industry in Utah, its impact on the Utah economy, as well as current challenges the fruit industry faces and opportunities for fruit growers moving forward. These challenges and opportunities underscore the importance of fruit to the state’s economy, as growers navigate urbanization, competition, and consumer preferences for locally grown produce. Fostering collaboration between consumers and growers will ensure a commitment to local agriculture and community support.

Fruit Consumption Indicators: Who Consumes More Fruit In Utah?, Makaylie Langford, Kynda R. Curtis

All Current Publications

This fact sheet discusses fruit consumption patterns in Utah, exploring the key demographic and socioeconomic factors linked to increased fruit intake. Fruit growers and marketers can use this information to design effective promotional campaigns targeting consumers more likely to purchase fruit and fruit products.

Utah Consumer Preferences And Willingness To Pay For Specialty Labeled Fruit Products, Kynda R. Curtis, Makaylie Langford, Marcelo Pignatari

All Current Publications

In this fact sheet, we discuss the results of a 2023 study examining Utah consumer preferences and willingness to pay (WTP) for fruit products labeled local (Utah’s Own™), organic, and GMO-free. We discuss and compare survey respondents' past consumption, awareness, preferences, and attitudes toward these labeling programs. Additionally, we examine consumer WTP values for each of these labels for three fruit varieties and fresh and dried products, namely fresh apples, strawberries, and dried tart cherries.

Pocket Gophers, Mark Nelson, S. Nicole Frey, Earl Creech, Kalen Taylor, Jacob Hadfield, Linden Greenhalgh, Cory Farnsworth, Jody Gale, Melanie Heaton, Justin Wyatt Clawson, Steve Price

All Current Publications

Pocket gophers can damage agriculture and human development infrastructure. In agricultural fields, pocket gophers cause conflicts by directly consuming plants, destroying plants when their soil mounds cover them, and causing premature loss of field stands such as alfalfa, necessitating expensive alfalfa stand replacement. They can chew through electrical, internet, and other utility cables, damaging irrigation pipes, and compromising the integrity of canals and ditch banks. They also cause significant damage to lawns and gardens in urban areas. Understanding pocket gopher habits, especially the burrow system, is the key to effective control. Management methods include trapping, hand or mechanical baiting, fumigation, …

Monitoring Effects On Anthocyanins, Non-Anthocyanin Phenolics And Oracfl Values Of Colombian Bilberry (V. Meridionale Swartz) During Pulping And Thermal Operations, Luke Howard, Cindi Brownmiller, G. Astrid Garzon

Food Science Faculty Publications and Presentations

Processing of berries usually degrades anthocyanin and non-anthocyanin phenolics and diminishes antioxidant activity. In Colombia, jelly produced from the fruit of Vaccinium meridionale Swartz is a popular product among consumers. The aim of this study was to determine the effect of jelly processing steps on bioactive components. Analysis of anthocyanins (ACNs) and non-anthocyanin phenolics was performed via HPLC-PDA. Antioxidant activity was assessed by the ORAC_FL method. The pulping step had the highest impact on ACNs, whose total content was significantly higher in the pomace (747.6 ± 59.2 mg cyanidin 3-glucoside (cyn 3-glu)/100 g) than in the pulp (102.7 …

Agricultural Extension Service, Technology Adoption, And Production Risk Nexus: Evidence From Bangladesh, Muhammad Jangir Alarm, Pavesh Kumar Sarma, Ismat Ara Begum, Jeff Connor, Lin Crase, Shiek Mohammad Sayem, Andrew M. Mckensie

Agricultural Economics and Agribusiness Faculty Publications and Presentations

Rice production is inherently risky and volatile, and farmers in Bangladesh face a wide range of risks, including weather, pest and disease attacks, interruptions to input supply, and market-associated risks. Moreover, poor farm households often perceive risks in adopting new technology, even though it could improve productivity and food security. Such households are thus caught in a “risk-induced trap” that precludes them from realizing the benefits of technological innovation. Extension service is one way to help farmers improve risk management skills and escape risk-induced traps, but there is limited empirical analysis of its impact in Bangladesh. The objective of …

Utah Fruit Growers Assessment Results Overview, Makaylie Langford, Kynda R. Curtis

All Current Publications

Fruit growers throughout Utah manage operations of varying sizes and sell their fruit products fresh or processed through various direct-to-consumer and wholesale markets. In early winter 2023, researchers conducted an online survey via Qualtrics to better understand the fruit products under production, current marketing methods, grower concerns, and future business interests. This fact sheet provides an overview of the survey results.

Exploring The Pdz, Duf, And Lim Domains Of Pdlim5 In Dendrite Branching, Yogesh Srivastava, Maxsam Donta, Lydia L Mireles, Adriana Paulucci-Holthauzen, Leilei Shi, M Neal Waxham

Faculty, Staff and Student Publications

The branched architecture of neuronal dendrites is a key factor in how neurons form ordered networks and discoveries continue to be made identifying proteins and protein-protein interactions that direct or execute the branching and extension of dendrites. Our prior work showed that the molecular scaffold Pdlim5 and delta-catenin, in conjunction, are two proteins that help regulate the branching and elongation of dendrites in cultured hippocampal neurons and do so through a phosphorylation-dependent mechanism triggered by upstream glutamate signaling. In this report we have focused on Pdlim5's multiple scaffolding domains and how each contributes to dendrite branching. The three identified regions …

The F Plasmid Conjutome: The Repertoire Of E Coli Proteins Translocated Through An F-Encoded Type Iv Secretion System, Abu Amar M Al Mamun, Kimberley Kissoon, Yang Grace Li, Erin Hancock, Peter J Christie

Faculty, Staff and Student Publications

Bacterial conjugation systems pose a major threat to human health through their widespread dissemination of mobile genetic elements (MGEs) carrying cargoes of antibiotic resistance genes. Using the Cre Recombinase Assay for Translocation (CRAfT), we recently reported that the IncFV pED208 conjugation system also translocates at least 16 plasmid-encoded proteins to recipient bacteria. Here, we deployed a high-throughput CRAfT screen to identify the repertoire of chromosomally encoded protein substrates of the pED208 system. We identified 32 substrates encoded by the Escherichia coli W3110 genome with functions associated with (i) DNA/nucleotide metabolism, (ii) stress tolerance/physiology, (iii) transcriptional regulation, or (iv) toxin inhibition. …

Adaptive Fine-Tuning Based Transfer Learning For The Identification Of Mgmt Promoter Methylation Status, Erich Schmitz, Yunhui Guo, Jing Wang

Faculty, Staff and Student Publications

Background. Glioblastoma Multiforme (GBM) is an aggressive form of malignant brain tumor with a generally poor prognosis. O 6-methylguanine-DNA methyltransferase (MGMT) promoter methylation has been shown to be a predictive bio-marker for resistance to treatment of GBM, but it is invasive and time-consuming to determine methylation status. There has been effort to predict the MGMT methylation status through analyzing MRI scans using machine learning, which only requires pre-operative scans that are already part of standard-of-care for GBM patients. Purpose. To improve the performance of conventional transfer learning in the identification of MGMT promoter methylation status, we developed a 3D SpotTune …

Differences In Cardiorespiratory Responses With Three Set-Paced Submaximal Endurance Tests In Community-Dwelling Older Adults, Konrad J. Dias, Renee’ S. Rhyne, Danielle M. Callahan, Kaitlyn N. Durbin, Abigail R. Kasten, Jill Heitzman, Dustin R. Nadler

International Journal of Exercise Science

International Journal of Exercise Science 17(4): 1026-1037, 2024. A variety of submaximal exercise tests are commonly used in clinical practice to determine an individual’s exercise capacity and cardiorespiratory fitness. This study explored differences in cardiorespiratory and perceived exertion responses following the completion of three set-paced exercise tests. A prospective, observational, cross-sectional design assessed 30 healthy community-dwelling older adults, who participated in three submaximal exercise tests, including seated marching (SM), standing marching (STM), and standing stepping (STS). Each test was three minutes in length and required the participant to step at a set pace. Heart rate (HR), blood pressure (BP), rate …

Economics - The Neglected Dimension Of Pasture Disease R&D, N D. Macleod

IGC Proceedings (1977-2023)

Pasture utilisation underpins a significant contribution of livestock industries to Australia’s economic well-being. Pasture disease represents a direct threat to these enterprises but the economic magnitude of this threat remains largely unknown as the contribution of agricultural economics to pasture disease R&D, management and policy making has been minimal to date. Some insights to explain this apparent neglect are highlighted and a suggestion is made for a multiple disciplinary approach to R&D.

The 'Pendulum Paradigm' - Trends In Nitrogen Fertilizer Use On Temperate Grass/ Clover Pastures, R J. Eckard, F R. Mckenzie, P A. Lane

IGC Proceedings (1977-2023)

Nitrogen fertiliser responses, on perennial ryegrass (Lolium perenne) / white clover (Trifolium repens) dominant pastures, are compared between sub-tropical South Africa and temperate Australia. The data highlight the similarity in inflection point of the response curve, while emphasising the influence of high residual soil N at lower N application rates. The propensity of communities to oscillate between extremes in terms of N fertiliser use on intensive pasture, or the ‘Pendulum Paradigm’ is discussed. Particular reference is made to the dramatic increase in N fertiliser use in dairy pasture of temperate Australia and New Zealand. Emphasis is …

Linking Grassland And Range National Goals With The Grazing Lands Conservation Initiative For National Benefit, David B. Hannaway, Walter F. Wedin, Gerald W. Evers

IGC Proceedings (1977-2023)

Grassland and Range National Goals (GRNGs) were developed to identify national research and education needs for these resources, both public and private. The Grazing Lands Conservation Initiative (GLCI) developed within the NRCS to address the need for technical assistance for the management of privately held grazing lands. These activities are complimentary and, when combined, will address the national need for research, education, and technical assistance leading to better management of grassland and range resources.

The Effect Of Grazing On Etiolated Regrowth In Eight Grass Species, H A. Lardner, S.B M. Wright, R.D H. Cohen

IGC Proceedings (1977-2023)

Grazing by herbivores affects grass species both morphologically and physiologically. A grazing study was conducted on an irrigated pasture near Outlook, Saskatchewan, Canada during the summers of 1991 and 1992 to determine etiolated regrowth after grazing of reed canarygrass (Phalaris arundinacea L.), slender wheatgrass (Elymus trachycaulus (Link) Gould ex Shinners subsp. trachycaulus), intermediate wheatgrass (Thinopyrum intermedium (Host) Barkw. & D.R. Dewey subsp. intermedium), orchardgrass (Dactylis glomerata L.), meadow bromegrass (Bromus beibersteinii Roem. & Schult.), smooth bromegrass (Bromus inermis Leyss.), tall fescue (Festuca arundinacea (Schreb.) Wimm.) and timothy (Phleum pratense L.) in …

A Vison Of The Future World Food Production And Implications For The Environment And Grasslands, Per Pinstrup Andersen, Rajul Pandya Lorch

IGC Proceedings (1977-2023)

Increases in world population, projected to rise to 8 billion by 2020, and the resultant demand for food places great pressure on our agricultural and aquacultural resources. Anxiety about the future is exacerbated by decreasing grain stocks. Production increases of many commodities are projected to be between 1 and 2% per annum and will generally be higher in developing than in developed countries. Cultivatable land area will increase in some areas of the world but not in others. To cope with these challenges, yield increases will be essential and the application of existing knowledge and technologies will not suffice. Accelerated …

Canada's Forage Resources, D Mccartney, P R. Horton

IGC Proceedings (1977-2023)

Canada is the second largest country in the world and stretches 5,500 km east to west and 4,600 km north to south. About 90% of Canada is uninhabited with 90% percent of the population living within 500 km of the Canadian-American border. About 60% of Canadians live in southern Ontario and Quebec. The grazing industry is located primarily in western Canada with British Columbia, Alberta, Saskatchewan and Manitoba having 84% of the national beef herd. Ontario and Quebec have 73% of the national dairy herd. The majority of harvested forage, dehydrated alfalfa and forage seed crops are grown in western …

Opening Ceremony Address By Chairman Of The Continuing Committee, T Nolan

IGC Proceedings (1977-2023)

Chairman and Vice-Chairman of the Board ofDirectors of the XVIII International Grassland Congress, Your Honour, Lieutenant Governor of the Province of Manitoba, Minister of Agriculture of the Province of Manitoba, Distinguished guests, members of the International Rangeland Congress, members of the International Grassland Congress, ladies and gentlemen. On behalf of the Continuing Committee, I am privileged to welcome you to the XVIII International Grassland Congress. What we will witness is the culmination of about six years of preparatory work by the Canadian Organising Committee and on your behalf! sincerely congratulate them for setting the basis for most interesting scientific and …

Closing Address: A Developing Country Perspective, Walter S. Alhassan

IGC Proceedings (1977-2023)

It is an honour to present this closing address for the XVIII International Grassland Congress and I do it on behalf of colleagues in Africa, Asia and South America. The thirty themes and over 800 papers presented reflect the growing complexity of our grasslands in shaping the general well-being of people on this planet. The XVIX Congress, to be held in Brazil in 2001, will move the frontiers of knowledge concerning sustainable use of grassland resources even further.

This address is being made from the perspective of developing countries that contain the majority of tropical pastures. This region of the …

Closing Address: The View From Outside, Allan Nation

IGC Proceedings (1977-2023)

Closing Address

The Xvii International Grassland Congress And Challenges For The Future Of Tropical Grasslands: A Developing Country Perspective, W S. Alhassan

IGC Proceedings (1977-2023)

All too soon we are to draw down the curtains on the XVIII International Grassland Congress and it is my pleasure and honour to contribute to the closing statements of this historic event, the first of its kind in Canada and one to bring us to the end of the present millennium as we as set the stage for the next. I do this on behalf of my colleagues in Africa, Asia and South America.

The thirty themes and the nearly 2000 technical presentations underscore the growing complexity of the role of our grasslands in shaping the general well-being of …

Congress Highlights From Perspective Of Temperate Regionsr, R J. Wilkins

IGC Proceedings (1977-2023)

This paper commences with brief reference to points made in the concluding paper at the XVI International Grassland Congress in Nice in 1989 (Wilkins, 1989) and then gives consideration in turn to technical advances reported in the Congress and to the future socio­ economic situation and its impact on research priorities. This is inevitably a personal view which does not give justice to the 800 or so papers presented at the Congress.

Forage And Animal Management Systems On Communal Rangelands In Arid And Semi-Arid Regions, Panjab Singh, A N. Ghosh

IGC Proceedings (1977-2023)

Grasslands and savannas, which comprise about 25% of the earth's land surface, are undergoing constant degradation, particularly in ar d and semi-arid regions. The rangeland resource is constantly sinking mainly because of its conversion to crop land, leaving farmer and pastorilist vulnerable to environmental extremes. This Paper presents the existing situation and the herbage and animal Product biomass of these regions. Climate and its impact on the Vegetation are discussed. Prevalent systems of rangeland use by sedentary and nomadic herdsman are considered and the constraints 0 the system are enumerated. Livestock 'rearing has been the most important occupation in these …

Species Vary In Within-Species Variability, Jennifer Vonk

Animal Sentience

Owens et al. (2024) add to the growing voices stressing the importance of considering individual differences in animal welfare and conservation. I advocate for an additional emphasis on the importance of between species comparisons of the degree of individual variation in cognition and emotion within species. A better understanding of the factors predicting within-species variability will help conservationists target their efforts. Additionally, I caution against invoking circularity in using “behavioural traits” to predict related behaviours.