Digital Commons Network^™

Editorial: Frontiers In Lasers And Applications, John T. Fourkas, Koji Sugioka, Yongfeng Lu

Department of Electrical and Computer Engineering: Faculty Publications

When the laser was invented in 1960 by Theodore H.Maiman, the potential applications of this apparatus were far from clear. Indeed, even 4 years later, Maiman himself, in an interview with The New York Times, called the laser “a solution seeking a problem.”

Nearly 64 years later, it is safe to say that the laser’s influence on our everyday lives has been nearly beyond measure. Lasers are integral to CD and DVD readers, barcode readers, many computer printers, speed and distance sensors, and in various entertainment systems used in concerts and other events.

The Second Digital Transformation Of Scholarly Publishing: Strategic Context And Shared Infrastructure, Tracy Bergstrom, Oya Y. Rieger, Roger C. Schonfeld

Copyright, Fair Use, Scholarly Communication, etc.

Today, the scholarly publishing sector is undergoing its second digital transformation. The first digital transformation saw a massive shift from paper to digital, but otherwise publishing retained many of the structures, workflows, incentives, and outputs that characterized the print era. A variety of shared infrastructure was developed to serve the needs of this first digital transformation. In this current second digital transformation, many of the structures, workflows, incentives, and outputs that characterized the print era are being revamped in favor of new approaches that bring tremendous opportunities, and also non-trivial risks, to scholarly communication. The second digital transformation requires shared …

Immune Profiling In Puerto Rican Injection Drug Users With And Without Hiv-1 Infection, Sydney J. Bennett, Carmen Ana Davila, Zahiraliz Reyes, Aníbal Valentín-Acevedo, Kim Gocchi Carrasco, Roberto Abadie, M. Caleb Marlin, Marci Beel, Andrew G. Chapple, Samodha C. Fernando, Joel M. Guthridge, Kathy S. Chiou, Kirk Kirk, John T. West, Charles Wood

Department of Sociology: Faculty Publications

Antiretroviral therapy has been effective in suppressing HIV viral load and enabling people living with HIV to experience longer, more conventional lives. However, as people living with HIV are living longer, they are developing aging-related diseases prematurely and are more susceptible to comorbidities that have been linked to chronic inflammation. Coincident with HIV infection and aging, drug abuse has also been independently associated with gut dysbiosis, microbial translocation, and inflammation. Here, we hypothesized that injection drug use would exacerbate HIV-induced immune activation and inflammation, thereby intensifying immune dysfunction. We recruited 50 individuals not using injection drugs (36/50 HIV⁺) …

Influence Of Microbes In Mediating Sorghum Resistance To Sugarcane Aphids, Edith Ikuze, Stephanie Cromwell, Paul A. Ayayee, Joe Louis

Department of Entomology: Faculty Publications

Gut microbiomes profoundly influence insect health and mediate interactions between plant hosts and their environments. Insects, including aphids, harbour diverse obligate symbionts that synthesize essential nutrients and facultative symbionts that enhance host fitness in specific ecological contexts. Sorghum (Sorghum bicolor) is a significant cereal crop cultivated worldwide that has been negatively affected by the presence of an invasive piercing-sucking insect pest, the sugarcane aphid (SCA; Melanaphis sacchari). We previously identified SC265 and SC1345 as the resistant and susceptible sorghum lines, respectively, among the founder nested association mapping (NAM) population. Here, using these resistant and susceptible lines, we …

Intensifying Rice Production To Reduce Imports And Land Conversion In Africa, Shen Yuan, Kazuki Saito, Pepijn A.J. Van Oort, Martin K. Van Ittersum, Shaobing Peng, Patricio Grassini

Department of Agronomy and Horticulture: Faculty Publications

Africa produces around 60% of the rice the continent consumes, relying heavily on rice imports to fulfill the rest of the domestic demand.Over the past 10 years, the rice-agricultural area increased nearly 40%, while average yield remained stagnant. Here we used a process-based crop simulation modelling approach combined with local weather, soil, and management datasets to evaluate the potential to increase rice production on existing cropland area in Africa and assess cropland expansion and rice imports by year 2050 for different scenarios of yield intensification. We find that Africa can avoid further increases in rice imports, and even reduce them, …

A Good Idea: Analyzing The Ineffective Enforcement Of Idea Due To Limitations On The Recovery Of Attorneys’ Fees, Anna Anderson

Nebraska Law Bulletin (Selected Issues)

Recovering attorneys’ fees must be limited to some degree, but excessive limitations make enforcing a child’s rights under IDEA more difficult and inaccessible. Where necessary, limitations should be sensible, consistent, and clear to parents and school districts. Further, limitations should encourage efficient resolution, not prolonging the conflict or discouraging alternate dispute resolution. Courts should interpret issues relating to attorneys’ fee recovery favorably to prevailing parties and remain mindful of the goals IDEA seeks to accomplish. Expanding the ability to recover attorneys’ fees will support parents when they advocate for their child’s right under IDEA and, therefore, best support the policy …

Filling The Agronomic Data Gap Through A Minimum Data Collection Approach, Fatima A. Tenorio, Juan I. Rattalino Edreira, Juan Pablo Monzon, Fernando Aramburu-Merlos, Achim Dobermann, Armelle Gruere, Juan Martin Brihet, Sofia Gayo, Shawn Conley, Spyridon Mourtzinis, Nester Mashingaidze, Alex Sananka, Stephen Aston, Jonathan J. Ojeda, Patricio Grassini

Department of Agronomy and Horticulture: Faculty Publications

Context: Agronomic data such as applied inputs, management practices, and crop yields are needed for assessing productivity, nutrient balances, resource use efficiency, as well as other aspects of environmental and economic performance of cropping systems. In many instances, however, these data are only available at a coarse level of aggregation or simply do not exist.

Objectives: Here we developed an approach that identifies sites for agronomic data collection for a given crop and country, seeking a balance between minimizing data collection efforts and proper representation of the main crop producing areas.

Methods: The developed approach followed a …

High Target Homology Does Not Guarantee Inhibition: Aminothiazoles Emerge As Inhibitors Of Plasmodium Falciparum, Sandra Johannsen, Robin M. Gierse, Arne KrüGer, Rachel L. Edwards, Vittoria Nanna, Anna Fontana, Di Zhu, Tiziana Masini, Lais Pessanha De Carvalho, Mael Poizat, Bart Kieftenbelt, Dana M. Hodge, Sophie University Of Nebraska-Lincoln,, Daan Bunt, Antoine Lacour, Atanaz Shams, Kamila Anna Meissner, Edmarcia Elisa De Souza, Melloney Dröge, Bernard Van Vliet, Jack Den Hartog, Michael C. Hutter, Jana Held, Audrey R. Odom John, Carsten Wrenger, Anna K.H. Hirsch

Department of Agronomy and Horticulture: Faculty Publications

In this study, we identified three novel compound classes with potent activity against Plasmodium falciparum, the most dangerous human malarial parasite. Resistance of this pathogen to known drugs is increasing, and compounds with different modes of action are urgently needed. One promising drug target is the enzyme 1-deoxy-D-xylulose-5- phosphate synthase (DXPS) of the methylerythritol 4-phosphate (MEP) pathway for which we have previously identified three active compound classes against Mycobacterium tuberculosis. The close structural similarities of the active sites of the DXPS enzymes of P. falciparum and M. tuberculosis prompted investigation of their antiparasitic action, all classes …

Characterization Of Variant Rnas Encapsidated During Bromovirus Infection By High-Throughput Sequencing, Sarah Dexheimer, Nipin Shrestha, Bandana Sharma Chapagain, Jozef J. Bujarski, Yanbin Yin

Food for Health: Publications

Previously, we described the RNA recombinants accumulating in tissues infected with the bromoviruses BMV (Brome mosaic virus) and CCMV (Cowpea chlorotic mottle virus). In this work, we characterize the recombinants encapsidated inside the purified virion particles of BMV and CCMV. By using a tool called the Viral Recombination Mapper (ViReMa) that detects recombination junctions, we analyzed a high number of high-throughput sequencing (HTS) short RNA sequence reads. Over 28% of BMV or CCMV RNA reads did not perfectly map to the viral genomes. ViReMa identified 1.40% and 1.83% of these unmapped reads as the RNA recombinants, respectively, in BMV and …

Effects Of Electrode Materials And Potential Gradient On Electro-Osmotic Consolidation For Marine Clayey Soils, Haihui Jin, Lei Zhang, Binghui Wang, Chen Fang, Liyan Wang

Department of Civil and Environmental Engineering: Faculty Publications

This study conducted experimental investigations into the effects of electrode material and potential gradient on the effectiveness of electro-osmotic consolidation (EO) in strengthening soft soils. Seven laboratory tests were conducted on high-water-content marine clayey soils through EO. In these experimental tests, four different types of electrodes made of steel, copper, aluminum, and composite carbon fiber (CCF) were employed in four tests each to evaluate the consolidation effectiveness. Additionally, four tests, one was the comparitive study for different eletrode materials, were carried out to determine the optimal gradient for the EO using CCF electrode. Several critical properties of the tested soils …

Augusta: From Rna-Seq To Gene Regulatory Networks And Boolean Models, Jana Musilova, Zdenek Vafek, Bhanwar Lal Puniya, Ralf Zimmer, Tomáš Helikar, Karel Sedlar

Department of Biochemistry: Faculty Publications

Computational models of gene regulations help to understand regulatory mechanisms and are extensively used in a wide range of areas, e.g., biotechnology or medicine, with significant benefits. Unfortunately, there are only a few computational gene regulatory models of whole genomes allowing static and dynamic analysis due to the lack of sophisticated tools for their reconstruction. Here, we describe Augusta, an open-source Python package for Gene Regulatory Network (GRN) and Boolean Network (BN) inference from the high-throughput gene expression data. Augusta can reconstruct genome-wide models suitable for static and dynamic analyses. Augusta uses a unique approach where the first estimation of …

Implantation Of A Capsular Tension Ring During Cataract Surgery Attenuates Predicted Remodeling Of The Post-Surgical Lens Capsule Along The Visual Axis, Kurt A. Ameku, Caleb C. Berggren, Ryan M. Pedrigi

Department of Mechanical and Materials Engineering: Faculty Publications

Introduction: Cataract surgery permanently alters the mechanical environment of the lens capsule by placing a hole in the anterior portion and implanting an intraocular lens (IOL) that has a very different geometry from the native lens. We hypothesized that implant configuration and mechanical interactions with the post-surgical lens capsule play a key role in determining long-term fibrotic remodeling.

Methods: We developed the first finite element-growth and remodeling (FE-G&R) model of the post-surgical lens capsule to evaluate how implantation of an IOL with and without a capsular tension ring (CTR) impacted evolving lens capsule mechanics and associated fibrosis over …

Program Requirements For Beef Cattle Certified As Usda Organic, Carsten Loseke, Elliott James Dennis

Cornhusker Economics

This document provides an overview of the use and production of the USDA Certified Organic program for the beef cattle industry, with an emphasis on the state of Nebraska. We detail what cattle qualify, feed requirements, medical and health standards of cattle, and premiums paid by consumers for USDA certified organic products. All information is taken from the Organic Foods Production Act Provisions available in the Federal Register.

Biographical Memoirs: Napoleon A. Chagnon, Raymond B. Hames

Department of Anthropology: Faculty Publications

Napoleon A. Chagnon (August 27, 1938–September 21, 2019), elected to the National Academy of Science in 2012. A Biographical Memoir by Raymond B. Hames, University of Nebraska-Lincoln.

Chagnon was a Renaissance anthropologist who made numerous fundamental contributions to anthropology. His films and ethnography have been viewed by millions around the world. He combined a humanistic eye in research with an unwavering scientific approach to human culture and behavior. He set multiple standards for long-term field research in terms of methodological rigor and refinement. He made some of the first tests of inclusive fitness theory in human behavior. And he was …

Royster Receives Lifetime Achievement Award, Retires From Nebraska

Copyright, Fair Use, Scholarly Communication, etc.

Paul Royster, coordinator for scholarly communication, completes his 19-year career at the University of Nebraska-Lincoln Libraries with a Lifetime Achievement Award from Elsevier Digital Commons for work on behalf of the faculty and students in the growth of the Universityʼs institutional repository (IR) and his innovations that have shaped the development of the platform.

Gene Editing Of Pigs To Control Influenza A Virus Infections, Taeyong Kwon, Bianca L. Artiaga, Chester D. Mcdowell, Kristin M. Whitworth, Kevin D. Wells, Randall S. Prather, Gustavo Delhon, Mark Cigan, Stephen N. White, Jamie Retallick, Natasha N. Gaudreault, Igor Morozov, Juergen A. Richt

School of Veterinary and Biomedical Sciences: Faculty Publications

Proteolytic activation of the hemagglutinin (HA) glycoprotein by host cellular proteases is pivotal for influenza A virus (IAV) infectivity. Highly pathogenic avian influenza viruses possess the multibasic cleavage site of the HA which is cleaved by ubiquitous proteases, such as furin; in contrast, the monobasic HA motif is recognized and activated by trypsin-like proteases, such as the transmembrane serine protease 2 (TMPRSS2). Here, we aimed to determine the effects of TMPRSS2 on the replication of pandemic H1N1 and H3N2 subtype IAVs in the natural host, the pig. The use of the CRISPR/Cas 9 system led to the establishment of homozygous …

Effect Of Dietary Phytase On Water And Fecal Prokaryotic And Eukaryotic Microbiomes In A Hybrid Tilapia (Oreochromis Aureus X O. Niloticus) Mixotrophic Biofloc Production System, Candis L. Ray, Jason Abernathy, Bartholomew Green, Adam Rivers, Kevin Schrader, Steven Rawles, Matthew Mcentire, Miles Lange, Carl Webster

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

In this study we evaluated feed and temporal effects on prokaryotic (16S) and eukaryotic (18S) microbiome dynamics in an outdoor mixotrophic biofloc system used to grow hybrid tilapia (Oreochromis aureus x O. niloticus) to market size. The dicalcium phosphate -free practical feed treated with 6-phytase (3000 FTU/kg; P-Free+ Phytase) and positive (Control) and negative (P-Free) control practical feeds used were formulated to contain 27.7% digestible protein and 4% lipid. Sex reversed, all-male hybrid tilapia (28.9 g/fish) were stocked (29 fish/m³) in 9 outdoor rectangular tanks (16.6 m³) and grown for 154 days. The …

The Impact Of Interaction Time And Verbal Engagement With Personal Voice Assistants On Alleviating Loneliness Among Older Adults: An Exploratory Study, Changmin Yan, Kate Johnson, Valerie Jones

College of Journalism and Mass Communications: Faculty Publications

Background: Loneliness in older adults is a critical issue that negatively affects their well-being. The potential of personal voice assistant (PVA) devices like Amazon’s Alexa Echo in reducing loneliness is an emerging area of interest, but it remains under-researched. Objective: this study aims to investigate the effect of interaction time and verbal engagement with PVA devices on reducing loneliness among older adults living alone. Method: In this experiment, individuals aged 75 and older (n = 15), living alone, were provided with Amazon Alexa Echo devices. They were instructed to interact with the device at least five times a day …

Opportunities And Challenges Of Generative Ai In Construction Industry: Focusing On Adoption Of Text-Based Models, Prashnna Ghimire, Kyungki Kim, Manoj Acharya

Durham School of Architectural Engineering and Construction: Faculty Publications

In the last decade, despite rapid advancements in artificial intelligence (AI) transforming many industry practices, construction largely lags in adoption. Recently, the emergence and rapid adoption of advanced large language models (LLMs) like OpenAI’s GPT, Google’s PaLM, and Meta’s Llama have shown great potential and sparked considerable global interest. However, the current surge lacks a study investigating the opportunities and challenges of implementing Generative AI (GenAI) in the construction sector, creating a critical knowledge gap for researchers and practitioners. This underlines the necessity to explore the prospects and complexities of GenAI integration. Bridging this gap is fundamental to optimizing GenAI’s …

Engineering Neurotoxin-Functionalized Exosomes For Targeted Delivery To The Peripheral Nervous System, Mena Asha Krishnan, Olawale A. Alimi, Tianshu Pan, Mitchell Kuss, Zeljka Korade, Guoku Hu, Bo Liu, Bin Duan

Department of Mechanical and Materials Engineering: Faculty Publications

The administration of therapeutics to peripheral nerve tissue is challenging due to the complexities of peripheral neuroanatomy and the limitations imposed by the blood–nerve barrier (BNB). Therefore, there is a pressing need to enhance delivery effectiveness and implement targeted delivery methods. Recently, erythrocyte-derived exosomes (Exos) have gained widespread attention as biocompatible vehicles for therapeutics in clinical applications. However, engineering targeted Exos for the peripheral nervous system (PNS) is still challenging. This study aims to develop a targeted Exo delivery system specifically designed for presynaptic terminals of peripheral nerve tissue. The clostridium neurotoxin, tetanus toxin-C fragment (TTC), was tethered to the …

Twenty-Eight Years Of Gm Food And Feed Without Harm: Why Not Accept Them?, Richard E. Goodman

Department of Food Science and Technology: Faculty Publications

Since the first genetically engineered or modified crops or organisms (GMO) were approved for commercial production in 1995, no new GMO has been proven to be a hazard or cause harm to human consumers. These modifications have improved crop efficiency, reduced losses to insect pests, reduced losses to viral and microbial plant pathogens and improved drought tolerance. A few have focused on nutritional improvements producing beta carotene in Golden Rice. Regulators in the United States and countries signing the CODEX Alimentarius and Cartagena Biosafety agreements have evaluated human and animal food safety considering potential risks of allergenicity, toxicity, nutritional and …

Twenty-Eight Years Of Gm Food And Feed Without Harm: Why Not Accept Them?, Richard E. Goodman

Department of Food Science and Technology: Faculty Publications

Since the first genetically engineered or modified crops or organisms (GMO) were approved for commercial production in 1995, no new GMO has been proven to be a hazard or cause harm to human consumers. These modifications have improved crop efficiency, reduced losses to insect pests, reduced losses to viral and microbial plant pathogens and improved drought tolerance. A few have focused on nutritional improvements producing beta carotene in Golden Rice. Regulators in the United States and countries signing the CODEX Alimentarius and Cartagena Biosafety agreements have evaluated human and animal food safety considering potential risks of allergenicity, toxicity, nutritional and …

Yap Mechanotransduction Under Cyclic Mechanical Stretch Loading For Mesenchymal Stem Cell Osteogenesis Is Regulated By Rock, Eunju Kim, Brandon D. Riehl, Tasneem Bouzid, Ruiguo Yang, Bin Duan, Henry J. Donahue, Jung Yul Lim

Department of Mechanical and Materials Engineering: Faculty Publications

While yes-associated protein (YAP) is now recognized as a potent mechanosensitive transcriptional regulator to affect cell growth and differentiation including the osteogenic transcription of mesenchymal stem cells (MSCs), most studies have reported the YAP mechanosensing of static mechanophysical cues such as substrate stiffness. We tested MSC response to dynamic loading, i.e., cyclic mechanical stretching, and assessed YAP mechanosensing and resultant MSC osteogenesis. We showed that cyclic stretching at 10% strain and 1 Hz frequency triggered YAP nuclear import in MSCs. YAP phosphorylation at S127 and S397, which is required for YAP cytoplasmic retention, was suppressed by cyclic stretch. We also …

Antibiotic-Induced Gut Dysbiosis Elicits Gut-Brain Axis Relevant Multi-Omic Signatures And Behavioral And Neuroendocrine Changes In A Nonhuman Primate Model, Shivdeep S. Hayer, Mackenzie Conrin, Jeffrey French, Andrew K. Benson, Sophie Alvarez, Kathryn Dempsey, Anne Fischer, Zahraa Wajih Alsafwani, William Gasper, Mallory J. Suhr Van Haute, Haley R. Hassenstab, Shayda Azadmanesh, Missy Briardy, Skyler Gerbers, Aliyah Jabenis, Jennifer L. Thompson, Jonathan B. Clayton

Food for Health: Publications

Emerging evidence indicates that antibiotic-induced dysbiosis can play an etiological role in the pathogenesis of neuropsychiatric disorders. However, most of this evidence comes from rodent models. The objective of this study was to evaluate if antibiotic-induced gut dysbiosis can elicit changes in gut metabolites and behavior indicative of gut-brain axis disruption in common marmosets (Callithrix jacchus) – a nonhuman primate model often used to study sociability and stress. We were able to successfully induce dysbiosis in marmosets using a custom antibiotic cocktail (vancomycin, enrofloxacin and neomycin) administered orally for 28 days. This gut dysbiosis altered gut metabolite profiles, …

Are Too Many Or Too Few Babies Being Born?, E. Wesley F. Peterson

Cornhusker Economics

An additional 1.8 billion people will be added to the world’s population by 2050. At the same time, average incomes are likely to rise. Data from the Groningen Growth and Development Center suggest that average real (inflation-adjusted) GDP per capita increased by a factor of fifteen between 1820 and 2018 and World Bank data indicate that real per capita GDP more than tripled over the past 62 years. It is likely that these trends will continue and there will be more people with higher average incomes in the future straining global food systems and natural resources. Slower population growth rates …

Competency-Based Personnel Selection Oklahoma - Site Intervention Logic Model, Quality Improvement Center For Workforce Development (Qic-Wd)

Intervention Summaries

Each QIC-WD site developed a logic model to serve as a visual representation of their selected intervention. All logic models included four main components: inputs, activities, outputs, and outcomes. Collectively, these demonstrate the resources and actions required to implement the program, as well as the associated result or changes anticipated through implementation of the program. The hypothesized relationships are represented by the pathways connecting the listed activities and anticipated outcomes. For more information see Site Overview.

Competency-Based Personnel Selection Oklahoma - Evaluation Overview, Quality Improvement Center For Workforce Development (Qic-Wd)

Intervention Summaries

The QIC-WD evaluation was conducted with the support of the Oklahoma Human Services (OKDHS) to determine if a Competency-based Personnel Selection process was effective in improving workforce and child welfare outcomes.

Research Questions

The primary research questions concerned the ability of the structured hiring tools to predict job performance, tenure, and turnover. It was hypothesized that the use of the standardized hiring process would result in the selection of candidates who performed better and had lower rates of turnover and longer tenure than candidates hired using existing selection processes, see Logic Model. Intermediate outcomes examined included employee feelings of …

Competency-Based Personnel Selection Oklahoma - Theory Of Change, Quality Improvement Center For Workforce Development (Qic-Wd)

Intervention Summaries

During the needs assessment process three areas of opportunity were discussed for possible intervention at the Oklahoma Human Services (OKDHS) Division of Child Welfare Services:

1. hiring of new workers,
2. promotion decisions for lead worker and supervisor positions, and
3. staff recognition and rewards.

Ultimately, one theory of change was developed to step through the “if, then” logic for implementation of a standardized hiring process to improve worker retention and performance.

The theory of change development process was informed by various data examined throughout the needs assessment, input from the Oklahoma QIC-WD Steering Committee, and relevant research and best practice for …

Competency-Based Personnel Selection Oklahoma - Implementation Overview, Quality Improvement Center For Workforce Development (Qic-Wd)

Intervention Summaries

The Implementation Team

The QIC-WD worked with Oklahoma Human Services (OKDHS) Division of Child Welfare Services to establish a team to lead the development and implementation of their competency-based personnel selection intervention. The implementation team was called the Oklahoma QIC-WD Steering Committee. It included a Programs Analyst from each of the five geographic regions of the state and one from the Foster Care and Adoptions program, the Site Implementation Manager (SIM), the Data Coordinator, project sponsor (Deputy Director), representatives from Human Resources, training partners within OKDHS and from University of Oklahoma Center for Public Management, and three members of …

Competency-Based Personnel Selection Oklahoma - Implementation Overview, Quality Improvement Center For Workforce Development (Qic-Wd)

Other QIC-WD Products

The Implementation Team

The QIC-WD worked with Oklahoma Human Services (OKDHS) Division of Child Welfare Services to establish a team to lead the development and implementation of their competency-based personnel selection intervention. The implementation team was called the Oklahoma QIC-WD Steering Committee. It included a Programs Analyst from each of the five geographic regions of the state and one from the Foster Care and Adoptions program, the Site Implementation Manager (SIM), the Data Coordinator, project sponsor (Deputy Director), representatives from Human Resources, training partners within OKDHS and from University of Oklahoma Center for Public Management, and three members of …