Life Sciences Commons^™

Analyzing And Extending Machine Learning Frameworks On High Risk Domains, Chengbin Hu

USF Tampa Graduate Theses and Dissertations

Machine learning (ML) has become a transformative force in high-risk domains such as genomics and cybersecurity, where accurate predictions and robust defenses are essential. This dissertation advances ML frameworks in these areas by developing methods to enhance predictive power in health applications and assess vulnerabilities in machine learning systems.

In the genomics field, the work addresses challenges in Non-Invasive Prenatal Testing (NIPT) of monogenic disorders by proposing a deep learning model that reconstructs the fetal genome using maternal plasma cell-free DNA (cfDNA) and parental whole-genome sequencing (WGS) data. This model achieves high accuracy in single nucleotide variation (SNV) prediction, surpassing …

Evaluation Of Five Jack-O-Lantern Pumpkin Cultivars In Southwest Michigan In 2024, Ben Phillips

Midwest Vegetable Trial Reports

A jack-o-lantern pumpkin cultivar trial was planted at the Southwest Michigan Research and Extension Center (42.081985, -86.354087, Benton Harbor, Michigan). Rupp (RP) seed company donated pumpkin seeds. Overall trial conditions were excellent, and the crop was harvested early due to the environmental conditions compounded with black plastic mulch pushing the plants to produce and ripen fruit early.

Implementation Of A New Non-Destructive Phytobenthic Index (Npi) With The Posidonia Biotic Index (Bipo) To Evaluate The Ecological Status Of The Turkish Aegean Coasts (Eastern Mediterranean), Ergün Taşkin, Aysu Güreşen, Furkan Bi̇lgi̇ç

Turkish Journal of Botany

Within this study, the ecosystem status of the Aegean Sea coasts of Türkiye (Eastern Mediterranean) was assessed using the Posidonia Biotic Index (BiPo) and a newly proposed Non-destructive Phytobenthic Index (NPI) according to the requirements of the Water Framework Directive (WFD 2000/60/EC). In addition, their relations with Land Uses Simplified Index for shallow water macroalgae (MA₋LUSI) were evaluated. The descriptors measured through NPI were: shoot density, cover, depth and type of lower limit of Posidonia meadows and cover of other macrophytic communities; Cymodocea/Zostera, canopy forming brown, coralligenous, opportunistic and alien macroalgae. The “good” status is presented by mean value of …

A New Species Of Polygonum Sect. Polygonum (Polygonaceae) From Southwest Of Türkiye, Kami̇l Coşkunçelebi̇, Suzan Kundakçi, Mutlu Gültepe, Serdar Makbul

Turkish Journal of Botany

Polygonum uysalii (Polygonaceae), a new species from the transition zone between Mediterranean and Irano-Turanian floristic region of Türkiye is described based on morphological and molecular evidence. The new species is similar to P. ekimianum and P. salebrosum endemic to Türkiye, but it clearly differs by its ovate-broadly elliptic leaf (not linear–lanceolate to narrowly elliptic- suborbicular), 0.9 ̶ 1.6 mm length pedicel (not 2.1 ̶ 4.88 mm), dark brown ochrea at base (not pale brown) and trigonous fruit (not weakly trigonous only in upper part or ovate-elliptic). Diagnostic characters and phylogeny of the new species are discussed with respect to taxonomy …

Oregon State Rank Assessment For Pt. Reyes Bird's-Beak (Chloropyron Maritinum Ssp. Palustre), Nora Dunkirk, Gabriel E. Campbell

Institute for Natural Resources Publications

Oregon state conservation status assessment for Pt. Reyes bird's-beak (Chloropyron maritimum ssp. palustre) using NatureServe methodology, 2024.

Responses Of Salvia Nemorosa L. To Silver Nanoparticle And Methyl Jasmonate Stimuli Under Salt Stress, Bi̇lal Andi̇ç, Pinar Orcan

Turkish Journal of Botany

The present study evaluated the effects of methyl jasmonate (MeJA) and silver nanoparticles (AgNP) on Salvia nemorosa L. under NaCl stress. To this end, total soluble sugar, total phenolic and flavonoid contents, total antioxidant capacity, H2O2 content, photosynthetic pigment, MDA, and proline contents, and enzymatic antioxidant activities were assessed. When the results for photosynthetic pigment contents were evaluated, the highest levels of total carotenoid content, chlorophyll a, and chlorophyll b were obtained with NaCl + AgNP + MeJA treatment. Under NaCl stress, MDA and H2O2 levels increased, but they decreased when AgNP and MeJA were applied. All treatment groups had …

Analysis Of Nanobubble-Oxygenated Water For Horticultural Applications, Eric J. Deboer, Michael D. Richardson, Thanos Gentimis, John Mccalla

Horticulture Faculty Publications and Presentations

The theoretical properties of nanobubbles (NBs), such as a negative surface charge and large interfacial surface area, allow for highly efficient gas transfer and stagnation time in water and may reduce the surface tension of NB-treated water sources. These properties make NBs unique candidates for addressing issues like root zone oxygen deficiency, common in conventional and hydroponic crop production. Therefore, the objectives of this research were to confirm the presence of NBs in treated water and determine how time and temperature affect dissolved oxygen (DO) retention in NB-oxygenated water. Two membrane-based NB injection systems were compared with a standard method …

Evaluating The Usefulness Of Date Seed (Phoenix Dactylifera) Derived Biochar For The Removal Of Caffeine From Aqueous Media: Isothermal And Kinetic Studies, Kenesha Wilson, Imane Belyamani, Nora Jamal Saleh, Fatema Jamal Hasan Haji

All Works

Caffeine's emergence as a pollutant has been observed in manufacturing practices in the pharmaceutical and personal care product industries. To address the issue, this study aims to explore the potential of using date seed-derived biochar for the adsorption of caffeine from aqueous solutions. A distinct porous structure of the biochar's surface was established by Scanning Electron Microscopy, and a chemical composition rich in aromatic moieties was revealed using Fourier Transform Infrared Spectroscopy (FTIR). The highest efficiency of caffeine removal, 60%, was achieved after 120 minutes at a pH of 2. The rate at which caffeine was adsorbed followed the pseudo-second …

A Markov Regime-Switching Event Response Model: Beef Price Spread Response To Processing Capacity Shocks, Eunchun Park, Christopher N. Boyer, Clinton L. Neill

Agricultural Economics and Agribusiness Faculty Publications and Presentations

This research introduces a new method for event studies in time-series analysis named the Markov regime-switching event response model (MS-ERM). The MS-ERM is a comprehensive approach that integrates two different event study approaches: 1) measuring the impact of an event through structural shift and 2) measuring the impact via additional distributional components. As an empirical application, the study measures the impact of beef-packing plant closures on the weekly live-to-cutout beef price spread. The results indicate that the MS-ERM is a promising tool for event studies, particularly when an empirical dataset has both groups of events that cause and do not …

Evaluation Of 18 Bell Pepper Cultivars In Southwest Michigan In 2024, Ben Phillips

Midwest Vegetable Trial Reports

A bell pepper cultivar trial was planted at the Southwest Michigan Research and Extension Center (42.081985, -86.354087, Benton Harbor, Michigan). Bejo (BJ), Clifton (CL), Enza Zaden (EZ), Sakata (SK), Seminis (SE), and United Genetics (UG) seed companies donated bell pepper cultivars for plastic-mulch bedded and trellised hand harvest. Overall trial conditions were excellent, however our pre-plant fertilizer mixing was outsourced this year, and a spreader was rented from the same company. Due to either a mixing error or a misapplication with a piece of unfamiliar or malfunctioning equipment, the plots received a toxic level of boron, which remained in plant …

Ar (Cag)N Microsatellite And Apex1 C444t>G (Pasp148glu) Polymorphisms As Independent Prognostic Biomarkers In Prostate Cancer: Insights From An Argentinian Cohort, Gaston Pascual, Agustina Sabater, Juan Bizzotto, Rocio Seniuk, Pablo Sanchis, Estefania Labanca, Osvaldo Mazza, Elba Vazquez, Ayelen Toro, Federico Prada, Geraldine Gueron, Javier Cotignola

Faculty, Staff and Student Publications

Background/objectives: Prostate cancer (PCa) is the leading malignancy and the third most common cause of cancer-related death in Argentinian men. Predicting outcomes in localized PCa remains difficult due to tumor heterogeneity. In this study, we assessed the impact of AR (CAG)n and APEX1 c.444T>G polymorphisms on biochemical relapse in Argentine patients with localized PCa.

Methods: We genotyped blood samples from 123 PCa patients for AR (CAG)n and APEX1 p.Asp148Glu (c.444T>G) polymorphisms. Associations with clinicopathological parameters and biochemical relapse-free survival (BRFS) were assessed.

Results: AR (CAG)20-23 was associated with a family history of breast/ovarian cancer (p = 0.0469). …

The Il-1Β Inhibitor Canakinumab In Previously Treated Lower-Risk Myelodysplastic Syndromes: A Phase 2 Clinical Trial, Juan Jose Rodriguez-Sevilla, Vera Adema, Kelly S Chien, Sanam Loghavi, Feiyang Ma, Guillermo Montalban-Bravo, Xavier Calvo, Joby Joseph, Kristy Bodden, Guillermo Garcia-Manero, Simona Colla

Faculty, Staff and Student Publications

In myelodysplastic syndromes (MDS), the IL-1β pathway is upregulated, and previous studies using mouse models of founder MDS mutations demonstrated that it enhances hematopoietic stem and progenitor cells' (HSPCs') aberrant differentiation towards the myeloid lineage at the expense of erythropoiesis. To evaluate whether targeting the IL-1β signaling pathway can rescue ineffective erythropoiesis in patients with MDS, we designed a phase 2 non-randomized single-arm clinical trial (NCT04239157) to assess the safety profile and efficacy of the IL-1β inhibitor canakinumab in previously treated lower-risk MDS patients. We enrolled 25 patients with a median age of 74 years; 60% were male, 16% had …

Assessment Of Heavy Metal Concentration In Orange-Spotted Trevally (Flavocaranx Bajad) From Two Coastal Locations In Abu Dhabi, United Arab Emirates, Kholood Khaled Aljaberi

Thesis/ Dissertation Defenses

This study investigates concentration of heavy metals in the Orange-spotted Trevally (Flavocaranx bajad) from two distinct coastal location in Abu Dhabi Emirate, Sila and Abu Dhabi. Heavy metal pollution poses a significant risk to both marine ecosystems and human health, thus it is vital to conduct comprehensive assessments to heavy metal contaminations in aquatic life. The main aim of this study is to quantify the levels of heavy metals and assess the extent of metal pollution in samples from both sites. The samples were prepared and analyzed using microwave digestion system and ICP Optical Emission Spectrometer to determine metal concentrations. …

Investigating Secondary Metabolites Of Streptomyces And Bacillus Bacteria That Inhibit Colony Growth Of Pathogenic Potato Fungi (Colletotrichum Coccodes, Pythium Ultimum), Jacob R. Henrie

Theses and Dissertations

Potato (Solanum tuberosum) is a crucial global food crop, yet its production is threatened by fungal pathogens such as Pythium ultimum and Colletotrichum coccodes, which cause significant yield losses and impact tuber quality. In this study, we investigated the antifungal properties of various Streptomyces and Bacillus isolates against these pathogens. The Streptomyces isolates, known for their prolific secondary metabolite production, were selected for their varying efficacy against these fungi. Despite the anticipated potential, Streptomyces isolates exhibited limited antifungal activity against Pythium ultimum and only moderate activity against Colletotrichum coccodes. In contrast, Bacillus isolates, particularly B1, demonstrated strong inhibition of C. …

#Porkandpigs: An Online Media Listening Analysis Of Public Perception Of The U.S. Swine Industry, Alexandra E. Fisk, Michael L. Smith, Brian T. Richert, Nicole Olynk Widmar

Department of Agricultural Economics Faculty Publications

With the majority of the U.S. swine industry being generally bounded by social licensing, there is a growing need to understand social perspectives to better adapt to consumer demands. Online and social media data are rich datasets that researchers are leveraging to tackle economic and societal challenges. The information that can be gleaned from online media regarding public perceptions makes it an important tool for producers to understand driving topics of interest to the public. This study utilized a prominent online and social media listening and data analytics platform to identify and quantify online and social media mentions related to …

What Motivates The Choice To Custom Hire Pest Management Spraying Services?, Braeden Van Deye, Trey Malone

Department of Agricultural Economics Faculty Publications

BACKGROUND

This article presents a model of how farmers choose to custom hire for pest control. The decision-making process is illustrated through a discrete choice experiment conducted via a pilot survey of soybean growers in Michigan, Illinois, and Indiana. Farmers responded to a hypothetical pest infestation by choosing between custom operators, spraying on their own, or leaving the field to its fate.

RESULTS

Among farmers who choose to spray, the mean willingness to pay for marginal increases in timeliness (as defined as the chance of late spraying) ranges from 37 to 52 cents per acre. We also find that farmers …

Exploring The Journey Of Stem Faculty Into Justice-Centered Pedagogy, Desiree Forsythe, Bryan Dewsbury, Jeremy L. Hsu

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

In higher education and science, technology, engineering, and mathematics (STEM), interlocking oppressions can lead to inequitable environments for those who hold marginalized identities. Instructors can play key roles in either exacerbating or mitigating these inequities through their pedagogical approaches and choice of curricular material. However, it remains unclear how instructors who self-identify as committed to justice achieve higher levels of consciousness around areas of injustice and develop the self-efficacy to dismantle barriers for students over time. Here, we draw upon critical race theory and critical white studies to investigate what events or life experiences influence STEM instructors to understand the …

Wolves Across Borders, Ilse Storch, Aimee Tallian, Luigi Boitani, Cecilia Di Bernardi, Josip Kusak, Çağan Şekercioğlu, Douglas Smith, John Vucetich, Barbara Zimmermann

Michigan Tech Publications

No abstract provided.

The Great Lakes Winter Grab: Limnological Data From A Multi-Institutional Winter Sampling Campaign On The Laurentian Great Lakes, Ge Pu, Krill Shchapov, Nolan J.T. Pearce, Kelly Bowen, Andrew Bramburger, Andrew Camilleri, Maci Quintanilla, Trista Vick-Majors, Et Al.

Michigan Tech Publications

Interest in winter limnology is growing rapidly, but progress is hindered by a shortage of standardized multivariate datasets on winter conditions. Addressing the winter data gap will enhance our understanding of winter ecosystem function and of lake response to environmental change. Here, we describe a dataset generated by a multi-institutional winter sampling campaign across all five Laurentian Great Lakes and some of their connecting waters (the Great Lakes Winter Grab). The objective of Winter Grab was to characterize mid-winter limnological conditions in the Great Lakes using standard sample collection and analysis methods. Nineteen research groups sampled 49 locations varying widely …

Scholar Perspectives On The Impact Of A Scientific Community Program For Neurodivergent Undergraduate Stem Scholars, Dylan Sullivan, Fernando Zavala, Derek Hidalgo, Jacob Stolle, Rebecca Matte, Christin B. Monroe

Journal of Science Education for Students with Disabilities

Despite the adaptive strengths and unique problem-solving skills demonstrated by neurodivergent (ND) individuals, they remain underrepresented in Science, Technology, Engineering and Mathematics (STEM) fields. High unemployment rates among individuals with disabilities emphasize the need for addressing barriers to entry and persistence in the workforce. This study introduces a program designed to enhance opportunities for neurodivergent STEM scholars with financial needs, supported by the National Science Foundation (NSF). The program involves: 1) a weekly cohort course to engage in professional development, 2) use of the Birkman Method® survey to help scholars identify and communicate strengths, fostering self-awareness and growth, and 3) …

Tityopsis Rolandoi Sp. N. (Scorpiones: Buthidae) From Cuba, František Kovařík, Mark Stockmann, František Šťáhlavský, Sheyla Yong

Euscorpius

A new species Tityopsis rolandoi sp. n. is described from Cuba, fully illustrated with color photos showing its morphology and habitus. T. rolandoi sp. n. is the only species of the genus with a combination of two characters: movable finger shorter than carapace and chela length/width ratio 3.6 in male. This species also has a characteristic shape of a median smooth patch of sternite V, which is almost oval in male. In addition to morphology, we present the information about the karyotype of T. rolandoi sp. n. (2n=20) and T. sheylae (2n=22).

Todaro Channeled Apple Snail (Pomacea Canaliculata), Jasmyn Todaro, Amy C. Hirons

Hirons Field Techniques

Channeled Apple Snail (Pomacea canaliculata) shell.

The Effects Of Sunlight On The Decomposition Rate Of Opuntia Humifusa, Paul George, Elena Amonette, Celine W. Seder, Katherine Massaro

Science University Research Symposium (SURS)

Plant decomposition plays a critical role in community and ecosystem ecology by recycling minerals and returning nutrients to the soil. The rate of plant decomposition can be impacted by a multitude of factors including chemical composition of the plant, presence of decomposing microorganisms, temperature, and more. This study sought to quantify the effects of sunlight on plant decomposition. In this project, Opuntia humifusa (prickly pear) were placed outside on the Belmont greenroof to decompose in sunny and shaded environments. The plants were collected over a period of 12 weeks, and data on the masses of the decomposing plants was used …

Post-Harvest Processing Practices Of Small-Scale Fisherfolk From Rosario, Cavite, Philippines: Physicochemical And Microbiological Properties Of Tuyo, Abigail Ann Alano Ching, Myrna Benita Zamora Luna, Janice A. Ragaza

Biology Faculty Publications

Dried, salted fish (Sardinella spp.), locally known as tuyo, is a Filipino food staple. Pandawan fisherfolk consider tuyo processing as their main source of livelihood. This study determined the relation of post-harvest practices with the physicochemical and microbiological quality of tuyo. Tuyo processing involves receiving, washing, salting, rinsing, sun-drying, pressing, cooling, and packaging. Although the documented tuyo processing complied with the code of practice, processors needed to follow Good Manufacturing Practices. Moreover, tuyo had lower salt content (7.77-9.08 %NaCl), higher water activity (0.79-0.81), and aerobic plate count (7.82-8.36 log CFU/g) compared to national standards. Its yeast and mold count (3.58-3.66 …

Enhancing Chemotherapy: Synergistic Action Of Cisplatin And Berberine Hydrochloride Against Osteosarcoma, Adam S. Al-Droubi, Andrea Florian

Science University Research Symposium (SURS)

Osteosarcoma, the most common type of bone cancer, is notably aggressive and prone to a rapid rate of metastasis. When the tumor is localized; the survival rate is approximately 76% and can often be treated with surgery. However, once metastasis occurs, the survival rate drops to 24% and must be treated with chemotherapy. The standard treatment for metastatic osteosarcoma typically involves combination therapeutics, with cisplatin being a key component despite its severe side effects. Unfortunately, osteosarcoma exhibits a natural resistance to chemotherapy driven by the overexpression of drug efflux pumps, DNA repair mechanisms, and apoptosis avoidance mutations. To address these …

11.11.2024 Orsp Connect, Liz Williamson

ORED Newsletter

Radiation Safety Committee Updates

Getting Started with PIVOT_RP

Small Grants Program

Smokejumper Obituary: Davis, Jeffery R. “Jeff” (Missoula 1957), National Smokejumper Association

Smokejumper Obituaries

No abstract provided.

Smokejumper Obituary: Brennan, Joseph William “Joe” (Redmond 1986), National Smokejumper Association

Smokejumper Obituaries

No abstract provided.

Smokejumper Obituary: Montgomery, Bruce A. (Idaho City 1965), National Smokejumper Association

Smokejumper Obituaries

No abstract provided.

Genetically Determined Telomere Length In Monoclonal Gammopathy Of Undetermined Significance, Multiple Myeloma Risk And Outcome, Matteo Giaccherini, Alyssa I Clay-Gilmour, Romano Liotti, Angelica Macauda, Manuel Gentiluomo, Mitchell J Machiela, Michelle A T Hildebrandt, Aaron D Norman, Elisabet Manasanch, S Vincent Rajkumar, Jonathan N Hofmann, Sonja I Berndt, Parveen Bhatti, Graham G Giles, Elad Ziv, Shaji K Kumar, Nicola J Camp, Wendy Cozen, Susan L Slager, Federico Canzian, Federica Gemignani, Celine M Vachon, Daniele Campa

Faculty, Staff and Student Publications

No abstract provided.