Life Sciences Commons^™

Photophysical And Optical Properties Of Semiconducting Polymer Nanoparticles Prepared From Hyaluronic Acid And Polysorbate 80, Adam Langlois, Gage T. Mason, Michael H.L. Nguyen, Mehdi Rezapour, Paul Ludovic Karsenti, Drew Marquardt, Simon Rondeau-Gagné

Chemistry and Biochemistry Publications

Copyright © 2019 American Chemical Society. A nanoprecipitation procedure was utilized to prepare novel diketopyrrolopyrrole-based semiconducting polymer nanoparticles (SPNs) with hyaluronic acid (HA) and polysorbate 80. The nanoprecipitation led to the formation of spherical nanoparticles with average diameters ranging from 100 to 200 nm, and a careful control over the structure of the parent conjugated polymers was performed to probe the influence of π-conjugation on the final photophysical and thermal stability of the resulting SPNs. Upon generation of a series of novel SPNs, the optical and photophysical properties of the new nanomaterials were probed in solution using various techniques including …

Urban Horticulture, From Local Initiatives To Global Success Stories, Roland Ebel, Esmaeil Fallahi, John L. Griffis Jr., Dilip Nandwani, Donielle Nolan, Ross H. Penhallegon, Mary Rogers

Agricultural and Environmental Sciences Faculty Research

Urban horticulture describes economically viable horticultural production activities conducted in a city or suburb. It is a growing segment of horticulture in the United States as well as in developing countries, where the enormous growth of megalopolis is not backed by a simultaneous increase of farmland or agricultural productivity. Today, urban horticulture includes food sovereignty in underprivileged neighborhoods, increased availability of vegetables and fruits in big cities, healthy and diverse diets, improved food safety, low transportation costs, efficient resource use, and the mitigation of environmental impacts of horticultural production such as the emission of greenhouse gases. The workshop “Urban horticulture: …

Do Coffee Agroforestry Systems Always Improve Soil Carbon Stocks Deeper In The Soil?—A Case Study From Turrialba, Costa Rica, Nilovna Chatterjee, P. K. Ramachandran Nair, Vimala D. Nair, Abhishek Bhattacharjee, Elias De Melo Virginio Filho, Rheinhold G. Muschler, Martin R.A. Noponen

Department of Agronomy and Horticulture: Faculty Publications

Shaded perennial agroforestry systems (AFS) are regarded as desirable land‐use practices that improve soil carbon sequestration. However, most studies assume a positive correlation between above ground and below ground carbon without considering the effect of past and current land management, textural variations (silt and clay percentage), and such other site‐specific factors that have a major influence on the extent of soil C sequestration. We assessed SOC stock at various depths (0–10, 10–30, 30–60, and 60–100 cm) in shaded perennial coffee (Coffea arabica L.) AFS in a 17‐ year‐old experimental field at the Centro Agronómico Tropical de Investigación y Enseñanza, (9°53′44′′ …

Connectivity Differences Between Gulf War Illness (Gwi) Phenotypes During A Test Of Attention, Tomas Clarke, Jessie Jamieson, Patrick Malone, Rakib U. Rayhan, Stuart Washington, John W. Vanmeter, James N. Baraniuk

Department of Mathematics: Faculty Publications

One quarter of veterans returning from the 1990–1991 Persian Gulf War have developed Gulf War Illness (GWI) with chronic pain, fatigue, cognitive and gastrointestinal dysfunction. Exertion leads to characteristic, delayed onset exacerbations that are not relieved by sleep. We have modeled exertional exhaustion by comparing magnetic resonance images from before and after submaximal exercise. One third of the 27 GWI participants had brain stem atrophy and developed postural tachycardia after exercise (START: Stress Test Activated Reversible Tachycardia). The remainder activated basal ganglia and anterior insulae during a cognitive task (STOPP: Stress Test Originated Phantom Perception). Here, the role of attention …

Remediating Soil For Successful Vegetation Establishment Along Nebraska Highways, Shad Mills, Martha Mamo, Walt Schacht, Humberto Blanco-Canqui

Nebraska Department of Transportation: Research Reports

Vegetation along roadsides is important to prevent soil erosion, provide habitat, and filter water running off the road. Vegetation close to the pavement along highways in Nebraska does not readily establish and persist. It is thought that the sodium and bulk density are the driving factors behind the lack of vegetation. After a construction project the shoulder is seeded into the compacted soil, and during winter salts can accumulate in the soil because of deicing agents being used. The purpose of our study was to determine if the sodium and bulk density are the driving factors of the vegetation cover. …

Establishment Of Wildflower Islands To Enhance Roadside Health And Aesthetics, Walter Schacht, Judy Wu-Smart

Nebraska Department of Transportation: Research Reports

Wildflowers are crucial in the ecological function of the low-input roadside plant communities in terms of water andnutrient cycling, nutrient inputs such as nitrogen, total plant canopy cover, stand longevity, and provision of habitat for numerous small animals. Further, wildflowers provide critical foraging and nesting resources for birds, insects, and other wildlife. Unfortunately, habitat loss from agricultural and urban development has led to rapid population declines in wild bees and other pollinators across the US, thereby jeopardizing not only food production but also the sustainability of our natural landscapes (Kearns & Inouye, 1997). One way to mitigate wild bee decline …

Architecture Of The Chromatin Remodeler Rsc And Insights Into Its Nucleosome Engagement., Avinash B Patel, Camille M Moore, Basil J Greber, Jie Luo, Stefan A Zukin, Jeff Ranish, Eva Nogales

Articles, Abstracts, and Reports

Eukaryotic DNA is packaged into nucleosome arrays, which are repositioned by chromatin remodeling complexes to control DNA accessibility. The

Developmental Transcriptomic Analysis Of The Cave-Dwelling Crustacean, Asellus Aquaticus, Joshua B. Gross, Dennis A. Sun, Brian M. Carlson, Sivan Brodo-Abo, Meredith E. Protas

Natural Sciences and Mathematics | Faculty Scholarship

Cave animals are a fascinating group of species often demonstrating characteristics including reduced eyes and pigmentation, metabolic efficiency, and enhanced sensory systems. Asellus aquaticus, an isopod crustacean, is an emerging model for cave biology. Cave and surface forms of this species differ in many characteristics, including eye size, pigmentation, and antennal length. Existing resources for this species include a linkage map, mapped regions responsible for eye and pigmentation traits, sequenced adult transcriptomes, and comparative embryological descriptions of the surface and cave forms. Our ultimate goal is to identify genes and mutations responsible for the differences between the cave and …

New Statistical Method Identifies Cytokines That Distinguish Stool Microbiomes., Dake Yang, Jethro Johnson, Xin Zhou, Elena Deych, Berkley Shands, Blake Hanson, Erica Sodergren, George M. Weinstock, William D Shannon

Faculty Research 2019

Regressing an outcome or dependent variable onto a set of input or independent variables allows the analyst to measure associations between the two so that changes in the outcome can be described by and predicted by changes in the inputs. While there are many ways of doing this in classical statistics, where the dependent variable has certain properties (e.g., a scalar, survival time, count), little progress on regression where the dependent variable are microbiome taxa counts has been made that do not impose extremely strict conditions on the data. In this paper, we propose and apply a new regression model …

Effect Of Hospital Volume On Outcomes Of Total Hip Arthroplasty: A Systematic Review And Meta-Analysis, Syed Hamza Mufarrih, Muhammad Owais Abdul Ghani, Russell S. Martins, Nada Qaisar Qureshi, Sayyeda Aleena Mufarrih, Azeem Tariq Malik, Shahryar Noordin

Department of Biological & Biomedical Sciences

Background: A shift in the healthcare system towards the centralization of common yet costly surgeries, such as total hip arthroplasty (THA), to high-volume centers of excellence, is an attempt to control the economic burden while simultaneously enhancing patient outcomes. The "volume-outcome" relationship suggests that hospitals performing more treatment of a given type exhibit better outcomes than hospitals performing fewer. This theory has surfaced as an important factor in determining patient outcomes following THA. We performed a systematic review with meta-analyses to review the available evidence on the impact of hospital volume on outcomes of THA.
Materials and methods: We conducted …

Pi‑Plat: A High‑Resolution Image‑Based 3d Reconstruction Method To Estimate Growth Dynamics Of Rice Inflorescence Traits, Jaspreet Sandhu, Feiyu Zhu, Puneet Paul, Tian Gao, Balpreet K. Dhatt, Yufeng Ge, Paul E. Staswick, Hongfeng Yu, Harkamal Walia

Department of Agronomy and Horticulture: Faculty Publications

Background: Recent advances in image-based plant phenotyping have improved our capability to study vegetative stage growth dynamics. However, more complex agronomic traits such as inflorescence architecture (IA), which predominantly contributes to grain crop yield are more challenging to quantify and hence are relatively less explored. Previous efforts to estimate inflorescence-related traits using image-based phenotyping have been limited to destructive end-point measurements. Development of non-destructive inflorescence phenotyping platforms could accelerate the discovery of the phenotypic variation with respect to inflorescence dynamics and mapping of the underlying genes regulating critical yield components.

Results: The major objective of this study is to evaluate …

Food Availability Modulates Temperature-Dependent Effects On Growth, Reproduction, And Survival In Daphnia Magna, Gustavo S. Betini, Xueqi Wang, Tal Avgar, Matthew M. Guzzo, John M. Fryxell

Wildland Resources Faculty Publications

Reduced body size and accelerated life cycle due to warming are considered major ecological responses to climate change with fitness costs at the individual level. Surprisingly, we know little about how relevant ecological factors can alter these life history trade‐offs and their consequences for individual fitness. Here, we show that food modulates temperature‐dependent effects on body size in the water flea Daphnia magna and interacts with temperature to affect life history parameters. We exposed 412 individuals to a factorial manipulation of food abundance and temperature, tracked each reproductive event, and took daily measurements of body size from each individual. High …

Interactions With Humans Shape Coyote Responses To Hazing, Julie K. Young, Edd Hammill, Stewart W. Breck

Wildland Resources Faculty Publications

Medium and large carnivores coexist with people in urban areas globally, occasionally resulting in negative interactions that prompt questions about how to reduce human-wildlife conflict. Hazing, i.e., scaring wildlife, is frequently promoted as an important non-lethal means for urbanites to reduce conflict but there is limited scientific evidence for its efficacy. We used a population of captive coyotes (Canis latrans) to simulate urban human-coyote interactions and subsequent effects of hazing on coyote behavior. Past experiences with humans significantly affected the number of times a coyote approached a human to necessitate hazing. Coyotes that had been hand fed by …

Association Of Serum Γ-Tocopherol Levels With Mortality: The Multiethnic Cohort Study, Weiwen Chai, Gertraud Maskarinec, Adrian A. Franke, Kristine R. Monroeuniversity Of Southern California, Song-Yi Park, Laurence N. Kolonel, Lynne R. Wilkens, Loïc Le Marchand, Robert V. Cooney

Department of Nutrition and Health Sciences: Faculty Publications

Background/Objectives—γ-Tocopherol has unique properties that protect against nitrogen oxide-mediated cellular damage. To elucidate the potential role of γ-tocopherol in the aging process, we examined the associations of serum γ-tocopherol levels with all-cause and cause-specific mortality.

Subjects/Methods—Among participants in the biorepository subcohort of the Multiethnic Cohort Study, pre-cancer diagnostic serum γ-tocopherol levels were measured in a subset of 3904 men and 4461 women. Of these, 22.7% of men and 13.5% of women died during a mean follow- up time of 9.6±2.6 years. Hazard ratios (HRs) and 95% confidence intervals (95%CIs) for mortality associated with γ-tocopherol were estimated by Cox proportional hazards …

Genetic Perturbations Of Disease Risk Genes In Mice Capture Transcriptomic Signatures Of Late-Onset Alzheimer's Disease., Ravi S Pandey, Leah C. Graham, Asli Uyar, Christoph Preuss, Gareth R Howell, Gregory W. Carter

Faculty Research 2019

BACKGROUND: New genetic and genomic resources have identified multiple genetic risk factors for late-onset Alzheimer's disease (LOAD) and characterized this common dementia at the molecular level. Experimental studies in model organisms can validate these associations and elucidate the links between specific genetic factors and transcriptomic signatures. Animal models based on LOAD-associated genes can potentially connect common genetic variation with LOAD transcriptomes, thereby providing novel insights into basic biological mechanisms underlying the disease.

METHODS: We performed RNA-Seq on whole brain samples from a panel of six-month-old female mice, each carrying one of the following mutations: homozygous deletions of Apoe and Clu; …

Xenopus Interferon Complex: Inscribing The Amphibiotic Adaption And Species-Specific Pathogenic Pressure In Vertebrate Evolution?, Yun Tian, Jordan Jennings, Yuanying Gong, Yongming Sang

Agricultural and Environmental Sciences Faculty Research

Several recent studies have revealed previously unknown complexity of the amphibian interferon (IFN) system. Being unique in vertebrate animals, amphibians not only conserve and multiply the fish-like intron-containing IFN genes, but also rapidly evolve amniote-like intronless IFN genes in each tested species. We postulate that the amphibian IFN system confers an essential model to study vertebrate immune evolution in molecular and functional diversity to cope with unprecedented pathophysiological requirement during terrestrial adaption. Studies so far have ascribed a potential role of these IFNs in immune regulation against intracellular pathogens, particularly viruses; however, many knowledge gaps remain elusive. Based on recent …

Cognitively Normal Women With Alzheimer’S Disease Proteinopathy Show Relative Preservation Of Memory But Not Of Hippocampal Volume, Jessica Z.K. Caldwell, Jeffrey L. Cummings, Sarah J. Banks, Sebastian Palmqvist, Oskar Hansson

School of Medicine Faculty Publications

Background: We examined interactive effects of sex, diagnosis, and cerebrospinal fluid (CSF) amyloid beta/phosphorylated tau ratio (Aβ/P-tau) on verbal memory and hippocampal volumes. Methods: We assessed 682 participants (350 women) from BioFINDER (250 cognitively normal [CN]; and 432 symptomatic: 186 subjective cognitive decline [SCD], 246 mild cognitive impairment [MCI]). General linear models evaluated effects of Alzheimer’s disease (AD) proteinopathy (CSF Aß/p-tau ratio), diagnosis, and sex on verbal memory (ADAS-cog 10-word recall), semantic fluency (animal naming fluency), visuospatial skills (cube copy), processing speed/attention functions (Symbol Digit Modalities Test and Trail Making Part A), and hippocampal volumes. Results: Amyloid-positive (Aβ/P-tau+) CN women …

Grasses Endemic To The Conterminous United States, James P. Smith Jr

Botanical Studies

No abstract provided.

Antimicrobial Peptide Identification Using Multi-Scale Convolutional Network, Xin Su, Jing Xu, Yanbin Yin, Xiongwen Quan, Han Zhang

Department of Food Science and Technology: Faculty Publications

Background: Antibiotic resistance has become an increasingly serious problem in the past decades. As an alternative choice, antimicrobial peptides (AMPs) have attracted lots of attention. To identify new AMPs, machine learning methods have been commonly used. More recently, some deep learning methods have also been applied to this problem.

Results: In this paper, we designed a deep learning model to identify AMP sequences. We employed the embedding layer and the multi-scale convolutional network in our model. The multi-scale convolutional network, which contains multiple convolutional layers of varying filter lengths, could utilize all latent features captured by the multiple convolutional layers. …

Metagenomic Analysis Of Dental Calculus In Ancient Egyptian Baboons, Claudio Ottoni, Meriam Guellil, Andrew T. Ozga, Anne C. Stone, Oliver Kersten, Barbara Bramanti, Stephanie Porcier, Wim Van Neer

Biology Faculty Articles

Dental calculus, or mineralized plaque, represents a record of ancient biomolecules and food residues. Recently, ancient metagenomics made it possible to unlock the wealth of microbial and dietary information of dental calculus to reconstruct oral microbiomes and lifestyle of humans from the past. Although most studies have so far focused on ancient humans, dental calculus is known to form in a wide range of animals, potentially informing on how human-animal interactions changed the animals’ oral ecology. Here, we characterise the oral microbiome of six ancient Egyptian baboons held in captivity during the late Pharaonic era (9^th–6^th centuries …

Chloroviruses, James L. Van Etten, Irina V. Agarkova, David D. Dunigan

Nebraska Center for Virology: Faculty Publications

Chloroviruses are large dsDNA, plaque-forming viruses that infect certain chlorella-like green algae; the algae are normally mutualistic endosymbionts of protists and metazoans and are often referred to as zoochlorellae. The viruses are ubiquitous in inland aqueous environments throughout the world and occasionally single types reach titers of thousands of plaque-forming units per ml of native water. The viruses are icosahedral in shape with a spike structure located at one of the vertices. They contain an internal membrane that is required for infectivity. The viral genomes are 290 to 370 kb in size, which encode up to 16 tRNAs and 330 …

Colorants In Cheese Manufacture: Production, Chemistry, Interactions, And Regulation, Prateek Sharma, Annalisa Segat, Alan L. Kelly, Jeremiah J. Sheehan

Nutrition, Dietetics, and Food Sciences Faculty Publications

Colored Cheddar cheeses are prepared by adding an aqueous annatto extract (norbixin) to cheese milk; however, a considerable proportion (∼20%) of such colorant is transferred to whey, which can limit the end use applications of whey products. Different geographical regions have adopted various strategies for handling whey derived from colored cheeses production. For example, in the United States, whey products are treated with oxidizing agents such as hydrogen peroxide and benzoyl peroxide to obtain white and colorless spray‐dried products; however, chemical bleaching of whey is prohibited in Europe and China. Fundamental studies have focused on understanding the interactions between colorants …

Robust Cullin-Ring Ligase Function Is Established By A Multiplicity Of Poly-Ubiquitylation Pathways, Spencer Hill, Kurt Reichermeier, Daniel C. Scott, Lorena Samentar, Jasmin Coulombe-Huntington, Luisa Izzi, Xiaojing Tang, Rebeca Ibarra, Thierry Bertomeu, Annie Moridian, Michael J. Sweredoski, Nora Caberoy, Brenda A. Schulman, Frank Sicheri, Mike Tyers, Gary Kleiger

Life Sciences Faculty Research

The cullin-RING ligases (CRLs) form the major family of E3 ubiquitin ligases. The prototypic CRLs in yeast, called SCF enzymes, employ a single E2 enzyme, Cdc34, to build poly-ubiquitin chains required for degradation. In contrast, six different human E2 and E3 enzyme activities, including Cdc34 orthologs UBE2R1 and UBE2R2, appear to mediate SCF-catalyzed substrate polyubiquitylation in vitro. The combinatorial interplay of these enzymes raises questions about genetic buffering of SCFs in human cells and challenges the dogma that E3s alone determine substrate specificity. To enable the quantitative comparisons of SCF-dependent ubiquitylation reactions with physiological enzyme concentrations, mass spectrometry was employed …

Snowpack Properties Vary In Response To Burn Severity Gradients In Montane Forests, Jordan Maxwell, Samuel B. St. Clair

Aspen Bibliography

Wildfires are altering ecosystems globally as they change in frequency, size, and severity. As wildfires change vegetation structure, they also alter moisture inputs and energy fluxes which influence snowpack and hydrology. In unburned forests, snow has been shown to accumulate more in small clearings or in stands with low to moderate forest densities. Here we investigate whether peak snowpack varies with burn severity or percent overstory tree mortality post-fire in a mid-latitude, subalpine forest. We found that peak snowpack across the burn severity gradients increased 15% in snow-water equivalence (SWE) and 17% in depth for every 20% increase in overstory …

Antioxidant Activity Of Sesame Seed Lignans In Sunflower And Flaxseed Oils, S. Y. Hadeel, S. A. Khalida, M. K. Walsh

Nutrition, Dietetics, and Food Sciences Faculty Publications

This study investigated the antioxidant activity of crude lignan extracts and purified lignans (sesamin, sesamolin, and sesamol) in sunflower and flaxseed oils. Lignan extracts were prepared from roasted sesame seed oil (LRSO) and unroasted sesame seed oil (LUSO). Additionally, the individual lignans were purified from both oils. The crude extracts and purified lignans were added at concentrations of 0.01, 0.02 and 0.03% to the oils and stored at 25 and 65°C over time and peroxide values and thiobarbituric acid values were measured. Each oil showed an increase in oxidation over time, with the samples stored at 65°C exhibiting accelerated oxidation. …

Nanomaterials For Biosensing Lipopolysaccharide, Palak Sondhi, Helal Maruf, Keith Stine

Chemistry & Biochemistry Faculty Works

Lipopolysaccharides (LPS) are endotoxins, hazardous and toxic inflammatory stimulators released from the outer membrane of Gram-negative bacteria, and are the major cause of septic shock giving rise to millions of fatal illnesses worldwide. There is an urgent need to identify and detect these molecules selectively and rapidly. Pathogen detection has been done by traditional as well as biosensor-based methods. Nanomaterial based biosensors can assist in achieving these goals and have tremendous potential. The biosensing techniques developed are low-cost, easy to operate, and give a fast response. Due to extremely small size, large surface area, and scope for surface modification, nanomaterials …

Long-Lasting Insecticide Netting For Protecting Tree Stems From Attack By Ambrosia Beetles (Coleoptera: Curculionidae: Scolytinae), Christopher M. Ranger, Christopher T. Werle, Peter B. Schultz, Karla M. Addesso, Jason B. Oliver, Michael E. Reding

Agricultural and Environmental Sciences Faculty Research

Ambrosia beetles (Coleoptera: Curculionidae: Scolytinae) are destructive wood-boring insects of horticultural trees. We evaluated long-lasting insecticide netting for protecting stems against ambrosia beetles. Container-grown eastern redbud, Cercis canadensis, trees were flood-stressed to induce ambrosia beetle attacks, and deltamethrin-treated netting was wrapped from the base of the stem vertically to the branch junction. Trees were deployed under field conditions in Ohio, Virginia, Tennessee, and Mississippi with the following treatments: (1) flooded tree; (2) flooded tree with untreated netting; (3) flooded tree with treated ‘standard mesh’ netting of 24 holes/cm²; (4) flooded tree with treated ‘fine mesh’ netting of 28 …

Zika Virus Infection Causes Temporary Paralysis In Adult Mice With Motor Neuron Synaptic Retraction And Evidence For Proximal Peripheral Neuropathy, John D. Morrey, Alexandre L. R. Oliveira, Hong Wang, Katherine Zukor, Mateus Vidigal De Castro, Venkatraman Siddharthan

Animal, Dairy, and Veterinary Science Faculty Publications

Clinical evidence is mounting that Zika virus can contribute to Guillain-Barré syndrome which causes temporary paralysis, yet the mechanism is unknown. We investigated the mechanism of temporary acute flaccid paralysis caused by Zika virus infection in aged interferon αβ-receptor knockout mice used for their susceptibility to infection. Twenty-five to thirty-five percent of mice infected subcutaneously with Zika virus developed motor deficits including acute flaccid paralysis that peaked 8-10 days after viral challenge. These mice recovered within a week. Despite Zika virus infection in the spinal cord, motor neurons were not destroyed. We examined ultrastructures of motor neurons and synapses by …

Seed Mix Experiments And Analysis Of Native Seed Supply For The Pollinator Habitat Initiative, Laura Jackson, Justin Meissen

Tallgrass Prairie Publications and Reports

No abstract provided.

Diel Temperature And Ph Variability Scale With Depth Across Diverse Coral Reef Habitats, Tyler Cyronak, Yuichiro Takeshita, Travis A. Courtney, Eric H. Decarlo, Bradley D. Eyre, David I. Kline, Todd R. Martz, Heather Page, Nichole Price, Jennifer Smith, Laura Stoltenberg, Martin Tresguerres, Andreas J. Andersson

Marine & Environmental Sciences Faculty Articles

Coral reefs are facing intensifying stressors, largely due to global increases in seawater temperature and decreases in pH. However, there is extensive environmental variability within coral reef ecosystems, which can impact how organisms respond to global trends. We deployed spatial arrays of autonomous sensors across distinct shallow coral reef habitats to determine patterns of spatiotemporal variability in seawater physicochemical parameters. Temperature and pH were positively correlated over the course of a day due to solar heating and light‐driven metabolism. The mean temporal and spatial ranges of temperature and pH were positively correlated across all sites, with different regimes of variability …