Biology Commons^™

Responses Of Early-Successional Songbirds To A Two-Stage Shelterwood Harvest For Oak Forest Regeneration, Eric L. Margenau, Yong Wang, Callie J. Schweitzer

Faculty & Staff Scholarship

Background: The early stage of forest succession following disturbance is characterized by a shift in songbird com- position as well as increased avian richness due to increased herbaceous growth in the forest understory. However, regeneration of woody species eventually outcompetes the herbaceous understory, subsequently shifting vegetation communities and decreasing availability of vital foraging and nesting cover for disturbance-dependent birds, ulti- mately resulting in their displacement. These early stages following forest disturbance, which are declining through- out the eastern United States, are ephemeral in nature and birds depend on such disturbances for nesting and other purposes throughout their lives.

Methods: We …

Integrated Analysis Of Lncrna And Mrna Expression In Rainbow Trout Families Showing Variation In Muscle Growth And Fillet Quality Traits, Ali Ali, Rafet Al-Tobasei, Brett Kenney, Timothy D. Leeds, Mohamed Salem

Faculty & Staff Scholarship

Muscle yield and quality traits are important for the aquaculture industry and consumers. Genetic selection for these traits is difficult because they are polygenic and result from multifactorial interactions. To study the genetic architecture of these traits, phenotypic characterization of whole body weight (WBW), muscle yield, fat content, shear force and whiteness were measured in ~500 fish representing 98 families from a growth-selected line. RNA-Seq was used to sequence the muscle transcriptome of different families exhibiting divergent phenotypes for each trait. We have identified 240 and 1,280 differentially expressed (DE) protein-coding genes and long noncoding RNAs (lncRNAs), respectively, in fish …

Repeated Translocation Of A Gene Cassette Drives Sex-Chromosome Turnover In Strawberries, Jacob A. Tennessen, Na Wei, Shannon C.K. Straub, Rajanikanth Govindarajulu, Aaron Liston, Tia-Lynn Ashman

Faculty & Staff Scholarship

Turnovers of sex-determining systems represent important diversifying forces across eukary- otes. Shifts in sex chromosomes—but conservation of the master sex-determining genes— characterize distantly related animal lineages. Yet in plants, in which separate sexes have evolved repeatedly and sex chromosomes are typically homomorphic, we do not know whether such translocations drive sex-chromosome turnovers within closely related taxo- nomic groups. This phenomenon can only be demonstrated by identifying sex-associated nucleotide sequences, still largely unknown in plants. The wild North American octoploid strawberries (Fragaria) exhibit separate sexes (dioecy) with homomorphic, female heteroga- metic (ZW) inheritance, yet sex maps to three different chromosomes in …

In Utero Gene Expression In The Slc39a8(Neo/Neo) Knockdown Mouse, Jing Chen, Marina Galvez-Peralta, Xiang Zhang, Jingyuan Deng, Zijuan Liu, Daniel W. Nebert

Faculty & Staff Scholarship

Slc39a8 encodes ZIP8, a divalent cation/bicarbonate symporter expressed in pluripotent mouse embryonic stem cells, and therefore ubiquitous in adult tissues; ZIP8 influxes Zn2+, Mn2+ and Fe2+. Slc39a8(neo/neo) knockdown mice exhibit 10–15% of wild-type ZIP8 mRNA and protein levels, and show pleiotropic phenotype of stunted growth, neonatal lethality, multi-organ dysmorphogenesis, and dysregulated hematopoiesis manifested as severe anemia. Herein we performed RNA-seq analysis of gestational day (GD)13.5 yolk sac and placenta, and GD16.5 liver, kidney, lung, heart and cerebellum,comparing Slc39a8(neo/neo) with Slc39a8(+/+) wild-type. Meta-data analysis of differentially- expressed genes revealed 29 unique genes from all tissues — having enriched GO categories associated …

Demographic Hallmarks Of An Overbrowsed Population State In American Ginseng, James B. Mcgraw, Jennifer L. Chandler

Faculty & Staff Scholarship

Effects of high deer herbivory in North America on populations of favored plant browse species have been well-documented, however since less palatable plants now dominate the understory, we asked whether these species could be vulnerable as well, and if so, what symptoms might signal that this was occurring? Using American ginseng (Panax quinque- foliusL.) as our representative less palatable understory plant, we compared two sub- populations within a single natural population that were differentially exposed to browse; one isolated from deer by growing atop a large, flat-topped boulder, and a browse-exposed subpopulation in the surrounding low-lying area. We tested the …

Pleiotropic And Epistatic Network-Based Discovery: Integrated Networks For Target Gene Discovery, Deborah Weighill, Piet Jones, Manesh Shah, Priya Ranjan, Wellington Muchero, Jeremy Schmutz, Avinash Sreedasyam, David Macaya-Sanz, Robert Sykes, Nan Zhao, Madhavi Z. Martin, Stephen Difazio, Timothy J. Tschaplinski, Gerald Tuskan, Daniel Jacobson

Faculty & Staff Scholarship

Biological organisms are complex systems that are composed of functional networks of interacting molecules and macro-molecules. Complex phenotypes are the result of orchestrated, hierarchical, heterogeneous collections of expressed genomic variants. However, the effects of these variants are the result of historic selective pressure and current environmental and epigenetic signals, and, as such, their co-occurrence can be seen as genome-wide correlations in a number of different manners. Biomass recalcitrance (i.e., the resistance of plants to degradation or deconstruction, which ultimately enables access to a plant’s sugars) is a complex polygenic phenotype of high importance to biofuels initiatives. This study makes use …

Large Effect Quantitative Trait Loci For Salicinoid Phenolic Glycosides In Populus: Implications For Gene Discovery, Scott A. Woolbright, Brian J. Rehill, Richard L. Lindroth, Stephen P. Difazio, Gregory D. Martinsen, Matthew S. Zinkgraf, Gerard J. Allan, Paul Keim, Thomas G. Whitham

Faculty & Staff Scholarship

Genomic studies have been used to identify genes underlying many important plant secondary metabolic pathways. However, genes for salicinoid phenolic glycosides (SPGs)—ecologically important compounds with significant commercial, cultural, and medicinal applications—remain largely undescribed. We used a linkage map derived from a full-sib population of hybrid cottonwoods (Populus spp.) to search for quanti- tative trait loci (QTL) for the SPGs salicortin and HCH-salicortin. SSR markers and primer sequences were used to anchor the map to the V3.0 P. trichocarpa genome. We discovered 21 QTL for the two traits, including a major QTL for HCH-salicortin (R2 = .52) that colocated with a …

Theaflavin-3,3′-Digallate Enhances The Inhibitory Effect Of Cisplatin By Regulating The Copper Transporter 1 And Glutathione In Human Ovarian Cancer Cells, Haibo Pan, Eunhye Kim, Gary O. Rankin, Yon Rojanasakul, Youying Tu, Yi Charlie Chen

Faculty & Staff Scholarship

Ovarian cancer has the highest fatality rate among the gynecologic cancers. The side effects, high relapse rate, and drug resistance lead to low long-term survival rate (less than 40%) of patients with advanced ovarian cancer. Theaflavin-3,3′-digallate (TF3), a black tea polyphenol, showed less cytotoxicity to normal ovarian cells than ovarian cancer cells. We aimed to investigate whether TF3 could potentiate the inhibitory effect of cisplatin against human ovarian cancer cell lines. In the present study, combined treatment with TF3 and cisplatin showed a synergistic cytotoxicity against A2780/CP70 and OVCAR3 cells. Treatment with TF3 could increase the intracellular accumulation of platinum …

The Antioxidant Xanthorrhizol Prevents Amyloid-Β-Induced Oxidative Modification And Inactivation Of Neprilysin, Chol Seung Lim, Jung-Soo Han

Faculty & Staff Scholarship

Activity of neprilysin (NEP), the major protease which cleaves amyloid-β peptide (Aβ), is reportedly reduced in the brains of patients with Alzheimer’s disease (AD). Accumulation of Aβ generates reactive oxygen species (ROS) such as 4-hydroxynonenal (HNE), and then reduces activities of Aβ-degrading enzymes including NEP. Xanthorrhizol (Xan), a natural sesquiterpenoid, has been reported to possess antioxidant and anti-inflammatory proper- ties. The present study examined the effects of Xan on HNE- or oligomeric Aβ42-induced ox- idative modification of NEP protein. Xan was added to the HNE- or oligomeric Aβ42-treated SK-N-SH human neuroblastoma cells and then levels, oxidative modification and enzymatic activities …

Transcriptional Profiling Of Saccharomyces Cerevisiae Reveals The Impact Of Variation Of A Single Transcription Factor On Differential Gene Expression In 4nqo, Fermentable, And Nonfermentable Carbon Sources, Xiaoqing Rong-Mullins, Michael C. Ayers, Mahmoud Summers, Jennifer E.G. Gallagher

Faculty & Staff Scholarship

Cellular metabolism can change the potency of a chemical’s tumorigenicity. 4-nitroquinoline-1-oxide (4NQO) is a tumorigenic drug widely used on animal models for cancer research. Polymorphisms of the transcription factor Yrr1 confer different levels of resistance to 4NQO in Saccharomyces cerevisiae. To study how different Yrr1 alleles regulate gene expression leading to resistance, transcriptomes of three isogenic S. cerevisiae strains carrying different Yrr1 alleles were profiled via RNA sequencing (RNA-Seq) and chromatin immunoprecipitation coupled with sequencing (ChIP-Seq) in the presence and absence of 4NQO. In response to 4NQO, all alleles of Yrr1 drove the expression of SNQ2 (a multidrug transporter), which …

A Functional Signature Ontology (Fusion) Screen Detects An Ampk Inhibitor With Selective Toxicity Toward Human Colon Tumor Cells, Binita Das, Beth K. Neilsen, Kurt W. Fisher, Drew Gehring, Youcai Hu, Deanna J. Volle, Hyun Seok Kim, Jamie L. Mccall, David L. Kelly, John B. Macmillian, Michael A. White, Robert E. Lewis

Faculty & Staff Scholarship

AMPK is a serine threonine kinase composed of a heterotrimer of a catalytic, kinase-containing α and regulatory β and γ subunits. Here we show that individual AMPK subunit expression and requirement for survival varies across colon cancer cell lines. While AMPKα1 expression is relatively consistent across colon cancer cell lines, AMPKα1 depletion does not induce cell death. Conversely, AMPKα2 is expressed at variable levels in colon cancer cells. In high expressing SW480 and moderate expressing HCT116 colon cancer cells, siRNA-mediated depletion induces cell death. These data suggest that AMPK kinase inhibition may be a useful component of future therapeutic strategies. …

Bulked-Segregant Analysis Coupled To Whole Genome Sequencing (Bsa-Seq) For Rapid Gene Cloning In Maize, Harry Klein, Yuguo Xiao, Phillip A. Conklin, Rajanikanth Govindarajulu, Jacob A. Kelly, Michael J. Scanlon, Clinton J. Whipple, Madelaine Bartlett

Faculty & Staff Scholarship

Forward genetics remains a powerful method for revealing the genes underpinning organismal form and function, and for revealing how these genes are tied together in gene networks. In maize, forward genetics has been tremendously successful, but the size and complexity of the maize genome made identifying mutant genes an often arduous process with traditional methods. The next generation sequencing revolution has allowed for the gene cloning process to be significantly accelerated in many organisms, even when genomes are large and complex. Here, we describe a bulked-segregant analysis sequencing (BSA-Seq) protocol for cloning mutant genes in maize. Our simple strategy can …

Genetic Assessment Of Inbred Chicken Lines Indicates Genomic Signatures Of Resistance To Marek's Disease, Lingyang Xu, Yanghua He, George E. Liu, Huanmin Zhang, Hans H. Cheng, Robert L. Taylor Jr, Jiuzhou Song

Faculty & Staff Scholarship

Background: Marek’s disease (MD) is a highly contagious pathogenic and oncogenic disease primarily affecting chickens. However, the mechanisms of genetic resistance for MD are complex and not fully understood. MD-resistant line 63 and MD-susceptible line 72 are two highly inbred progenitor lines of White Leghorn. Recombinant Congenic Strains (RCS) were developed from these two lines, which show varied susceptibility to MD.

Results: We investigated genetic structure and genomic signatures across the genome, including the line 63 and line 72, six RCSs, and two reciprocally crossed flocks between the lines 63 and 72 (F1 63 × 72 and F1 72 × …

Bioinformatic Workflows For Generating Complete Plastid Genome Sequences—An Example From Cabomba (Cabombaceae) In The Context Of The Phylogenomic Analysis Of The Water-Lily Clade, Michael Gruenstaeudl, Nico Gerschler, Thomas Borsch

Biological Sciences Faculty Publications

The sequencing and comparison of plastid genomes are becoming a standard method in plant genomics, and many researchers are using this approach to infer plant phylogenetic relationships. Due to the widespread availability of next-generation sequencing, plastid genome sequences are being generated at breakneck pace. This trend towards massive sequencing of plastid genomes highlights the need for standardized bioinformatic workflows. In particular, documentation and dissemination of the details of genome assembly, annotation, alignment and phylogenetic tree inference are needed, as these processes are highly sensitive to the choice of software and the precise settings used. Here, we present the procedure and …

The Relationship Between Vertigo, Vestibular System Disorders, And Therapy, Etta Rubin

The Science Journal of the Lander College of Arts and Sciences

The relationship between vertigo and vestibular system disorders has been the subject of much research in recent years.The aim of this study is to review and analyze the relevant literature regarding this relationship, with emphasis on determining what causes the dizziness, how to test for vertigo, and specifically how to treat it.Additionally, while there may be many ways to prevent vertigo, the focus will be on how the role of therapy is vital in the future of healthcare, serving as prevention of anxiety and reoccurring vestibular disorders.

The Effects Of Maternal Caffeine Intake On A Fetus, Jennifer Kahan

The Science Journal of the Lander College of Arts and Sciences

The United States has been noted as the country with the greatest caffeine consumption in the world. More than half of all Americans are said to consume caffeine on a daily basis. Caffeine is easily available in a variety of dietary products including coffee, tea, soft drinks, and chocolate. Many pregnant women are unaware of the potential risk that excessive caffeine consumption can have on their unborn child. The purpose of this paper is to explore the ramifications of caffeine intake on a fetus. The studies reviewed propose that heavy maternal caffeine consumption, that of more than 300 mg daily, …

Comparing Created And Natural Depressional Wetlands Through Trophic Analysis Of Macroinvertebrates, Shante N. Eisele

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Macroinvertebrates are important contributors to wetland ecosystems due to their role in decomposition, nutrient cycling, and as a food resource for other organisms. Several studies have analyzed the macroinvertebrate communities in created wetlands, but few have evaluated them in the context of trophic structure in both created and natural wetlands. The objective of this study is to better understand benthic macroinvertebrate community composition and trophic structure in created and natural wetlands. My central hypotheses were that macroinvertebrate communities in created wetlands would have (1) differing composition and (2) less complex trophic structure with shorter food-chain length compared to natural wetlands. …

Mapping The Yearly Extent Of Surface Coal Mining In Central Appalachia Using Landsat And Google Earth Engine, Andrew A. Pericak, Christian J. Thomas, David A. Kroodsma, Matthew F. Wasson, Matthew R.V. Ross, Nicolas E. Clinton, David J. Campagna, Yolandita Franklin, Emily S. Bernhardt, John F. Amos

Faculty & Staff Scholarship

Surface mining for coal has taken place in the Central Appalachian region of the United States for well over a century, with a notable increase since the 1970s. Researchers have quantified the ecosystem and health impacts stemming from mining, relying in part on a geospatial dataset defining surface mining’s extent at a decadal interval. This dataset, how- ever, does not deliver the temporal resolution necessary to support research that could establish causal links between mining activity and environmental or public health and safety outcomes, nor has it been updated since 2005. Here we use Google Earth Engine and Landsat imagery …

Community And Landscape Patterns Of Forb Pannes: On Two Maine Salt Marshes, Briana Fischella

Student Scholarship

Mixed forb pannes of Maine are maintained by waterlogging and are replaced by turf-grass species when drained, elevated, or warmed. These drivers, in particular waterlogging and temperature rise, counteract each other and are representative of in-field abiotic influences such as sea level rise (SLR) and climate warming. Researchers in Maine have studied forb panne landscape distribution, plant communities, and nutrients on salt marshes; however, no one has addressed how forb pannes change over time or mechanisms for this change. My objectives were to 1) remap and statistically compare spatial characteristics and changes undergone in mixed forb pannes of the Little …

The Role Of Red Leaf Coloration In Prey Capture For Pinguicula Planifolia, Jenna Annis, Janice Coons, Charles Helm, Brenda Molano-Flores

Faculty Research & Creative Activity

Anthocyanins in the leaves of carnivorous plants are suggested to play a role inprey capture. In this study, we investigated the role of red leaf coloration (an indicator of anthocyanins)on prey capture using Pinguicula planifolia (Chapman’s Butterwort). Overall,red leaves had less prey (i.e., Collembola) than green leaves, suggesting that red colorationdoes not enhance prey capture for Chapman’s Butterwort. However, the frequent presenceof Collembola on leaves suggests that this plant species could be relying on other cues toattract prey (e.g., olfactory cues).

Iucn Conservation Status Does Not Predict Glucocortoid Concentrations In Reptiles And Birds, L. B. Martin, Maren N. Vitousek, Jeremy W. Donald, T. Flock, M. J. Fuxjager, W. Goymann, M. Hau, Jerry F. Husak, Michele A. Johnson, Bonnie K. Kircher, R. Knapp, E. T. Miller, L. A. Schoenle, T. D. Williams, C. D. Francis

Biology Faculty Research

Circulating glucocorticoids (GCs) are the most commonly used biomarkers of stress in wildlife. However, their utility as a tool for identifying and/or managing at-risk species has varied. Here, we took a very broad approach to conservation physiology, asking whether International Union for the Conservation of Nature (IUCN) listing status (concern versus no obvious concern) and/or location within a geographic range (edge versus non-edge) predicted baseline and post-restraint concentrations of corticosterone (CORT) among many species of birds and reptiles. Even though such an approach can be viewed as coarse, we asked in this analysis whether CORT concentrations might be useful to …

Detecting Bias In Large-Scale Comparative Analyses: Methods For Expanding The Scope Of Hypothesis-Testing With Hormonebase, Michele A. Johnson, C. D. Francis, E. T. Miller, C. J. Downs, Maren N. Vitousek

Biology Faculty Research

To address large-scale questions in evolutionary biology, the compilation of data from a variety of sources is often required. This is a major challenge in the development of databases in organismal biology. Here, we describe the procedure we used to reconstruct the phylogeny of the 474 species represented in HormoneBase, including fish, amphibians, mammals, birds, and reptiles. We also provide the methodology used to compile vertebrate environmental, life history, and metabolic rate data for use in conjunction with the HormoneBase database to test hypotheses of the evolution of steroid hormone traits. We then report a series of analyses using these …

Mechanisms Of Surviving Burial: Dune Grass Interspecific Differences Drive Resource Allocation After Sand Deposition, Joseph K. Brown, Julie C. Zinnert

Biology Publications

Sand dunes are important geomorphic formations of coastal ecosystems that are critical in protecting human populations that live in coastal areas. Dune formation is driven by ecomorphodynamic interactions between vegetation and sediment deposition. While there has been extensive research on responses of dune grasses to sand burial, there is a knowledge gap in understanding mechanisms of acclimation between similar, coexistent, dune-building grasses such as Ammophila breviligulata (C₃), Spartina patens (C₄), and Uniola paniculata (C₄). Our goal was to determine how physiological mechanisms of acclimation to sand burial vary between species. We hypothesize that (1) …

Monitoring Ohio Bat Communities And Populations Using Mobile Acoustics, Molly C. Simonis

Browse all Theses and Dissertations

The goal of my thesis is to: 1) provide baseline information of where Ohio bats are foraging in Wright State University's (WSU) campus woods in relation to forest age and habitat (Chapter 1), 2) determine potential roost availability for local bats (Chapter 1), and 3) examine changes in state-wide species composition following the introduction of White-nose Syndrome (WNS; Chapter 2). In Chapter 1, I created walking bat acoustic routes and used generalized linear models to determine what forest ages and habitats had the greatest bat activity in the WSU campus woods. I conducted habitat transects throughout all forest ages to …

Transcranial Magnetic Stimulaton: In-Depth Review Of Methods, Efficacy And Future Applications, Matthew Carpenter

Biology and Microbiology Graduate Students Plan B Research Projects

Transcranial magnetic stimulation (TMS) has been regarded as a novel technique of neuromodulation with applications that span from the treatment of depression or depression related symptoms to the mapping of cerebral regions. This review takes an in depth look into the different forms of magnetic stimulation including repetitive TMS, theta-burst stimulation, and navigated TMS. The efficacy of these different forms of stimulation is addressed as well as comparisons made to current standards being used. Potential clinically relevant future applications of TMS are also discussed from the treatment of obsessive compulsive disorder to improving motor function after stroke. The purpose of …

2-Chlorofatty Acids: Lipid Mediators Of Neutrophil Extracellular Trap Formation, Elisa N.D. Palladino, Lalage A. Katunga, Grant R. Kolar, David A. Ford

Biological Sciences Faculty Research & Creative Works

Neutrophils form neutrophil extracellular traps (NETs), which have been implicated in microcirculatory plugging. NET formation (NETosis) involves the fusion of granule and nuclear contents, which are then released in the extracellular space. Myeloperoxidase (MPO) plays a major role in NETosis leading to the dissociation of DNA from histones. During neutrophil activation, MPO is released and activated to convert hydrogen peroxide and chloride to hypochlorous acid (HOCl). HOCl targets plasmalogens leading to the production of the chlorinated lipids, 2-chlorofatty aldehyde and 2-chlorofatty acid (2-ClFA). Here, we tested the hypothesis that 2-ClFAs are important lipid mediators of NETosis. Human neutrophils treated with …

2-Chlorofatty Acids: Lipid Mediators Of Neutrophil Extracellular Trap Formation, Elisa N.D. Palladino, Lalage A. Katunga, Grant R. Kolar, David A. Ford

Biological Sciences Faculty Research & Creative Works

Neutrophils form neutrophil extracellular traps (NETs), which have been implicated in microcirculatory plugging. NET formation (NETosis) involves the fusion of granule and nuclear contents, which are then released in the extracellular space. Myeloperoxidase (MPO) plays a major role in NETosis leading to the dissociation of DNA from histones. During neutrophil activation, MPO is released and activated to convert hydrogen peroxide and chloride to hypochlorous acid (HOCl). HOCl targets plasmalogens leading to the production of the chlorinated lipids, 2-chlorofatty aldehyde and 2-chlorofatty acid (2-ClFA). Here, we tested the hypothesis that 2-ClFAs are important lipid mediators of NETosis. Human neutrophils treated with …

The Genetics Of Adhd: A Review Of Polymorphisms In Neurotransmitter System Genes, Ada Spahija

Olin Prize for Undergraduate Library Research

No abstract provided.

Low-Impact Yoga Improves Flexibility, But Has No Effect On Heart Rate Variability In Sedentary Adult Women, Lauren Marie Shafer

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Heart disease is the leading cause of death among adults in the United States and more than 600,000 people per year die when the condition goes untreated. Many cardiovascular maladies, such as high blood pressure and heart disease, can be markedly improved with lifestyle changes, including eating a healthy diet and regular exercise. In this study, 15 sedentary adult women (aged 19-63 years) participated in a prescribed 12-week yoga program. Electrocardiography was used to measure Heart Rate Variability, a tool that assesses autonomic tone on the heart. Autonomic nervous system activity is assessed at VLF, LF, and HF spectral components. …

Examination Of Enrichment Using Space And Food For African Elephants At The Sdzsp, Charlotte Hacker, Lance Miller, Bruce A. Schulte

Biology Faculty Publications

Concern for elephant welfare in zoological facilities has prompted a number of exhibit and management modifications, including those involving enrichment. Knowledge of how these changes impact indicators of welfare, such as elephant movement and behaviour, is crucial for continued improvement of elephant husbandry and care. The present study used observations and GPS-collected data to determine the effects of available space and food presentation on the walking distance and behaviour of thirteen African elephants (Loxodonta africana), which had a dominance structure ascertained by animal care staff at the San Diego Zoo Safari Park (SDZSP). This facility has two exhibits of approximately …