Life Sciences Commons^™

Investigations Of The Potential For Irrigated Agriculture On The Bonaparte Plains: Hydrogeology, Aquifer Properties And Groundwater Chemistry, Don Bennett, Paul Raper, Robert Paul, Tim Pope, Richard J. George Dr

Resource management technical reports

‘Cockatoo Sands’ is a common name for the Cockatoo Sands family of soils (comprising red to yellowish-red sands, sandy earths, and loamy earths) that have formed from quartz sandstone colluviums in relatively isolated patches throughout the East Kimberley region of Western Australia and the Northern Territory. Cockatoo Sands are recognised as potentially suitable for irrigated agriculture because they are generally well drained and not subject to waterlogging or inundation. These characteristics allow them to be cultivated and prepared for planting various crops during the wet and dry seasons of northern Australia.

Expanding agricultural production onto the Cockatoo Sands around Kununurra …

Kentucky Warbler (Vol. 98, No.3), Department Of Library Special Collections

The Kentucky Warbler

No abstract provided.

Using Poultry To Enhance Food Security In Stann Creek, Belize, Emily Spatz

Poultry Science Undergraduate Honors Theses

Food insecurity is a growing issue in developing and developed countries alike, and in countries like Belize, the prevalence of hunger has soared in recent years. Not having access to diets with sufficient calories and nutrients leads to a host of developmental issues, including stunting and cognitive delays. The purpose of this work was to create an all-encompassing manual for small-scale broiler production, with the intention of another honors student overseeing the implementation of the ideas set forth in the manual, in order to provide nourishment for the students and staff of a school in Belize. After determining that the …

The Effects Of Stress On The Mammalian Nucleolus And Ribosome Synthesis, Russell T. Sapio

Graduate School of Biomedical Sciences Theses and Dissertations

Ribosomes are responsible for translating every protein in the cell and are essential in all domains of life. Ribosome biosynthesis (RB) takes place in the nucleolus and is an intricate hierarchical process involving over 200 factors, including ribosomal proteins, ribosomal RNA (rRNA), and trans-acting ribosome biogenesis factors (RBFs). Inhibiting RB can disrupt nucleolar integrity, causing ribosomal- and nucleolar-factors to delocalize. This can stabilize the transcription factor p53, which is normally degraded rapidly, ultimately causing cell cycle arrest or apoptosis, through a mechanism termed the nucleolar stress response (NSR). This thesis explores the effects of inhibiting RB post rRNA transcription and …

Nebline, August/September 2022

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Nutrition Security: A New National Focus by Emily Gratopp

Recipe of the Month: Starwberry Smoothie and Freezer Pop by Emily Gratopp

Harvesting & Drying Herbs by Sarah Browning

Garden Guide: Things to Do This Month

Water Play Fun by Hayley Jackson

Controlling Poison Hemlock by Melissa Bartels

Summer Brings Singing Cicadas by Kait Chapman

4-H Announcements for Enrolled 4-H'ers or 4-H Volunteers

Lancaster County Super Fair, July 28-Aug. 6, 2022

4-H Will Livestream from the Fair! YouTube

Join 4-H!

Heart of 4-H Volunteer Award: Sonja Moore and Lancaster County Engineering Department

4-H Teen Council Invites New Members

4-H Council Golf …

Storing Water For The Environment: Operating Reservoirs To Improve California’S Freshwater Ecosystems, Sarah Null, Jeffrey Mount, Brian Gray, Kristen Dybala, Gokce Sencan, Anna Sturrock, Barton Thompson, Harrison Zeff

Watershed Sciences Faculty Publications

California’s freshwater ecosystems—its lakes, rivers, floodplains, meadows, natural and managed wetlands, and estuaries—are a vital part of the state’s natural infrastructure. These ecosystems provide numerous benefits, including water supply, hydropower, flood control, fisheries, recreation, and cultural and aesthetic value. They are also home to the nation’s most diverse array of plant and animal communities, with numerous freshwater species found only in California (Jensen et al. 1993; Grantham et al. 2017).

Perception Of Illness And Its Association With Willingness To Adhere To Treatment In Chronic Hepatitis C Patients With New Diagnosis Of Nonalcoholic Fatty Liver Disease, Carmel Kruse

The Eleanor Mann School of Nursing DNP Capstone Projects

Chronic liver disease is becoming the most common cause of mortality, morbidity, and utilization of healthcare services globally. Both nonalcoholic fatty liver disease (NAFLD) and chronic hepatitis C (CHC) are frequent causes of chronic liver disease. Recently, there have been significant findings on the relationship between NAFLD and CHC; patients with CHC have a higher incidence of NAFLD. The introduction of direct-acting antivirals has cured more CHC patients than ever before. Unfortunately, the current interventions for NAFLD requiring behavioral change remain ineffective. Patient’s ability to follow advice depends largely on their health beliefs; therefore, understanding their illness perception is an …

Description, Diversity, And Phylogeography Of The North American Spider Beetle (Coleoptera: Ptinidae) Genus Coleotestudo, Robert Chambliss

Masters Theses & Specialist Projects

A new genus, Coleotestudo, is proposed for the American species currently placed in the genus Niptus LeConte and are transferred herein. Two new species from Mexico are also described as C. potosi n. sp. and C. nahua n. sp. Distinguishing morphological characteristics for the North American Coleotestudo species are given. The combined set of morphological evidence, DNA sequence data, and a Western New World distribution strongly support the hypothesis that Coleotestudo does not share a recent common ancestor with N. hololeucus and both represent unrelated clades of spider beetles.

During the summer of 2021, Coleotestudo was collected mainly from …

Functional Characterization Of Mycobacterium Smegmatis Phage Moomoo Gene Products: Identification Of Toxic Genes, Whitney Heard

Masters Theses & Specialist Projects

Mycobacteriophages are a group of phages that infect members of the genus Mycobacteria. Previous studies have conducted extensive comparisons of the mycobacteriophage genomes and amino acid sequences to establish different phage families. MooMoo is a singleton mycobacteriophage that has been characterized due to its lack of appreciable homology to other phages. Some of its unique properties include its structure and the isolation of a mutant that causes clear plaque phenotypes. The experiments described in this thesis identified three MooMoo phage (gp87, gp90, and gp91) encoded proteins that are toxic to the bacterial host, Mycobacterium smegmatis.Through the use of a …

Phenotype-Driven Approaches To Enhance Variant Prioritization And Diagnosis Of Rare Disease., Julius O B Jacobsen, Catherine Kelly, Valentina Cipriani, Genomics England Research Consortium, Christopher J Mungall, Justin Reese, Daniel Danis, Peter N Robinson, Damian Smedley

Faculty Research 2022

Rare disease diagnostics and disease gene discovery have been revolutionized by whole-exome and genome sequencing but identifying the causative variant(s) from the millions in each individual remains challenging. The use of deep phenotyping of patients and reference genotype-phenotype knowledge, alongside variant data such as allele frequency, segregation, and predicted pathogenicity, has proved an effective strategy to tackle this issue. Here we review the numerous tools that have been developed to automate this approach and demonstrate the power of such an approach on several thousand diagnosed cases from the 100,000 Genomes Project. Finally, we discuss the challenges that need to be …

Jackie: Fast Enumeration Of Genome-Wide Single- And Multicopy Crispr Target Sites And Their Off-Target Numbers., Jacqueline Jufen Zhu, Albert Cheng

Faculty Research 2022

Zinc finger protein-, transcription activator like effector-, and CRISPR-based methods for genome and epigenome editing and imaging have provided powerful tools to investigate functions of genomes. Targeting sequence design is vital to the success of these experiments. Although existing design software mainly focus on designing target sequence for specific elements, we report here the implementation of Jackie and Albert's Comprehensive K-mer Instances Enumerator (JACKIE), a suite of software for enumerating all single- and multicopy sites in the genome that can be incorporated for genome-scale designs as well as loaded onto genome browsers alongside other tracks for convenient web-based graphic-user-interface-enabled design. …

Application Of Sulfur Sad To Small Crystals With A Large Asymmetric Unit And Anomalous Substructure, Tung Chung Mou, Baisen Zeng, Tzanko I. Doukov, Stephen R. Sprang

Biological Sciences Faculty Publications

The application of sulfur single-wavelength anomalous dispersion (S-SAD) to determine the crystal structures of macromolecules can be challenging if the asymmetric unit is large, the crystals are small, the size of the anomalously scattering sulfur structure is large and the resolution at which the anomalous signals can be accurately measured is modest. Here, as a study of such a case, approaches to the SAD phasing of orthorhombic Ric-8A crystals are described. The structure of Ric-8A was published with only a brief description of the phasing process [Zeng et al. (2019), Structure, 27, 1137-1141]. Here, alternative approaches to determining the 40-atom …

The Effect Of Plant Elicitor Peptide On Nematode Infected Soybean, Siyang Liu

Graduate Theses and Dissertations

Soybean (Glycine max), an important economic crop native to East Asia, is grown worldwide for its edible beans. Soybean plants are vulnerable to a wide range of diseases, and nematodes are among the worst pests of soybean. The southern root-knot nematode (Meloidogyne incognita) and soybean cyst nematode (Heterodera glycines) are both notable nematode pests of soybean, with the soybean cyst nematode causing more than 30% of total yield loss in the US. Numerous attempts have been made to control soybean nematodes over the past several decades, and genetic engineering technology has received a lot of attention in recent years. Plant …

Assessing Consumer Demand, Producer Profitability, And The Environmental Impacts Of Conservation Agriculture Adoption In Sub-Saharan Africa, Willy Byamungu Mulimbi

Graduate Theses and Dissertations

This dissertation explores three aspects of conservation agriculture (CA) in the Sub-Saharan African region (SSA). The first article examines the demand side of CA and explores whether urban maize (Zea mays L.) consumers in the Democratic Republic of the Congo (DRC) would be willing to pay a premium for CA-produced maize flour. The second article estimates the effects CA provides to adopters and their farms in smallholder farming systems in the DRC, focusing on changes in soil properties and cowpea (Vigna unguiculata) yields. The final article uses a Life Cycle Assessment (LCA) approach to monetize the environmental impacts of adopting …

Mitochondrial Dna Diversity, Parasite And Pathogen Occurrence, And A Potential Disease Vector In Managed And Unmanaged Honey Bee, Apis Mellifera L. Populations, Dylan Cleary

Graduate Theses and Dissertations

The western honey bee, Apis mellifera L., is a globally important pollinator plagued by several harmful stressors impacting colony health and survival. At least eight A. mellifera subspecies were imported and continue to be the genetic ancestors of U.S. honey bee populations today. Successive genetic bottle-neck events have led to reduced genetic diversity in U.S. honey bees. First, the subset of subspecies imported into the U.S. represents only a third of A. mellifera subspecies. Next, the parasitic varroa mite reduced managed and feral populations. Third, ongoing breeding practices have selected for traits from a single genetic lineage and bred from …

Clinical And Molecular Characterization Of Key Features Of Phelan-Mcdermid Syndrome And Potential Approaches To Clinical Trials, Bridgette Moffitt

All Dissertations

Phelan-McDermid Syndrome (PMS) is a rare neurodevelopmental disorder that involves chromosomal abnormalities on 22q13.3 and pathogenic variants with the SHANK3 gene. SHANK3 encodes for a critical scaffolding protein that is important in post-synaptic density, function, and maintenance of excitatory synapses. Haploinsufficiency of SHANK3 is considered the major cause of the neurological phenotype of PMS. These studies focused on further characterizing the neurologic phenotype of sleep disturbances in individuals with PMS.

Sleep disturbances are a common feature of PMS, however there is little research available on the subject matter. We reviewed the literature on sleep disturbances and used the Phelan-McDermid Syndrome …

Signatures Of Genome Evolution In Two Divergent Lizard Species From Texas, Jose A. Maldonado

Biology Dissertations - Archive

The continual reduction of the cost of high-throughput sequencing is now making it feasible to sequence large genomic and transcriptomic datasets for non-model organisms. Many of these under study non-model organisms have no available molecular data available. Yet, many of these organisms are of interest for their usefulness in addressing long-standing unanswered questions in the field of evolutionary biology or of conservational concern and need immediate intervention. Now we can quickly generate large datasets for these organisms, and here we generate two large datasets for lizards that are both of in interest in the genus Holbrookia and Aspidoscelis. In chapter …

Elucidating The Molecular Genetic Basis Of Behaviors Related To The Loser Effect, Marquerite Alizabeth Herzog

Biology Dissertations - Archive

Across the animal kingdom, when individuals experience social defeat (losing an aggressive conflict with a conspecific), it elicits stereotypical loser behavior such as isolation or submissiveness. In many species, social defeat is a precursor to the "loser effect" (LE), the propensity for individuals who lose a contest to lose subsequent competitions. Experiments in rodent systems reveal physiological consequences of social defeat and loser behaviors, but underlying genetic mechanisms of the LE remain elusive. Furthermore, of the recent studies investigating gene expression changes associated with social defeat, there is little focus on the recovery of LE, wherein some animals naturally exit …

Microbial Diversity And Immunogenetics Of Whiptail Lizards (Aspidoscelis), Kathleen Currie

Biology Dissertations - Archive

Whiptail lizards of the genus Aspidoscelis are a complex of both sexual and asexual species with distributions in the United States, Mexico, and Central America. The parthenogenetic lineages arose through hybridization events between divergent sexual species; further backcrossing of the diploid parthenogens to the parentals is possible, and even hybridization with a third species produce triploid lineages. Here, we leverage the unique biology of whiptail lizards to evaluate and compare gut microbial communities between reproductive modes, investigate whether host genetic variation correlates with microbial diversity, and characterize MHC class II beta genes.

Effect Of Storage Of Skim Milk Powder, Nonfat Dry Milk And Milk Protein Concentrate On Functional Properties, Kartik Shah, Prafulla Salunke, Lloyd Metzger

Dairy Science and Food Science Faculty Publications: 2022 to Present

The physicochemical changes during the storage of high protein powders, such as skim milk powder (SMP), nonfat dry milk (NDM), and milk protein concentrates (MPC), can result in a variation in the functional properties of the powders. The objective of this study was to evaluate the effects of the storage of various milk powders (SMP, NDM, MPC40, and MPC70) on their functional properties. Three different lots of the powders were collected from US manufacturers and were analyzed for functional properties after 3, 9, and 15 months of storage at 25 °C. Additionally, this study also evaluated the effects of seasonal …

Sarracenia Pitcher Plant-Associated Microbial Communities Differ Primarily By Host Species Across A Longitudinal Gradient, Jacob A. Heil, Charles J. Wolock, Naomi E. Pierce, Anne Pringle, Leonora S. Bittleston

Biology Faculty Publications and Presentations

Plant-associated microbial communities can profoundly affect plant health and success, and research is still uncovering factors driving the assembly of these communities. Here, we examine how geography versus host species affects microbial community structure and differential abundances of individual taxa. We use metabarcoding to characterize the bacteria and eukaryotes associated with five, often co-occurring species of Sarracenia pitcher plants (Sarraceniaceae) and three natural hybrids along the longitudinal gradient of the U.S. Gulf Coast, as well as samples from S. purpurea in Massachusetts. To tease apart the effects of geography versus host species, we focus first on sites with co-occurring …

Investigating Granulopoiesis Of Neutrophils From Myeloblasts In The Bone Marrow Post Novel Anti-Schistosoma Compound Treatment, Sarah Alsuleiman, Paul Davis

Theses/Capstones/Creative Projects

Schistosomiasis, a commonly neglected tropical disease, is a waterborne parasitic worm infection able to infect through direct skin penetration. This disease affects approximately 270 million people worldwide and ranks only second to malaria as a leading infectious disease. Although some possible alternatives are emerging, currently, the most effective drug treatment is praziquantel (PZQ). However, PZQ is only effective against the adult stage of the worm, allowing juvenile worms to progress in the infection. Additionally, Schistosoma worms are developing resistance to this drug as reduced efficacy has been noted. Thus, the need for drug discovery and testing is increased. SA01, a …

Niche And Dispersal Effects On Biodiversity, Community Composition And Species Co-Occurrences In Stream Ecosystems, Joseph Leonardo Mruzek

Biology Dissertations - Archive

Niche and dispersal processes are major ecological drivers of freshwater communities but their relative roles across latitudinal gradients, scales, and organismal groups are not well understood. Thus, we performed three studies with sub-continental datasets of stream algae, insects, and fish. In chapter 2 we predicted that: i) niche processes would dominate at high latitudes due to increased climatic stress, consistent with the physiological tolerance hypothesis and the Dobzhansky-MacArthur hypothesis and ii) dispersal limitation would prevail at low latitudes due to narrower niches and smaller range sizes, consistent with the dispersal-ecological specialization tradeoff hypothesis, the latitude-niche breadth hypothesis, and Rapoport’s rule. …

Investigating The Short-Term And Long-Term Impact Of Covid-19 On Cardiovascular Health, Damsara Nandadeva

Kinesiology Dissertations - Archive

Recent data indicates that the risk of developing cardiovascular disease (CVD) is augmented following coronavirus disease 2019 (COVID-19). Moreover, emerging data indicates that almost 50% of individuals who had COVID-19 experience persisting symptoms which are often debilitating, beyond the acute phase of the illness. This condition that is given the diagnosis post-acute sequalae of COVID-19 (PASC), also appears to be associated with cardiovascular complications. However, it is unclear what factors contribute to CVD risk following COVID-19 and PASC. Accordingly, the aim of this dissertation was to investigate potential factors that may contribute to adverse cardiovascular outcomes following COVID-19 with a …

Contributions Of Vision To The Neuromotor Control And Biomechanics Of Depth Jumping, Kenneth Harrison

All Graduate Plan B and other Reports, Spring 1920 to Spring 2023

PURPOSE: To investigate the role of vision during depth jump movements and further explore effects of stroboscopic goggles on the motor control of landing. METHODS: Ground reaction force (GRF), rate of force development (RFD), and lower limb surface electromyography measurements were collected on 20 participants (11 male 9 female) across 6 trials of depth jumping (0.51 m) in each of two visual conditions (full vision vs stroboscopic vision). Root-mean-square was estimated from EMG signals that were reduced to specific time-bins (150ms pre touchdown, 30-60ms, 60-85 ms, and 85-120 ms post touchdown). Main effects of and interactions between visual condition and …

Metabolite Damage And Damage Control In A Minimal Genome, Drago Haas, Antje M. Thamm, Jiayi Sun, Lili Huang, Lijie Sun, Guillaume A.W. Beaudoin, Kim S. Wise, Claudia Lerma-Ortiz, Steven D. Bruner, Marian Breuer, Zaida Luthey-Schulten, Jiusheng Lin, Mark A. Wilson, Greg Brown, Alexander F. Yakunin, Inna Kurilyak, Jacob Folz, Oliver Fiehn, John I. Glass, Andrew D. Hanson, Christopher S. Henry, Valérie De Crécy-Lagard

Department of Biochemistry: Faculty Publications

Analysis of the genes retained in the minimized Mycoplasma JCVI-Syn3A genome established that systems that repair or preempt metabolite damage are essential to life. Several genes known to have such functions were identified and experimentally validated, including 5-formyltetrahydrofolate cycloligase, coenzyme A (CoA) disulfide reductase, and certain hydrolases. Furthermore, we discovered that an enigmatic YqeK hydrolase domain fused to NadD has a novel proofreading function in NAD synthesis and could double as a MutT-like sanitizing enzyme for the nucleotide pool. Finally, we combined metabolomics and cheminformatics approaches to extend the core metabolic map of JCVI-Syn3A to include promiscuous enzymatic reactions and …

Characterization Of Microbotryum Lychnidis-Dioicae Secreted Effector Proteins That Manipulate Its Host Plant, Silene Latifolia., Ming-Chang Tsai

Electronic Theses and Dissertations

The smut fungal species Microbotryum lychnidis-dioicae is an obligate phytopathogen colonizing the plant host, Silene latifolia. A significant feature of M. lychnidis-dioicae infection is that the fungus can replace pollen on the anthers of susceptible host plants with fungal teliospores, thus earning the fungus the name: anther smut disease of flowers. The fungus synthesizes and secretes effector proteins into the cells of the plant host during infection, and the protein-protein interactions may interfere with and modify metabolism, plant development, and gene expression of the host to allow fungal colonization. Two potential fungal effector proteins, MVLG_06175 and MVLG_05122, were identified …

Effects Of Shade Nets On Microclimatic Conditions, Growth, Fruit Yield, And Quality Of Eggplant (Solanum Melongena L.): A Case Study In Carnarvon, Western Australia, Giao N. Nguyen, Neil Lantzke, Andrew Van Burgel

Horticulture Research Articles

Carnarvon has a hot, semi-arid climate with high temperatures and solar radiation during spring–summer, which damages crops and limits the production season for the local vegetable industry. Protective cultivation is one of the promising approaches to mitigate these adverse weather conditions and avoid the resulting damage to vegetable crops. This study, which is part of the protected cropping research program for vegetable crops in Western Australia, was conducted to understand how the shade nets of a protective net house modify the microenvironment affecting the growth, physiology, and fruit yield of eggplants, a model vegetable crop. The eggplant crop was grown …

Investigating Gene Expression Changes In Daphnia: The Role Of Ems-Induced Mutations And Reproductive Modes, Marelize Snyman

Biology Dissertations - Archive

Gene expression variation is a common source of phenotypic variation between species. Understanding how changes in gene expression are associated with a particular phenotype will aid in understanding the molecular basis and evolution of complex traits. For the first chapter, I investigated the role that changes in gene expression play in the origin of obligate parthenogenesis using the microcrustacean Daphnia pulex. I conducted a genome-wide differential expression and splicing analysis comparing early subitaneous and early resting egg production in OP D. pulex isolates to investigate the genes and mechanisms underlying these parthenogenetic modes. Results from the KEGG pathway and GO …

Distribution And Management Of Phytophthora Species On Lavender In The United States, Daniel Dlugos

All Dissertations

Phytophthora root and crown rot (PRCR) is currently the most important disease on lavender (Lavandula spp.) in the United States. The disease was first described on English lavender (L. angustifolia) in a Maryland nursery in 1991, with Phytophthora nicotianae as the causal agent. Since that time, the disease has been reported on multiple continents and as caused by several species of Phytophthora. This study examined the distribution and pathogenicity of Phytophthora species on lavender in the United States, requested lavender grower feedback regarding their production and concerns, and examined efficacy of selected management options. Lavender …