Digital Commons Network^™

Papio Baboon Species Indicative Alu Elements, Jerilyn A. Walker, Vallmer E. Jordan, Cody J. Steely, Thomas O. Beckstrom, Cullen L. Mcdaniel, Corey P. St Romain, Emily C. Bennett, Arianna Robichaux, Brooke N. Clement, Miriam K. Konkel, Mark A. Batzer, Jeffrey Rogers, R. Alan Harris, Muthuswamy Raveendran, Yue Liu, Shwetha Murali, Tauras P. Vilgalys, Jerilyn A. Walker

Faculty Publications

© The Author(s) 2017. The genus of Papio (baboon) has six recognized species separated into Northern and Southern clades, each comprised of three species distributed across the African continent. Geographic origin and phenotypic variants such as coat color and body size have commonly been used to identify different species. The existence ofmultiple hybrid zones, both ancient and current, have complicated efforts to characterize the phylogeny of Papio baboons. More recently, mitochondrial DNA (mtDNA) and Y-chromosome genetic markers have been utilized for species identification with particular focus on the hybrid zones. Alu elements accumulate in a random manner and are a …

Behavioural Response To Song And Genetic Divergence In Two Subspecies Of White-Crowned Sparrows (Zonotrichia Leucophrys), Sara E. Lipshutz, Isaac A. Overcast, Michael J. Hickerson, Robb T. Brumfield, Elizabeth P. Derryberry

Faculty Publications

© 2016 John Wiley & Sons Ltd Divergence in sexual signals may drive reproductive isolation between lineages, but behavioural barriers can weaken in contact zones. Here, we investigate the role of song as a behavioural and genetic barrier in a contact zone between two subspecies of white-crowned sparrows (Zonotrichia leucophrys). We employed a reduced genomic data set to assess population structure and infer the history underlying divergence, gene flow and hybridization. We also measured divergence in song and tested behavioural responses to song using playback experiments within and outside the contact zone. We found that the subspecies form distinct genetic …

Experimental Method And Statistical Analysis To Fit Tumor Growth Model Using Spect/Ct Imaging: A Preclinical Study, Ivan Hidrovo, Joyoni Dey, Megan E. Chesal, Dmytro Shumilov, Narayan Bhusal, J. Michael Mathis

Faculty Publications

Background: Over the last decade, several theoretical tumor-models have been developed to describe tumor growth. Oncology imaging is performed using various modalities including computed tomography (CT), magnetic resonance imaging (MRI), single-photon emission computed tomography (SPECT) and fluorodeoxyglucose-positron emission tomography (FDG-PET). Our goal is to extract useful, otherwise hidden, quantitative biophysical parameters (such as growth-rate, tumor-necrotic-factor, etc.) from these serial images of tumors by fitting mathematical models to images. These biophysical features are intrinsic to the tumor types and specific to the study-subject, and expected to add valuable information on the tumor containment or spread and help treatment plans. Thus, fitting …

3-D Printing Provides A Novel Approach For Standardization And Reproducibility Of Freezing Devices, E. Hu, William Childress, Terrence R. Tiersch

Faculty Publications

Cryopreservation has become an important and accepted tool for long-term germplasm conservation of animals and plants. To protect genetic resources, repositories have been developed with national and international cooperation. For a repository to be effective, the genetic material submitted must be of good quality and comparable to other submissions. However, due to a variety of reasons, including constraints in knowledge and available resources, cryopreservation methods for aquatic species vary widely across user groups which reduces reproducibility and weakens quality control. Herein we describe a standardizable freezing device produced using 3-dimensional (3-D) printing and introduce the concept of network sharing to …

Estimating Waterfowl Carrying Capacity At Local Scales: A Case Study From Edwin B. Forsythe National Wildlife Refuge, New Jersey, Kevin M. Ringelman, Christopher K. Williams, Paul M. Castelli, Mason L. Sieges, Rebecca A. Longenecker, Theodore C. Nichols, Stephen D. Earsom

Faculty Publications

The management of wintering North American waterfowl is based on the premise that the amount of foraging habitat can limit populations. To estimate carrying capacity of winter habitats, managers use bioenergetic models to quantify energy (food) availability and energy demand, and use results as planning tools to meet regional conservation objectives. Regional models provide only coarse estimates of carrying capacity because habitat area, habitat energy values, and temporal trends in population-level demand are difficult to quantify precisely at large scales. We took advantage of detailed data previously collected on wintering waterfowl at Edwin B. Forsythe National Wildlife Refuge and surrounding …

Short Communication: Salt Tolerance Of Lactococcus Lactis R-604 As Influenced By Mild Stresses From Ethanol, Heat, Hydrogen Peroxide, And Uv Light, Ernesto E. Gonzalez, Douglas Olson, Kayanush Aryana

Faculty Publications

Lactococcus lactis is a culture widely used in salt-containing dairy products. Salt hinders bacterial growth, but exposure to environmental stress may protect cells against subsequent stress, including salt. The objective of this study was to evaluate the salt tolerance of L. lactis R-604 after exposure to various stresses. The culture was subjected to 10% (vol/vol) ethanol for 30 min, mild heat at 52°C for 30 min, 15 mM hydrogen peroxide for 30 min, or UV light (254 nm) for 5 min and compared with a control. Starting with 5 log cfu/mL for all treatments, growth was determined in M17 broth …

Genomic-Enabled Prediction In Maize Using Kernel Models With Genotype × Environment Interaction, Massaine Bandeira E Sousa, Jaime Cuevas, Evellyn Giselly De Oliveira Couto, Paulino Pérez-Rodríguez, Diego Jarquín, Roberto Fritsche-Neto, Juan Burgueño, Jose Crossa

Faculty Publications

Multi-environment trials are routinely conducted in plant breeding to select candidates for the next selection cycle. In this study, we compare the prediction accuracy of four developed genomic-enabled prediction models: (1) single-environment, main genotypic effect model (SM); (2) multi-environment, main genotypic effects model (MM); (3) multi-environment, single variance G×E deviation model (MDs); and (4) multi-environment, environment-specific variance G×E deviation model (MDe). Each of these four models were fitted using two kernel methods: a linear kernel Genomic Best Linear Unbiased Predictor, GBLUP (GB), and a nonlinear kernel Gaussian kernel (GK). The eight model-method combinations were applied to two extensive Brazilian maize …

Hegel's Revival In Analytic Philosophy, Willem A. Devries

Faculty Publications

Analytic philosophy is rediscovering Hegel. This essay examines a particularly strong thread of new analytic Hegelianism, sometimes called ‘Pittsburgh Hegelianism’, which began with the work of Wilfrid Sellars. In trying to bring Anglo-American philosophy from its empiricist phase into a more sophisticated, corrected Kantianism, Sellars moved in substantially Hegelian directions. Sellars’ work has been extended, and revised by his Pittsburgh colleagues John McDowell and Robert B. Brandom. The sociality and historicity of reason, the proper treatment of space and time, conceptual holism, inferentialism, the reality of conceptual structure, the structure of experience, and the nature of normativity are the central …

Oxidative Stress Following Plga Nanoparticles Administration To An Animal Model, Daniela Miricescu, Iulia Stanescu, Paula Perlea, Bogdan Calenic, Radu Radulescu, Alexandra Totan, Bogdana Virgolici, Cristina Sabliov, Maria Greabu

Faculty Publications

In the recent years, engineered nanoparticles (NPs) such as PLGA or poly-lactic-co-glycolic acid, have raised a substantial interest due to their possible medical applications in vaccination, diagnostic imaging procedures, cancer therapy or sustained delivery of drugs. The main aim of the present work is to evaluate key oxidative stress parameters in several organs following NPs administration in an animal model. Our data shows that acute oral administration of PLGA NPs induces a change in the antioxidant status in both rat liver and spleen, but may not induce oxidative stress damage to cell structures such as lipid or protein oxidation.

Interaction Between Predation Environment And Diet Constrains Body Shape In Utah Chub, Gila Atraria (Cypriniformes: Cyprinidae), Trevor J. Williams, Jerald B. Johnson, Mark C. Belk

Faculty Publications

Evolution typically occurs in response to a suite of selective pressures. Yet, many studies of natural selection in the wild only investigate a single selective agent at a time. This can be problematic when selective agents act in non-additive ways. Here we evaluate the interactive effects of diet and predation on the evolution of body shape in the cyprinid fish Utah chub (Gila atraria). We found that both factors and the interaction between them are significant predictors of body shape. This interaction is likely a result of different forms of selective pressures, where predation is a stabilizing selective …

Microbial Extracellular Polymeric Substances (Epss) In Ocean Systems, Alan W. Decho, Tony Gutierrez

Faculty Publications

Microbial cells (i.e., bacteria, archaea, microeukaryotes) in oceans secrete a diverse array of large molecules, collectively called extracellular polymeric substances (EPSs) or simply exopolymers. These secretions facilitate attachment to surfaces that lead to the formation of structured ‘biofilm’ communities. In open-water environments, they also lead to formation of organic colloids, and larger aggregations of cells, called ‘marine snow.’ Secretion of EPS is now recognized as a fundamental microbial adaptation, occurring under many environmental conditions, and one that influences many ocean processes. This relatively recent realization has revolutionized our understanding of microbial impacts on ocean systems. EPS occur in a range …

Predicting Cryptic Links In Host-Parasite Networks, Tad Dallas, Andrew W. Park, John M. Drake

Faculty Publications

Networks are a way to represent interactions among one (e.g., social networks) or more (e.g., plant-pollinator networks) classes of nodes. The ability to predict likely, but unobserved, interactions has generated a great deal of interest, and is sometimes referred to as the link prediction problem. However, most studies of link prediction have focused on social networks, and have assumed a completely censused network. In biological networks, it is unlikely that all interactions are censused, and ignoring incomplete detection of interactions may lead to biased or incorrect conclusions. Previous attempts to predict network interactions have relied on known properties of network …

Optimizing Sediment Diversion Operations: Working Group Recommendations For Integrating Complex Ecological And Social Landscape Interactions, Natalie S. Peyronnin, Rex H. Caffey, James H. Cowan, Dubravko Justic, Alexander S. Kolker, Shirley B. Laska, Alex Mccorquodale, Earl Melancon, John A. Nyman, Robert R. Twilley, Jenneke M. Visser, John R. White, James G. Wilkins

Faculty Publications

© 2017 by the authors. Future conditions of coastal Louisiana are highly uncertain due to the dynamic nature of deltas, climate change, tropical storms, and human reliance on natural resources and ecosystem services. Managing a system in which natural and socio-economic components are highly integrated is inherently difficult. Sediment diversions are a unique restoration tool that would reconnect the Mississippi River to its deltaic plain to build and sustain land. Diversions are innately adaptable as operations can be modified over time. An expert working group was formed to explore how various operational strategies may affect the complex interactions of coastal …

Lower Doses Of Fructose Extend Lifespan In Caenorhabditis Elegans, Jolene Zheng, Chenfei Gao, Mingming Wang, Phuongmai Tran, Nancy Mai, John W. Finley, Steven B. Heymsfield, Frank L. Greenway, Zhaoping Li, David Heber, Jeffrey H. Burton, William D. Johnson, Roger A. Laine

Faculty Publications

© 2017, Copyright © Taylor & Francis Group, LLC. Epidemiological studies indicate that the increased consumption of sugars including sucrose and fructose in beverages correlate with the prevalence of obesity, type-2 diabetes, insulin resistance, hyperinsulinemia, hypertriglyceridemia, and hypertension in humans. A few reports suggest that fructose extends lifespan in Saccharomyces cerevisiae. In Anopheles gambiae, fructose, glucose, or glucose plus fructose also extended lifespan. New results presented here suggest that fructose extends lifespan in Caenorhabditis elegans (C. elegans) wild type (N2). C. elegans were fed standard laboratory food source (E. coli OP50), maintained in liquid culture. Experimental groups received additional glucose …

Gender Disparities In Midlife Hypertension: A Review Of The Evidence On The Arab Region, Christelle Akl, Chaza Akik, Hala Ghattas Ph.D., Carla Makhlouf Obermeyer

Faculty Publications

Objective

While gender differences in hypertension and increased prevalence rates among women at midlife have been documented in multiple settings, the evidence on the Arab world has not been systematically examined. This review summarizes the evidence related to gender disparities in midlife hypertension in this region.

Methods

We searched MEDLINE and Social Sciences Citation Index (SSCI) databases for studies, published between January 2000 and August 2015, on hypertension in the 22 countries of the Arab region. We abstracted information on the prevalence of hypertension among women and men, in general populations during midlife.

Results

Nineteen studies provided data on the …

Redox-Sensitive Marr Homologue Bifr From Burkholderia Thailandensis Regulates Biofilm Formation, Ashish Gupta, Stanley M. Fuentes, Anne Grove

Faculty Publications

© 2017 American Chemical Society. Biofilm formation by pathogenic Burkholderia species is a serious complication as it renders the bacteria resistant to antibiotics and host defenses. Using B. thailandensis, we report here a novel redox-sensitive member of the multiple antibiotic resistance regulator (MarR) protein family, BifR, which represses biofilm formation. BifR is encoded as part of the emrB-bifR operon; emrB-bifR is divergent to ecsC, which encodes a putative LasA protease. In Pseudomonas aeruginosa, LasA has been implicated in virulence by contributing to cleavage of elastase. BifR repressed the expression of ecsC and emrB-bifR, and expression was further repressed under oxidizing …

Crude Oil Impairs Immune Function And Increases Susceptibility To Pathogenic Bacteria In Southern Flounder, Keith M. Bayha, Natalie Ortell, Caitlin Ryan, Kimberly J. Griffitt, Michelle Krasnec, Johnny Sena, Thiruvangan Ramaraj, Ryan Takeshita, Gregory D. Mayer, Faye Schilkey, Robert J. Griffitt

Faculty Publications

Exposure to crude oil or its individual constituents can have detrimental impacts on fish species, including impairment of the immune response. Increased observations of skin lesions in northern Gulf of Mexico fish during the 2010 Deepwater Horizon oil spill indicated the possibility of oil-induced immunocompromisation resulting in bacterial or viral infection. This study used a full factorial design of oil exposure and bacterial challenge to examine how oil exposure impairs southern flounder (Paralichthys lethostigma) immune function and increases susceptibility to the bacteria Vibrio anguillarum, a causative agent of vibriosis. Fish exposed to oil prior to bacterial challenge …

Species Differences In Egocentric Navigation: The Effect Of Burrowing Ecology On A Spatial Cognitive Trait In Mice, Jason N. Bruck, Noah A. Allen, Kelsey E. Brass, Brian A. Horn, Polly Campbell

Faculty Publications

© 2017 The Association for the Study of Animal Behaviour Efficient navigation is a critical component of fitness for most animals. While most species use a combination of allocentric (external) and egocentric (internal) cues to navigate through their environment, subterranean environments present a unique challenge in that visually mediated allocentric cues are unavailable. The relationship between egocentric spatial cognition and species differences in ecology is surprisingly understudied. We used a maze-learning task to test for differences in egocentric navigation between two closely related species of mice, the eastern house mouse, Mus musculus musculus, and the mound-building mouse, Mus spicilegus. The …

Hard Real-Time Closed-Loop Electrophysiology With The Real-Time Experiment Interface (Rtxi)., Patel Ya, George A, Dorval Ad, White Ja, Christini Dj, Butera Rj

Faculty Publications

No abstract provided.

Limiting The Collective Right To Exclude, Andrea Boyack

Faculty Publications

For decades, society’s disparate interests and priorities have stymied attempts to resolve issues of housing affordability and equity. Zoning law and servitude law, both of which have been robustly empowered by decades of jurisprudence, effectively grant communities the legal right and ability to exclude various sorts of residences from their wealthiest neighborhoods. Exclusion by housing type results in exclusion of categories of people, namely, renters, the relatively poor, and racial minorities. Although our society’s housing woes may indeed be intractable if we continue to treat a group’s right to exclude with the level of deference that such exclusionary efforts currently …

Predicting Cryptic Links In Host-Parasite Networks, Tad Dallas, Andrew W. Park, John M. Drake

Faculty Publications

© 2017 Dallas et al. Networks are a way to represent interactions among one (e.g., social networks) or more (e.g., plant-pollinator networks) classes of nodes. The ability to predict likely, but unobserved, interactions has generated a great deal of interest, and is sometimes referred to as the link prediction problem. However, most studies of link prediction have focused on social networks, and have assumed a completely censused network. In biological networks, it is unlikely that all interactions are censused, and ignoring incomplete detection of interactions may lead to biased or incorrect conclusions. Previous attempts to predict network interactions have relied …

Mitochondrial Dysfunction And Ovarian Aging, Tianren Wang, Man Zhang, Zongliang Jiang, Emre Seli

Faculty Publications

© 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd Mitochondria are double-membrane-bound organelles that are responsible for the generation of most of the cell's energy. Mitochondrial dysfunction has been implicated in cellular senescence in general and ovarian aging in particular. Recent studies exploited this association by studying mitochondrial DNA (mtDNA) copy number as a potential biomarker of embryo viability and the use of mitochondrial nutrients and autologous mitochondrial transfer as a potential treatment for poor ovarian function and response.

Fire Exclusion And Climate Change Interact To Affect Long-Term Changes In The Functional Composition Of Plant Communities, Daijiang Li, Donald M. Waller

Faculty Publications

© 2017 John Wiley & Sons Ltd Aim: Plant functional traits allow us to mechanistically link changes in species composition to changes in ecosystem functions. Understanding how and why changes occur in functional composition of plant communities can thus help us better conserve and restore biodiversity. We aim to examine long-term effects of fire exclusion and climate change on the functional composition of fire-maintained pine barrens in central Wisconsin. Location: Central Wisconsin, USA. Methods: Using a database that included vegetation data of surveys (1958) and resurveys (2012) of 30 sites, we quantified functional composition (α and β functional diversity, community-weighted …

Single-Trait And Multi-Trait Genome-Wide Association Analyses Identify Novel Loci For Blood Pressure In African-Ancestry Populations, Jingjing Liang, Thu H. Le, Digna R.Velez Edwards, Bamidele O. Tayo, Kyle J. Gaulton, Jennifer A. Smith, Yingchang Lu, Richard A. Jensen, Guanjie Chen, Lisa R. Yanek, Karen Schwander, Salman M. Tajuddin, Tamar Sofer, Wonji Kim, James Kayima, Colin A. Mckenzie, Ervin Fox, Michael A. Nalls, J. Hunter Young, Yan V. Sun, Jacqueline M. Lane, Sylvia Cechova, Jie Zhou, Hua Tang, Myriam Fornage, Solomon K. Musani, Heming Wang, Juyoung Lee, Adebowale Adeyemo, Albert W. Dreisbach, Terrence Forrester, Pei Lun Chu, Anne Cappola

Faculty Publications

Hypertension is a leading cause of global disease, mortality, and disability. While individuals of African descent suffer a disproportionate burden of hypertension and its complications, they have been underrepresented in genetic studies. To identify novel susceptibility loci for blood pressure and hypertension in people of African ancestry, we performed both single and multiple-trait genome-wide association analyses. We analyzed 21 genome-wide association studies comprised of 31,968 individuals of African ancestry, and validated our results with additional 54,395 individuals from multi-ethnic studies. These analyses identified nine loci with eleven independent variants which reached genome-wide significance (P < 1.25×10−8) for either systolic and diastolic blood pressure, hypertension, or for combined traits. Single-trait analyses identified two loci (TARID/TCF21 and LLPH/TMBIM4) and multiple-trait analyses identified one novel locus (FRMD3) for blood pressure. At these three loci, as well as at GRP20/CDH17, associated variants had alleles common only in African-ancestry populations. Functional annotation showed enrichment for genes expressed in immune and kidney cells, as well as in heart and vascular cells/tissues. Experiments driven by these findings and using angiotensin-II induced hypertension in mice showed altered kidney mRNA expression of six genes, suggesting their potential role in hypertension. Our study provides new evidence for genes related to hypertension susceptibility, and the need to study African-ancestry populations in order to identify biologic factors contributing to hypertension.

Sacral Variability In Tailless Species: Homo Sapiens And Ochotona Princeps, Robert G. Tague

Faculty Publications

Homo sapiens is variable in number of sacral vertebrae, and this variability can lead to obstetrical complication. This study uses the comparative method to test the hypothesis that sacral variability in H. sapiens is associated with absence of a tail. Three species of lagomorphs are studied: Ochotona princeps (N = 271), which is tailless, and Lepus californicus (N = 212) and Sylvilagus audubonii (N = 206), which have tails. Results show that O. princeps has (1) higher diversity index for number of sacral vertebrae (0.49) compared to L. californicus (0.25) and S. audubonii (0.26) and (2) significantly higher percentage of …

Population Genetic Inferences Using Immune Gene Snps Mirror Patterns Inferred By Microsatellites, Jean P. Elbers, Rachel W. Clostio, Sabrina S. Taylor

Faculty Publications

Single nucleotide polymorphisms (SNPs) are replacing microsatellites for population genetic analyses, but it is not apparent how many SNPs are needed or how well SNPs correlate with microsatellites. We used data from the gopher tortoise, Gopherus polyphemus—a species with small populations, to compare SNPs and microsatellites to estimate population genetic parameters. Specifically, we compared one SNP data set (16 tortoises from four populations sequenced at 17 901 SNPs) to two microsatellite data sets, a full data set of 101 tortoises and a partial data set of 16 tortoises previously genotyped at 10 microsatellites. For the full microsatellite data set, observed …

Comparative Analyses Of Zebrafish Anxiety-Like Behavior Using Conflict-Based Novelty Tests, Elana V. Kysil, Darya A. Meshalkina, Erin E. Frick, David J. Echevarria, Denis B. Rosemberg, Caio Maximino, Monica Gomes Lima, Murilo S. Abreu, Ana C. Giacomini, Leonardo J.G. Barcellos, Cai Song, Allan V. Kalueff

Faculty Publications

Modeling of stress and anxiety in adult zebrafish (Danio rerio) is increasingly utilized in neuroscience research and central nervous system (CNS) drug discovery. Representing the most commonly used zebrafish anxiety models, the novel tank test (NTT) focuses on zebrafish diving in response to potentially threatening stimuli, whereas the light-dark test (LDT) is based on fish scototaxis (innate preference for dark vs. bright areas). Here, we systematically evaluate the utility of these two tests, combining meta-analyses of published literature with comparative in vivo behavioral and whole-body endocrine (cortisol) testing. Overall, the NTT and LDT behaviors demonstrate a generally good cross-test correlation …

Phospholipase Dζ Enhances Diacylglycerol Flux Into Triacylglycerol, Wenyu Yang, Geliang Wang, Jia Li, Philip D. Bates, Xuemin Wang, Doug K. Allen

Faculty Publications

Plant seeds are the primary source of triacylglycerols (TAG) for food, feed, fuel, and industrial applications. As TAG is produced from diacylglycerol (DAG), successful engineering strategies to enhance TAG levels have focused on the conversion of DAG to TAG. However, the production of TAG can be limited by flux through the enzymatic reactions that supply DAG. In this study, two Arabidopsis phospholipase D_ζ genes (AtPLD_ζ1 and AtPLD_ζ2) were coexpressed in Camelina sativa to test whether the conversion of phosphatidylcholine to DAG impacts TAG levels in seeds. The resulting transgenic plants produced 2% to 3% more TAG …

Justice Scalia And Sherman Act Textualism, Alan J. Meese

Faculty Publications

No abstract provided.

Designing The Technological World Through Biomimicry, Emily Yoshikawa, Greg J. Strimel, Scott R. Bartholomew

Faculty Publications

Scientific discoveries are a driver for advancing our technological world (ITEA/ITEEA; 2000/2002/2007). As more knowledge is acquired through scientific inquiry, people can better design and develop technological inventions and innovations (Knowles, Kelley, & Hurd, 2016). In turn, these novel technologies can aid in making new scientific discoveries, thus driving an ongoing cycle of technological advancement. However, in the process of designing and advancing our technological world, people can turn to the study of life and its phenomena to inspire and inform their designs. Nature is functional as well as beautiful. As we study the phenomena or functions of living organisms …