Life Sciences Commons^™

Dynamic Dysregulation Of Retrotransposons In Neurodegenerative Diseases At The Single-Cell Level\

Faculty, Staff and Student Publications

Retrotransposable elements (RTEs) are common mobile genetic elements comprising ∼42% of the human genome. RTEs play critical roles in gene regulation and function, but how they are specifically involved in complex diseases is largely unknown. Here, we investigate the cellular heterogeneity of RTEs using 12 single-cell transcriptome profiles covering three neurodegenerative diseases, Alzheimer's disease (AD), Parkinson's disease, and multiple sclerosis. We identify cell type marker RTEs in neurons, astrocytes, oligodendrocytes, and oligodendrocyte precursor cells that are related to these diseases. The differential expression analysis reveals the landscape of dysregulated RTE expression, especially L1s, in excitatory neurons of multiple neurodegenerative diseases. …

Evaluating Uv-Protective Low-Emissivity Window Films: Implications For Thermal And Visual Comfort In Luminous Office Buildings, Lina M. Shaker

AUIQ Complementary Biological System

This review article explores the integration of thin window films and solar energy systems to enhance thermal comfort in luminous office buildings. Luminous office buildings, which prioritize natural lighting, often face challenges in maintaining thermal comfort for occupants. By integrating solar energy systems, such as photovoltaic (PV) and solar thermal systems, with thin window films, it is possible to optimize thermal comfort while harnessing sustainable energy sources. Thin window films act as a barrier against solar radiation, reducing heat gain while allowing therapeutic blue light (400-520nm) transmission. The advantages of thin window films include improved thermal insulation, glare reduction, and …

Photoluminescence Intensity Enhancement And Stability In Cdte/Sio2 Quantum Dots Through Water Molecule Adsorption And Trap Passivation, Daniil S. Daibagya, Ivan A. Zakharchuk, Sergei A. Ambrozevich, Mikhail S. Smirnov, Anna V. Osadchenko, Oleg V. Ovchinnikov, Alexandr S. Selyukov

Karbala International Journal of Modern Science

The study of the luminescence photostability for colloidal nanocrystals is an important task since the understanding of the corresponding physical processes advances new electronic devices based on semiconductor nanoparticles as well as other important applications such as biomarkers. In this paper, we provide the first study and comprehensive analysis of the photostability of the luminescent properties for colloidal CdTe/SiO₂ core/shell quantum dots prepared by an aqueous-based method. The quantum dots were exposed to continuous laser radiation during two time intervals with prolonged break in between. The photoluminescence intensity of the quantum dots increased over time under continuous laser irradiation. …

Removal Of Selenium Ions From Contaminated Aqueous Solutions By Adsorption Using Lemon Peels As A Non-Conventional Medium, Alanood A. Alsarayreh, Suha Anwer Ibrahim, Salem Jawad Alhamd, Thekra Atta Ibrahim, Mohammed Nsaif Abbas

Karbala International Journal of Modern Science

The disposal of heavy metals from various activities has become a pervasive issue. The investigation of sustain-able, low-cost adsorbents for the remediation of these hazardous pollutants has been widely disregarded. This research emphasizes the recovery of selenium ions from contaminated water using lemon peels as a cost-effective adsorbent. The adsorption was explored in a batch unit under various operational parameters, including initial selenium concentration (1-90 ppm), pH (1-11), agitation speed (100-500 rpm), adsorbent dose (0.4-5.5 g), contact time (5-180 minutes), and temperature (25-55 °C). The BET surface area of the lemon peels was found to be 27.86 m²/g before adsorption …

Hungry Beautiful Animals: A Pre-Release Reading Workshop With Professor Matt Halteman, Matthew C. Halteman, Ian Tjoelker, Ella Vanden Berg

University Faculty Publications and Creative Works

Student leaders Ian Tjoelker and Ella Vanden Berg invited me to do a two session workshop on several chapters of Hungry Beautiful Animals in the Calvin University Student Philosophy Symposium.

Hungry Beautiful Animals frames Halteman’s idea as an opportunity rather than an obligation. “Going vegan” is an incremental journey rather than an identity earned by perfection. This is why Halteman focuses on the distinction between veganism, which implies a perfectionistic state, and “going vegan,” which is aspirational, and something to continually strive towards.

10.28.2024 Orsp Connect, Liz Williamson

ORED Newsletter

ORSP Name Change

RED Talk

Businesses Invited to a Day With NASA

LINC Door Prize Winners

Cannabinoid-Inspired Inhibitors Of The Sars-Cov-2 Coronavirus 2′ -O-Methyltransferase (2′ -O-Mtase) Non-Structural Protein (Nsp10–16), Menny M. Benjamin, George S. Hanna, Cody F. Dickinson, Yeun-Mun Choo, Xiaojuan Wang, Jessica A. Downs-Bowen, Ramyani De, Tamara R. Mcbrayer, Raymond F. Schinazi, Sarah E. Nielson, Joan M. Hevel, Pankaj Pandey, Robert J. Doerksen, Danyelle M. Townsend, Jie Zhang, Zhiwei Ye, Scott Wyer, Lucas Bialousow, Mark T. Hamann

Chemistry and Biochemistry Student Research

The design and synthesis of antiviral compounds were guided by computationally predicted data against highly conserved non-structural proteins (Nsps) of the SARS-CoV-2 coronavirus. Chromenephenylmethanone-1 (CPM-1), a novel biphenylpyran (BPP), was selected from a unique natural product library based on in silico docking scores to coronavirus Nsps with high specificity to the methyltransferase protein (2′ -O-MTase, Nsp10–16), which is responsible for viral mRNA maturation and host innate immune response evasion. To target the 2′ -O-MTase, CPM-1, along with intermediate BPP regioisomers, tetrahydrophenylmethanones (TPMs), were synthesized and structurally validated via nuclear magnetic resonance (NMR) data and DP4+ structure …

Evaluating Indoor Air Quality In Residential Environments: A Study Of Pm2.5 And Co2 Dynamics Using Low-Cost Sensors, Kabir Bahadur Shah, Dylan Kim, Sai Deepak Pinakana, Mkhitar A. Hobosyan, Armando Montes, Amit U. Raysoni

School of Earth, Environmental, & Marine Sciences Faculty Publications

Indoor air quality (IAQ) poses a significant public health concern, and exposures to high levels of fine particulate matter (PM2.5) and carbon dioxide (CO2) could have detrimental health impacts. This study focused on assessing the indoor air pollutants in a residential house located in the town of Mission, Hidalgo County, South Texas, USA. The PM2.5 and CO2 were monitored indoors: the kitchen and the bedroom. This investigation also aimed to elucidate the effects of household activities such as cooking and human occupancy on these pollutants. Low-cost sensors (LCSs) from TSI AirAssure™ were used in this study. They were deployed within …

Exploring The Interconnectivity Between Soilless Substrate Hydraulic Properties And Plant Root Morphology, Kristopher S. Criscione

LSU Doctoral Dissertations

Horticultural container production heavily relies upon porous soilless substrates to mass produce specialty crops. Soilless substrates are responsible for continuously maintaining optimal water, mineral nutrients, and air balances to promote healthy root growth and support productive shoot yield (foliage or fruit). Increasing evidence of substrate research continues to highlight the strong relationships associated with root development and substrate physiochemical properties. Despite the importance of the root system for overall plant health, most horticultural research to-date has focused on shoot development. Research tends to report total root biomass as the primary root-growth metric; however, this results in several developmental features becoming …

Developmental-Status-Aware Transcriptional Decomposition Establishes A Cell State Panorama Of Human Cancers, Yikai Luo, Han Liang

Faculty, Staff and Student Publications

Background: Cancer cells evolve under unique functional adaptations that unlock transcriptional programs embedded in adult stem and progenitor-like cells for progression, metastasis, and therapeutic resistance. However, it remains challenging to quantify the stemness-aware cell state of a tumor based on its gene expression profile.

Methods: We develop a developmental-status-aware transcriptional decomposition strategy using single-cell RNA-sequencing-derived tissue-specific fetal and adult cell signatures as anchors. We apply our method to various biological contexts, including developing human organs, adult human tissues, experimentally induced differentiation cultures, and bulk human tumors, to benchmark its performance and to reveal novel biology of entangled developmental signaling in …

Dna-Binding Proteins From Mbd Through Zf To Ben: Recognition Of Cytosine Methylation Status By One Arginine With Two Conformations, Xing Zhang, Robert M Blumenthal, Xiaodong Cheng

Faculty, Staff and Student Publications

Maintenance methylation, of palindromic CpG dinucleotides at DNA replication forks, is crucial for the faithful mitotic inheritance of genomic 5-methylcytosine (5mC) methylation patterns. MBD proteins use two arginine residues to recognize symmetrically-positioned methyl groups in fully-methylated 5mCpG/5mCpG and 5mCpA/TpG dinucleotides. In contrast, C2H2 zinc finger (ZF) proteins recognize CpG and CpA, whether methylated or not, within longer specific sequences in a site- and strand-specific manner. Unmethylated CpG sites, often within CpG island (CGI) promoters, need protection by protein factors to maintain their hypomethylated status. Members of the BEN domain proteins bind CGCG or CACG elements within CGIs to regulate gene …

A Genome-Wide Association Study Identifies Genetic Determinants Of Hemoglobin Glycation Index With Implications Across Sex And Ethnicity, John S. House, Joseph H. Breeyear, Farida S. Akhtari, Violet Evans, John B. Buse, James Hempe, Alessandro Doria, Josyf C. Mychaleckyi, Vivian Fonseca, Mengyao Shi, Changwei Li, Shuqian Liu, Tanika N. Kelly, Daniel Rotroff, Alison A. Motsinger-Reif

School of Medicine Faculty Publications

Introduction: We investigated the genetic determinants of variation in the hemoglobin glycation index (HGI), an emerging biomarker for the risk of diabetes complications. Methods: We conducted a genome-wide association study (GWAS) for HGI in the Action to Control Cardiovascular Risk in Diabetes (ACCORD) trial (N = 7,913) using linear regression and additive genotype encoding on variants with minor allele frequency greater than 3%. We conducted replication analyses of top findings in the Atherosclerosis Risk in Communities (ARIC) study with inverse variance-weighted meta-analysis. We followed up with stratified GWAS analyses by sex and self-reported race. Results: In ACCORD, we identified single …

Adding Gastrointestinal Parasite Resistance To The Breeding Objective In Hair Sheep: Initial Step, Robert M. Forbes, Thomas W. Murphy, Joan M. Burke, David R. Notter, Matthew L. Spangler, Michael D. Macneil, Ronald M. Lewis

Department of Animal Science: Faculty Publications

The U.S. Maternal Hair Index was designed by the National Sheep Improvement Program (NSIP) to increase total weight of lamb weaned per ewe lambing (TW). Producers are interested in adding gastrointestinal nematode (GIN) resistance to this breeding objective since parasitism causes substantial economic losses. The NSIP provides producers with estimated breeding values (EBV) for postweaning fecal egg count (PFEC), an indicator of GIN resistance. Our objective was to gauge the effects of including PFEC as another selection criterion and goal trait. Selection index theory was used to construct 11 indexes. …

Pengaruh Larangan Ekspor Karang Hias Terhadap Kondisi Terumbu Karang Di Indonesia, Fitrian Dwi Cahyo, Muhammad Halley Yudhistira

Jurnal Kebijakan Ekonomi

Indonesia has the largest coral population in the world, contributed as the world’s second largest ornamental corals exporter after Japan. Coral trade sparked the issues of habitat destruction, illegal trade, and coral health problems has prompted the government to banning of ornamental coral export. This study aims to find an empirical evidence does the policies mentioned above affect the condition of coral reefs in Indonesia. The author uses the Fixed-Effect Model on the Difference in Difference regression equation whose result show that export banning of ornamental corals does not significantly affect the condition of coral reefs in Indonesia.

Specialized Contact Sites Regulate The Fusion Of Chlamydial Inclusion Membranes, Christine Linton, Jordan Wesolowski, Anna Lobley, Toshiyuki Yamaji, Kentaro Hanada, Fabienne Paumet

Department of Microbiology and Immunology Faculty Papers

The intracellular bacterial pathogen Chlamydia trachomatis replicates within a membrane-bound compartment called the inclusion. Upon infection with several chlamydiae, each bacterium creates its own inclusion, resulting in multiple inclusions within each host cell. Ultimately, these inclusions fuse together in a process that requires the chlamydial protein IncA. Here, we show that inclusions form unique contact sites (inclusion contact sites, ICSs) prior to fusion, that serve as fusogenic platforms in which specific lipids and chlamydial proteins concentrate. Fusion depends on IncA clustering within ICSs and is regulated by PI(3,4)P₂ and sphingolipids. As IncA concentrates within ICSs, its C-terminus likely interacts …

Ten Challenges And Opportunities In Computational Immuno-Oncology, Riyue Bao, Alan Hutson, Anant Madabhushi, Vanessa D Jonsson, Spencer R Rosario, Elana J Fertig, Lyndsay Harris, Jennifer Altreuter, Qingrong Chen, James Dignam, Andrew J Gentles, Edgar Gonzalez-Kozlova, Sacha Gnjatic, Erika Kim, Mark Long, Martin Morgan, Eytan Ruppin, David Van Valen, Hong Zhang, Natalie Vokes, Daoud Meerzaman, Song Liu, Eliezer M Van Allen, Yi Xing

Faculty, Staff and Student Publications

Immuno-oncology has transformed the treatment of cancer, with several immunotherapies becoming the standard treatment across histologies. Despite these advancements, the majority of patients do not experience durable clinical benefits, highlighting the imperative for ongoing advancement in immuno-oncology. Computational immuno-oncology emerges as a forefront discipline that draws on biomedical data science and intersects with oncology, immunology, and clinical research, with the overarching goal to accelerate the development of effective and safe immuno-oncology treatments from the laboratory to the clinic. In this review, we outline 10 critical challenges and opportunities in computational immuno-oncology, emphasizing the importance of robust computational strategies and interdisciplinary …

13th International Conference On Business, Technology And Innovation 2024, University For Business And Technology - Ubt

UBT International Conference

Welcome to IC – UBT 2024

UBT Annual International Conference is the 13th international interdisciplinary peer reviewed conference which publishes works of the scientists as well as practitioners in the area where UBT is active in Education, Research and Development. The UBT aims to implement an integrated strategy to establish itself as an internationally competitive, research-intensive university, committed to the transfer of knowledge and the provision of a world-class education to the most talented students from all background. The main perspective of the conference is to connect the scientists and practitioners from different disciplines in the same place and make …

International Conference On Food Science, Nutrition And Agriculture, University For Business And Technology - Ubt

UBT International Conference

UBT Annual International Conference is the 13th international interdisciplinary peer reviewed conference which publishes works of the scientists as well as practitioners in the area where UBT is active in Education, Research and Development. The UBT aims to implement an integrated strategy to establish itself as an internationally competitive, research-intensive university, committed to the transfer of knowledge and the provision of a world-class education to the most talented students from all background. The main perspective of the conference is to connect the scientists and practitioners from different disciplines in the same place and make them be aware of the recent …

New Country Records And Annotated Checklist Of Non-Dacini Tephritidae (Diptera) In Bangladesh, M. Aftab Hossain, Allen L. Norrbom, Luc Leblanc, Md. Forhad Hossain, Kajla Seheli

Insecta Mundi

Tephritidae (Diptera) were sampled in Bangladesh between 2019 and 2023 by hand-collecting on bamboo shoots and using traps separately baited with 2-component BioLure (ammonium acetate and putrescine) or torula yeast. We report here results of our surveys that yielded 1,907 specimens of 20 species belonging to subfamilies or tribes other than Dacini. New species occurrence records for Bangladesh include Acroceratitis bimacula Hardy, A. parastriata David and Hancock, Galbifascia soalia (Séguy), and Xanthorrachis annandalei Bezzi (Dacinae, Gastrozonini), Felderimyia fuscipennis Hendel, Ptilona conformis Zia, and Tritaeniopteron tetraspilotum Hardy (Phytalminae, Acanthonevrini), Adrama apicalis Shiraki, Euphranta flavothoracica (David, Hancock and Sachin), and an …

First Record Of Molorchus Minor (Linnaeus, 1758) (Coleoptera: Cerambycidae) In North America, Marc F. Digirolomo, Michael J. Bohne

Insecta Mundi

We report the first documented occurrence of the Palaearctic longhorn beetle Molorchus minor (Linnaeus) (Coleoptera: Cerambycidae: Cerambycinae) based on specimens collected from bycatch of a bark and ambrosia beetle early detection trapping program in Massachusetts, USA. Diagnostic characters are discussed, and a modified key is presented to facilitate species identification of the genus in North America.

A Phenotypic Characterization Of Staphylococcus Aureus Bacteremia Clinical Isolates, Sara Dj Daniels

USF Tampa Graduate Theses and Dissertations

Staphylococcus aureus is a human pathogen of serious concern because of its ability to cause serious and wide-ranging disease. Of particular concern is the ability of S. aureus to cause bacteremia (SAB), allowing the bacteria to disseminate and spread to various organs. This study addressed this issue through the phenotypic characterization of two methicillin-resistant S. aureus (MRSA) clinical isolates taken from patients with sustained complicated bacteremia at Tampa General Hospital, referred to as SA1097 and SA1098. A battery of phenotypic tests was conducted on these strains, including a growth curve, hemolysis and proteolysis screenings, cytotoxicity assays using human neutrophils, blood …

Assessing Soybean Cultivar Resistance To Target Spot Using A Detached Leaf Assay, Rachel Wolf, Robert Holland, J. Alejandro Rojas, Samuel B. Fernandes, J. C. Rupe

Entomology and Plant Pathology Faculty Publications and Presentations

Target spot (TS), caused by the fungus Corynespora cassiicola, is a foliar disease
of increasing importance to soybean in the United States. Identifying cultivar re-
sistance to TS is challenging. The objective of this research was to determine the
reactions of a diverse collection of soybean genotypes to TS using a detached
leaf inoculation method. A detached unifoliate leaf of each soybean genotype
was placed in a Petri dish on moist filter paper, wounded at three locations, inoc-
ulated with 10 μl of a 10 5 -conidial suspension of C. cassiicola, and incubated at
room temperature (23°C). The percent leaf …

Changes In Morphology, Phenology, Demography Of Several Avian Species Over 18 Years At A Restored Grassland, Ashley Mcmahon, Katie Stumpf, Charlie Muise

Biology Theses

In response to a changing climate and habitat loss, avian species are displaying changes in body size, migration phenology, and demography. Species have often adhered to Allen’s and Bergmann’s rules, displaying increased wing length and decreased body mass, respectively, over time in response to higher temperatures. Additionally, climate change has resulted in earlier spring migration and depending on species, either earlier or later fall migration. Finally, species affected by habitat loss often display male-skewed sex ratios and juvenile skewed age ratios. Our goal was to determine how 1) body size, 2) migration phenology, and 3) demography have changed for grassland …

Insects All Around Us: A Four-Session Bug Club Lesson Plan For Grades 3-5 Covering The Biology And Importance Of Insects In Nebraska, Carolyn Almonte

Honors Program: Senior Projects (Public)

Insects are often overlooked in science curricula when talking about conservation due to the surrounding fear and disgust regarding insects. This disgust not only permeates the mindsets of students, but also teachers, which leads to a hesitance to incorporate an insect-based curriculum or club into a lesson. In response to this, I have created a four-session club curriculum that can be used across four two hour long sessions spread out across four weeks. The goals of this club are: to explain the key traits of insects and arthropods, differentiating the two groups; to explain and define the basic stages of …

New Insights And Comparative Morphology Of The Rare Western Palearctic Species Ochodaeus Montanus Fuente, 1912, And Its Closest Relative, O. Inermis Reitter, 1893 (Coleoptera: Scarabaeoidea: Ochodaeidae), Jean-Bernard Huchet, José Luis Lencina Gutierrez

Insecta Mundi

Abstract

The combined study of Ochodaeus montanus Fuente, 1912 (Coleoptera: Scarabaeoidea: Ochodaeidae) type material and recently collected specimens from the southeastern Iberian Peninsula provided evidence for the description of new specific morphological characters, and to clarify recurring mistakes present in the literature. A comparative study between O. montanus and its closest representative, O. inermis Reitter, 1892, was completed. An updated distribution map of O. montanus as well as a bilingual identification key for the four taxa occurring within the Iberian Peninsula is given.

Resumen

El estudio combinado del material tipo de Ochodaeus montanus Fuente, 1912 (Coleoptera: Scarabaeoidea: Ochodaeidae) …

Identification And Characterization Of Resistance To Meloidogyne Enterolobii And M. Incognita In Sweetpotato Genotypes, David M. Galo Espinal

LSU Doctoral Dissertations

Root-knot nematodes (RKN), Meloidogyne spp., are significant agricultural pests that cause severe economic losses on a wide range of agricultural crops worldwide, including sweetpotato. The economic viability of the sweetpotato industry in the United States is threatened by Meloidogyne enterolobii, which reproduces on sweetpotato cultivars resistant to other RKN species. To address this issue, 69 sweetpotato genotypes were evaluated to identify sources of resistance to M. enterolobii (Me) and M. incognita (Mi). Results showed that twenty-six genotypes were highly resistant to Me and eleven were resistant to Mi, with three genotypes showing resistance to …

Analyzing The Catfish And Trout Competitiveness Trends And Potential Trade Within The Us And Global Aquaculture Industry: A Gravity Model Approach, Diana Marisol Amaya Discua

LSU Master's Theses

The United States is one of the major seafood product importers in the world. Despite the increases in global seafood and aquaculture consumption over the past decades, there is limited information on the trade dynamics of this sector. To address this gap, this study uses an augmented gravity model to evaluate the factors that have influenced catfish and trout imports into the United States. The analysis was conducted using the Poisson Pseudo Maximum Likelihood (PPML) estimator to address issues of heteroskedasticity, autocorrelation, and zero trade flows. The results highlight the importance of Gross Domestic Product (GDP) and exchange rates in …

Scorpiops Tangae Sp. N. (Scorpiones: Scorpiopidae) From Laos, František Kovařík, František Šťáhlavský, Mark Stockmann

Euscorpius

A new species Scorpiops tangae sp. n. is described from Laos, fully illustrated with color photos showing its morphology and habitus. Scorpiops tangae sp. n. is the only species of the genus with a combination of five characters: chelal trichobothrium Eb₃ located in distal half of manus between trichobothria Dt and Est; patella of pedipalp with 11 ventral and 17 external trichobothria; fingers of pedipalps undulate in male; pedipalp movable finger with ca. 45 IAD; and chela length to width ratio 3.7 in male. In addition to morphology and hemispermatophore, we also present the …

Rictor, A Mtorc2 Protein, Regulates Lymphatic Valve Formation And Maintenance Through The Akt-Foxo1 Signaling Axis, Richa Banerjee

USF Tampa Graduate Theses and Dissertations

The lymphatic vasculature maintains tissue fluid homeostasis by absorbing interstitial fluid to form lymph and transporting it back to the bloodstream. Collecting lymphatic vessels have lymphatic valves (LVs) that prevent the retrograde flow of lymph generated by hydrostatic pressure from the blood vasculature. Backflow and accumulation of lymph leads to a lymphatic pathology called lymphedema. This implicates the involvement of defective LVs in the pathogenesis of lymphedema and warrants the study of lymphatic valve development and maintenance. The LVs are formed through a process called mechanotransduction which signals through the intracellular PI3K-AKT pathway in lymphatic endothelial cells. However, the activation …

Determining User Implementation Needs For Pharmacist-Prescribed Contraception Using Concept Mapping: A Participatory, Multiple Stakeholder Approach, Jenny L. Newlon, Jennifer A. Campi, Sally Rafie, Ashley H. Meredith

Purdue University Libraries Open Access Publishing Fund

Background

As of October 2024, 29 states and the District of Columbia allow community pharmacists to prescribe hormonal contraceptives. Pharmacists have reported many challenges and barriers to service implementation.

Methods

Concept mapping was used to gather insights from diverse stakeholders to identify resources to facilitate implementation of pharmacist-prescribed contraceptive services. Stakeholders included end-users (pharmacy managers, staff pharmacists) and decision-makers (pharmacy owners/executives). Participants' ideas for resources were collected via multi-stakeholder focus groups. Participants then rated each idea (i.e. statement) in terms of importance and feasibility (1 = not at all important/feasible, 4 = extremely important/feasible) and sorted ideas into groups based …