Digital Commons Network^™

Dimensionality Reduction For Visualizing Spatially Resolved Profiling Data Using Spasne, Yuansheng Zhou, Chen Tang, Xue Xiao, Xiaowei Zhan, Tao Wang, Guanghua Xiao, Lin Xu

Faculty, Staff and Student Publications

Background: Spatially resolved profiling technologies to quantify transcriptomes, epigenomes, and proteomes have been emerging as groundbreaking methods for comprehensive molecular characterizations. Dimensionality reduction and visualization is an essential step to analyze and interpret spatially resolved profiling data. However, state-of-the-art dimensionality reduction methods for single-cell sequencing data, such as the t-distributed stochastic neighbor embedding (t-SNE) and uniform manifold approximation and projection (UMAP), were not tailored for spatially resolved profiling data.

Results: Here we developed a spatially resolved t-SNE (SpaSNE) method to integrate both spatial and molecular information. We applied it to a variety of public spatially resolved profiling datasets that were …

Intrinsic Adaptive Plasticity In Mouse And Human Sensory Neurons, Lisa A Mcilvried, John Smith Del Rosario, Melanie Y Pullen, Andi Wangzhou, Tayler D Sheahan, Andrew J Shepherd, Richard A Slivicki, John A Lemen, Theodore J Price, Bryan A Copits, Robert W Gereau

Faculty, Staff and Student Publications

In response to changes in activity induced by environmental cues, neurons in the central nervous system undergo homeostatic plasticity to sustain overall network function during abrupt changes in synaptic strengths. Homeostatic plasticity involves changes in synaptic scaling and regulation of intrinsic excitability. Increases in spontaneous firing and excitability of sensory neurons are evident in some forms of chronic pain in animal models and human patients. However, whether mechanisms of homeostatic plasticity are engaged in sensory neurons of the peripheral nervous system (PNS) is unknown. Here, we show that sustained depolarization (induced by 24-h incubation in 30 mM KCl) induces compensatory …

Land-Use Effects On Soil Organic Matter And Related Soil Properties In A Mixed Agricultural–Forest Landscape Of Central Wisconsin, Usa, Kathryn L. Hofmeister, Gwen Feitl, Kaylee Tackett, Leah Fleury, Lucas E. Nave

Michigan Tech Publications

Soil organic matter (SOM) influences a wide range of ecosystem processes, including nutrient cycling, water movement, plant productivity, and biodiversity. In agricultural landscapes, adjacent land uses often differ in SOM contents and related soil properties, such as soil organic carbon (SOC) stocks, but the direction and magnitude of these effects are inconsistent across studies. We assessed how land uses differed in SOM and related properties in a representative US Midwest agricultural–forest landscape to support land-use and management decisions by local landowners and producers. We measured SOM, bulk density (Db), root biomass, and pH, and estimated SOC stocks, in a Typic …

Metal-Rich Lacustrine Sediments From Legacy Mining Perpetuate Copper Exposure To Aquatic-Riparian Food Webs, Brittany G. Perrotta, Karen A. Kidd, Kate M. Campbell, Marie-Noële Croteau, Tyler J. Kane, Amy Marcarelli, R Blaine Mccleskey, Gordon Paterson, Craig A. Stricker, David M. Walters

Michigan Tech Publications

Historic copper mining left a legacy of metal-rich tailings resulting in ecological impacts along and within Torch Lake, an area of concern in the Keweenaw Peninsula, Michigan, USA. Given the toxicity of copper to invertebrates, this study assessed the influence of this legacy on present day nearshore aquatic and terrestrial ecosystems. We measured the metal (Co, Cu, Ni, Zn, Cd) and metalloid (As) concentrations in sediment, pore water, surface water, larval and adult insects, and two riparian spider taxa collected from Torch Lake and a nearby reference lake. Overall, elevated metal and metalloid concentrations, particularly Cu, were measured in all …

The Manipulation Of Odor Availability Of Training Aids Used In Detection Canine Training, Katylynn B. Sloan, Michele N. Maughan, Caitlin E. Sharpes, Robin R. Greubel, Shawna F. Gallegos, Aleksandr E. Miklos, Lindsay D. Waldrop

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Detection canines can identify numerous substances for which they have been trained. Historically, and a point of ongoing contention, detection canine threshold (i.e., sensitivity or limit of detection) training has primarily focused on changing the weight of the training aid substance used. There has been minimal focus on other principles, such as surface area, confinement, and temperature, which can be manipulated to affect odor availability. That said, trainers have been manipulating odor availability for years without necessarily understanding the governing scientific principles. The aim of this review is to highlight the principles that control odor availability of a substance and …

Aspdb: An Integrative Knowledgebase Of Human Protein Isoforms From Experimental And Ai-Predicted Structures, Yuntao Yang, Himansu Kumar, Yuhan Xie, Zhao Li, Rongbin Li, Wenbo Chen, Chiamaka S Diala, Meer A Ali, Yi Xu, Albon Wu, Sayed-Rzgar Hosseini, Erfei Bi, Hongyu Zhao, Pora Kim, W Jim Zheng

Faculty, Staff and Student Publications

Alternative splicing is a crucial cellular process in eukaryotes, enabling the generation of multiple protein isoforms with diverse functions from a single gene. To better understand the impact of alternative splicing on protein structures, protein-protein interaction and human diseases, we developed ASpdb (https://biodataai.uth.edu/ASpdb/), a comprehensive database integrating experimentally determined structures and AlphaFold 2-predicted models for human protein isoforms. ASpdb includes over 3400 canonical isoforms, each represented by both experimentally resolved and predicted structures, and >7200 alternative isoforms with AlphaFold 2 predictions. In addition to detailed splicing events, 3D structures, sequence variations and functional annotations, ASpdb uniquely offers comparative analyses and …

Metsdb: A Knowledgebase Of Cancer Metastasis At Bulk, Single-Cell And Spatial Levels, Sijia Wu, Jiajin Zhang, Yanfei Wang, Xinyu Qin, Zhaocan Zhang, Zhennan Lu, Pora Kim, Xiaobo Zhou, Liyu Huang

Faculty, Staff and Student Publications

Cancer metastasis, the process by which tumour cells migrate and colonize distant organs from a primary site, is responsible for the majority of cancer-related deaths. Understanding the cellular and molecular mechanisms underlying this complex process is essential for developing effective metastasis prevention and therapy strategies. To this end, we systematically analysed 1786 bulk tissue samples from 13 cancer types, 988 463 single cells from 17 cancer types, and 40 252 spots from 45 spatial slides across 10 cancer types. The results of these analyses are compiled in the metsDB database, accessible at https://relab.xidian.edu.cn/metsDB/. This database provides insights into alterations in …

Crisprofft: Comprehensive Database Of Crispr/Cas Off-Targets, Grant Wang, Xiaona Liu, Aoqi Wang, Jianguo Wen, Pora Kim, Qianqian Song, Xiaona Liu, Xiaobo Zhou

Faculty, Staff and Student Publications

The CRISPR (clustered regularly interspaced short palindromic repeats)/Cas (CRISPR-associated protein) programmable nuclease system continues to evolve, with in vivo therapeutic gene editing increasingly applied in clinical settings. However, off-target effects remain a significant challenge, hindering its broader clinical application. To enhance the development of gene-editing therapies and the accuracy of prediction algorithms, we developed CRISPRoffT (https://ccsm.uth.edu/CRISPRoffT/). Users can access a comprehensive repository of off-target regions predicted and validated by a diverse range of technologies across various cell lines, Cas enzyme variants, engineered sgRNAs (single guide RNAs) and CRISPR editing systems. CRISPRoffT integrates results of off-target analysis from 74 studies, encompassing …

The Association Of The Chemotherapy Response Score And Homologous Recombination Deficiency In Patients Undergoing Interval Tumor Reductive Surgery Following Neoadjuvant Chemotherapy, Roni Nitecki Wilke, Jinsong Liu, Shannon Neville Westin, Bryan M Fellman, Travis T Sims, Melissa Pham, Kelly Rangel, Esther Sey, Jose Alejandro Rauh-Hain, Karen H Lu, Anil K Sood, Nicole D Fleming

Faculty, Staff and Student Publications

Objectives: In patients undergoing interval tumor reductive surgery, a good response to neoadjuvant chemotherapy may limit available tumor for homologous recombination deficiency testing. The objective of this study was to assess whether the chemotherapy response score predicts homologous recombination status.

Methods: We identified patients with advanced epithelial ovarian cancer (diagnosed January 2019 to 20 June 2023) who received neoadjuvant chemotherapy, underwent interval surgery, and for whom a chemotherapy response score was reported (1=no or minimal tumor response, 2=appreciable tumor response, 3=complete or near complete response with no residual tumor). Comparisons were made using ANOVAs or Kruskal-Wallis test for continuous variables …

Recurrent And Metastatic Head And Neck Cancer: Mechanisms Of Treatment Failure, Treatment Paradigms, And New Horizons, William T. Barham, Marshall Patrick Stagg, Rula Mualla, Michael Dileo, Sagar Kansara

School of Medicine Faculty Publications

Background: Head and neck cancer is a deadly disease with over 500,000 cases annually worldwide. Metastatic head and neck cancer accounts for a large proportion of the mortality associated with this disease. Many advances have been made in our understanding of the mechanisms of metastasis. The application of immunotherapy to locally recurrent or metastatic head and neck cancer has not only improved oncologic outcomes but has also provided valuable insights into the mechanisms of immune evasion and ultimately treatment failure. Objectives: This review paper will review our current understanding of biological mechanisms of treatment failure and metastasis. Published and ongoing …

Exploring The Potential Of Malvidin And Echiodinin As Probable Antileishmanial Agents Through In Silico Analysis And In Vitro Efficacy, Luis Daniel Goyzueta-Mamani, Daniela Pagliara Lage, Haruna Luz Barazorda-Ccahuana, Margot Paco-Chipana, Mayron Antonio Candia-Puma, Gonzalo Davila-Del-Carpio, Alexsandro Sobreira Galdino, Ricardo Andrez Machado-De-Avila, Rodolfo Cordeiro Giunchetti, Edward L. D'Antonio, Eduardo Antonio Ferraz Coelho, Miguel Angel Chávez-Fumagalli

Natural Sciences Faculty Publications

Leishmaniasis, a neglected tropical disease caused by Leishmania species, presents serious public health challenges due to limited treatment options, toxicity, high costs, and drug resistance. In this study, the in vitro potential of malvidin and echioidinin is examined as antileishmanial agents against L. amazonensis, L. braziliensis, and L. infantum, comparing their effects to amphotericin B (AmpB), a standard drug. Malvidin demonstrated greater potency than echioidinin across all parasite stages and species. Against L. amazonensis, malvidin’s IC50 values were 197.71 ± 17.20 μM (stationary amastigotes) and 258.07 ± 17 μM (axenic amastigotes), compared to echioidinin’s 272.99 ± 29.90 μM and 335.96 …

Course Portfolio: Bios 443/843 Immunology, Nicole Sexton

UNL Faculty Course Portfolios

This course portfolio relates to the Fall 2025 delivery of BIOS 443/843: Immunology, cross listed as MBIO 443 and VMBS 843 and was prepared as part of the Faculty-led Inquiry into Reflective and Scholarly Teaching (FIRST) project. BIOS 443/843 is an upper division course that introduces Immunological concepts but also connects them to up to date literature in the field of Immunology with the intent of preparing students for careers in medicine and biomedical research. In Fall of 2025 this course was restructured to incorporate additional peer-to-peer learning opportunities and more distributed assessment styles, therefore was peer-reviewed to assess the …

Early Treatment Discontinuation In Patients With Deficient Mismatch Repair Or Microsatellite Instability High Metastatic Colorectal Cancer Receiving Immune Checkpoint Inhibitors, Julien Taieb, Margherita Ambrosini, Emily Alouani, Sara Lonardi, Frank A Sinicrope, Marie Decraecker, Alice Boileve, Emilie Hafliger, Thibault Mazard, Simon Pernot, Pauline Parent, Javier Ros, Michael J Overman, Priya Jayachandran, Vincenzo Nasca, Lisa Salvatore, Rosine Guimbaud, Chiara Cremolini, David Tougeron, Filippo Pietrantonio

Faculty, Staff and Student Publications

Background: Immune checkpoint inhibitors (ICIs) are recommended to treat patients with deficient mismatch repair/microsatellite instability high (dMMR/MSI-H) metastatic colorectal cancer (mCRC). Pivotal trials have fixed a maximum ICI duration of 2 years, without a compelling rationale. A shorter treatment duration has the potential to improve patients' quality of life and reduce both toxicity and cost without compromising efficacy. Here we examine whether early treatment discontinuation (ETD) before 13 months in patients without progressive disease (PD) can lead to similar long-term disease control compared with a longer treatment duration (LTD).

Methods: To assess whether ETD is associated with similar outcomes compared …

Spatiotemporal Synchrony Of Climate And Fire Occurrence Across North American Forests (1750–1880), Ellis Margolis, Andreas Wion, John Abatzoglou, Lori Daniels, Donald Falk, Chris Guiterman, James Johnston, Kurt Kipfmueller, Charles Lafon, Rachel Loehman, Maggie Lonergan, Cameron Naficy, Marc-André Parisien, Sean Parks, Jeanne Portier, Michael Stambaugh, Ellen Whitman, A. Park Williams, Larissa Yocom

Wildland Resources Faculty Publications

Aim: Increasing aridity has driven widespread synchronous fire occurrence in recent decades across North America. The lack of historical (pre-1880) fire records limits our ability to understand long-term continental fire-climate dynamics. The goal of this study is to use tree-ring reconstructions to determine the relationships between spatiotemporal patterns in historical climate and widespread fire occurrence in North American forests, and whether they are stable through time. This information will address a major knowledge gap required to inform projections of future fire.

Location: North American Forests.

Time Period: 1750–1880 CE.

Major Taxa Studied: Trees.

Methods: We applied regionalisation methods to tree-ring …

Identifying Personality In Reptiles And Assessing Welfare Implications For Their Roles As Ambassador Animals In An Educational Setting, Valery Gonzalez

Theses and Dissertations

This study examined behavioral variability and personality in 13 reptiles used as ambassador animals at the American Museum of Natural History. Observations across seasons and novel object tests revealed individual differences, behavioral components, and correlations. Findings emphasize reptilian complexity, highlighting welfare implications while underscoring the need for further research.

Forest Above-Ground Biomass Estimation Using Nasa Gedi Lidar Waveforms And Global Tree Allometry, Ian Grant

Theses and Dissertations

Above-ground forest biomass plays a crucial role in global carbon cycles, yet accurately estimating biomass at global scales remains challenging. This thesis addresses two key challenges in processing NASA’s Global Ecosystem Dynamics Investigation (GEDI) space-borne lidar data to estimate above-ground biomass density (AGBD): accounting for global variation in forest structure and developing robust physical interpretations of lidar returns. The first component of the thesis analyzes global patterns of tree allometry using the Tallo tree allometry dataset, examining relationships between tree dimensions across biomes, continents, and plant functional types. This analysis reveals consistent allometry across continents for some biomes (e.g., tropical …

Social Networks And Behavioral Adaptation Of Serrano Horses In A Rewilding Initiative In Spain, Ashley Bruno

Theses and Dissertations

Rewilding is a conservation measure that involves actively relocating species or restricting human land use to improve ecosystem sustainability. However, critics raise concerns that rewilding privileges ecosystem function over endangered species. Due to a lack of monitoring around species’ relocations, uncertainty lies in ecological outcomes and psychological, social, cultural impacts on affected animals. For this project, we collaborated with the non-profit Rewilding Europe that sought to conserve Serrano horses (Equus caballus), an ancient and under-studied breed of Spanish horse by relocating 11 individuals to a protected site in Guadalajara, Spain in June 2022. Our research aimed to address …

Land Use Change Consistently Reduces Α- But Not Β- And Γ-Diversity Of Bees., Toby P N Tsang, A A Amado De Santis, Gabriela Armas-Quiñonez, John S Ascher, Eva Samanta Ávila-Gómez, András Báldi, Kimberly M Ballare, Mario V Balzan, Weronika Banaszak-Cibicka, Svenja Bänsch, Yves Basset, Adam J Bates, Jessica M Baumann, Mariana Beal-Neves, Ashley Bennett, Antonio Diego M Bezerra, Betina Blochtein, Riccardo Bommarco, Berry Brosi, Laura A Burkle, Luísa G Carvalheiro, Ignacio Castellanos, Marcela Cely-Santos, Hamutahl Cohen, Drissa Coulibaly, Saul A Cunningham, Sarah Cusser, Isabelle Dajoz, Deborah A Delaney, Ek Del-Val, Monika Egerer, Markus P Eichhorn, Eunice Enríquez, Martin H Entling, Natalia Escobedo-Kenefic, Pedro Maria Abreu Ferreira, Gordon Fitch, Jessica R K Forrest, Valérie Fournier, Robert Fowler, Breno M Freitas, Hannah R Gaines-Day, Benoît Geslin, Jaboury Ghazoul, Paul Glaum, Jose L Gonzalez-Andujar, Adrian González-Chaves, Heather Grab, Claudio Gratton, Solène Guenat, Catalina Gutiérrez-Chacón, Mark A Hall, Mick E Hanley, Annika Hass, Ernest Ireneusz Hennig, Martin Hermy, Juliana Hipólito, Andrea Holzschuh, Sebastian Hopfenmüller, Keng-Lou James Hung, Kristoffer Hylander, Jordi Izquierdo, Mary A Jamieson, Birgit Jauker, Steve Javorek, Shalene Jha, Björn K Klatt, David Kleijn, Alexandra-Maria Klein, Anikó Kovács-Hostyánszki, Jochen Krauss, Michael Kuhlmann, Patricia Landaverde-González, Tanya Latty, Misha Leong, Susannah B Lerman, Yunhui Liu, Ana Carolina Pereira Machado, Anson Main, Rachel Mallinger, Yael Mandelik, Bruno Ferreira Marques, Kevin Matteson, Frédéric Mccune, Ling-Zeng Meng, Jean Paul Metzger, Paula María Montoya-Pfeiffer, Carolina Morales, Lora Morandin, Jane Morrison, Sonja Mudri-Stojnić, Pakorn Nalinrachatakan, Olivia Norfolk, Mark Otieno, Mia G Park, Stacy M Philpott, Gideon Pisanty, Montserrat Plascencia, Simon G Potts, Eileen F Power, Kit Prendergast, Robyn D Quistberg, Davi De Lacerda Ramos, André Rodrigo Rech, Victoria Reynolds, Miriam H Richards, Stuart P M Roberts, Malena Sabatino, Ulrika Samnegård, Hillary Sardiñas, Karina Sánchez-Echeverría, Fernanda Teixeira Saturni, Jeroen Scheper, Amber R Sciligo, C Sheena Sidhu, Brian J Spiesman, Tuanjit Sritongchuay, Ingolf Steffan-Dewenter, Katharina Stein, Alyssa B Stewart, Jane C Stout, Hisatomo Taki, Pornpimon Tangtorwongsakul, Caragh G Threlfall, Carla Faleiro Tinoco, Teja Tscharntke, Katherine J Turo, Chatura Vaidya, Rémy Vandame, Carlos H Vergara, Blandina F Viana, Eric Vides-Borrell, Natapot Warrit, Elisabeth Webb, Catrin Westphal, Jennifer B Wickens, Neal M Williams, Nicholas S G Williams, Caleb J Wilson, Panlong Wu, Elsa Youngsteadt, Yi Zou, Lauren C Ponisio, Timothy C Bonebrake

Entomology Faculty Publications

Land use change threatens global biodiversity and compromises ecosystem functions, including pollination and food production. Reduced taxonomic α-diversity is often reported under land use change, yet the impacts could be different at larger spatial scales (i.e., γ-diversity), either due to reduced β-diversity amplifying diversity loss or increased β-diversity dampening diversity loss. Additionally, studies often focus on taxonomic diversity, while other important biodiversity components, including phylogenetic diversity, can exhibit differential responses. Here, we evaluated how agricultural and urban land use alters the taxonomic and phylogenetic α-, β-, and γ-diversity of an important pollinator taxon-bees. Using a multicontinental dataset of 3117 bee …

Chronic Heavy Alcohol Intake And Liver-Specific Lrp-1 Reduction Increase Amyloidosis In Alzheimer’S Disease Mice, Devaraj V. Chandrashekar, G. Chuli Roules, Ross A. Steinberg, Urvashi R. Panchal, Nataraj Jagadeesan, Adenike Oyegbesan, Trinh Roselyn, Joshua Yang, Sharda R. Bhagwat, Hiya Rakholia, Rutvi D. Mevawala, Moom Roosan, Derick Han, Rachita K. Sumbria

Pharmacy Faculty Articles and Research

Background

Chronic heavy alcohol drinking may be a modifiable risk factor for Alzheimer’s disease (AD), but studies in rodent AD models more closely mimic chronic moderate alcohol drinking in humans and largely focus on the brain. The role of the liver, which is significantly impacted by chronic heavy alcohol intake, in driving brain changes in alcohol-dependent AD remains unexplored. Our study using intragastric-ethanol feeding, which mimics chronic heavy alcohol intake in humans, in C57BL/6J mice showed significant AD-relevant changes in the brain and liver. Therefore, we aimed to investigate how hepatic changes using this model of chronic heavy drinking drive …

Comprehensive Characterization Of The Transcriptional Landscape In Alzheimer’S Disease (Ad) Brains, Chengxuan Chen, Zhao Zhang, Yuan Liu, Wei Hong, Hande Karahan, Jun Wang, Wenbo Li, Lixia Diao, Meichen Yu, Andrew J Saykin, Kwangsik Nho, Jungsu Kim, Leng Han

Faculty, Staff and Student Publications

Alzheimer's disease (AD) is the leading dementia among the elderly with complex origins. Despite extensive investigation into the AD-associated protein-coding genes, the involvement of noncoding RNAs (ncRNAs) and posttranscriptional modification (PTM) in AD pathogenesis remains unclear. Here, we comprehensively characterized the landscape of ncRNAs and PTM events in 1460 samples across six brain regions sourced from the Mount Sinai/JJ Peters VA Medical Center Brain Bank Study and Mayo cohorts, encompassing 33,321 long ncRNAs, 92,897 enhancer RNAs, 53,763 alternative polyadenylation events, and 900,221 A-to-I RNA editing events. We additionally identified 25,351 aberrantly expressed ncRNAs and altered PTM events associated with AD …

Pathogen And Host Associations Of Soft Ticks Collected In South Texas, Sarah E. Mays Maestas, Lauren P. Maestas, Phillip E. Kaufman

School of Integrative Biological & Chemical Sciences Faculty Publications

Background: Soft ticks (Family: Argasidae) are vectors of relapsing fever Borrelia in the United States and are potential vectors of African swine fever virus, a pathogen that could have a devastating effect on the U.S. swine industry if introduced to the U.S. mainland. Much of the tick-borne disease research in the U.S. focuses on hard ticks, and less is known about the ecology of soft ticks. Some soft tick species found in the southern U.S. have a wide host range and may feed on cattle, swine, native and exotic ungulates, small mammals, reptiles, and humans. Because the feeding habit of …

Fta™ Card Use For Detection Of Mycoplasma Gallisepticum In Wild Birds, Linda Purvis, Dawn E.W. Drumtra

Georgia Journal of Science

Flinders Technology Associates (FTA) cards are increasingly accepted as an accurate method for nucleic acid detection, including testing for the presence of various avian diseases. However, the accuracy of FTA cards for detection of Mycoplasma gallisepticum (MG) in wild birds has not been published. Traditional techniques for testing MG in birds include serum plate agglutanation (SPA), hemagglutination inhibition (HI), polymerase chain reaction (PCR), and enzyme linked immunosorbent assay (ELISA) all of which are time consuming and require significant financial investment into specialized equipment. We tested the efficacy of using FTA cards to detect MG in wild bird carcasses collected in …

Development And Characterization Of Sodium Alginate-Based Active Edible Films Functionalized With Olive Mill Wastewater Extract, Nassima Hadri, Mohamed Didi Ould El-Hadj, Zineb Mahcene, Fatih Bozkurt, Rusen Metin Yildirim, Youcef Rahmani, Aicha Tedjani, Muhammet Arici

Karbala International Journal of Modern Science

Phenolic compounds from olive mill wastewater (PCO) of Algerian origin were used to produce sodium alginate-based active films using the casting method. The effects of adding various concentrations of PCO (0%, 0.1%, and 0.2% w/v) were evaluated regarding the molecular, morphological, thermal, physicochemical, optical, barrier, biodegradability, antimicrobial, and antioxidant properties of the alginate films. The FTIR and SEM results elucidated the development of a coherent cross-linked structure attributed to hydrogen bonding interactions between PCO and alginate chains. Consequently, the films exhibited enhanced crystallinity and thermal stability, as revealed by DSC analysis. Moreover, PCO addition positively influenced several film properties, including …

Optimizing Biofilm Assay Reproducibility And Characterizing The 12-Hydroxystearic Acid On Escherichia Coli, Khilola Khusanova

Theses and Dissertations

Biofilm formation in Escherichia coli plays a critical role in microbial chemical communication and surface-associated persistence. This study investigates the antibiofilm activity of 12-hydroxystearic acid (12-HSA), evaluating its R and S enantiomers as well as a racemic mixture. E. coli BL21, biofilms were grown under standardized laboratory conditions and quantified using the Crystal Violet staining assay. Treatment with 12-HSA resulted in a measurable reduction in biofilm biomass, with differences observed between the individual enantiomers and the mixture. These findings suggest that 12-HSA influences early adhesion and biofilm development, supporting its potential as a small-molecule modulator of bacterial surface behavior. This …

Acute Toxicity Of Chlorimuron-Ethyl To Daphnia Magna, Jack H. Bagwell

SPARK Symposium Presentations

The acute toxicity of a sulfonylurea herbicide, chlorimuron ethyl, to Daphnia magna was determined experimentally using acute toxicity tests.

Nls-Binding Deficient Kapβ2 Reduces Neurotoxicity Via Selective Interaction With C9orf72-Als/Ftd Dipeptide Repeats, Kevin Kim, Amandeep Girdhar, Maria Elena Cicardi, V. Kankate, Miyuki Hayashi, Ruoyu Yang, Jenny Carey, Charlotte M Fare, James Shorter, Gino Cingolani, Davide Trotti, Lin Guo

Department of Biochemistry and Molecular Biology Faculty Papers

Arginine-rich dipeptide repeat proteins (R-DPRs) are highly toxic proteins found in patients with C9orf72-linked amyotrophic lateral sclerosis and frontotemporal dementia (C9-ALS/FTD). R-DPRs can cause toxicity by disrupting the natural phase behavior of RNA-binding proteins (RBPs). Mitigating this abnormal phase behavior is, therefore, crucial to reduce R-DPR-induced toxicity. Here, we use FUS as a model RBP to investigate the mechanism of R-DPR-induced aberrant RBP phase transition. We find that this phase transition can be mitigated by Kapβ2. However, as a nuclear import receptor and phase modifier for PY-NLS-containing RBPs, the function of WT Kapβ2 could lead to undesired interaction with its …

The Effects Of Active Substances Of Clinically Important Drugs On The Survival, Development, And Some Adult Traits Of Drosophila Melanogaster Meigen (Diptera: Drosophilidae), Gökçe Üstündağ, Kemal Büyükgüzel, Ender Büyükgüzel

Turkish Journal of Zoology

Drosophila melanogaster Meigen (Diptera: Drosophilidae) was used as a model organism and fed on an artificial diet with different clinically important drugs under laboratory conditions. The effects of fluconazole, acyclovir, and piperazine on the survivorship, development, adult longevity, fecundity, and hatching rate of the insect were investigated. The results showed that the highest concentration of fluconazole (1250 mg/L) significantly decreased both the rate of larvae reaching the 3rd instar and the rate of pupation from 93.00 ± 2.95% to 11.00 ± 2.59% (χ2 = 134.696; df = 1; p = 0.0001). The highest concentration of acyclovir (200 mg/L) significantly reduced …

Nucleus-Translocated Gclm Promotes Chemoresistance In Colorectal Cancer Through A Moonlighting Function, Jin-Fei Lin, Ze-Xian Liu, Dong-Liang Chen, Ren-Ze Huang, Fen Cao, Kai Yu, Ting Li, Hai-Yu Mo, Hui Sheng, Zhi-Bing Liang, Kun Liao, Yi Han, Shan-Shan Li, Zhao-Lei Zeng, Song Gao, Huai-Qiang Ju, Rui-Hua Xu

Faculty, Staff and Student Publications

Metabolic enzymes perform moonlighting functions during tumor progression, including the modulation of chemoresistance. However, the underlying mechanisms of these functions remain elusive. Here, utilizing a metabolic clustered regularly interspaced short palindromic repeats (CRISPR)-Cas9 knockout library screen, we observe that the loss of glutamate-cysteine ligase modifier subunit (GCLM), a rate-limiting enzyme in glutathione biosynthesis, noticeably increases the sensitivity of colorectal cancer (CRC) cells to platinum-based chemotherapy. Mechanistically, we unveil a noncanonical mechanism through which nuclear GCLM competitively interacts with NF-kappa-B (NF-κB)-repressing factor (NKRF), to promote NF-κB activity and facilitate chemoresistance. In response to platinum drug treatment, GCLM is phosphorylated by P38 …

Cardiovascular Disease And Breast Cancer Stage At Diagnosi\S, Ivan Angelov, Allen M Haas, Elizabeth Brock, Lingfeng Luo, Jing Zhao, Benjamin D Smith, Sharon H Giordano, Nicholas J Leeper, Kevin T Nead

Faculty, Staff and Student Publications

Importance: Cardiovascular disease (CVD) and cancer are the leading causes of mortality in the US. Large-scale population-based and mechanistic studies support a direct effect of CVD on accelerated tumor growth and spread, specifically in breast cancer.

Objective: To assess whether individuals presenting with advanced breast cancers are more likely to have prevalent CVD compared with those with early-stage breast cancers at the time of diagnosis.

Design, setting, and participants: This population-based case-control study used data from the Surveillance, Epidemiology, and End Results-Medicare linked databases from 2009 to 2020. The analysis was completed from May 2023 to August 2024. Participants were …

A Study Of The Dormant Period Of Thaumetopoea Pityocampa (Lepidoptera: Notodontidae) In Bulgaria, Gergana Zaeмdzhikova, Md Habibur Rahman Salman

Turkish Journal of Zoology

The pine processionary moth (PPM), Thaumetopoea pityocampa (Denis et Schiffermuller), is a significant pest affecting conifer forests in the Mediterranean region. This study investigated the diapause mechanisms and survival strategies of PPM in summer and winter feeding populations in Bulgaria. The research was conducted from February to April 2021 at five pine plantation sites known for T. pityocampa activity in southwest Bulgaria. Herein, 1224 specimens were collected across different developmental stages. The sampled populations included those exhibiting typical winter feeding as well as atypical summer feeding. Morphological assessments and monitoring of the development of the individuals were conducted under controlled …