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Reproductive Life History And Shell Shape Variation Of Three Species Of Elimia (Pleuroceridae) In The Lower Etowah River Basin, Ellen Winant 2018 Kennesaw State University

Reproductive Life History And Shell Shape Variation Of Three Species Of Elimia (Pleuroceridae) In The Lower Etowah River Basin, Ellen Winant

Master of Science in Integrative Biology Theses

Pleurocerid snail diversity in the Southeastern United States is thought to be high, but estimates of overall diversity are compromised by uncertain taxonomy. This is particularly true for the genus Elimia, where reliance on conchological characters described by early naturalists for species designation failed to recognize significant variability in shell morphology. In this study we examine three putative species of Elimia to determine if quantifiable conchological characters are associated with differences in life history characteristics. Individuals of E. modesta, E. carinocostata, and E. cariniferawere collected from nine sites in three streams in the lower Etowah River Basin. Females were ...


Aspects Of The Reproductive Biology And Growth Of The Mississippi Silvery Minnow, Hybognathus Nuchalis (Agassiz, 1855) (Teleostei: Cyprinidae) From The Pearl River, Louisiana., Arely Ramírez-García, Kyle R. Piller 2018 Universidad Michoacana de San Nicolás de Hidalgo

Aspects Of The Reproductive Biology And Growth Of The Mississippi Silvery Minnow, Hybognathus Nuchalis (Agassiz, 1855) (Teleostei: Cyprinidae) From The Pearl River, Louisiana., Arely Ramírez-García, Kyle R. Piller

Southeastern Fishes Council Proceedings

The reproductive biology and growth of the Mississippi Silvery Minnow, Hybognathus nuchalis, is described from multiple sites in the Pearl River, Louisiana. Individuals were collected from August 2011 to August 2012. Ovarian weights, expressed as a percentage of body weights, peaked in December. Size structure ranged from 29.0 to 60.0 mm SL for females and 25.0 to 56.0 mm SL for males. Mature ova were found from November to January. Females reached first maturity (L50) at 37.0 mm SL and L50 for males is at 41.0 mm SL. Sex ratio (females:males) is biased ...


Hitchhiker's Guide To Migration: Effects Of Experimental Parasitic Infection And Other Immune Challenges On Migratory Traits Of Sparrows, Tosha R. Kelly 2018 The University of Western Ontario

Hitchhiker's Guide To Migration: Effects Of Experimental Parasitic Infection And Other Immune Challenges On Migratory Traits Of Sparrows, Tosha R. Kelly

Electronic Thesis and Dissertation Repository

Seasonal migration exposes animals to a variety of habitats and parasites, and if infected migratory birds migrate successfully there is great potential for birds to transport infectious diseases long distances. Our current understanding of whether birds contribute to the spread of disease relies upon observational field studies that are limited in their ability to discern cause from effect. Using captive and field-based experiments for my doctoral research, I answered three research questions: (1) are nocturnal migratory restlessness (Zugunruhe) and body condition affected by mounting an acute phase immune response during migration; (2) what are the impacts of parasitic infection on ...


42 - A Comparison Of Two Automated Bat-Call Classifying Software Programs., Sara Robertson, Michael Bender 2018 University of North Georiga

42 - A Comparison Of Two Automated Bat-Call Classifying Software Programs., Sara Robertson, Michael Bender

Georgia Undergraduate Research Conference (GURC)

Bats are an integral part of many ecosystems and provide numerous valuable services such as pollination, seed dispersal and, in our region, insect control. Sampling the bat community to assess ecosystem health and document bat species of conservation interest is typically accomplished by capturing individuals in combination with collecting acoustic data. Acoustic sampling has the advantages of being effective in many varied habitat types, potentially less biased than capture data, and non-invasive to the bats. Many surveys are now entirely acoustic as the technology and ability to assign species identification to each has advanced substantially during the last few decades ...


Proposed Interventions For The Containment Of Influenza In Boarding Schools And Small Colleges, Alexis Vittengl 2018 Illinois State University

Proposed Interventions For The Containment Of Influenza In Boarding Schools And Small Colleges, Alexis Vittengl

Annual Symposium on Biomathematics and Ecology: Education and Research

No abstract provided.


Differential Analysis Of Chromatin Accessibility And Histone Modifications For Predicting Mouse Developmental Enhancers, Shaliu Fu, Qin Wang, Jill E. Moore, Michael J. Purcaro, Henry E. Pratt, Kaili Fan, Cuihua Gu, Cizhong Jiang, Ruixin Zhu, Anshul Kundaje, Aiping Lu, Zhiping Weng 2018 Tongji University,China

Differential Analysis Of Chromatin Accessibility And Histone Modifications For Predicting Mouse Developmental Enhancers, Shaliu Fu, Qin Wang, Jill E. Moore, Michael J. Purcaro, Henry E. Pratt, Kaili Fan, Cuihua Gu, Cizhong Jiang, Ruixin Zhu, Anshul Kundaje, Aiping Lu, Zhiping Weng

Program in Bioinformatics and Integrative Biology Publications and Presentations

Enhancers are distal cis-regulatory elements that modulate gene expression. They are depleted of nucleosomes and enriched in specific histone modifications; thus, calling DNase-seq and histone mark ChIP-seq peaks can predict enhancers. We evaluated nine peak-calling algorithms for predicting enhancers validated by transgenic mouse assays. DNase and H3K27ac peaks were consistently more predictive than H3K4me1/2/3 and H3K9ac peaks. DFilter and Hotspot2 were the best DNase peak callers, while HOMER, MUSIC, MACS2, DFilter and F-seq were the best H3K27ac peak callers. We observed that the differential DNase or H3K27ac signals between two distant tissues increased the area under the precision-recall ...


Drug-Resistance And Population Structure Of Plasmodium Falciparum Across The Democratic Republic Of Congo Using High-Throughput Molecular Inversion Probes, Ozkan Aydemir, Nicholas J. Hathaway, Patrick W. Marsh, Alice Tran, Thomas Reimonn, Jeffrey A. Bailey 2018 University of Massachusetts Medical School

Drug-Resistance And Population Structure Of Plasmodium Falciparum Across The Democratic Republic Of Congo Using High-Throughput Molecular Inversion Probes, Ozkan Aydemir, Nicholas J. Hathaway, Patrick W. Marsh, Alice Tran, Thomas Reimonn, Jeffrey A. Bailey

Open Access Articles

A better understanding of the drivers of the spread of malaria parasites and drug resistance across space and time is needed. These drivers can be elucidated using genetic tools. Here, a novel molecular inversion probe (MIP) panel targeting all major drug-resistance mutations and a set of microsatellites was used to genotype Plasmodium falciparum infections of 552 children from the 2013-2014 Demographic and Health Survey conducted in the Democratic Republic of the Congo (DRC). Microsatellite-based analysis of population structure suggests that parasites within the DRC form a homogeneous population. In contrast, sulfadoxine-resistance markers in dihydropteroate synthase show marked spatial structure with ...


The Transcriptome Of The Bermuda Fireworm Odontosyllis Enopla (Annelida: Syllidae): A Unique Luciferase Gene Family And Putative Epitoky-Related Genes, Mercer R. Brugler, M. Teresa Aguado, Michael Tessler, Mark Siddall 2018 NYC College of Technology (CUNY)

The Transcriptome Of The Bermuda Fireworm Odontosyllis Enopla (Annelida: Syllidae): A Unique Luciferase Gene Family And Putative Epitoky-Related Genes, Mercer R. Brugler, M. Teresa Aguado, Michael Tessler, Mark Siddall

Publications and Research

The Bermuda fireworm Odontosyllis enopla exhibits an extremely tight circalunar circadian behavior that results in an impressive bioluminescent mating swarm, thought to be due to a conventional luciferase-mediated oxidation of a light-emitting luciferin. In addition, the four eyes become hypertrophied and heavily pigmented, and the nephridial system is modified to store and release gametes and associated secretions. In an effort to elucidate transcripts related to bioluminescence, circadian or circalunar periodicity, as well as epitoky-related changes of the eyes and nephridial system, we examined the transcriptomic profile of three female O. enopladuring a bioluminescent swarm in Ferry Reach, Bermuda. Using ...


Modeling And Mapping Addiction In The Zebrafish, Danio Rerio.Docx, Bradley Serpa 2018 Kennesaw State University

Modeling And Mapping Addiction In The Zebrafish, Danio Rerio.Docx, Bradley Serpa

Bradley Serpa

Driven by the communication of dopamine, the vertebrate reward system has been evolutionarily conserved to maintain survival and optimize fitness.  The neural circuits governing this system integrate sensory stimuli to produce appropriate, self-preserving responses that underlie experience-based learning.  In the most primitive vertebrates, dopamine release in neuronal circuits drives homeostatic behaviors, such as seeking nutrients, finding a mate, or avoiding danger.   From agnathans to mammals, dopaminergic synthesis and signaling genes and molecules, along with neuronal pathways and reward system-based behaviors, remain highly conserved.  Dopamine signaling proteins include two classes of metabotropic G-Protein Receptor Coupled Dopamine Receptors, D1-like (DRD1) and D2-like ...


Unfolded Protein Response Pathways In Skeletal Muscle Homeostasis., Kyle R. Bohnert 2018 University of Louisville

Unfolded Protein Response Pathways In Skeletal Muscle Homeostasis., Kyle R. Bohnert

Electronic Theses and Dissertations

Skeletal muscle mass, contractile properties, and metabolic function are regulated through the coordinated activation of multiple intracellular signaling pathways and genetic reprogramming. The endoplasmic reticulum (ER) plays a pivotal role in protein folding and calcium homeostasis in many cell types, including skeletal muscle. Disruption of calcium levels or accumulation of misfolded proteins in the ER lumen leads to stress, which results in the activation of a signaling network called the unfolded protein response (UPR). Further, recent studies have suggested that in certain conditions, UPR pathways can be activated independent of ER stress. However, the role of ER stress and the ...


Immune Function And Metabolism Of Hibernating North American Bats With White-Nose Syndrome, Briana Nicole Anderson 2018 Missouri State University

Immune Function And Metabolism Of Hibernating North American Bats With White-Nose Syndrome, Briana Nicole Anderson

MSU Graduate Theses

White-nose syndrome (WNS) causes substantial mortality in certain species of hibernating North American bats. The responsible agent is Pseudogymnoascus destructans (Pd), a fungus which causes physiological complications such as increased arousals and energy depletion during the hibernation season. Tricolored bats (Perimyotis subflavus) and northern long-eared bats (Myotis septentrionalis) suffer extensive WNS mortality, while gray bats (Myotis grisescens) and big brown bats (Eptesicus fuscus) are infected, but mortality is rarely observed. It is hypothesized that there is a difference in immune responses and/or hibernation metabolism between these bat species, resulting in this interspecific variation in disease severity. To test these ...


Effects Of Drift Macroalgae On Sediment Nitrogen Cycling In Thalassia Testudinum Beds Of St. Joseph Bay, Fl, Erica Strope 2018 Kennesaw State University

Effects Of Drift Macroalgae On Sediment Nitrogen Cycling In Thalassia Testudinum Beds Of St. Joseph Bay, Fl, Erica Strope

Master of Science in Integrative Biology Theses

Anthropogenic nitrogen (N) loading and eutrophication can affect valuable ecosystem services and seagrass habitats by modifying structural and functional aspects of estuarine communities including increasing and prolonging macroalgae blooms. In some contexts, macroalgae may play a key role in N cycling pathways because they can alter sediment chemistry. Previous research has associated drift macroalgae blooms with elevated dissolved inorganic N concentrations in sediments as a result of increased remineralization of organic matter, but drift macroalgae effects on microbial N transformation pathways are not well understood. This study quantified the effects of macroalgae on estuarine N cycling in Thalassia testudinum seagrass ...


Elimination Of Pcr Duplicates In Rna-Seq And Small Rna-Seq Using Unique Molecular Identifiers, Yu Fu, Pei-Hsuan Wu, Timothy J. Beane, Phillip D. Zamore, Zhiping Weng 2018 University of Massachusetts Medical School

Elimination Of Pcr Duplicates In Rna-Seq And Small Rna-Seq Using Unique Molecular Identifiers, Yu Fu, Pei-Hsuan Wu, Timothy J. Beane, Phillip D. Zamore, Zhiping Weng

Program in Bioinformatics and Integrative Biology Publications and Presentations

BACKGROUND: RNA-seq and small RNA-seq are powerful, quantitative tools to study gene regulation and function. Common high-throughput sequencing methods rely on polymerase chain reaction (PCR) to expand the starting material, but not every molecule amplifies equally, causing some to be overrepresented. Unique molecular identifiers (UMIs) can be used to distinguish undesirable PCR duplicates derived from a single molecule and identical but biologically meaningful reads from different molecules.

RESULTS: We have incorporated UMIs into RNA-seq and small RNA-seq protocols and developed tools to analyze the resulting data. Our UMIs contain stretches of random nucleotides whose lengths sufficiently capture diverse molecule species ...


Pirscan: A Webserver To Predict Pirna Targeting Sites And To Avoid Transgene Silencing In C. Elegans, Wei-Sheng Wu, Wei-Che Huang, Jordan S. Brown, Donglei Zhang, Xiaoyan Song, Hao Chen, Shikui Tu, Zhiping Weng, Heng-Chi Lee 2018 National Cheng Kung University

Pirscan: A Webserver To Predict Pirna Targeting Sites And To Avoid Transgene Silencing In C. Elegans, Wei-Sheng Wu, Wei-Che Huang, Jordan S. Brown, Donglei Zhang, Xiaoyan Song, Hao Chen, Shikui Tu, Zhiping Weng, Heng-Chi Lee

Program in Bioinformatics and Integrative Biology Publications and Presentations

pirScan is a web-based tool for identifying C. elegans piRNA-targeting sites within a given mRNA or spliced DNA sequence. The purpose of our tool is to allow C. elegans researchers to predict piRNA targeting sites and to avoid the persistent germline silencing of transgenes that has rendered many constructs unusable. pirScan fulfills this purpose by first enumerating the predicted piRNA-targeting sites present in an input sequence. This prediction can be exported in a tabular or graphical format. Subsequently, pirScan suggests silent mutations that can be introduced to the input sequence that would allow the modified transgene to avoid piRNA targeting ...


Sperm-Mediated Effects Of Predation Risk On Reproduction In Male Threespined Sticklebacks, Shayne Kempfer, Erika Carlson, Jennifer Hellmann, Jason Keagy, Alison Bell 2018 Rend Lake College

Sperm-Mediated Effects Of Predation Risk On Reproduction In Male Threespined Sticklebacks, Shayne Kempfer, Erika Carlson, Jennifer Hellmann, Jason Keagy, Alison Bell

Phenotypic Plasticity Research Experience for Community College Students

Threespined sticklebacks, Gasterosteus aculeatus, exhibit male-only parental care, but will decrease paternal care if exposed to predators while given care or if their mate has had prior experiences with predators. The offspring will experience lasting effects based on the experience of their parents (behavior-mediated transgenerational plasticity). While other studies have concluded that male exposure to predators prior to fertilization (sperm-mediated transgenerational plasticity) impacts offspring, whether sperm-mediated effects exist in sticklebacks, and for how many generations the effects persist is unknown. Courtship trials with both predator exposed and predator unexposed females with six male treatment groups shows significant impact of maternal ...


Sources And Fates Of Carbamyl Phosphate: A Labile Energy-Rich Molecule With Multiple Facets., Dashuang Shi, Ljubica Caldovic, Mendel Tuchman 2018 George Washington University

Sources And Fates Of Carbamyl Phosphate: A Labile Energy-Rich Molecule With Multiple Facets., Dashuang Shi, Ljubica Caldovic, Mendel Tuchman

Genomics and Precision Medicine Faculty Publications

Carbamyl phosphate (CP) is well-known as an essential intermediate of pyrimidine and arginine/urea biosynthesis. Chemically, CP can be easily synthesized from dihydrogen phosphate and cyanate. Enzymatically, CP can be synthesized using three different classes of enzymes: (1) ATP-grasp fold protein based carbamyl phosphate synthetase (CPS); (2) Amino-acid kinase fold carbamate kinase (CK)-like CPS (anabolic CK or aCK); and (3) Catabolic transcarbamylase. The first class of CPS can be further divided into three different types of CPS as CPS I, CPS II, and CPS III depending on the usage of ammonium or glutamine as its nitrogen source, and whether


The Influence Of Dose Of A Plant-Derived Volatile Cue On Arabidopsis Thaliana Resistance Against Insect Herbivores, Sarah Bissmeyer, Grace Freundlich, Christopher Frost 2018 University of Louisville

The Influence Of Dose Of A Plant-Derived Volatile Cue On Arabidopsis Thaliana Resistance Against Insect Herbivores, Sarah Bissmeyer, Grace Freundlich, Christopher Frost

Kentucky Journal of Undergraduate Scholarship

Green leaf volatiles (GLVs) are plant-derived volatile organic compounds (VOCs) known to affect plant-plant communication. Specifically, GLVs can facilitate “priming”, whereby plants initiate a faster and stronger defensive response to a subsequent stress. The stress-induced GLV cis-3-hexenyl acetate (z3HAC) is a known priming cue, yet whether the concentration of the z3HAC affects plant defenses is unknown. Here, we tested the hypothesis that z3HAC concentration of would influence Arabidopsis thaliana resistance against a specialist (Trichoplusia ni) and generalist (Spodoptera exigua) herbivore. Our z3HAC treatments ranged from 0-100 ng/hr, which spanned the range of recorded natural ...


Radical Social Ecology As Deep Pragmatism: A Call To The Abolition Of Systemic Dissonance And The Minimization Of Entropic Chaos, Arielle Brender 2018 Fordham University

Radical Social Ecology As Deep Pragmatism: A Call To The Abolition Of Systemic Dissonance And The Minimization Of Entropic Chaos, Arielle Brender

Student Theses 2015-Present

This paper aims to shed light on the dissonance caused by the superimposition of Dominant Human Systems on Natural Systems. I highlight the synthetic nature of Dominant Human Systems as egoic and linguistic phenomenon manufactured by a mere portion of the human population, which renders them inherently oppressive unto peoples and landscapes whose wisdom were barred from the design process. In pursuing a radical pragmatic approach to mending the simultaneous oppression and destruction of the human being and the earth, I highlight the necessity of minimizing entropic chaos caused by excess energy expenditure, an essential feature of systems that aim ...


Thermoregulatory Dysfunction In Multiple Sclerosis, Dustin R. Allen 2018 Southern Methodist University

Thermoregulatory Dysfunction In Multiple Sclerosis, Dustin R. Allen

Department of Applied Physiology and Wellness Theses and Dissertations

Multiple sclerosis (MS) is a progressive neurological disease of the central nervous system (CNS) affecting an estimated 2.3 million people worldwide. Marked by lesions in the brain and spinal cord, MS leads to conduction abnormalities in the CNS. Evidence suggests ~60% of individuals with MS experience temporary worsening of their symptoms upon exposure to heat. Adding complexity, observational evidence suggests these individuals exhibit reduced thermoregulatory responses in upon increases in core temperature. Consequently, these individuals face a vicious cycle of heat sensitivity and thermoregulatory dysfunction, substantially impacting their quality of life. With this in mind, our lab is dedicated ...


Childhood Poverty And Its Effects On The Brain: Physiological And Functional Implications, Lauren Scandrett 2018 University of Wyoming

Childhood Poverty And Its Effects On The Brain: Physiological And Functional Implications, Lauren Scandrett

Honors Theses AY 17/18

One out of every five American children lives below the federal poverty line. Considering that poverty is deemed one of the most influential risk factors for poor developmental outcomes, it is critical to understand what effect poverty has on the developing brain and how those brain changes affect a child’s life. Poverty is chiefly defined by having a low socioeconomic status (SES), but a low SES is often accompanied by other influencers, such as nutrition and mental stimulation, termed poverty co-factors. Other poverty co-factors include, but are not limited to, maternal stress and malnutrition, environmental toxins, parental nurturance, and ...


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