Life Sciences Commons^™

A Community Effort For Covid-19 Ontology Harmonization, Asiyah Yu Lin, Yuki Yamagata, William D. Duncan, Leigh Carmody, Tatsuya Kushida, Hiroshi Masuya, John Beverley, Biswanath Dutta, Michael Debellis, Zoë May Pendlington, Paola Roncaglia, Yongqun He

Faculty Research 2022

Ontologies have emerged to become critical to support data and knowledge representation, standardization, integration, and analysis. The SARS-CoV-2 pandemic led to the rapid proliferation of COVID-19 data, as well as the development of many COVID-19 ontologies. In the interest of supporting data interoperability, we initiated a community-based effort to harmonize COVID-19 ontologies. Our effort involves the collaborative discussion among developers of seven COVID-19 related ontologies, and the merging of four ontologies. This effort demonstrates the feasibility of harmonizing these ontologies in an interoperable framework to support integrative representation and analysis of COVID-19 related data and knowledge.

Using Genome-Wide Expression Compendia To Study Microorganisms, Alexandra J. Lee, Taylor Reiter, Georgia Doing, Julia Oh, Deborah A. Hogan, Casey S. Greene

Faculty Research 2022

A gene expression compendium is a heterogeneous collection of gene expression experiments assembled from data collected for diverse purposes. The widely varied experimental conditions and genetic backgrounds across samples creates a tremendous opportunity for gaining a systems level understanding of the transcriptional responses that influence phenotypes. Variety in experimental design is particularly important for studying microbes, where the transcriptional responses integrate many signals and demonstrate plasticity across strains including response to what nutrients are available and what microbes are present. Advances in high-throughput measurement technology have made it feasible to construct compendia for many microbes. In this review we discuss …

A-Kinase Anchor Protein 1 Deficiency Causes Mitochondrial Dysfunction In Mouse Model Of Hyperoxia Induced Acute Lung Injury., Ramani Soundararajan, Helena Hernández-Cuervo, Timothy M Stearns, Anthony J Griswold, Sahebgowda Sidramagowda Patil, Jutaro Fukumoto, Venkata Ramireddy Narala, Lakshmi Galam, Richard Lockey, Narasaiah Kolliputi

Faculty Research 2022

No abstract provided.

The Collaborative Cross Strains And Their Founders Vary Widely In Cocaine-Induced Behavioral Sensitization., Sarah A Schoenrock, Leona H. Gagnon, Ashley A Olson, Michael Leonardo, Vivek M. Philip, Hao He, Laura G. Reinholdt, S J Sukoff Rizzo, James D Jentsch, Elissa J Chesler, Lisa M Tarantino

Faculty Research 2022

Cocaine use and overdose deaths attributed to cocaine have increased significantly in the United States in the last 10 years. Despite the prevalence of cocaine use disorder (CUD) and the personal and societal problems it presents, there are currently no approved pharmaceutical treatments. The absence of treatment options is due, in part, to our lack of knowledge about the etiology of CUDs. There is ample evidence that genetics plays a role in increasing CUD risk but thus far, very few risk genes have been identified in human studies. Genetic studies in mice have been extremely useful for identifying genetic loci …

Genetic Diversity And Population Structure Of Local Sudanese Sheep Populations Revealed By Whole-Genome Sequencing, A Amane, G Belay, Abdulfatai Tijjani, T Dessie, H H. Musa, O Hanotte

Faculty Research 2022

Local Sudanese sheep populations inhabiting diverse environmental conditions and holding opposing morphologies provide opportunities for molecular-genetic research. Characterizing their genome is crucial for sustainable breeding improvement and targeting favorable genes in breeding programs. However, the genome of these sheep populations, which comprises several subtypes, remains uncharacterized using whole-genome sequence data. This study aimed to elucidate genome-wide genetic diversity and population structure of 11 local Sudanese sheep populations, namely, Hammari, Kabbashi, Meidobe, Ashgar, Dubasi, Watish, Bega, Naili, Fulani, Zagawi, and Garag. Ninety whole blood samples were collected, and we extracted DNA using a Qiagen DNeasy® extraction kit. We used the Illumina …

Witch Nails (Krt90whnl): A Spontaneous Mouse Mutation Affecting Nail Growth And Development., John P Sundberg, Hannah Galantino-Homer, Heather Fairfield, Patricia F. Ward-Bailey, Belinda S. Harris, Melissa L. Berry, C Herbert Pratt, Nicholas E Gott, Lesley S Bechtold, Pauline R Kaplan, Blythe P Durbin-Johnson, David M Rocke, Robert H Rice

Faculty Research 2022

Numerous single gene mutations identified in humans and mice result in nail deformities with many similarities between the species. A spontaneous, autosomal, recessive mutation called witch nails (whnl) is described here where the distal nail matrix and nail bed undergo degenerative changes resulting in formation of an abnormal nail plate causing mice to develop long, curved nails. This mutation arose spontaneously in a colony of MRL/MpJ-Faslpr/J at The Jackson Laboratory. Homozygous mutant mice are recognizable by 8 weeks of age by their long, curved nails. The whnl mutation, mapped on Chromosome 15, is due to a 7-bp insertion identified in …

Exploratory Studies Of Oral And Fecal Microbiome In Healthy Human Aging., Xin Zhou, Baohong Wang, Patrick C Demkowicz, Jethro Johnson, Yanfei Chen, Daniel Spakowicz, Yanjiao Zhou, Yair Dorsett, Lei Chen, Erica Sodergren, George A Kuchel, George M. Weinstock

Faculty Research 2022

Growing evidence has linked an altered host fecal microbiome composition with health status, common chronic diseases, and institutionalization in vulnerable older adults. However, fewer studies have described microbiome changes in healthy older adults without major confounding diseases or conditions, and the impact of aging on the microbiome across different body sites remains unknown. Using 16S ribosomal RNA gene sequencing, we reconstructed the composition of oral and fecal microbiomes in young (23-32; mean = 25 years old) and older (69-94; mean = 77 years old) healthy community-dwelling research subjects. In both body sites, we identified changes in minor bacterial operational taxonomic …

An Integrated Approach To Studying Rare Neuromuscular Diseases Using Animal And Human Cell-Based Models., Timothy J Hines, Cathleen Lutz, Stephen A Murray, Robert W. Burgess

Faculty Research 2022

As sequencing technology improves, the identification of new disease-associated genes and new alleles of known genes is rapidly increasing our understanding of the genetic underpinnings of rare diseases, including neuromuscular diseases. However, precisely because these disorders are rare and often heterogeneous, they are difficult to study in patient populations. In parallel, our ability to engineer the genomes of model organisms, such as mice or rats, has gotten increasingly efficient through techniques such as CRISPR/Cas9 genome editing, allowing the creation of precision human disease models. Such

Psychology: Hot Or Not? I’M Masking You., Mariah Boatman

[Archive] Belmont University Research Symposium (BURS)

The COVID-19 pandemic has led to multiple societal and behavioral changes, including the addition of mask wearing. This material covers the face from the bridge of the nose to the base of the chin, which limits the availability of facial cues that are often used in social interactions (Gori et al. 2021). Research has demonstrated cognitive recognition challenges, with mask wearing decreasing facial recognition abilities (Freud et al. 2020). Similarly, mask wearing has been associated with decreased ability to perceive facial emotions (Ziccardi et al. 2021). When information is missing, humans tend to try to “fill in the blank” to …

Emotionally-Charged Music Influences Attentional Bias Towards Positive Colors, Abigail Mitchell, Carole Scherling

[Archive] Belmont University Research Symposium (BURS)

Emotionally-Charged Music Influences Attentional Bias Towards Positive Colors

Abigail Mitchell & Carole Scherling, PhD.

Abstract

Early-on, humans perceive music as happy or sad, and demonstrate concordant emotional responses (Dalla Bella, 2001). Colors themselves are also intrinsic to emotional experiences. Respectively, bright and dark colors associate with positive and negative emotions, and people are attracted to stimuli matching current mood (Becker & Leinenger, 2011). The current study used a modified Color Dot-Probe task to examined the influence of emotional music on color biases. The task involved looking at the central screen, where 2 color squares would appear to the right and …

Nebline, January/February 2022

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

2021 Extension Highlights

Your Trusted Educational Resource

4-H Programs Engaged 24,313 Youth

A New Year, A New You, A Renewed Community by Emily Gratopp

Garden Guide: Things to Do This Month

Extension’s 2022 Master Gardener Training, Two Sites Available

Upcoming Green Industry Conferences

ProHort Lawn & Landscape Update

2022 Pesticide Applicator Trainings

Crop Production Clinics In-Person and Zoom

Heart of 4-H Volunteer Award: Phil Wharton and Jenny DeBuhr

Watch Chicks Hatch on Egg Cam

4-H Rabbit Show, March 19

Dog Club Accepting New Members, Starts Jan. 10

4-H Club Gives Youth With Special Needs Opportunity to Show Lambs

4-H Announcements …

Synthetic Design And Anisotropic Conductivities Of Polymeric Mixed Ion- Electron Conductors, Nika Bondar, Abigail Slimp, Patrick Gruoner, Jason Lin

Baker/Koob Endowments Awarded Projects

Our project documented, in extensive detail, the liquid crystalline (LC) assembly pathway from solution to solid state in the supramolecular complexes of the mixed ionic-electronic conducting polymers (MIECPs) prepared from carboxylated poly(3-alkylthiophene) and ionic liquid surfactant. Using UV-visible spectroscopy we have shown that the complexation is accompanied by the surfactochromism showing colorimetric response and conformational transitions as a function of the IL surfactant mole ratio. Additionally, we have demonstrated via Polarized Optical Microscopy (POM), that the equimolar solution exhibits rodlike conformation and its hydrogel spontaneously forms a 2D smectic LC mesophase with a lamellar periodicity. Defect-free LC domains were produced …

Ms Environmental Biology Capstone Project, Samantha Ortega

Regis University Student Publications (comprehensive collection)

This project is presented in partial fulfillment of the requirements for the degree Masters of Science in Environmental Biology at Regis University. Chapter 1 is a literature review that discusses the management implications of designing bird habitat on anthropogenic structures. Chapter 2 is a grant proposal to explore niche dominance by anthropophilic bird species in Denver, CO. Chapter 3 is a journal manuscript discussing how musth impacts captive bull Asian elephant (Elephas maximus) behavior at Denver Zoo. Finally, Chapter 4 is a stakeholder analysis for Northern Bobwhite recovery at Bridgestone-Firestone Centennial Wilderness Area, White County, Tennessee.

Contributions To The Knowledge Of The Diversity Of The Chewing Lice Fauna In Turkey, Gökhan Eren, Ömral Ünsal Özkoç, Mustafa Açici

Turkish Journal of Zoology

The aim of the study was to identify the chewing lice which were sampled from the birds found dead during ornithological studies in the natural areas of Samsun, and transported to the laboratory of Ondokuz Mayıs University, Veterinary Faculty, Department of Parasitology, between 2018 and 2020. All samples were collected by ectoparasite examination. The collected lice specimens were preserved in tubes with 70% alcohol. The specimens were cleared in 10% KOH for 24 h before being mounted in Canada balsam and identified under the light microscope. A total of 35 species under 3 families were detected in this study: Menoponidae: …

Investigating Spatiotemporal Kinetics, Dynamics, And Mechanism Of Exosome Release, Anarkali Mahmood

Electronic Theses and Dissertations

Exosomes are small lipid-based vesicles that can carry biomolecules from one cell to another. While exosomes are crucial to maintain homeostasis in healthy cells, they are exploited by unhealthy cells to aid disease progression. Exosomes likely facilitate disease progression via the transfer of disease-causing biomolecules from unhealthy to healthy cells. Exosomes are generated in Multivesicular endosomes (MVEs) and are then secreted into the extracellular space to travel to other cells. Despite being a crucial step, very little is known about exosomes release mechanism and dynamics. To further our understanding of exosomes, specifically their secretion, my work has focused on investigating …

Phosphatidylserine Externalization On Non-Apoptotic Cells And Lipid Scramblases In C. Elegans, Julia Frondoni

Electronic Theses and Dissertations

Cell corpse clearance is key for animals to avoid inflammation and autoimmune disease. To better understand the “eat me” signal of phosphatidylserine (PS) exposure for non-apoptotic corpse clearance, we attempted to disrupt the externalization of PS on C. elegans polar bodies. The second polar body undergoes a non-apoptotic form of cell death, loses membrane integrity, externalizes PS and is cleared by embryonic cells during early development. During apoptotic and necrotic cell death, PS asymmetry is disrupted by lipid scramblases, which translocate phospholipids between the leaflets of the lipid bilayer. We found neither apoptotic nor necrotic scramblases are required for PS …

What Is The Best Method To Cure Hiv?, Israel Hacker

The Science Journal of the Lander College of Arts and Sciences

Human Immunodeficiency Virus (HIV) is a sexually transmitted retrovirus impacting millions of people worldwide. Strides have been made to cure and/or prevent various genetic mutations via gene editing. Scientists hope to rid of HIV on a genomic level which will also prevent Acquired Immunodeficiency Syndrome (AIDS) - a biproduct of HIV. HIV utilizes a mechanism that counteracts the innate, adaptive, and intrinsic immune systems. Because the virus’s replication takes place in the lymphatic organs, the infection traverses the entire bloodstream. Due to the complexity of HIV and AIDS, their constant evolution, and their effect on a genomic level, no cures …

Can Stem Cell Transplantation Restore Insulin Levels In Diabetics?, Nechama Mendelson

The Science Journal of the Lander College of Arts and Sciences

A recent public interest in stem cell research has led to new approaches to treat various pathologies, including diabetes. Diabetes mellitus is characterized by elevated blood glucose levels due to the inability of the β cells in the pancreas to produce insulin. Therefore, the standard diabetes treatment is introducing insulin to the bloodstream. With the advancement of stem cell therapy, a new approach to treating diabetes mellitus is being researched. Scientists are working to differentiate pluripotent stem cells into mature insulin-producing pancreatic beta cells. These cells are then transplanted into in vivo models and observed after a glucose challenge for …

Emerging Biomedical Applications Of The Vesicular Stomatitis Virus Glycoprotein, Sheeba Rehman, Suman Bishnoi, Rajarshi Roy, Anshu Kumari, Harikrishnan Jayakumar, Sharad Gupta, Parimal Kar, Asit K. Pattnaik, Bebasis Nayak

School of Veterinary and Biomedical Sciences: Faculty Publications

Nanoparticles (NPs) made of metals, polymers, micelles, and liposomes are increasingly being used in various biomedical applications. However, most of these NPs are hazardous for long- and short-term use and hence have restricted biomedical applications. Therefore, naturally derived, biocompatible, and biodegradable nanoconstructs are being explored for such applications. Inspired by the biology of viruses, researchers are exploring the viral proteins that hold considerable promise in biomedical applications. The viral proteins are highly stable and further amenable to suit specific biological applications. Among various viral proteins, vesicular stomatitis virus glycoprotein (VSV-G) has emerged as one of the most versatile platforms for …

Phip-Seq Reveals Autoantibodies For Ubiquitously Expressed Antigens In Viral Myocarditis, Mahima T. Rasquinha, Ninaad Lasrado, Erika M. Petro-Turnquist, Eric A. Weaver, Thiagarajan Venkataraman, Daniel R. Anderson, H. Benjamin Larman, Jay Reddy

School of Veterinary and Biomedical Sciences: Faculty Publications

Simple Summary: Myocarditis is the inflammation of the heart muscle, and viral infections are a common cause of this disease. Myocarditis in some patients can progress to dilated cardiomyopathy (DCM). The mouse model of coxsackievirus B3 (CVB3) is commonly used to understand this disease progression in DCM patients. In this paper, we have attempted to analyze antibodies for heart antigens that could be produced as a result of heart damage in animals infected with CVB3 using a technique called Phage ImmunoPrecipitation Sequencing (PhIP-Seq). The analyses led us to identify antibodies for several proteins that were not previously reported that may …

Ms Environmental Biology Capstone Project, Catherine Shapiro

Regis University Student Publications (comprehensive collection)

Chapter 1: Artificial light at night disrupts the biology of fishes. Chapter 2: Grant proposal to determine how artificial light at night affects Pumpkinseed fish. Chapter 3: Management of pinyon-juniper woodland impacts the occupancy of Pinyon Jays. Chapter 4: Stakeholder analysis of horseshoe crab fishing and its impacts on the Red Knot and biomedical industry.

Stomatal Conductance And Reed Canary Grass Suppression Traits Of Native Michigan Trees, David E. Martinez Vasquez, David Warners

Summer Research

Reed canary grass (Phalaris arundinacea), a prominent invasive understory species, threatens native Michigan biodiversity statewide. A notable affected area includes a stretch of agricultural land along Schooley Drain in Caledonia, MI, located in the headwaters of the Plaster Creek watershed. Our study pursues the following questions: “Do native trees provide enough shade to reduce the growth of Reed canary grass?” and “Which native trees best transpire water from a floodplain?”: To answer these questions, we continued the evaluation of seven different species of native Michigan trees to investigate which species best inhibits the growth of reed canary grass and transpires …

Altered Gene Expression In Response To Chronic Cardiac Sarcomere Modifications, Oula Salih, Emily Lavey, Margaret Westfall

Summer Research

No abstract provided.

Geospatial Data Trees 1981, Grace K. Attea, Ryan W. Mcewan, John L. Vankat

Data Files for Old-Growth Deciduous Forest Dynamics Archive: Hueston Woods

Location and demographic data collected for each individual tree in 1981 in Hueston Woods State Nature Preserve. These maps were digitized from the historical field maps to a GIS shapefile for each sampling year. Geographic Coordinate System: GCS_North_American_1983. Projected Coordinate System: NAD_1983_StatePlane_Ohio_South_FIPS_3402 (meters).

A Radiofrequency Coil To Facilitate Task-Based Fmri Of Awake Marmosets, Kyle Gilbert, Audrey Dureux, Azadeh Jafari, Alessandro Zanini, Peter Zeman, Ravi S. Menon, Stefan Everling

Robarts Imaging Publications

Background: The small common marmoset (Callithrix jacchus) is an ideal nonhuman primate for awake fMRI in ultra-high field small animal MRI scanners. However, it can often be challenging in task-based fMRI experiments to provide a robust stimulus within the MRI environment while using hardware (an RF coil and restraint system) that is compatible with awake imaging. New Method: Here we present an RF coil and restraint system that permits unimpeded access to an awake marmoset’s head subsequent to immobilization, thereby permitting the setup of peripheral devices and stimuli proximal to the head.

Results: As an example application, an …

Radiation Exposure Determination In A Secure, Cloudbased Online Environment, Ben C. Shirley, Eliseos J. Mucaki, Joan H.M. Knoll, Peter Rogan

Biochemistry Publications

Rapid sample processing and interpretation of estimated exposures will be critical for triaging exposed individuals after a major radiation incident. The dicentric chromosome (DC) assay assesses absorbed radiation using metaphase cells from blood. The Automated Dicentric Chromosome Identifier and Dose Estimator System (ADCI) identifies DCs and determines radiation doses. This study aimed to broaden accessibility and speed of this system, while protecting data and software integrity. ADCI Online is a secure web-streaming platform accessible worldwide from local servers. Cloud-based systems containing data and software are separated until they are linked for radiation exposure estimation. Dose estimates are identical to ADCI …

Assessment Of Physical Fitness During Pregnancy: Validity And Reliability Of Fitness Tests, And Relationship With Maternal And Neonatal Health - A Systematic Review., Lidia Romero-Gallardo, Olga Roldan Reoyo, Jose Castro-Piñero, Linda E May, Olga Ocón-Hernández, Michelle F Mottola, Virginia A Aparicio, Alberto Soriano-Maldonado

Kinesiology Publications

Objectives: To systematically review studies evaluating one or more components of physical fitness (PF) in pregnant women, to answer two research questions: (1) What tests have been employed to assess PF in pregnant women? and (2) What is the validity and reliability of these tests and their relationship with maternal and neonatal health?

Design: A systematic review.

Data sources: PubMed and Web of Science.

Eligibility criteria: Original English or Spanish full-text articles in a group of healthy pregnant women which at least one component of PF was assessed (field based or laboratory tests).

Results: A total of 149 articles containing …

Differential Behaviour Of Distinct Motoneuron Pools That Innervate The Triceps Surae, Josh W. Cohen, Taian M. Vieira, Tanya D. Ivanova, Jayne Garland

Kinesiology Publications

It has been shown that when humans lean in various directions, the central nervous system (CNS) recruits different motoneuron pools for task completion; common units that are active during different leaning directions, and unique units that are active in only one leaning direction. We used high-density surface electromyography (HD-sEMG) to examine if motor unit (MU) firing behaviour was dependent on leaning direction, muscle (medial and lateral gastrocnemius; soleus), limits of stability, or whether a MU is considered common or unique. Fourteen healthy participants stood on a force platform and maintained their center of pressure in five different leaning directions. HD-sEMG …

Methamphetamine Use: A Narrative Review Of Adverse Effects And Related Toxicities., Amber N. Edinoff, Sarah E. Kaufman, Keionne M. Green, Daniel A. Provenzano, Jesse Lawson, Elyse M. Cornett, Kevin S. Murnane, Adam M. Kaye, Alan David Kaye

School of Pharmacy Faculty Articles

Methamphetamine has been labeled "America's most dangerous drug" and has received significant public health attention. Stimulant addiction and tolerance are heavily documented in the literature; increasingly larger doses maintain euphoria in short time periods to withstand stimulant tolerance. Stimulant deaths are high in the United States and abroad. Between 2013 and 2019, deaths related to methamphetamine use quadrupled from 3,616 to 16,127. Methamphetamine use increased four-fold from 2015 to 2016. Due to this increase in methamphetamine use and its associated medical complications, the mortality rate associated with methamphetamine use has doubled over the past ten years. Cardiopulmonary symptoms include chest …

Development And Preliminary Testing Of A Walkassist Device With Dynamic Support, Simon Detmer, Gita Regmi, Kaitlyn Boellner, Ann Reinthal, Hanz Richter

Summer Research

In the past decade, usage of walking aids in the senior population has increased by 50 percent and is expected to double by 20501 . Walkers are used as a temporary aid to encourage mobility after surgery or fracture, but they often become permanent aids2 . In the United States, about 12 percent of the elderly population use walkers1. Walkers are prescribed to reduce the load on lower limbs and/or to improve balance and stability. However, longer usage of walkers leads to low physical function and low self-confidence. Walker users typically have forward leaning posture due to load transfer from …