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How Campus Space Becomes White Place: Advancing A Spatial Analysis Of Whiteness In Higher Education, Antonio Duran, Zak Foste, Crystal Eufemia Garcia, Jeremy T. Snipes Jan 2022

How Campus Space Becomes White Place: Advancing A Spatial Analysis Of Whiteness In Higher Education, Antonio Duran, Zak Foste, Crystal Eufemia Garcia, Jeremy T. Snipes

Department of Educational Administration: Faculty Publications

Space and place are central to understanding the production and maintenance of racial inequality in the United States. Though examinations of the racialized dynamics of space are present in other disciplines, higher education scholars have infrequently interrogated how space becomes racialized on college campuses. This conceptual paper functions as a much-needed intervention, articulating how the racialization of space at historically white colleges and universities occurs and the subsequent consequences for Students of Color. In particular, we describe how physical campus spaces historically become racialized as white, how such spaces are maintained and fortified, and the consequences of racialized space on …


Revisiting The Complexity Of Racial Understandings And Subjective Experiences Of Race Among Students Of Color In Stem Higher Education: Toward A Racial Reappraisal Framework, Elvira Abrica Jan 2022

Revisiting The Complexity Of Racial Understandings And Subjective Experiences Of Race Among Students Of Color In Stem Higher Education: Toward A Racial Reappraisal Framework, Elvira Abrica

Department of Educational Administration: Faculty Publications

Despite significant investment in expanding post-secondary access and success for racially minori­tized populations within science, technology, engineering, and mathematics (STEM) fields, persistent educational disparities remain. While the literature has importantly identified and described the myri­ad ways in which students of color experience exclusion within STEM fields on the basis of race (and, perhaps, other social identity statuses), this area of scholarship is not always theoretically grounded in an understanding of racial hierarchies, processes of racialization, or theories of race and racism. That is, despite the abundant literature on students of color in STEM, there is comparatively limited theo­retical attention to …


Nphc And Mgc Sororities And Fraternities As Spaces Of Activism Within Predominantly White Institutions, Crystal E. Garcia, William R. Walker, Ciera A. Dorsey, Zachary W. Werninck, Jessie H. Johns Jan 2022

Nphc And Mgc Sororities And Fraternities As Spaces Of Activism Within Predominantly White Institutions, Crystal E. Garcia, William R. Walker, Ciera A. Dorsey, Zachary W. Werninck, Jessie H. Johns

Department of Educational Administration: Faculty Publications

This study explored how Students of Color within National Pan-Hellenic Council and Multicultural Greek Council sororities and fraternities engaged in activism and in what ways this involvement connected to their membership. Using a qualitative critical narrative approach, we examined the journeys of ten participants. Findings unpack ways participants engaged in activism and resistance aimed at educating individuals and increasing awareness of societal injustices, addressing inequities through service, and inciting disruption and cultivating institutional and societal level change.


Community-Centered School Leadership: Radical Care And Aperturas During Covid-19, Leticia Alvarez Gutiérrez, Taeyeon Kim, Sonny Partola, Paul J. Kuttner, Amadou Niang, Alma Yanagui, Laura Hernández, Gerardo R. López, Jennifer Mayer-Glenn Jan 2022

Community-Centered School Leadership: Radical Care And Aperturas During Covid-19, Leticia Alvarez Gutiérrez, Taeyeon Kim, Sonny Partola, Paul J. Kuttner, Amadou Niang, Alma Yanagui, Laura Hernández, Gerardo R. López, Jennifer Mayer-Glenn

Department of Educational Administration: Faculty Publications

We share school leaders’ perspectives on Zoom videos concerning the needs of immigrant and refugee families in Title I schools. In these videos, participants crafted and shared personal narratives about their leadership experiences during the COVID-19 era of education. Rooted in participatory design research methods, the process of designing these videos were both a research project and an intervention to assist families and school leaders to better understand each other. We present a close analysis of administrators’ perspectives and describe how our codesigned video methodology enabled participants to coconstruct new meanings of school-community relationships during the pandemic through a radical …


First Plant Cell Atlas Symposium Report, Selena L. Rice, Elena Lazarus, Christopher Anderton, Kenneth Birnbaum, Jenniofer Brophy, Benjamin Cole, Diane Dickel, David Ehrhardt, Noah Fahlgren, Margaret Frank, Elizabeth Haswell, Shao-Shan Carol Huang, Samuel Leiboff, Marc Libault, Marisa S. Otegui, Nicholas Provart, R. Glen Uhrig, Seung Y. Rhee, The Plant Cell Atlas Consortium Jan 2022

First Plant Cell Atlas Symposium Report, Selena L. Rice, Elena Lazarus, Christopher Anderton, Kenneth Birnbaum, Jenniofer Brophy, Benjamin Cole, Diane Dickel, David Ehrhardt, Noah Fahlgren, Margaret Frank, Elizabeth Haswell, Shao-Shan Carol Huang, Samuel Leiboff, Marc Libault, Marisa S. Otegui, Nicholas Provart, R. Glen Uhrig, Seung Y. Rhee, The Plant Cell Atlas Consortium

Department of Agronomy and Horticulture: Faculty Publications

The Plant Cell Atlas (PCA) community hosted a virtual symposium on December 9 and 10, 2021 on single cell and spatial omics technologies. The conference gathered almost 500 academic, industry, and government leaders to identify the needs and directions of the PCA community and to explore how establishing a data synthesis center would address these needs and accelerate progress. This report details the presentations and discussions focused on the possibility of a data synthesis center for a PCA and the expected impacts of such a center on advancing science and technology globally. Community discussions focused on topics such as data …


Identification Of Beneficial And Detrimental Bacteria Impacting Sorghum Responses To Drought Using Multi-Scale And Multisystem Microbiome Comparisons, Mingsheng Qi, Jeffrey C. Berry, Kira W. Veley, Lily O'Connor, Omri M. Finkel, Isai Salas-González, Molly Kuhs, Julietta Jupe, Emily Holcomb, Tijana Glavina Del Rio, Cody Creech, Peng Liu, Susannah G. Tringe, Jeffery L. Dangl, Daniel P. Schachtman, Rebecca S. Bart Jan 2022

Identification Of Beneficial And Detrimental Bacteria Impacting Sorghum Responses To Drought Using Multi-Scale And Multisystem Microbiome Comparisons, Mingsheng Qi, Jeffrey C. Berry, Kira W. Veley, Lily O'Connor, Omri M. Finkel, Isai Salas-González, Molly Kuhs, Julietta Jupe, Emily Holcomb, Tijana Glavina Del Rio, Cody Creech, Peng Liu, Susannah G. Tringe, Jeffery L. Dangl, Daniel P. Schachtman, Rebecca S. Bart

Department of Agronomy and Horticulture: Faculty Publications

Drought is a major abiotic stress limiting agricultural productivity. Previous field-level experiments have demonstrated that drought decreases microbiome diversity in the root and rhizosphere. How these changes ultimately affect plant health remains elusive. Toward this end, we combined reductionist, transitional and ecological approaches, applied to the staple cereal crop sorghum to identify key root-associated microbes that robustly affect drought-stressed plant phenotypes. Fifty-three Arabidopsis-associated bacteria were applied to sorghum seeds and their effect on root growth was monitored. Two Arthrobacter strains caused root growth inhibition (RGI) in Arabidopsis and sorghum. In the context of synthetic communities, Variovorax strains were able to …


Temporal Changes In The Nutrient Content Of Cattle Dung In The Nebraska Sandhills Ecosystem, Amanda Shine, Martha Mamo, Gandura O. Abagandura, Walter Schacht, Jerry Volesky Jan 2022

Temporal Changes In The Nutrient Content Of Cattle Dung In The Nebraska Sandhills Ecosystem, Amanda Shine, Martha Mamo, Gandura O. Abagandura, Walter Schacht, Jerry Volesky

Department of Agronomy and Horticulture: Faculty Publications

Dung excreted by cattle composes a significant portion of the nutrient inputs in a grazed ecosystem and can have wide-ranging effects on soil properties and vegetation. However, little research has been conducted on the nutrient dynamics of excreted dung in situ that has not been disturbed prior to field sampling. In this study, we analyzed 294 dung pats (1–24 days old) collected from a Nebraska Sandhills meadow to determine water-extractable organic carbon (WEOC), water-extractable nitrogen (WEN), water-extractable phosphorus (WEP), and percent dry matter (DM) changes over time. In addition, we investigated if sample handling - frozen storage – and the …


Predicting Munsell Color For Turfgrass Leaves, William L. Berndt, Roch E. Gaussoin Jan 2022

Predicting Munsell Color For Turfgrass Leaves, William L. Berndt, Roch E. Gaussoin

Department of Agronomy and Horticulture: Faculty Publications

Linking turfgrass color to hue, value, chroma (H V/C) in the Munsell Plant Tissue Color Book is a visual comparison process for specifying and communicating plant color. If subjectivity of visual comparison can be mitigated, then accuracy of color matching may be improved. Research was conducted to develop an algorithm predicting H V/C from CIE-xyY color (xyY) in digital images of leaves of four turfgrasses. First, value-chroma (V/C) arrays for Munsell hue groups 5Y, 2.5GY, 5GY, 7.5GY, 10GY, and 2.5G were converted to xyY. Next, chromaticity (xy) plots from each array were fitted with …


Monitoring Environmental Policy Process: Indicators To Evaluate Performance, Stella Namanji, Charles A. Francis, Charles Ssekyewa, Geir Hofgaard Lieblein Jan 2022

Monitoring Environmental Policy Process: Indicators To Evaluate Performance, Stella Namanji, Charles A. Francis, Charles Ssekyewa, Geir Hofgaard Lieblein

Department of Agronomy and Horticulture: Faculty Publications

The complexity of environmental policy development was examined in relation to sustainability, holistic and systems-thinking perspectives. We studied potential application of systems principles of coordination, representation, collaboration, participation and teamwork to improve policy effectiveness at formulation, communication, implementation, and operationalisation of the environment policy in Uganda. The research unveiled the ineffectiveness of the Uganda National Environment Management Policy. We applied systems theory to develop a mechanism for monitoring effectiveness of environmental policies at national level, with the goal to identify key monitoring indicators. We used the soft systems methodology to identify occurring environmental problems causing forest loss. Results suggest that …


Charles A. Francis, Abstracts And Publications [1969--2022], December 2022, Charles A. Francis Jan 2022

Charles A. Francis, Abstracts And Publications [1969--2022], December 2022, Charles A. Francis

Department of Agronomy and Horticulture: Faculty Publications

Contents

I. Journal articles (218), p.1

II. Book reviews (60), p. 18

III. Published abstracts (213), p. 23

IV. Books (23), p. 40

V. Chapters in books (81), p. 42

VI. Symposium or workshop proceedings (127), p. 50

VII. Symposia or extension publications edited (31), p. 62

VIII. Miscellaneous (522), p. 65


Building Digital Twins Of The Human Immune System: Toward A Roadmap, Reinhard Laubenbacher, Anna Niarakis, Tomas Helikar, G. An, B. Shapiro, R. S. Malik-Sheriff, T. J. Sego, P. Macklin, J. A. Glazier Jan 2022

Building Digital Twins Of The Human Immune System: Toward A Roadmap, Reinhard Laubenbacher, Anna Niarakis, Tomas Helikar, G. An, B. Shapiro, R. S. Malik-Sheriff, T. J. Sego, P. Macklin, J. A. Glazier

Department of Biochemistry: Faculty Publications

Digital twins, customized simulation models pioneered in industry, are beginning to be deployed in medicine and healthcare, with some major successes, for instance in cardiovascular diagnostics and in insulin pump control. Personalized computational models are also assisting in applications ranging from drug development to treatment optimization. More advanced medical digital twins will be essential to making precision medicine a reality. Because the immune system plays an important role in such a wide range of diseases and health conditions, from fighting pathogens to autoimmune disorders, digital twins of the immune system will have an especially high impact. However, their development presents …


Addressing Barriers In Comprehensiveness, Accessibility, Reusability, Interoperability And Reproducibility Of Computational Models In Systems Biology, Anna Niarakis, Dagmar Waltemath, James Glazier, Falk Schreiber, Sarah M. Keating, David Nickerson, Claudine Chaouiya, Anne Siegel, Vincent Noël, Henning Hermjakob, Tomáš Helikar, Sylvain Soliman, Laurence Calzone Jan 2022

Addressing Barriers In Comprehensiveness, Accessibility, Reusability, Interoperability And Reproducibility Of Computational Models In Systems Biology, Anna Niarakis, Dagmar Waltemath, James Glazier, Falk Schreiber, Sarah M. Keating, David Nickerson, Claudine Chaouiya, Anne Siegel, Vincent Noël, Henning Hermjakob, Tomáš Helikar, Sylvain Soliman, Laurence Calzone

Department of Biochemistry: Faculty Publications

Computational models are often employed in systems biology to study the dynamic behaviours of complex systems. With the rise in the number of computational models, finding ways to improve the reusability of these models and their ability to reproduce virtual experiments becomes critical. Correct and effective model annotation in community-supported and standardised formats is necessary for this improvement. Here,we present recent efforts toward a common framework for annotated, accessible, reproducible and interoperable computational models in biology, and discuss key challenges of the field.

Scientists from different systems biology fields have long been developing community-driven guidelines and best practices for annotation, …


The Follicular Lymphoma Epigenome Regulates Its Microenvironment, Rada Amin, Mounia S. Braza Jan 2022

The Follicular Lymphoma Epigenome Regulates Its Microenvironment, Rada Amin, Mounia S. Braza

Department of Biochemistry: Faculty Publications

Follicular lymphoma (FL) is a B-cell non-Hodgkin lymphoma of germinal center (GC) origin with a distinctive tumor microenvironment (TME) and a unique spectrum of mutations. Despite the important therapeutic advances, FL is still incurable. During B-cell development, the GC reaction is a complex multistep process in which epigenetic regulators dynamically induce or suppress transcriptional programs. In FL, epigenetic gene mutations perturb the regulation of these programs, changing GC B-cell function and skewing differentiation towards tumor cells and altering the microenvironment interactions. FL pathogenesis and malignant transformation are promoted by epigenetic reprogramming of GC B cells that alters the immunological synapse …


Feedlot Diets Containing Different Starch Levels And Additives Change The Cecal Proteome Involved In Cattle’S Energy Metabolism And Inflammatory Response, Leone Campos Rocha, Andrey Sávio De Almeida Assunção, Renata Aparecida Martins, Victor Valério De Carvalho, Alexandre Perdigão2, Marília Afonso Rabelo Buzalaf, Jiri Adamec, Camila Pereira Braga, Danilo Domingues Millen, José Cavalcante Souza Vieira, Pedro De Magalhães Padilha Jan 2022

Feedlot Diets Containing Different Starch Levels And Additives Change The Cecal Proteome Involved In Cattle’S Energy Metabolism And Inflammatory Response, Leone Campos Rocha, Andrey Sávio De Almeida Assunção, Renata Aparecida Martins, Victor Valério De Carvalho, Alexandre Perdigão2, Marília Afonso Rabelo Buzalaf, Jiri Adamec, Camila Pereira Braga, Danilo Domingues Millen, José Cavalcante Souza Vieira, Pedro De Magalhães Padilha

Department of Biochemistry: Faculty Publications

Diets for feedlot cattle must be a higher energy density, entailing high fermentable carbohydrate content. Feed additives are needed to reduce possible metabolic disorders. This study aimed to analyze the post-rumen effects of different levels of starch (25%, 35%, and 45%) and additives (monensin or a blend of essential oils and exogenous α-amylase) in diets for Nellore feedlot cattle. The cecum tissue proteome was analyzed via two-dimensional polyacrylamide gel electrophoresis (2D-PAGE) and then differentially expressed protein spots were identified with liquid chromatography–tandem mass spectrometry (LC–MS/MS). The use of blends of essential oils associated with α-amylase as a feed additive promoted …


Endothelial Cell-Specific Deletion Of A Microrna Accelerates Atherosclerosis, Dafeng Yang, Stefan Haemmig, Jingshu Chen, Michael Mccoy, Henry S. Cheng, Haoyang Zhou, Daniel Pérez-Cremades, Xiao Cheng, Xinghui Sun, Jorge Haneo-Mejia, Shamsudheen K. Vellarikkal, Rajat M. Gupta, Victor Barrera, Mark W. Feinberg Jan 2022

Endothelial Cell-Specific Deletion Of A Microrna Accelerates Atherosclerosis, Dafeng Yang, Stefan Haemmig, Jingshu Chen, Michael Mccoy, Henry S. Cheng, Haoyang Zhou, Daniel Pérez-Cremades, Xiao Cheng, Xinghui Sun, Jorge Haneo-Mejia, Shamsudheen K. Vellarikkal, Rajat M. Gupta, Victor Barrera, Mark W. Feinberg

Department of Biochemistry: Faculty Publications

Background and aims: Chronic vascular endothelial inflammation predisposes to atherosclerosis; however, the cell-autonomous roles for endothelial-expressing microRNAs (miRNAs) are poorly understood in this process. MiR-181b is expressed in several cellular constituents relevant to lesion formation. The aim of this study is to examine the role of genetic deficiency of the miR-181b locus in endothelial cells during atherogenesis.

Methods and Results: Using a proprotein convertase subtilisin/kexin type 9 (PCSK9)-induced atherosclerosis mouse model, we demonstrated that endothelial cell (EC)-specific deletion of miR-181a2b2 significantly promoted atherosclerotic lesion formation, cell adhesion molecule expression, and the influx of lesional macrophages in the vessel wall. Yet, …


Emission Of Volatile Organic Compounds From Land-Applied Beef Cattle Manure As Affected By Application Method, Diet, And Soil Water Condition, Bryan L. Woodbury, John E. Gilley, David B. Parker, David B. Marx Jan 2022

Emission Of Volatile Organic Compounds From Land-Applied Beef Cattle Manure As Affected By Application Method, Diet, And Soil Water Condition, Bryan L. Woodbury, John E. Gilley, David B. Parker, David B. Marx

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Land application of beef cattle manure may result in the emission of volatile organic compounds (VOC). This study was conducted to evaluate the effects of diet, land application method, soil water condition, and time since manure application on VOC emissions. Manure was collected from feedlot pens where cattle were fed diets containing 0%, 10%, or 30% wet distillers grains with solubles (WDGS). The effects of manure application method (surface-applied or incorporated) and soil water condition (saturated or wet) on VOC emissions were measured over a 48 h period. Heptanoic, hexanoic, isobutyric, and isovaleric acids contributed 23.5%, 17.6%, 9.26%, and 3.39% …


Geospatial Synthesis Of Biogeochemical Attributions Of Porphyrins To Oil Pollution In Marine Sediments Of The Gulf Of México, Francisco Muñoz-Arriola, José Vinicio Macías-Zamora Jan 2022

Geospatial Synthesis Of Biogeochemical Attributions Of Porphyrins To Oil Pollution In Marine Sediments Of The Gulf Of México, Francisco Muñoz-Arriola, José Vinicio Macías-Zamora

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Porphyrins are highly persistent in the environment and represent a helpful biogeochemical attribute to assess the spatial distribution of the effects of oil spills on ecosystems and their resilience. In areas prone to natural and human-originated oil spills, the measurement of VO– and nickel– porphyrins in marine–sediment samples can identify the effects of oil pollution across spatiotemporal scales. The goal is to explore whether or not these compounds can be useful indicators of the geospatial attributions of oil contamination in the surficial sediments. We hypothesize that the geospatial gradients of porphyrins in marine sediments from petroleum spills and seepage activities—related …


The Brazilian Soil Spectral Service (Braspecs): A User-Friendly System For Global Soil Spectra Communication, José A. M. Demattê, Ariane Francine Da Silveira Paiva, Raul Roberto Poppiel, Nícolas Augusto Rosin, Luis Fernando Chimelo Ruiz, Fellipe Alcantara De Oliveira Mello, Budiman Minasny, Sabine Grunwald, Yufeng Ge, Eyal Ben Dor, Asa Gholizadeh, Cecile Gomez, Sabine Chabrillat, Nicolas Francos, Shamsollah Ayoubi, Dian Fiantis, James Kobina Mensah Biney, Changkun Wang, Abdelaziz Belal, Salman Naimi, Najmeh Asgari Hafshejani, Henrique Bellinaso, Jean Michel Moura-Bueno, Nélida E. Q. Silvero Jan 2022

The Brazilian Soil Spectral Service (Braspecs): A User-Friendly System For Global Soil Spectra Communication, José A. M. Demattê, Ariane Francine Da Silveira Paiva, Raul Roberto Poppiel, Nícolas Augusto Rosin, Luis Fernando Chimelo Ruiz, Fellipe Alcantara De Oliveira Mello, Budiman Minasny, Sabine Grunwald, Yufeng Ge, Eyal Ben Dor, Asa Gholizadeh, Cecile Gomez, Sabine Chabrillat, Nicolas Francos, Shamsollah Ayoubi, Dian Fiantis, James Kobina Mensah Biney, Changkun Wang, Abdelaziz Belal, Salman Naimi, Najmeh Asgari Hafshejani, Henrique Bellinaso, Jean Michel Moura-Bueno, Nélida E. Q. Silvero

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Although many Soil Spectral Libraries (SSLs) have been created globally, these libraries still have not been operationalized for end-users. To address this limitation, this study created an online Brazilian Soil Spectral Service (BraSpecS). The system was based on the Brazilian Soil Spectral Library (BSSL) with samples collected in the Visible–Near–Short-wave infrared (vis–NIR–SWIR) and Midinfrared (MIR) ranges. The interactive platform allows users to find spectra, act as custodians of the data, and estimate several soil properties and classification. The system was tested by 500 Brazilian and 65 international users. Users accessed the platform (besbbr.com.br), uploaded their spectra, and received soil organic …


High Throughput Analysis Of Leaf Chlorophyll Content In Sorghum Using Rgb, Hyperspectral, And Fluorescence Imaging And Sensor Fusion, Huichun Zhang, Yufeng Ge, Xinyan Xie, Abbas Atefi, Nuwan Wijewardane,, Suresh Thapa Jan 2022

High Throughput Analysis Of Leaf Chlorophyll Content In Sorghum Using Rgb, Hyperspectral, And Fluorescence Imaging And Sensor Fusion, Huichun Zhang, Yufeng Ge, Xinyan Xie, Abbas Atefi, Nuwan Wijewardane,, Suresh Thapa

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Background: Leaf chlorophyll content plays an important role in indicating plant stresses and nutrient status. Traditional approaches for the quantification of chlorophyll content mainly include acetone ethanol extraction, spectrophotometry and high-performance liquid chromatography. Such destructive methods based on laboratory procedures are time consuming, expensive, and not suitable for high-throughput analysis. High throughput imaging techniques are now widely used for non-destructive analysis of plant phenotypic traits. In this study three imaging modules (RGB, hyperspectral, and fluorescence imaging) were, separately and in combination, used to estimate chlorophyll content of sorghum plants in a greenhouse environment. Color features, spectral indices, and chlorophyll fluorescence …


The Ecology Of Wealth Inequality In Animal Societies, Eli D. Strauss, Daizaburo Shizuka Jan 2022

The Ecology Of Wealth Inequality In Animal Societies, Eli D. Strauss, Daizaburo Shizuka

School of Biological Sciences: Faculty Publications

Individuals vary in their access to resources, social connections and phenotypic traits, and a central goal of evolutionary biology is to understand how this variation arises and influences fitness. Parallel research on humans has focused on the causes and consequences of variation in material possessions, opportunity and health. Central to both fields of study is that unequal distribution of wealth is an important component of social structure that drives variation in relevant outcomes. Here, we advance a research framework and agenda for studying wealth inequality within an ecological and evolutionary context. This ecology of inequality approach presents the opportunity to …


Late Pleistocene Megafauna Extinction Leads To Missing Pieces Of Ecological Space In A North American Mammal Community, Felisa A. Smith, Emma A. Elliott Smith, Amelia Villaseñor, Catalina P. Tomé, S. Kathleen Lyons, Seth D. Newsome Jan 2022

Late Pleistocene Megafauna Extinction Leads To Missing Pieces Of Ecological Space In A North American Mammal Community, Felisa A. Smith, Emma A. Elliott Smith, Amelia Villaseñor, Catalina P. Tomé, S. Kathleen Lyons, Seth D. Newsome

School of Biological Sciences: Faculty Publications

The conservation status of large-bodied mammals is dire. Their decline has serious consequences because they have unique ecological roles not replicated by smaller-bodied animals. Here, we use the fossil record of the megafauna extinction at the terminal Pleistocene to explore the consequences of past biodiversity loss. We characterize the isotopic and body-size niche of a mammal community in Texas before and after the event to assess the influence on the ecology and ecological interactions of surviving species (>1 kg). Preextinction, a variety of C4 grazers, C3 browsers, and mixed feeders existed, similar to modern African savannas, with …


Towards An Integrative View Of Virus Phenotypes, John P. Delong, Maitham A. Al-Sammak, Zeina Al-Ameeli, David Dunigan, Kyle F. Edwards, Jeffry J. Fuhrmann, Jason P. Gleghorn, Hanqun Li, Kona Haramoto, Amelia O. Harrison, Marcia F. Marston, Ryan M. Moore, Shawn W. Polson, Barbra D. Ferrell, Miranda E. Salsbery, Christopher R. Schvarcz, Jasmine Shirazi, Grieg F. Steward, James L. Van Etten, K. Eric Wommack Jan 2022

Towards An Integrative View Of Virus Phenotypes, John P. Delong, Maitham A. Al-Sammak, Zeina Al-Ameeli, David Dunigan, Kyle F. Edwards, Jeffry J. Fuhrmann, Jason P. Gleghorn, Hanqun Li, Kona Haramoto, Amelia O. Harrison, Marcia F. Marston, Ryan M. Moore, Shawn W. Polson, Barbra D. Ferrell, Miranda E. Salsbery, Christopher R. Schvarcz, Jasmine Shirazi, Grieg F. Steward, James L. Van Etten, K. Eric Wommack

School of Biological Sciences: Faculty Publications

Understanding how phenotypes emerge from genotypes is a foundational goal in biology. As challenging as this task is when considering cellular life, it is further complicated in the case of viruses. During replication, a virus as a discrete entity (the virion) disappears and manifests itself as a metabolic amalgam between the virus and the host (the virocell). Identifying traits that unambiguously constitute a virus’s phenotype is straightforward for the virion, less so for the virocell. Here, we present a framework for categorizing virus phenotypes that encompasses both virion and virocell stages and considers functional and performance traits of viruses in …


What Happens When Transition Metal Trichalcogenides Are Interfaced With Gold?, Archit Dhingra, Dmitri E. Nikonov, Alexey Lipatov, Alexander Sinitskii, Peter Dowben Jan 2022

What Happens When Transition Metal Trichalcogenides Are Interfaced With Gold?, Archit Dhingra, Dmitri E. Nikonov, Alexey Lipatov, Alexander Sinitskii, Peter Dowben

Peter Dowben Publications

Transition metal trichalcogenides (TMTs) are two-dimensional (2D) systems with quasi-one-dimensional (quasi-1D) chains. These 2D materials are less susceptible to undesirable edge defects, which enhances their promise for low-dimensional optical and electronic device applications. However, so far, the performance of 2D devices based on TMTs has been hampered by contact-related issues. Therefore, in this review, a diligent effort has been made to both elucidate and summarize the interfacial interactions between gold and various TMTs, namely, In4Se3, TiS3, ZrS3, HfS3, and HfSe3. X-ray photoemission spectroscopy data, supported by the results …


Geospatial Distribution Of Age-Adjusted Incidence Of The Three Major Types Of Pediatric Cancers And Waterborne Agrichemicals In Nebraska, Balkissa S. Ouattara, Jagadeesh Puvvula, Azar Abadi, Siddhi Munde, Alan S. Kolok, Shannon Bartelt-Hunt, Jesse E. Bell, Christopher S. Wichman, Eleanor Rogan Jan 2022

Geospatial Distribution Of Age-Adjusted Incidence Of The Three Major Types Of Pediatric Cancers And Waterborne Agrichemicals In Nebraska, Balkissa S. Ouattara, Jagadeesh Puvvula, Azar Abadi, Siddhi Munde, Alan S. Kolok, Shannon Bartelt-Hunt, Jesse E. Bell, Christopher S. Wichman, Eleanor Rogan

Department of Civil and Environmental Engineering: Faculty Publications

This study was conducted to examine, at the county level, the relationship between pediatric cancer incidence rate and atrazine and nitrate mean concentrations in surface and groundwater. A negative binomial regression analysis was performed to investigate the association between central nervous system (CNS) tumors, leukemia, lymphoma, and atrazine and nitrate mean concentrations in groundwater. The age-adjusted brain and other CNS cancer incidence was higher than the national average in 63% of the Nebraska counties. After controlling for the counties socio-economic status and nitrate concentrations in groundwater, counties with groundwater atrazine concentrations above 0.0002 μg/L had a higher incidence rate for …


Experimental Evaluation Of Ecological Principles To Understand And Modulate The Outcome Of Bacterial Strain Competition In Gut Microbiomes, Rafael R. Segura Munoz, Sara Mantz, Ines Martinez, Fuyong Li, Robert J. Schmaltz, Nicholas A. Pudlo, Karthik Urs, Eric C. Martens, Jens Walter, Amanda Ramer-Tait Jan 2022

Experimental Evaluation Of Ecological Principles To Understand And Modulate The Outcome Of Bacterial Strain Competition In Gut Microbiomes, Rafael R. Segura Munoz, Sara Mantz, Ines Martinez, Fuyong Li, Robert J. Schmaltz, Nicholas A. Pudlo, Karthik Urs, Eric C. Martens, Jens Walter, Amanda Ramer-Tait

Department of Food Science and Technology: Faculty Publications

It is unclear if coexistence theory can be applied to gut microbiomes to understand their characteristics and modulate their composition. Through experiments in gnotobiotic mice with complex microbiomes, we demonstrated that strains of Akkermansia muciniphila and Bacteroides vulgatus could only be established if microbiomes were devoid of these species. Strains of A. muciniphila showed strict competitive exclusion, while B. vulgatus strains coexisted but populations were still influenced by competitive interactions. These differences in competitive behavior were reflective of genomic variation within the two species, indicating considerable niche overlap for A. muciniphila strains and a broader niche space for B. vulgatus …


Thermal Inactivation Of Salmonella On Chicken Wings Cooked In Domestic Convection And Air Fryer Ovens, Carmen Cano, Xinyao Wei, Cyril A. Etaka, Byron D. Chaves Jan 2022

Thermal Inactivation Of Salmonella On Chicken Wings Cooked In Domestic Convection And Air Fryer Ovens, Carmen Cano, Xinyao Wei, Cyril A. Etaka, Byron D. Chaves

Department of Food Science and Technology: Faculty Publications

Chicken wings are among the most popular poultry products for home and foodservice consumption. Poultry products must be handled and cooked safely to decrease the risk of foodborne salmonellosis for consumers. This study aims to validate the use of domestic appliances (convection and air fryer ovens) for the thermal inactivation of Salmonella on chicken wings. Wings (n = 3, 46.5 ± 4.3 g) were inoculated with a five-strain cocktail of Salmonella (ca. 8 log10 CFU/wing) and cooked in a convection oven (179.4ºC) or an air fryer (176, 190, or 204ºC) for 2, 5, 10, 15, 20, 22, or 25 …


Small Bowel Stomas Are Associated With Higher Risk Of Circulating Food-Specific-Igg Than Patients With Organic Gastrointestinal Conditions And Colostomies, Walker K. Carson, Joseph L. Baumert, Jennifer Clarke, Jacques Izard Jan 2022

Small Bowel Stomas Are Associated With Higher Risk Of Circulating Food-Specific-Igg Than Patients With Organic Gastrointestinal Conditions And Colostomies, Walker K. Carson, Joseph L. Baumert, Jennifer Clarke, Jacques Izard

Department of Food Science and Technology: Faculty Publications

Objective The effects of food sensitivity can easily be masked by other digestive symptoms in ostomates and are unknown. We investigated food-specific-IgG presence in ostomates relative to participants affected by other digestive diseases.

Design Food-specific-IgG was evaluated for 198 participants with a panel of 109 foods. Immunocompetency status was also tested. Jejunostomates, ileostomates, and colostomates were compared with individuals with digestive tract diseases with inflammatory components (periodontitis, eosinophilic esophagitis, duodenitis, ulcerative colitis, Crohn’s disease, and appendicitis), as well as food malabsorption due to intolerance. A logistic regression model with covariates was used to estimate the effect of the experimental data …


Recent Advances In Biosensors For Detection Of Covid-19 And Other Viruses, Shobhit K. Patel, Jaymit Surve, Juveriya Parmar, Kawsar Ahmed, Francis M. Bui, Fahad Ahmed Al-Zahrani Jan 2022

Recent Advances In Biosensors For Detection Of Covid-19 And Other Viruses, Shobhit K. Patel, Jaymit Surve, Juveriya Parmar, Kawsar Ahmed, Francis M. Bui, Fahad Ahmed Al-Zahrani

Department of Mechanical and Materials Engineering: Faculty Publications

This century has introduced very deadly, dangerous, and infectious diseases to humankind such as the influenza virus, Ebola virus, Zika virus, and the most infectious SARS-CoV-2 commonly known as COVID-19 and have caused epidemics and pandemics across the globe. For some of these diseases, proper medications, and vaccinations are missing and the early detection of these viruses will be critical to saving the patients. And even the vaccines are available for COVID-19, the new variants of COVID-19 such as Delta, and Omicron are spreading at large. The available virus detection techniques take a long time, are costly, and complex and …


An Examination Of Ethical Attitudes Towards Wild Pig (Sus Scrofa) Toxicants In The United States, Keith Carlisle, Erin E. Harper, Stephanie A. Shwiff Jan 2022

An Examination Of Ethical Attitudes Towards Wild Pig (Sus Scrofa) Toxicants In The United States, Keith Carlisle, Erin E. Harper, Stephanie A. Shwiff

United States Department of Agriculture Wildlife Services: Staff Publications

This research aims to understand ethical attitudes of the U.S. public towards the use of a toxicant to control wild pigs (Sus scrofa), a destructive invasive species whose population growth is proving difficult to control through conventional management methods. Using a nationwide self-administered survey with 2,186 completed and returned questionnaires, we found that among six different lethal control methods, toxicant usage was the only method that a majority of respondents (51%) found to be unethical, with no significant differences between rural and urban respondents or between respondents from counties with wild pigs and counties where the species is absent. The …


Data Analytics And Decision-Making Systems: Implications Of The Global Outbreaks, Desheng Wu, David L. Olson, James H. Lambert Jan 2022

Data Analytics And Decision-Making Systems: Implications Of The Global Outbreaks, Desheng Wu, David L. Olson, James H. Lambert

Department of Supply Chain Management and Analytics: Faculty Publications

The COVID-19 pandemic has disrupted the goals and functions of technology-based systems around the world [16]. From a health perspective, the World Health Organization has reported that over six million have died of the disease. Government efforts to control the spread of COVID-19 have had drastic impact on global supply chains. The world’s health systems have been heavily taxed. Travel is difficult anywhere, and more difficult internationally. Economies are still in downturns [13], as many workers have been taken out of the economy for indefinite periods of time, and the structure of work has radically changed, with many working remotely …