Life Sciences Commons^™

Identification Of Novel Sleep Related Genes From Large Scale Phenotyping Experiments In Mice, Shreyas Joshi

Theses and Dissertations--Biology

Humans spend a third of their lives sleeping but very little is known about the physiological and genetic mechanisms controlling sleep. Increased data from sleep phenotyping studies in mouse and other species, genetic crosses, and gene expression databases can all help improve our understanding of the process. Here, we present analysis of our own sleep data from the large-scale phenotyping program at The Jackson Laboratory (JAX), to identify the best gene candidates and phenotype predictors for influencing sleep traits.

The original knockout mouse project (KOMP) was a worldwide collaborative effort to produce embryonic stem (ES) cell lines with one of …

Spatial And Temporal Distribution Of Aquatic Insects In The Dicle (Tigris) River Basin, Turkey, With New Records, Fatma Çeti̇nkaya, Aysel Bekleyen

Turkish Journal of Zoology

We investigated insects of the Dicle (Tigris) River Basin in terms of their composition and spatiotemporal distribution. Larvae, pupae, pupal exuviae, and nymphs of insects were obtained from samples collected by a plankton net monthly during a 1-year period in 2008 and 2009 at seven different sites of the Dicle (Tigris) River Basin. A total of 35 taxa from the orders Trichoptera (1 taxon), Ephemeroptera (3 taxa), and Diptera (31 taxa) were identified. Chironomidae (Diptera) was the most diverse group and was represented by three major subfamilies, namely Tanypodinae (2 taxa), Orthocladiinae (19 taxa), and Chironominae (7 taxa). Among these …

Sexual Dimorphism In Two Catfish Species, Mystus Pelusius (Solander, 1794) And Glyptothorax Silviae Coad, 1981 (Teleostei: Siluriformes), Hamid Reza Esmaeili, Golnaz Sayyadzadeh, Mohammad Amini Chermahini

Turkish Journal of Zoology

Sexual dimorphism of two catfish, Mystus pelusius (Solander, 1794) and Glyptothorax silviae Coad, 1981, is presented based on the examination of external morphology of the fish and morphology of the gonads. We observed sexual dimorphism for M. pelusius in the shape and position of the genital papilla. In the male, the genital papilla was a small, fleshy, pointed and broad-based structure. The pelvic fin was short and did not reach back to the genital papilla. In females of M. pelusius the opening of the genital structure was without any protrusion or with a very small, dot-like structure in a few …

Habitat Use And Activity Of European Glass Lizard, Pseudopus Apodus (Pallas, 1775),In Southeastern Bulgaria, Ivan Telenchev, Daniela Nikolova, Rossen Tzonev

Turkish Journal of Zoology

The way in which animals use the physical and biological resources in habitats is an important aspect of their behavioral ecology. Here, we studied the activity and habitat use of the European glass lizard in two habitats in southeastern Bulgaria during the spring and summer of 2015. We registered behaviors such as basking and movement, and we recorded hiding locations. We also attempted to capture the individual mark of every observed individual, to determine its sex, age, and body temperature, immediately at capture. In parallel, essential environmental parameters were identified: temperature of the air near the lizard, substrate temperature, dominant …

Tarsonemid Mites (Acari, Heterostigmatina) Found In Association With Bark Beetles(Insecta, Curculionidae, Scolytinae) In Iran, Wojciech Magowski, Ali Ahadiyat, Hadi Ostovan

Turkish Journal of Zoology

The authors report on the presence of species of the family Tarsonemidae in association with three bark beetle species (Orthotomicus erosus (Wollaston, 1857), Scolytus scolytus (Fabricius, 1775), and S. multistriatus (Marsham, 1802)) in two provinces in Central and Northern Iran. The following mite species are new for the fauna of Iran: Heterotarsonemus hajekae Smiley and Moser, 1985, H. magowskii Khaustov, 2001, and Tarsonemus crassus (Schaarschmidt, 1959). The genus Heterotarsonemus is newly recorded in Asia. The new record of H. hajekae is the second ever known in the world and H. magowskii is now established as new phoront of the bark …

Evaluating Nonstructural Carbohydrate Variation Of Cool-Season Grasses Based On Genotype, Management And Environment, Kelly Joan Prince

Theses and Dissertations--Plant and Soil Sciences

Understanding how nonstructural carbohydrates fluctuate in pastures and being able to quantify them is an essential component in successfully managing grazing animals that may require high or low nonstructural carbohydrate diets. The objectives of this study were 1) to evaluate the effects of genotype, management, and environment on water-soluble carbohydrates (WSC) and ethanol-soluble carbohydrates (ESC) in cool-season grass pastures in central Kentucky, and 2) to develop near-infrared reflectance spectroscopy (NIRS) equations to predict WSC and ESC in cool-season grasses. Ten cool-season grass cultivars consisting of Kentucky bluegrass, tall fescue, orchardgrass and perennial ryegrass were sampled in the morning and afternoon …

The Role Of Alternative Polyadenylation Mediated By Cpsf30 In Arabidopsis Thaliana, Guijie Hao

Theses and Dissertations--Plant and Soil Sciences

Drought stress is considered one of the most devastating abiotic stress factors that limit crop productivity for modern agriculture worldwide. There is a large range of physiological and biochemical responses induced by drought stress. The responses range from physiological and biochemical to regulation at transcription and posttranscriptional levels. Post-transcription, the products encoded by eukaryotic genes must undergo a series of modifications to become a mature mRNA. Polyadenylation is an important one in terms of regulation. Polyadenylation impacts gene expression through determining the coding and regulation potential of the mRNA, especially when different mRNAs from the same gene may be polyadenylated …

Transcriptional And Post-Translational Regulation Of Terpenoid Indole Alkaloid Biosynthesis In Catharanthus Roseus, Priyanka Paul

Theses and Dissertations--Plant and Soil Sciences

Catharanthus roseus (Madagascar periwinkle) is the exclusive source of an array of terpenoid indole alkaloids (TIAs) that are used in the treatments of hypertension and certain types of cancer. TIA biosynthesis is under stringent spatiotemporal control and is induced by jasmonate (JA) and fungal elicitors. Tryptamine, derived from the indole branch, and secologanin from the iridoid branch are condensed to form the first TIA, strictosidine. Biosynthesis of TIA is regulated at the transcriptional level and several transcription factors (TFs) regulating the expression of genes encoding key enzymes in the pathway have been isolated and characterized. The JA-responsive APETALA2/ETHYLENE RESPONSE FACTOR …

Mapping And Analyzing The Spatial Distribution Of Thetribe Triticeae Dumort. (Poaceae) In Turkey, Hakan Mete Doğan, Evren Cabi̇, Musa Doğan

Turkish Journal of Botany

Triticeae Dumort. (Poaceae), or true grasses, the fifth-largest plant family in the world, are of great importance in terms of human life and civilization. Therefore, understanding the spatial distribution of the family members is important for botanists, plant producers, and breeders. Turkey is one of two gene centers of this family. In this study, the spatial distribution of Triticeae in Turkey was mapped in geographic information systems (GIS) by utilizing a large number of specimens collected from 1006 georeferenced sampling sites between 2004 and 2010. Canonical correspondence analysis (CCA) was carried out in order to understand the spatial distribution of …

A Karyomorphological Study On The Genus Muscari Mill. Growing In Kahramanmaraş (Turkey), Serpi̇l Demi̇rci̇ Kayiran, Fatma Neri̇man Özhatay

Turkish Journal of Botany

The karyotypes and idiograms of nine Muscari Mill. species from 21 populations distributed in Kahramanmaraş province, southern Turkey, were examined: M. armeniacum Leichtlin ex Baker 2n = 18 (diploid); M. aucheri (Boiss.) Baker 2n = 18 (diploid); M. anatolicum Cowley & Özhatay 2n = 27 (triploid); M. neglectum Guss. 2n = 18 (diploid), 36 (tetraploid), 54 (hexaploid); M. parviflorum Desf. 2n = 36 (tetraploid); M. babachii Eker & Koyuncu 2n = 18 (diploid); M. comosum Miller 2n = 18 (diploid); M. tenuiflorum Tausch 2n = 18 (diploid); and M. azureum Fenzl 2n = 18 (diploid). M. anatolicum is an endemic …

Entoloma Mengsongense Sp. Nov. (Entolomataceae, Agaricales),A Remarkable Blue Mushroom From Yunnan Province, China, Aseni Navoda Ediriweera, Samantha Chandranath Karunarathna, Jianchu Xu, Kevin David Hyde, Peter Edward Mortimer

Turkish Journal of Botany

A new agaric species, Entoloma mengsongense, is described and illustrated from samples collected in Mengsong, Yunnan Province, China. Microscopic observations were carried out to describe the micro- and macromorphological characteristics of specimens, and molecular identification was performed to verify the novelty of the species. The species is mainly recognized by its conical to plano-concave pileus, with yellowish brown fibril and 4?8 × 4?6 µm sized, cuboid?quadrate basidiospores. Molecular phylogenetic analysis using ITS sequence data also indicated that this is a new species closely related to E. virescens and E. hochstetteri. Morphological and molecular phylogenetic differences separate E. mengsongense from all …

First Data On The Taxonomic Diversity Of The Portulaca Oleracea Aggregate (Portulacaceae) In Iran, Mohammad Amini Rad, Sepideh Sajedi, Gianniantonio Domina

Turkish Journal of Botany

The review of specimens from Iran belonging to the Portulaca oleracea L. aggregate resulted in the recognition of six microspecies: P. cypria Danin, P. granulatostellulata (Poelln.) Ricceri & Arrigoni, P. nitida (Danin & H.G.Baker) Ricceri & Arrigoni, P. rausii Danin, P. socotrana Domina & Raimondo, and P. trituberculata Danin, Domina & Raimondo, all reported for the first time for the flora of Iran. The identification was based on the microscopic study of seeds. It is noted that P. oleracea is not confirmed for Iran. Distribution data and an identification key for Portulaca microspecies in Iran are presented.

Primers For Castilleja And Their Utility Across Orobanchaceae: I. Chloroplast Primers, Maribeth Latvis, Sebastian M. E. Mortimer, Diego F. Morales-Briones, Samuel Torpey, Simon Uribe-Convers, Sarah J. Jacobs, Sarah Mathews, David C. Tank

Natural Resource Management Faculty Publications

Premise of the study: Chloroplast primers were developed from genomic data for the taxonomically challenging genus Castilleja. We further tested the broader utility of these primers across Orobanchaceae, identifying a core set of chloroplast primers amplifying across the clade.
Methods and Results: Using a combination of three low-coverage Castilleja genomes and sequence data from 12 Castilleja plastomes, 76 primer combinations were specifically designed and tested for Castilleja. The primers targeted the most variable portions of the plastome and were validated for their applicability across the clade. Of these, 38 primer combinations were subsequently evaluated in silico and then validated across …

Differential Requirements For Myeloid Leukemia Ifn-Γ Conditioning Determine Graft-Versus-Leukemio Resistance And Sensitivity, Catherine Matte-Martone, Jinling Liu, Meng Zhou, Maria Chikina, Douglas R. Green, John T. Harty, Warren D. Shlomchik

Engineering Management and Systems Engineering Faculty Research & Creative Works

The graft-versus-leukemia (GVL) effect in allogeneic hematopoietic stem cell transplantation (alloSCT) is potent against chronic phase chronic myelogenous leukemia (CP-CML), but blast crisis CML (BC-CML) and acute myeloid leukemias (AML) are GVL resistant. To understand GVL resistance, we studied GVL against mouse models of CP-CML, BC-CML, and AML generated by the transduction of mouse BM with fusion cDNAs derived from human leukemias. Prior work has shown that CD4+ T cell-mediated GVL against CP-CML and BC-CML required intact leukemia MHCII; however, stem cells from both leukemias were MHCII negative. Here, we show that CP-CML, BC-CML, and AML stem cells upregulate MHCII …

A Systematic Review Of Context Bias In Invasion Biology, Robert Warren

Biology Faculty Datasets

The language that scientists use to frame biological invasions may reveal inherent bias - including how data are interpreted. A frequent critique of invasion biology is the use of value-laden language that may indicate context bias. Here we use a systematic study of language and interpretation in papers drawn from invasion biology to evaluate whether there is a link between the framing of papers and the interpretation of results. We also examine any trends in context bias in biological invasion research. We examined 651 peer-reviewed invasive species competition studies and implemented a rigorous systematic review to examine bias in the …

Nest-Mediated Seed Dispersal, Robert Warren

Biology Faculty Datasets

Many plant seeds travel on the wind and through animal ingestion or adhesion; however, an overlooked dispersal mode may lurk within those dispersal modes. Viable seeds may remain attached or embedded within materials birds gather for nest building. Our objective was to determine if birds inadvertently transport seeds when they forage for plant materials to build, insulate and line nests. We also hypothesized that nest-mediated dispersal might be particularly useful for plants that use mating systems with self-fertilized seeds embedded in their stems. We gathered bird nests in temperate forests and fields in eastern North America and germinated the plant …

Reassessing Survival, Movement, Resource Selection, And Sightability Of Pronghorn In Western South Dakota, Adam Kauth

Electronic Theses and Dissertations

Limited information exists on the survival, movements, resource selection, and densities of pronghorn (Antilocapra americana) inhabiting sagebrush-steppe regions within the Dakotas. Primary objectives of this study were to develop a sightability model for aerial surveying and to document survival rates and movement patterns for pronghorn in western South Dakota. Secondary objectives were to estimate seasonal home ranges, daily movements, determine cause-specific mortality, and evaluate summer and winter resource use and selection. Additionally, we evaluated exposure of pronghorn to novel diseases including Epizootic Hemorrhagic Disease (EHD), West Nile Virus (WNV), Blue Tongue Virus (BTV), Bovine Viral Diarrhea Virus (BVDV), Neospora, and …

Evaluation Of A Bioprocessed Soybean Meal On Nursery Pig Immune Status And Disease Resistance, Jacob R. Koepke

Electronic Theses and Dissertations

Weaning is a stressful time in a piglet’s life that can have negative impacts on performance and health if not managed properly. The objective of this research was to evaluate the effects of a bioprocessed SBM alone or in combination with spray-dried plasma (SDP) or fishmeal (FM) on immune response at weaning with no imminent disease threat and during a porcine reproductive and respiratory virus (PRRSV) challenge. In the first trial, 239 pigs (initial BW 6.56 ± 0.87 kg, 21 d of age) were used in a 35-d study and allotted to one of 4 dietary treatments (10 pens/trt) according …

Identification Of Cdks As Novel Targets Of Aspirin And Its Metabolites: A Potential Role In Cancer Prevention, Rakesh Dachineni

Electronic Theses and Dissertations

Background:
The pursuit of drugs that inhibit cyclin-dependent kinases (CDKs) has been an intense area of research for more than 15 years. Till date, although multiple CDK inhibitors have been identified and few are undergoing clinical trials, only two synthetic drugs have been approved by Food and Drug Administration (FDA) for use in the treatment of cancer. These two drugs are mainly used for the treatment of metastatic breast cancer in combination with other drugs; however they have toxicity associated with their use and extends patients life not more than 24 months. Therefore, there is an urgent need for …

Development Of Best Management Practices For Production Of Ethiopian Mustard (Brassica Carinata) In South Dakota, Phillip Kenneth Alberti

Electronic Theses and Dissertations

Ethiopian mustard (Brassica carinata) is an alternative non-food oilseed crop which has received interest for its potential as a low-input option for production in the Northern Great Plains (NGP). As B. carinata is a new crop to the NGP, the best management practices have yet to be developed. The overall goal of this project was to develop best management practices for B. carinata production in two diverse agroenvironments in South Dakota. Two field experiments were conducted to assess the response of two B. carinata varieties to i) four seeding rates (4.5, 9, 13.5, and 18 kg ha^{-1 …}

Swift Foxes In Southwestern South Dakota: Assessing The Current Status Of A Reintroduced Population, Sarah Ann Nevison

Electronic Theses and Dissertations

Swift foxes (Vulpes velox) were reintroduced into Badlands National Park between 2003 and 2006 after being nearly extirpated from South Dakota in the early 1900’s. Genetic analysis provided strong evidence that the reintroduction was successful, but viability analysis indicated the population may be in jeopardy with a high probability of extinction. Recently, the population has declined due to various biotic and abiotic factors (e.g., recent weather patterns, effects of plague [Yersinia pestis], and increased coyote [Canis latrans] numbers). No information on the status of swift foxes has been collected since 2009. Between 2014 and 2016, the objectives of this study …

Growth Potential And Genetic Diversity Of Yellow Perch In South Dakota, Alex J. Rosburg

Electronic Theses and Dissertations

Yellow Perch Perca flavescens represent a valued sport fish throughout their range and are an important prey species for piscivorous fishes. In South Dakota, two distinct population types of Yellow Perch have been characterized that differ in growth, survival, and recruitment patterns. Fast growth populations exhibit high growth rates, high mortality, low population density, and inconsistent recruitment. In contrast, slow growth populations are characterized by reduced growth rates, low mortality, high population density, and relatively consistent recruitment. The role of genetics in contributing to these population characteristics is currently unknown. To address these questions, I used high-throughput restriction-site associated DNA …

The Home Environment And Parenting Practices: Associations With Physical Activity And Sedentary Time In Preschool-Age Children, Emily C. Huber

Electronic Theses and Dissertations

Preschool-age children have the potential to be influenced by their physical home environment and their parents’ physical activity (PA) practices more than older children as preschool-age children are more reliant on parents for PA opportunities. Previous research with this focus has relied predominantly on various subjective assessments of child activity, often resulting in overestimation of PA and underestimation of sedentary time (ST). Collectively, this dissertation project explored the associations among home environment factors, parent PA practices, parent satisfaction of children’s body size and children’s PA and ST by utilizing objective measures of activity and the full range of PA intensities …

Effects Of Maternal Plane Of Nutrition On Early Embryo Development And Offspring Performance, Erin E. Beck

Electronic Theses and Dissertations

Nutritional changes immediately after insemination can result in increased embryonic mortality, but the mechanisms that cause this increased mortality and the impact on the embryos that survive are not known. Therefore, two experiments were conducted to evaluate the impact of a nutritional change immediately following AI on calf performance, global DNA methylation, estrus expression and interval to estrus in heifers, peripheral metabolites, uterine luminal fluid metabolites, and day 6 embryo quality. In the first study (chapter 2) Angus-cross heifers (n = 142) were allotted into two developmental treatments: drylot or range. All heifers were fixed-time inseminated to a single sire …

Genetic Interference And Receptor Biology Of Neglected Influenza Viruses, Runxia Liu

Electronic Theses and Dissertations

Influenza B virus (IBV) is an important pathogen that infects humans and causes seasonal influenza epidemics. By using next-generation sequencing (NGS) approach, we analyzed total mRNAs extracted from A549 cells infected with B/Brisbane/60/2008, and identified four defective genomes in IBV with two from the polymerase basic subunit 1 (PB1) segment and the other two from the matrix (M) segment. Each of them can potently inhibit the replication of IBV. One derived from PB1 segment was able to interfere modestly with influenza A virus (IAV) replication. The productions of the four defective RNAs are not dependent on the cell types. The …

Benefits Of Movement For Academic Achievement And Classroom Behaviors, Alison A. Waltz

Graduate Research Papers

The purpose of this review is to discuss the benefits of using movement throughout the daily routine of an early childhood classroom. The research focused on using movement to increase literacy and mathematics knowledge, teach self-regulation skills and increase attention. and have different seating options that would allow for consistent movement. Findings of this review show that movement does have academic and behavioral benefits in the early childhood classroom. Limitations are recognized for the research presented and recommendations are given for ways to incorporate movement into the classroom. To conclude this review of literature. educational policies and future research are …

Occurrence Of Atlantic Tarpon, Megalops Atlanticus, Leptocephali In The Mississippi Sound Estuary, Patrick M. Graham, James S. Franks, Jason D. Tilley, Dyan P. Gibson, Evan J. Anderson

Gulf and Caribbean Research

No abstract provided.

Neuropathological And Genetic Correlates Of Survival And Dementia Onset In Synucleinopathies: A Retrospective Analysis, David J. Irwin, Murray Grossman, Daniel Weintraub, Howard I. Hurtig, John E. Duda, Sharon X. Xie, Edward B. Lee, Vivianna M. Van Deerlin, Oscar L. Lopez, Julia K. Kofler, Peter T. Nelson, Gregory A. Jicha, Randy Woltjer, Joseph F. Quinn, Jeffery Kaye, James B. Leverenz, Debby Tsuang, Katelan Longfellow, Dora Yearout, Walter Kukull, C. Dirk Keene, Thomas J. Montine, Cyrus P. Zabetian, John Q. Trojanowski

Sanders-Brown Center on Aging Faculty Publications

Background

Great heterogeneity exists in survival and the interval between onset of motor symptoms and dementia symptoms across synucleinopathies. We aimed to identify genetic and pathological markers that have the strongest association with these features of clinical heterogeneity in synucleinopathies.

Methods

In this retrospective study, we examined symptom onset, and genetic and neuropathological data from a cohort of patients with Lewy body disorders with autopsy-confirmed α synucleinopathy (as of Oct 1, 2015) who were previously included in other studies from five academic institutions in five cities in the USA. We used histopathology techniques and markers to assess the burden of …

Characterization Of The Beta1 Gene, Which Might Play A Role In Beta Vulgaris Subsp. Maritima Salt Tolerance, Özge Uysal, Çi̇ğdem Çakiroğlu, Ahmet Koç, Hüseyi̇n Çağlar Karakaya

Turkish Journal of Botany

Salinity stress has a negative impact on plant growth, which affects homeostasis and productivity. The uptake of nonessential salt ions changes the osmotic balance of the cell and causes dehydration. Higher plants develop salt tolerance mechanisms to avoid dehydration. Sea beet (Beta vulgaris subsp. maritima) is a halophytic ancestor of cultivated sugar beet that displays salt stress tolerance. In this study, we screened a B. vulgaris subsp. maritima cDNA library in Saccharomyces cerevisiae strain Ab11c (ena1Δ, nha1/4Δ, nhx1Δ), which is deficient in sodium transport, to find sodium-detoxifying genes. We identified a cDNA construct, named BETA1, providing salt tolerance to yeast …

Fish Spawning Aggregations: Where Well-Placed Management Actions Can Yield Big Benefits For Fisheries And Conservation, Brad Erisman, William Heyman, Shinichi Kobara, Tal Ezer, Simon Pittman, Octavio Aburto-Oropeza, Richard S. Nemeth

CCPO Publications

Marine ecosystem management has traditionally been divided between fisheries management and biodiversity conservation approaches, and the merging of these disparate agendas has proven difficult. Here, we offer a pathway that can unite fishers, scientists, resource managers and conservationists towards a single vision for some areas of the ocean where small investments in management can offer disproportionately large benefits to fisheries and biodiversity conservation. Specifically, we provide a series of evidenced-based arguments that support an urgent need to recognize fish spawning aggregations (FSAs) as a focal point for fisheries management and conservation on a global scale, with a particular emphasis placed …