Digital Commons Network^™

Sars-Cov-2 Omicron: Viral Evolution, Immune Evasion, And Alternative Durable Therapeutic Strategies, Hailong Guo, Sha Ha, Jason W Botten, Kai Xu, Ningyan Zhang, Zhiqiang An, William R Strohl, John W Shiver, Tong-Ming Fu

Faculty, Staff and Student Publications

Since the SARS-CoV-2 Omicron virus has gained dominance worldwide, its continual evolution with unpredictable mutations and patterns has revoked all authorized immunotherapeutics. Rapid viral evolution has also necessitated several rounds of vaccine updates in order to provide adequate immune protection. It remains imperative to understand how Omicron evolves into different subvariants and causes immune escape as this could help reevaluate the current intervention strategies mostly implemented in the clinics as emergency measures to counter the pandemic and, importantly, develop new solutions. Here, we provide a review focusing on the major events of Omicron viral evolution, including the features of spike …

Sex-Related Differences In Reaction Time During Normobaric Hypoxic Hypoxia In Physically Active University Students, Danielle Passburg

Senior Honors Theses

Limited research has been completed on the sex-related differences in reaction time during hypoxic hypoxia. This is concerning due to the importance of reaction time during hypoxic hypoxia in aviation (particularly within the realm of military aviation). The purpose of this study was to examine the sex-related differences in reaction time during hypoxic hypoxia in university students. The study used a normobaric oxygen device to simulate hypoxic states and Delphi computer software to test reaction time. Subjects were physically active university students (10 females, 10 males). The results of the study showed no significant differences between sexes in reaction times …

A Comparison Of Synthetic Fungicide And Trichoderma Spp. Applications Against Clubroot Disease On Cabbage, Rasiska Tarigan, Rina Christina Hutabarat, Bina Karo, Perdinanta Sembiring, Delima Napitupulu, Supardi, Rudi Cahyo Wicaksono, Jamaluddin, Wiwin Setiawati, Ahsol Hasyim

Jurnal Kultivasi

Clubroot is one of the important diseases affecting members of the Cruciferae family. This disease is caused by soil-borne pathogen, called Plasmodiophora brassicae. The pathogen produces motile spores called zoospores. This pathogen results in a drop of cruciferous plant productivity. The objectives of this research were to identify specific Trichoderma species in three districts in Sumatra Utara and to evaluate the potency of T. harzianum (both local species from Berastagi and species developed by Indonesian Vegetable Research Institute (IVEGRI)) to control the disease and then comparing them with the application of synthetic fungicide. The research was conducted in a greenhouse …

Additional Cocopeat And Coconut Water Improves The Seedling Growth Of Robusta Coffee, Intan Ratna Dewi Anjarsari, Anita Febiola, Mira Ariyanti, Ifwarisan Defri

Jurnal Kultivasi

Robusta coffee production can be sucessed by using high-quality seedlings that have good growth performance. One of several keys to success in seedling production is the choosing best planting medium and providing exogenous growth regulators. These include using cocopeat planting media and giving coconut water. This research aims to determine whether using cocopeat planting media and providing coconut water can increase the growth of robusta coffee seedlings. The experiment used a randomized complete group design with six treatments and four replications; each experimental unit consisted of three robusta coffee seedlings. The six tested treatments were control (topsoil 100%); cocopeat 50% …

The Effect Of Fruit Maturation Stage On Seed Germination Of Iaa9-3 And Iaa9-5 Tomato Mutants, Elfa Muhammad Ihsan Al Aufa, Syariful Mubarok, Anne Nuraini, Rahmat Budiarto, Nurmalita Waluyo, Hiroshi Ezura

Jurnal Kultivasi

One of the internal factors that play an important role in seed quality is the level of the phytohormone auxin. Efforts to increase auxin in seeds include developing new varieties with increased indigenous auxin, such as those found in mutant tomatoes from Micro-Tom, namely iaa9-3 and iaa9-5. This research was conducted to determine the germination response of iaa9-3 and iaa9-5 mutant tomato seeds at different levels of the fruit maturation stage. The research was carried out at the Seed Technology Laboratory, Faculty of Agriculture, Padjadjaran University, and the Seed Testing Laboratory of the Center for Standard Testing of Vegetable Plant …

Electrocatalytic Cyclopropanation Of Active Methylene Compounds, Liang-Hua Jie, Hai-Chao Xu

Journal of Electrochemistry

The development of novel strategies to access cyclopropanes has become increasingly important due to the vital role of these three-membered ring structures in synthetic intermediates, natural products, and pharmaceuticals. Herein, we present an electrocatalytic method for the synthesis of cyclopropanes through intermolecular dehydrogenative annulation of active methylene compounds and arylalkenes. This electrochemical process requires no chemical oxidants, allowing for a speedy access to various functionalized cyclopropanes from inexpensive and readily available materials.

Planting Of Stimulated Corn Seeds At Different Dates In Spring Seasons, M. M. Khudhair, J. H. Hamza, H. Z. Rihan

School of Biological and Marine Sciences

This study was aimed to investigate the appropriate planting date and tolerance to adverse growing conditions in the spring season through seeds stimulation technology. A field experiment was carried out in the spring seasons of 2022 and 2023 according to a randomized complete block design in a split-plot arrangement with four replications. The main factor is planting dates (February 15^th, March 1^st and 15^th, and April 1^st and 15^th). The secondary factor is seeds stimulation (potassium nitrate 6 mg L ^-1 + licorice extract 6 g L ^-1, as well as …

Aso Author Reflections: Outcomes Of Hepatic Artery-Based Therapies And Systemic Multiagent Chemotherapy In Unresectable Colorectal Liver Metastases: A Systematic Review And Meta-Analysis, Lee M. Ocuin

Faculty Scholarship

No abstract provided.

Direct Implantation Of Patient Brain Tumor Cells Into Matching Locations In Mouse Brains For Patient-Derived Orthotopic Xenograft Model Development, Lin Qi, Patricia Baxter, Mari Kogiso, Huiyuan Zhang, Frank K Braun, Holly Lindsay, Sibo Zhao, Sophie Xiao, Aalaa Sanad Abdallah, Milagros Suarez, Zilu Huang, Wan Yee Teo, Litian Yu, Xiumei Zhao, Zhigang Liu, Yulun Huang, Jack M Su, Tsz-Kwong Man, Ching C Lau, Laszlo Perlaky, Yuchen Du, Xiao-Nan Li

Center for Medical Ethics and Health Policy Staff Publications

Background: Despite multimodality therapies, the prognosis of patients with malignant brain tumors remains extremely poor. One of the major obstacles that hinders development of effective therapies is the limited availability of clinically relevant and biologically accurate (CRBA) mouse models.

Methods: We have developed a freehand surgical technique that allows for rapid and safe injection of fresh human brain tumor specimens directly into the matching locations (cerebrum, cerebellum, or brainstem) in the brains of SCID mice.

Results: Using this technique, we successfully developed 188 PDOX models from 408 brain tumor patient samples (both high-and low-grade) with a success rate of 72.3% …

New Records Of Mesobuthus Mesopotamicus (Penther, 1912) In Iraq And Mesobuthus Faiki Sp. Nov. From Turkey (Scorpiones: Buthidae), Ersen A. Yağmur, František Kovařík, Victor Fet, Ridvan Kurt, Fenik S. Hussen, Azhar M. Al-Khazali, Hamid S. Kachel, Ali A. Al-Fanharawi

Euscorpius

New locality records for Mesobuthus mesopotamicus (Penther, 1912) are given from Iraq. The populations from southeastern Turkey, earlier identified as M. mesopotamicus by Kovařík et al. (2022), are examined and compared with the specimens from the area close to the type locality of M. mesopotamicus. These populations are described as a new species, Mesobuthus faiki sp. nov. Detailed illustrations of both species and a map are given.

An Examination Of The Eastern Nebraska And Western Iowa Flash Flood Event Of 6-7 August 1999, Catherine M. Zapotocny

National Oceanographic and Atmospheric Administration: Technical Reports and Related Materials

Flash flooding occurs each summer in eastern Nebraska and western Iowa. While 10-inch rains are extraordinary, it is not uncommon to have at least one excessive rain event during the annual convective season. A significant flash flood occurred in east central Nebraska and western Iowa the night of August 6, 1999 into the morning of August 7, 1999. Antecedent hydrologic conditions limited the loss of life, however considerable property damage resulted as the heavy rain fell over the urbanized areas in eastern Nebraska and western Iowa.

Several flash flood ingredients came together over the area. These meteorological factors are typical …

Where To Test A Nuclear Bomb, Tyler Kliegl

The Purdue Historian

The United States detonated three underground nuclear bombs on a far-off Alaskan island called Amchitka in the 1960s and 70s. The goal is to understand what the motive of the United States in selecting Amchitka over the endless potential sites to test at were. What makes a place worthy in being tested on, or unworthy in being left alone. How does the United States deal with resistance from locals and other organizations, fighting to prevent their tests.

Asylum Architecture: The Brick-By-Brick Development Of Patient Treatment, Kris D. Sass

The Purdue Historian

The following research and analysis will investigate the intersection of architecture and treatment in asylums with a specific interest on the time period of the late 19^th century to mid-20^th century in the United States. Not only were specific environmental demands key to some treatment methodologies, such as rural environments to moral therapy, but the architecture of mental hospitals were integral parts of patient’s experiences. Here three specific hospital designs will be analyzed: the Kirkbride Plan, the Cottage Plan, and Kiyoshi Izumi’s Socio-Petal. The following analysis will be built on a series of blueprints, building notes, secondary histories, …

Spring Commencement, 2024, Marshall University

Marshall University Commencement

Program for the One Hundred Eighty-Seventh Commencement of Marshall University, Saturday, April 27, 2024 held at the Mountain Health Arena in Huntington, West Virginia.

The Purification And Thermal Stability Of The Peroxidase Enzyme In Cucurbita Moschata, Garen Hamner

Senior Honors Theses

Peroxidases are enzymes that catalyze the reduction of hydrogen peroxide to water while oxidizing organic substrates and are valuable in spheres like industrial and medical applications and histochemistry. Limitations still exist in the use of the well-studied horseradish peroxidase for certain activities due to limitations like poor thermal stability, thus the search for novel peroxidases that can overcome these limitations is an active area of research. Butternut squash peroxidase (Cucurbita moschata) (BSP) shows promise due to significant activity being found in the skin and apparent enhanced thermal stability, but an efficient purification scheme for it is lacking, as well as …

Efficient Gene Knockout And Genetic Interaction Screening Using The In4mer Crispr/Cas12a Multiplex Knockout Platform, Nazanin Esmaeili Anvar, Chenchu Lin, Xingdi Ma, Lori L Wilson, Ryan Steger, Annabel K Sangree, Medina Colic, Sidney H Wang, John G Doench, Traver Hart

Faculty, Staff and Student Publications

Genetic interactions mediate the emergence of phenotype from genotype, but technologies for combinatorial genetic perturbation in mammalian cells are challenging to scale. Here, we identify background-independent paralog synthetic lethals from previous CRISPR genetic interaction screens, and find that the Cas12a platform provides superior sensitivity and assay replicability. We develop the in4mer Cas12a platform that uses arrays of four independent guide RNAs targeting the same or different genes. We construct a genome-scale library, Inzolia, that is ~30% smaller than a typical CRISPR/Cas9 library while also targeting ~4000 paralog pairs. Screens in cancer cells demonstrate discrimination of core and context-dependent essential genes …

Synthesis And Characterization Of Silver(I) And Manganese(Ii) Complexes With Thione Imidazoles, Shannon Keyser, Audrey Lawrence, Jaime M. Murphy Ph.D.

Honors Theses

Coordination polymers are chemical complexes with versatile applications such as catalysts, electrical conduc-tors, non-linear optics, magnetics, chemical sensing, and molecular storage. The polymers are comprised of a repeating series of metal-ligand complexes, which form various structures in varying ratios depending on the metal and ligand used. Certain metal-ligand combinations have shown particular promise as potentially being polymers or, if not polymers, possessing other useful features such as electromagnetic conductivity. Complexes were synthesized using silver(I) and manganese(II) with the ligands methimazole, 2-mercaptoimidazole, and thiocarbanilide with counterions of either chloride or nitrate. These com-plexes were characterized using elemental analysis, infrared spectroscopy, and …

Guidelines For Data Collection On Energy Performance Of Higher-Education Buildings In Egypt: A Case Study, Hesham Safwat, Ahmed A. Abdel-Rehim, Iman El-Mahallawi, Abdelwahab Hussein, Engy Elshazly, Ahmad Elshamy

Mechanical Engineering

Reliable energy analysis of buildings relies heavily on high-quality data leading to proper indicators. Previous studies have highlighted the importance of data quality in analyzing energy usage in residential and non-residential buildings in order to transform declarations to actions, optimise energy efficiency policies and monitor progress and failures in countries. Collected data must adhere to national and international standards for energy performance in buildings. This study aims to provide practical guidelines for effectively collecting and preparing data suitable for evaluating energy performance in Egyptian higher-education (HE) buildings. The guidelines are developed based on a comprehensive case study, considering data availability …

Utility Of Clinical Next Generation Sequencing Tests In Kit/Pdgfra/Sdh Wild-Type Gastrointestinal Stromal Tumors, Ryan A Denu, Cissimol P Joseph, Elizabeth S Urquiola, Precious S Byrd, Richard K Yang, Ravin Ratan, Maria Alejandra Zarzour, Anthony P Conley, Dejka M Araujo, Vinod Ravi, Elise F Nassif Haddad, Michael S Nakazawa, Shreyaskumar Patel, Wei-Lien Wang, Alexander J Lazar, Neeta Somaiah

Faculty, Staff and Student Publications

Objective: The vast majority of gastrointestinal stromal tumors (GISTs) are driven by activating mutations in KIT, PDGFRA, or components of the succinate dehydrogenase (SDH) complex (SDHA, SDHB, SDHC, and SDHD genes). A small fraction of GISTs lack alterations in KIT, PDGFRA, and SDH. We aimed to further characterize the clinical and genomic characteristics of these so-called "triple-negative" GISTs.

Methods: We extracted clinical and genomic data from patients seen at MD Anderson Cancer Center with a diagnosis of GIST and available clinical next generation sequencing data to identify "triple-negative" patients.

Results: Of …

Examining The Effect Of Genes On Depression As Mediated By Smoking And Modified By Sex, Kirsten Voorhies, Julian Hecker, Sanghun Lee, Georg Hahn, Dmitry Prokopenko, Merry-Lynn Mcdonald, Alexander C Wu, Ann Wu, John E Hokanson, Michael H Cho, Christoph Lange, Karin F Hoth, Sharon M Lutz

Faculty, Staff and Student Publications

Depression is heritable, differs by sex, and has environmental risk factors such as cigarette smoking. However, the effect of single nucleotide polymorphisms (SNPs) on depression through cigarette smoking and the role of sex is unclear. In order to examine the association of SNPs with depression and smoking in the UK Biobank with replication in the COPDGene study, we used counterfactual-based mediation analysis to test the indirect or mediated effect of SNPs on broad depression through the log of pack-years of cigarette smoking, adjusting for age, sex, current smoking status, and genetic ancestry (via principal components). In secondary analyses, we adjusted …

Histone Proteoform Analysis Reveals Epigenetic Changes In Adult Mouse Brown Adipose Tissue In Response To Cold Stress, Bethany C Taylor, Loic H Steinthal, Michelle Dias, Hari Krishna Yalamanchili, Scott A Ochsner, Gladys E Zapata, Nitesh R Mehta, Neil J Mckenna, Nicolas L Young, Alli M Nuotio-Antar

Faculty, Staff and Students Publications

BACKGROUND: Regulation of the thermogenic response by brown adipose tissue (BAT) is an important component of energy homeostasis with implications for the treatment of obesity and diabetes. Our preliminary analyses of RNA-Seq data uncovered many nodes representing epigenetic modifiers that are altered in BAT in response to chronic thermogenic activation. Thus, we hypothesized that chronic thermogenic activation broadly alters epigenetic modifications of DNA and histones in BAT.

RESULTS: Motivated to understand how BAT function is regulated epigenetically, we developed a novel method for the first-ever unbiased top-down proteomic quantitation of histone modifications in BAT and validated our results with a …

The Deep-Sea And The Complex Ethical Conundrum Of Mining The Seafloor, Aaron Martino

Academic Festival

No abstract provided.

Investigation Of The Role Of Deregulated Mir-654 And Mir-4454 In Melanoma Pathogenesis And Progress, Julianna Doucette, Jaclyn Doucette, Farah Mahmood

Academic Festival

Investigation of the role of deregulated miR-654 and miR-4454 in melanoma pathogenesis and progress.

Farah Mahmood, Jaclyn Doucette, Julianna Doucette, Sankhiros Babapoor, PhD.

The incidence of melanoma has continually increased mortality rates over the past decade in the United States. In 2013, it was estimated that 76,690 individuals (both male and female) were diagnosed with new cases of cutaneous melanoma, and out of those cases, 9,480 resulted in death. MicroRNA(miRNA)s are endogenous, 22 nucleotide non-coding small RNAs, which can regulate gene expression in animals and plants by complementary base-pairing to the mRNAs of target genes- which specifies mRNA cleavage or …

Breaking The Stigma And Raising Awareness: The Grisly Effects Developmental Trauma Has On Early Adulthood And How To Put A Stop To This Monstrosity, Grace Fleishman

Academic Festival

I lived a great childhood, and I mean really great. I had a seemingly stable home life and the world was full of colors and endless possibilities. Then suddenly, on my twentieth birthday, I found myself locked in a psych ward not wanting to be alive. Imagine growing up in a world full of colors. Everything is bright and happy and you live in a house full of love, safety, and security. Then, once you hit early adulthood, the world goes gray.

Sometimes, you cannot always describe why you feel a certain way or why things are the way that …

Community Composition Of Meiofauna In Bridgeport, Ct, Katie O'Riordan

Academic Festival

Meiofauna are small invertebrates (0.04-1mm) that live between sand grains in aquatic environments (Coull and Giere 1988; Fig. 1). They can indicate ecosystem health since they are short-lived and their community composition can rapidly change with environmental and anthropogenic factors (Kennedy and Jacoby 1999; Balsamo et al. 2012). This project aims to establish whether visual identification at high taxonomic levels (i.e., phylum, class, family) could adequately analyze community changes along a degraded marshland (Seaside Park, Bridgeport, CT) or if genetic analysis is required to accurately identify meiofauna at the levels of family, genus, or species. Samples were collected tri-annually in …

Cognitive Copycats: An Eeg Study Of Imitative Behavior In Infants, Isabella Leva

Academic Festival

The neural mirroring system activates during action observation and execution. This overlap in activation may support various social cognitive functions (e.g., imitation)—however, associations between infants’ neural mirroring activity and imitation remain relatively unclear. The present study examines whether 6-month-old infants’ mu rhythm desynchronization (MRD; indicator of neural mirroring system activity) is associated with their imitation. We hypothesized that infants with stronger MRD during action observation would imitate more actions than infants with weaker MRD.

The Impact Of Velocity Based Training On Lower Body Muscular Power In Division 1 Men's Lacrosse Players, Aidan Glennon

Academic Festival

The purpose of this study was to compare the results of a maximal jump assessment across a ten-week period of lower extremity power-focused resistance training. The aim of the study was to evaluate an undulating velocity-based training (VBT) program for the barbell back squat compound movement and how it would affect maximal counter-movement jump (CMJ) height. VBT equipment was used to track variables such as mean velocity, mean power, and peak power for the barbell back squat movement for one set per week of the program. The main findings inferred that the results of the VBT program had a positive …

Patterns Of Predation In A Declining Asian Shore Crab Population At A Marsh Restoration Site, Keith Mcgann

Academic Festival

Hemigrapsus sanguineus (Asian shore crab) is an invasive crustacean that often outcompetes established species on the eastern seaboard and impacts biodiversity. Although it can have detrimental effects, the H. sanguineus population at a marsh restoration site at Stratford Point, Connecticut has declined since 2019. Understanding predation dynamics on Asian shore crabs can provide insights into the mechanisms driving this decline. We conducted a mark-recapture study to estimate H. sanguineus population size at Stratford Point as part of ongoing monitoring, yielding an estimated 33,913 crabs at the site in 2023, a 25% decline from 2022. A tethering experiment confirmed that marking …

Effects Of Seed Source And Sediment Composition On Seagrass Germination And Seedling Performance, Mason Tsaglos

Academic Festival

The global decline of seagrass meadows urgently requires finding consistently effective restoration methods. Recently, there has been increased interest in seed-based methods of seagrass restoration. However, these methods have had mixed success, with highly variable outcomes. Relatively little is known about how sediment characteristics, including soil conditioning by seagrasses, may affect seed germination and seedling success in a restoration context. To examine the effects of seed source and sediment characteristics, we conducted a laboratory experiment using eelgrass seeds collected from different source meadows and sediment collected from vegetated and unvegetated areas at restored meadows, as well as commercial sand. We …

Exploring The Interplay Among Lignin Content: A Comparative Analysis Of Age, Restoration Condition And Shoot Size In Spartina Alterniflora, Aviana Finocchiaro

Academic Festival

This study explored the role of salt marshes in supporting marine ecosystems, focusing on Spartina alterniflora and its lignin content, a key plant structural element. This research investigated how lignin correlates with age, restoration condition, and size of S. alterniflora. We hypothesized that younger, smaller plants from remnant areas would exhibit lower lignin content. Samples from remnant, recolonizing, and planted locations were collected at Stratford Point, Connecticut, and the acetyl bromide method was used to measure lignin in protein free-cell walls from each sample. A Two-factor ANOVA revealed significant differences between locations, but not between age groups or their …