Life Sciences Commons^™

Patch-Burn Grazing Impacts Forage Resources In Subtropical Humid Grazing Lands, Elizabeth H. Boughton, Nuria Gomez-Casanovas, Hilary Swain, Carl Bernacchi, Raoul K. Boughton, Keith Brinsko, Haoyu Li, Alan Rivero, Evan H. Delucia, Jed Sparks

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

Subtropical humid grazing lands represent a large global land use and are important for livestock production, as well as supplying multiple ecosystem services. Patch-burn grazing (PBG) management is applied in temperate grazing lands to enhance environmental and economic sustainability; however, this management system has not been widely tested in subtropical humid grazing lands. The objective of this study was to determine how PBG affected forage resources, in comparison with the business-as-usual full-burn (FB) management in both intensively managed pastures (IMP) and seminative (SN) pastures in subtropical humid grazinglands. We hypothesized that PBG management would create patch contrasts in forage quantity …

Exploring Metapopulation-Scale Suppression Alternatives For A Global Invader In A River Network Experiencing Climate Change, Brian D. Healy, Phaedra Budy, Charles B. Yackulic, Brendan P. Murphy, Robert C. Schelly, Mark C. Mckinstry

Wildland Resources Faculty Publications

Invasive species can dramatically alter ecosystems, but eradication is difficult, and suppression is expensive once they are established. Uncertainties in the potential for expansion and impacts by an invader can lead to delayed and inadequate suppression, allowing for establishment. Metapopulation viability models can aid in planning strategies to improve responses to invaders and lessen invasive species’ impacts, which may be particularly important under climate change. We used a spatially-explicit metapopulation viability model to explore suppression strategies for ecologically-damaging invasive brown trout (Salmo trutta), established in the Colorado River and a tributary within Grand Canyon National Park. Our goals …

Methods For Bioconjugation Of Biochemical Sensors Based On Metallic Nanoparticles, Jacob Rolin

Summer Community of Scholars Posters (RCEU and HCR Combined Programs)

No abstract provided.

Assessing Biochemistry Students’ Use Of Metabolic Pathway Entities, Nina Fortier

Summer Community of Scholars Posters (RCEU and HCR Combined Programs)

No abstract provided.

Assessing Undergraduate Expression Of Biochemical Mechanisms, Lauren Richardson

Summer Community of Scholars Posters (RCEU and HCR Combined Programs)

No abstract provided.

Cell-Intrinsic Melanin Fails To Protect Melanocytes From Ultraviolet-Mutagenesis In The Absence Of Epidermal Melanin, Tirzah J. Weiss, Emma R. Crawford, Valentina Posada, Hafeez Rahman, Tong Liu, Brandon M. Murphy, Tiffany E. Arnold, Shannon Gray, Zhexuan Hu, Rebecca C. Hennessey, Lianbo Yu, John August D'Orazio, Craig J. Burd, Jonathan H. Zippin, Douglas Grossman, Christin E. Burd

Markey Cancer Center Faculty Publications

Melanin is a free-radical scavenger, antioxidant, and broadband absorber of ultraviolet (UV) radiation which protects the skin from environmental carcinogenesis. However, melanin synthesis and UV-induced reactive melanin species are also implicated in melanocyte genotoxicity. Here, we attempted to reconcile these disparate functions of melanin using a UVB- sensitive, NRAS-mutant mouse model, TpN. We crossed TpN mice heterozygous for an inactivating mutation in Tyrosinase to produce albino and black littermates on a C57BL/6J background. These animals were then exposed to a single UVB dose on postnatal day three when keratinocytes in the skin have yet to be melanized. Approximately one-third (35%) …

Polyploidy Events Shaped The Expansion Of Transcription Factors In Cucurbitaceae And Exploitation Of Genes For Tendril Development, Yu Zhang, Yingchao Zhang, Bing Li, Xiao Tan, Changping Zhu, Tong Wu, Shuyan Feng, Qihang Yang, Shaoqin Shen, Tong Yu, Zhuo Liu, Xiaoming Song

Department of Food Science and Technology: Faculty Publications

Cucurbitaceae is one of the most important plant families distributed worldwide. Transcription factors (TFs) regulate plant growth at the transcription level. Here, we performed a systematic analysis of 42 641 TFs from 63 families in 14 Cucurbitaceae and 10 non-cucurbit species. Whole-genome duplication (WGD) was the dominant event type in almost all Cucurbitaceae plants. The TF families were divided into 1 210 orthogroups (OGs), of which, 112 were unique to Cucurbitaceae. Although the loss of several gene families was detected in Cucurbitaceae, the gene families expanded in five species that experienced a WGD event comparing with grape. Our findings revealed …

Cofermentation, Post-Alcoholic, And Post-Malolactic Fermentation Blending Of Malbec, Merlot And Petite Sirah Wines, Armando Arturo Vega-Osorno

Master's Theses

A two-year study was conducted to assess the effects of cofermentation on red wine varietals. During the winemaking process, wines can be made from two or more varieties by picking, crushing and fermenting them together, a practice known as cofermentation. They can also be blended either after the completion of alcoholic fermentation or after malolactic fermentation. In the first year of the study, two grape varieties, Merlot (Mer), and Malbec (Mal) were cofermented. On the second year, a third varietal, Petite Sirah (PS) was also studied. Cofermented wines containing every possible binomial combination of the varietals was made and one …

An Integrated Approach For Controlling Verticillium Wilt Of Strawberry, Jack T. Koster

Master's Theses

Strawberry (Fragaria x ananassa, Duch.) is an important crop in California, with more than 35,000 acres planted in 2018 resulting in a farm gate value of $3.1 billion. In 2020, California strawberry production accounted for more than 85% of national strawberry production and faces serious threats to production due to various soil-borne diseases. One such disease, Verticillium wilt, is caused by the fungal pathogen Verticillium dahliae and is commonly found in temperate zones around the world where strawberries are grown. Due to the phase-out of efficacious fumigants like methyl bromide, alternative disease management methods have become necessary to …

Determination Of Fungicide Resistance In Botrytis Cinerea On Wine Grapes In California's Central Coast Region, Evelyn Alvarez-Mendoza

Master's Theses

Botrytis bunch rot, caused by Botrytis cinerea, is a fungal disease that primarily affects the fruit of wine grapes. Infection of fruit consequently results in reduced yields and wine quality. These factors lead to significant economic losses for growers which prompts the implementation of management practices to control the disease. One objective of this study was to evaluate the level of resistance that populations of B. cinerea in the Central Coast region showed to various chemicals. A fungicide assay was conducted to determine resistant phenotypes to six fungicide active ingredients (pyrimethanil, iprodione, fenhexamid, fludioxonil, trifloxystrobin, boscalid). Thirty-five (2020) and …

Production Of Distilled Spirits Using Grain Sorghum Through Liquid Fermentation, Thomas Weiss, Jikai Zhao, Ruijia Hu, Meicen Liu, Yonghui Li, Yi Zheng, Gordon Smith, Donghai Wang

School of Earth, Environmental, & Marine Sciences Faculty Publications

The objectives of this research were to investigate the fermentation performance of US sorghum varieties for the production of distilled spirits as well as their associated coproducts and to study the formation of volatile compounds that are related to the flavor quality of the spirits. Three US sorghum varieties (red, white, and waxy sorghums) and four yeast strains (DADY, Ethanol Red, GR-2, and 71B) were used for distilled spirit production. Both sorghum variety and type of yeast strains had effects on alcohol concentration and alcohol yield. The alcohol concentration varied from 10.26 to 11.34% (v/v) while alcohol yield varied from …

Systematic Review Of Functional Outcomes In Cancer Rehabilitation, Alix Sleight, Lynn H. Gerber, Timothy F. Marshall, Alicia Livinski, Catherine M. Alfano, Shana Harrington Pt, Ph.D., Ann Marie Flores, Aneesha Virani, Xiaorong Hu, Sandra A. Mitchell, Mitra Varedi, Melissa Eden, Samah Hayek, Beverly Reigle, Anya Kerkman, Raquel Neves, Kathleen Jablonoski, Eileen Danaher Hacker, Virginia Sun, Robin Newman, Karen Kane Mcdonnell, Allison L'Hotta, Alana Schoenhals, Nicole L. Stout

Faculty Publications

Objective

To systematically review the evidence regarding rehabilitation interventions targeting optimal physical or cognitive function in adults with a history of cancer and describe the breadth of evidence as well as strengths and limitations across a range of functional domains.

Data Sources

PubMed, Cumulative Index to Nursing and Allied Health Plus, Scopus, Web of Science, and Embase. The time scope was January 2008 to April 2019.

Study Selection

Prospective, controlled trials including single- and multiarm cohorts investigating rehabilitative interventions for cancer survivors at any point in the continuum of care were included, if studies included a primary functional outcome measure. …

Irrigation Decisions In Response To Groundwater Salinity In Kansas, Juhee Lee, Nathan P. Hendricks

School of Earth, Environmental, & Marine Sciences Faculty Publications

Understanding the interaction between groundwater salinity and irrigation decision making has important implications for groundwater management. Econometrics models were estimated using observed farmer behavior in response to different groundwater salinity levels in a region of Kansas. Estimation results demonstrate that farmers in the face of groundwater salinity change their irrigation decisions on irrigated acreage (i.e., extensive margin), crop choice (i.e., indirect intensive margin), and water application depth (i.e., direct intensive margin). The empirical results indicate an overall decrease in water use due to higher salinity, primarily through a decrease at the extensive margin.

Development Of The Seqcode: A Proposed Nomenclatural Code For Uncultivated Prokaryotes With Dna Sequences As Type, William Whitman, Maria Chuvochina, Brian P. Hedlund, Philip Hugenholtz, Konstantinos T. Konstantinidis, Alison E. Murray, Marike Palmer, Donovan H. Parks, Anna-Louise Reysenbach, Multiple Additional Authors

Biology Faculty Publications and Presentations

Over the last fifteen years, genomics has become fully integrated into prokaryotic systematics. The genomes of most type strains have been sequenced, genome sequence similarity is widely used for delineation of species, and phylogenomic methods are commonly used for classification of higher taxonomic ranks. Additionally, environmental genomics has revealed a vast diversity of as-yet-uncultivated taxa. In response to these developments, a new code of nomenclature, the Code of Nomenclature of Prokaryotes Described from Sequence Data (SeqCode), has been developed over the last two years to allow naming of Archaea and Bacteria using DNA sequences as the nomenclatural types. The …

Whole-Genome Sequencing Links Clostridium (Clostridioides) Difficile In A Single Hospital To Diverse Environmental Sources In The Community, Su-Chen Lim, Deirdre Collins, Korakrit Imwattana, Daniel R. Knight, Sicilia Perumalsamy, Natasza M.R. Hain-Saunders, Papanin Putsathit, David Speers, Thomas Riley

Research outputs 2022 to 2026

To investigate if Clostridium (Clostridioides) difficile infection (CDI), traditionally thought of as hospital-acquired, can be genomically linked to hospital or community environmental sources, and to define possible importation routes from the community to the hospital.

In 2019, C. difficile was isolated from 89/300 (29.7%) floor and 96/300 (32.0%) shoe sole samples at a tertiary hospital in Western Australia. Non-toxigenic C. difficile ribotype (RT) 010 predominated among floor (96.6%) and shoe sole (73.2%) isolates, while toxigenic RT 014/020 was most prevalent among contemporaneous clinical cases (33.0%) at the hospital. Whole-genome sequencing and high-resolution core genome single nucleotide polymorphism (cgSNP) …

Esculin Hydrolysis Negative And Tcda-Only Producing Strains Of Clostridium (Clostridioides) Difficile From The Environment In Western Australia, Nirajmohan Shivaperumal, Daniel R. Knight, Korakrit Imwattana, Grace O. Androga, Barbara J. Chang, Thomas V. Riley

Research outputs 2022 to 2026

Background and Aims: Clostridium (Clostridiodes) difficile clade 3 ribotype (RT) 023 strains that fail to produce black colonies on bioMérieux ChromID agar have been reported, as well as variant strains of C. difficile that produce only toxin A. We have recently isolated strains of C. difficile from the environment in Western Australia (WA) with similar characteristics. The objective of this study was to characterize these strains. It was hypothesized that a putative β-glucosidase gene was lacking in these strains of C. difficile, including RT 023, leading to white colonies. Methods and Results: A total of 17 environmental isolates of C. …

Heterogeneity In The Prevalence Of Premature Hypertension Among Asian American Populations Compared With White Individuals: A National Health Interview Survey Study, Sina Kianoush, Mahmoud Al Rifai, Anwar T. Merchant, Xiaoming Jia, Zainab Samad, Aneil Bhalla, Ayesha Khan, Dongshan Zhu, Salim S. Virani

Section of Cardiology

Background: Differences in prevalence of risk factors such as hypertension may explain heterogeneity in cardiovascular risk across Asian American populations.
Methods: We used National Health Interview Survey (NHIS) data from 2006 to 2018 among White, Chinese, Asian Indian, Filipino, and 'other Asians' (Japanese, Korean, and Vietnamese). Unadjusted and adjusted odds ratios (aOR) with 95% confidence intervals were reported using logistic regression models for the association between race and self-reported premature hypertension (age old). Models were adjusted for sex, education, body mass index, smoking status, diabetes, and coronary heart disease.
Results: We studied 99,864 participants with history of hypertension (mean age, …

Effects Of Dietary Nitrate Supplementation On Performance And Muscle Oxygenation During Resistance Exercise In Men, Rachel Tan, Adam Pennell, Katherine M. Price, Sean T. Karl, Noelle G. Seekamp-Hicks, Keonabelle K. Paniagua, Grant D. Weiderman, Joanna P. Powell, Luka K. Sharabidze, Isabella G. Lincoln, Justin M. Kim, Madeleine F. Espinoza, Maya A. Hammer, Richie P. Goulding, Stephen J. Bailey

All Faculty Open Access Publications

The purpose of the current study was to assess the effects of acute and short-term nitrate (NO3−)-rich beetroot juice (BR) supplementation on performance outcomes and muscle oxygenation during bench press and back squat exercise. Fourteen recreationally active males were assigned in a randomized, double-blind, crossover design to supplement for 4 days in two conditions: (1) NO3−-depleted beetroot juice (PL; 0.10 mmol NO3− per day) and (2) BR (11.8 mmol NO3− per day). On days 1 and 4 of the supplementation periods, participants completed 2 sets of 2 × 70%1RM interspersed by 2 min of recovery, followed by one set of …

Estimating R0 From Early Exponential Growth: Parallels Between 1918 Influenza And 2020 Sars-Cov-2 Pandemics, Grant Foster, Bret D. Elderd, Robert L. Richards, Tad Dallas

Faculty Publications

The large spatial scale, geographical overlap, and similarities in transmission mode between the 1918 H1N1 influenza and 2020 SARS-CoV-2 pandemics together provide a novel opportunity to investigate relationships between transmission of two different diseases in the same location. To this end, we use initial exponential growth rates in a Bayesian hierarchical framework to estimate the basic reproductive number, R₀, of both disease outbreaks in a common set of 43 cities in the United States. By leveraging multiple epidemic time series across a large spatial area, we are able to better characterize the variation in R₀ across the …

Female Fertility Preservation: Current & Future Strategies, Nouran Sallam, Reda Hemida

Mansoura Medical Journal

Recently, the spectacular progress in diagnosis, treatment, and prognosis of different malignancies has increased the demands on fertility preservation. Fertility impairment is considered one of the complications of radio/cytotoxic treatments in females who managed to overcome their cancer. This issue of fertility preservation also concerns those who are at risk of developing ovarian failure as well as healthy individuals who aim to overcome age-related fertility decline. Regarding female fertility preservation, there are various options that could be selected according to various factors, including the patient’s age, type of the disease, as well as type and urgency of treatment. Among these …

Diversity Of Reptile Sex Chromosome Evolution Revealed By Cytogenetic And Linked-Read Sequencing, Ze-Xian Zhu, Kazumi Matsubara, Foyez Shams, Jason Dobry, Erik Wapstra, Tony Gamble, Stephen D. Sarre, Arthur Georges, Jennifer A. Marshall Graves, Qi Zhou, Tariq Ezaz

Biological Sciences Faculty Research and Publications

Reptile sex determination is attracting much attention because the great diversity of sex-determination and dosage compensation mechanisms permits us to approach fundamental questions about mechanisms of sex chromosome turnover. Recent studies have made significant progress in better understanding diversity and conservation of reptile sex chromosomes, with however no reptile master sex determination genes identified. Here we describe an integrated genomics and cytogenetics pipeline, combining probes generated from the microdissected sex chromosomes with transcriptome and genome sequencing to explore the sex chromosome diversity in non-model Australian reptiles. We tested our pipeline on a turtle, two species of geckos, and a monitor …

Arkansas Wheat Performance Tests 2021-2022, J. F. Carlin, R. B. Morgan, R. D. Bond, D. E. Moon

Arkansas Agricultural Experiment Station Research Series

Wheat variety performance tests are conducted each year in Arkansas by the University of Arkansas System Division of Agriculture’s Arkansas Agricultural Experiment Station, Department of Crop, Soil, and Environmental Sciences. The tests provide information to companies developing varieties and marketing seed within the state and aid the Arkansas Cooperative Extension Service in formulating variety recommendations for small-grain producers. The tests are conducted at the Northeast Research and Extension Center at Keiser, the Vegetable Substation near Kibler, the Lon Mann Cotton Research Station near Marianna, the Pine Tree Research Station near Colt, and the Rohwer Research Station near Rohwer. Specific location …

Patient-Specific Genome-Scale Metabolic Models For Individualized Predictions Of Liver Disease, Alexandra Manchel, Jan B. Hoek, Ramon Bataller, Radhakrishnan Mahadevan, Rajanikanth Vadigepalli

Department of Pathology, Anatomy, and Cell Biology Faculty Papers

The prevalence of liver disease is steadily increasing, coupled with the limited availability of therapeutic treatments. Recent literature points to metabolic reprogramming as a key feature of liver failure. Hence, we sought to uncover the metabolic pathways and mechanisms associated with liver disease and acute liver failure. We generated patient-specific genome scale metabolic models by integrating RNA-seq data from patient liver samples with a generalized human metabolic model. Flux balance analysis simulations showed a distinct separation of non-alcohol associated and alcohol-associated disease states. Our analysis suggests that the alcohol associated liver has an increased flux through nucleotide and glycerophospholipid metabolic …

Summaries Of Arkansas Cotton Research 2021, Fred Bourland

Arkansas Agricultural Experiment Station Research Series

While the basic growth and development of the cotton plant have not changed significantly in recent history, the business of cotton production is ever-changing. The last two years have seen us plant a crop just about as late as we thought possible, yet extended favorable conditions at season's end have been our salvation, helping to lead us to record yields. The economic environment over the last few years has been such that farmers need to produce record or near-record yields to advance. Unfortunately, production levels at the state yield average barely cover out-of-pocket expenses.

Great uncertainties exist for the upcoming …

A Key Study On Pollen-Specific Sfb Genotype And Identification Of Novel Sfb Alleles From 48 Accessions In Japanese Apricot (Prunus Mume Sieb. Et Zucc.), Daouda Coulibaly, Guofeng Hu, Zhaojun Ni, Kenneth Omondi Ouma, Xiao Huang, Shahid Iqbal, Chengdong Ma, Ting Shi, Faisal Hayat, Benjamin Karikari, Zhihong Gao

Michigan Tech Publications, Part 1

Self-incompatibility (SI) is a common strategy to avoid inbreeding and, consequently, keep genetic diversity within a species. In its mechanism, pollen rejection happens in the style when the single multiallelic locus (SFB in prunus species) of the haploid pollen matches one of the S-alleles existing in the diploid pistil. The SFB gene for the pollen S gene has been identified in many Prunus species. However, Japanese apricot is a species with a typical gametophytic self-incompatibility (GSI), and its SFB alleles available are limited, although they are required for studying GSI. Therefore, we used an AS-PCR amplification method, sequencing, and the …

A Polypharmacological Approach To Relapse Prevention In An Animal Model Of Heroin Addiction, Scott T. Ewing

Dissertations, Theses, and Capstone Projects

Chemical compounds that target dopamine (DA) D1 or D3 receptors have shown promise as potential interventions in animal models of cue-induced relapse. However, undesirable side effects or pharmacodynamic profiles have limited the advancement of new compounds in preclinical studies when administered as independent treatments. In this series of experiments, we explored the effects of co-administration of a D1-recepter partial agonist (SKF 77434) and a D3-receptor antagonist (NGB 2904) in heroin-seeking rats within a ‘conflict’ model of abstinence and cue-induced relapse. Rats were first trained to press a lever to self-administer heroin and drug delivery was paired contingently with cues (e.g., …

Confirming Subarachnoid Hemorrhage Induction In The Endovascular Puncture Mouse Model, Spiros L Blackburn, Devin W Mcbride

Faculty, Staff and Student Publications

Background and purpose: Experimental studies of subarachnoid hemorrhage (SAH) using the endovascular perforation model routinely use either cerebral blood flow (CBF) or intracranial pressure (ICP) monitoring to confirm SAH induction. We designed this study to test the hypothesis that contralateral CBF is a better marker of SAH induction than ipsilateral CBF.

Methods: Sixty-eight adult C57BL/6J mice were subjected to endovascular perforation. Mice were monitored using laser Doppler (for relative CBF) or ICP probes.

Results: The ipsilateral CBF significantly decreased prior to ICP rising. However, reduction of the CBF in the contralateral hemisphere occurred at the same time as the rise …

Usp7 Substrates Identified By Proteomics Analysis Reveal The Specificity Of Usp7, Siting Li, Min Huang, Xu Feng, Guangsheng Pei, Qinglei Hang, Zhongming Zhao, Boyi Gan, Li Ma, Junjie Chen

Faculty, Staff and Student Publications

Deubiquitylating enzymes (DUBs) remove ubiquitin chains from proteins and regulate protein stability and function. USP7 is one of the most extensively studied DUBs, since USP7 has several well-known substrates important for cancer progression, such as MDM2, N-MYC, and PTEN. Thus, USP7 is a promising drug target. However, systematic identification of USP7 substrates has not yet been performed. In this study, we carried out proteome profiling with label-free quantification in control and single/double-KO cells of

Why New Zealand’S Indigenous Reconciliation Process Has Failed To Empower Māori Fishers: Distributional, Procedural, And Recognition-Based Injustices, Hekia Bodwitch, Andrew M. Song, Owen Temby, John Reid, Megan Bailey, Gordon M. Hickey

School of Earth, Environmental, & Marine Sciences Faculty Publications

How is it that the New Zealand government’s process for re-establishing Indigenous fishing rights has failed to deliver thriving Māori fisheries? This paper examines why, at Te Waihora, a coastal lake, and site of one of the nation’s longest running and best-funded state-Māori co-governance agreements, Māori fishers have been unable to use their rights to support their fishery. As of 2018, the lake’s culturally and ecologically significant eel population was no longer commercially viable, a decline fishers have attributed to rampant dairy industry expansion upstream. Drawing on environmental justice literatures, we deploy a multi-dimensional framework to identify factors shaping possibilities …

Biosecurity Council Of Western Australia Annual Report 2021/2022, Biosecurity Council Of Western Australia

Biosecurity published reports

Understanding the needs and challenges of industry, community and government is key to providing relevant and constructive advice to government. During 2021/22, the Council continued to monitor biosecurity-related developments at national and State levels and proactively engaged with industry, community and government on biosecurity matters.

The key areas of advice that were progressed during the year were:

• The use of biological control agents to manage pests;
• Mechanisms for funding biosecurity and pest management; and
• Other matters as requested by the Minister.