Digital Commons Network^™

Dodging Marshmallows: Simulations To Teach Ethics, Justin Weidman, Dawan Coombs

Faculty Publications

Students had just participated in an experiential learning exercise where they played dodgeball using marshmallows. But the unique context of the game introduced ethical dilemmas that integrated ethics education into a technical education classroom setting.

Research shows that “Engineering curriculum and activities at the K-12 level should be designed to expose students to [ethical considerations inherent in the practice of engineering], and as a result students should be aware of the importance of these issues in the field of engineering” (Moore, Glancy, Tank, Kersten, Smith, & Stohlmann, 2014). But how do STEM teachers teach students to think about ethical issues …

When We Grade Students’ Proofs, Do They Understand Our Feedback?, Robert C. Moore, Martha Byrne, Sarah Hanusch, Timothy Fukawa-Connelly

Faculty Publications

Instructors often write feedback on students’ proofs even if there is no expectation for the students to revise and resubmit the work. It is not known, however, what students do with that feedback or if they understand the professor’s intentions. To this end, we asked eight advanced mathematics undergraduates to respond to professor comments on four written proofs by interpreting and implementing the comments. We analyzed the student’s responses using the categories of corrective feedback for language acquisition, viewing the language of mathematical proof as a register of academic English.

Identification Of Arabidopsis Gpat9 (At5g60620) As An Essential Gene Involved In Triacylglycerol Biosynthesis, Jay Shockey, Anushobha Regmi, Kimberly Cotton, Neil Adhikari, John Bowse, Philip D. Bates

Faculty Publications

The first step in the biosynthesis of nearly all plant membrane phospholipids and storage triacylglycerols is catalyzed by a glycerol-3-phosphate acyltransferase (GPAT). The requirement for an endoplasmic reticulum (ER)-localized GPAT for both of these critical metabolic pathways was recognized more than 60 years ago. However, identification of the gene(s) encoding this GPAT activity has remained elusive. Here, we present the results of a series of in vivo, in vitro, and in silico experiments in Arabidopsis (Arabidopsis thaliana) designed to assign this essential function to AtGPAT9. This gene has been highly conserved throughout evolution and is …

Filter Presence And Tipping Paper Color Influence Consumer Perceptions Of Cigarettes, Richard J. O’Connor, Maansi Bansal-Travers, K. Michael Cummings, David Hammond, Jim Thrasher, Cindy Tworek

Faculty Publications

Background: Cigarettes are marketed in a wide array of packaging and product configurations, and these may impact consumers’ perceptions of product health effects and attractiveness. Filtered cigarettes are typically perceived as less hazardous and white tipping paper (as opposed to cork) often conveys ‘lightness’.

Methods: This study examined cigarette-related perceptions among 1220 young adult (age 18-35) current, ever, and never smokers recruited from three eastern U.S. cities (Buffalo NY, Columbia SC, Morgantown WV). Participants rated three cigarette sticks: two filtered cigarettes 85 mm in length, differing only in tipping paper color (cork versus white), and an unfiltered 70 mm cigarette. …

Using An External Exposome Framework To Examine Pregnancy-Related Morbidities And Mortalities: Implications For Health Disparities Research, Tonny J. Oyana, Patricia Matthews-Juarez, Stephania A. Cormier, Xiaoran Xu, Paul D. Juarez

Faculty Publications

© 2015 by the authors; licensee MDPI, Basel, Switzerland. Objective: We have conducted a study to assess the role of environment on the burden of maternal morbidities and mortalities among women using an external exposome approach for the purpose of developing targeted public health interventions to decrease disparities. Methods: We identified counties in the 48 contiguous USA where observed low birthweight (LBW) rates were higher than expected during a five-year study period. The identification was conducted using a retrospective space-time analysis scan for statistically significant clusters with high or low rates by a Discrete Poisson Model. Results: We observed statistically …

Evaluation Of Colorimetric Assays For Analyzing Reductively Methylated Proteins: Biases And Mechanistic Insights, Pamlea N. Brady, Megan A. Macnaughtan

Faculty Publications

© 2015 Elsevier Inc. Colorimetric protein assays, such as the Coomassie blue G-250 dye-binding (Bradford) and bicinchoninic acid (BCA) assays, are commonly used to quantify protein concentration. The accuracy of these assays depends on the amino acid composition. Because of the extensive use of reductive methylation in the study of proteins and the importance of biological methylation, it is necessary to evaluate the impact of lysyl methylation on the Bradford and BCA assays. Unmodified and reductively methylated proteins were analyzed using the absorbance at 280 nm to standardize the concentrations. Using model compounds, we demonstrate that the dimethylation of lysyl …

Ocean Acidification As One Of Multiple Stressors: Growth Response Of Thalassiosira Weissflogii (Diatom) Under Temperature And Light Stress, Uta Passow, Edward A. Laws

Faculty Publications

Future shifts in phytoplankton composition and productivity are anticipated given that continuing changes are expected in environmental conditions such as temperature, the partial pressure of CO2 (pCO2) and light climate, all of which regulate phytoplankton communities and their physiology through bottom-up control. Culture experiments revealed that future (elevated) pCO2 had no effect on Thalassiosira weissflogii in the absence of environmental stressors, whereas growth rates drastically decreased under future pCO2 when cells were grown under light and temperature stress. Reduction in growth rates and a smaller decline in cellular photosynthesis under high pCO2 were associated with 2- to 3-fold increases in …

The Invasive Coral Oculina Patagonica Has Not Been Recently Introduced To The Mediterranean From The Western Atlantic Speciation And Evolutionary Genetics, Karine Posbic Leydet, Michael E. Hellberg

Faculty Publications

© 2015 Leydet and Hellberg; licensee BioMed Central. Background: Effective policies, management, and scientific research programs depend on the correct identification of invasive species as being either native or introduced. However, many species continue to be misidentified. Oculina patagonica, first recorded in the Mediterranean Sea in 1966, is believed to have been introduced in anthropogenic times and expanding in a west to east direction. However, its present identification and status as a recently introduced species remain to be explored. In this study, we used multi-locus genetic data to test whether O. patagonica in the Mediterranean has been recently introduced from …

Elevation Promotes Long-Term Survival Of Pinus Elliottii Var. Densa, A Foundation Species Of The Endangered Pine Rockland Ecosystem In The Florida Keys, Grant L. Harley, Justin T. Maxwell, George T. Raber

Faculty Publications

The pine rockland community in southern Florida, which supports numerous state- and federally listed flora and fauna species, is considered endangered. Without its foundation species, Pinus elliottii var. densa, habitat and species diversity are lost to tropical hardwood hammock. Here, we investigate the landscape factors that contribute to the long-term persistence of pine rocklands on the 2 islands that contain the largest remaining habitat in the Florida Keys: Big Pine Key and No Name Key. Plot-level biophysical data and island-scale remotely sensed vegetation data were collected from pine rockland savannas and examined with multi-dimensional analysis. On both islands, vegetation …

Mrna Levels Of Imprinted Genes In Bovine In Vivo Oocytes, Embryos And Cross Species Comparisons With Humans, Mice And Pigs, Zongliang Jiang, Hong Dong, Xinbao Zheng, Sadie L. Marjani, David M. Donovan, Jingbo Chen, Xiuchun Cindy Tian

Faculty Publications

Twenty-six imprinted genes were quantified in bovine in vivo produced oocytes and embryos using RNA-seq. Eighteen were detectable and their transcriptional patterns were: largely decreased (MEST and PLAGL1); first decreased and then increased (CDKN1C and IGF2R); peaked at a specific stage (PHLDA2, SGCE, PEG10, PEG3, GNAS, MEG3, DGAT1, ASCL2, NNAT, and NAP1L5); or constantly low (DIRAS3, IGF2, H19 and RTL1). These patterns reflect mRNAs that are primarily degraded, important at a specific stage, or only required at low quantities. The mRNAs for several genes were surprisingly abundant. For instance, transcripts for the maternally imprinted MEST and PLAGL1, were high in …

No Reef Is An Island: Integrating Coral Reef Connectivity Data Into The Design Of Regional-Scale Marine Protected Area Networks, Steven R. Schill, George T. Raber, Jason J. Roberts, Eric A. Treml, Jorge Brenner, Patrick N. Halpin

Faculty Publications

We integrated coral reef connectivity data for the Caribbean and Gulf of Mexico into a conservation decision-making framework for designing a regional scale marine protected area (MPA) network that provides insight into ecological and political contexts. We used an ocean circulation model and regional coral reef data to simulate eight spawning events from 2008–2011, applying a maximum 30-day pelagic larval duration and 20% mortality rate. Coral larval dispersal patterns were analyzed between coral reefs across jurisdictional marine zones to identify spatial relationships between larval sources and destinations within countries and territories across the region. We applied our results in Marxan, …

Epigenetic Instability At Imprinting Control Regions In A KrasG12d-Induced T-Cell Neoplasm, Corey L. Bretz, Ingeborg M. Langohr, Suman Lee, Joomyeong Kim

Faculty Publications

© 2015 Taylor & Francis Group, LLC. Although aberrant DNA methylation within imprinted domains has been reported in a variety of neoplastic diseases, it remains largely uncharacterized in the context of carcinogenesis. In this study, we induced T-cell lymphoma in mice by employing a breeding scheme involving mouse strains, LSL-KrasG12D and MMTV-Cre. We then systematically surveyed imprinted domains for DNA methylation changes during tumor progression using combined bisulfite restriction analysis and NGS-based bisulfite sequencing. We detected hyper- or hypo-methylation at the imprinting control regions (ICRs) of the Dlk1, Peg10, Peg3, Grb10, and Gnas domains. These DNA methylation changes at ICRs …

Dna-Binding Motif Of The Imprinted Transcription Factor Peg3, Suman Lee, An Ye, Joomyeong Kim

Faculty Publications

© 2015 Lee et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Peg3 is an imprinted gene that is predicted to encode a DNA-binding zinc finger protein. This was previously demonstrated through Chromatin ImmunoPrecipitation-based Sequencing experiments. In the current study, we reanalyzed the previous ChIP-Seq results and further characterized the DNA-binding motif of PEG3. According to the results, PEG3 binds to the promoters and enhancers of a subset of genes that are closely …

Multitrophic Enemy Escape Of Invasive Phragmites Australis And Its Introduced Herbivores In North America, Warwick J. Allen, Randee E. Young, Ganesh P. Bhattarai, Jordan R. Croy, Adam M. Lambert, Laura A. Meyerson, James T. Cronin

Faculty Publications

© 2015, Springer International Publishing Switzerland. One explanation for why invasive species are successful is that they escape natural enemies from their native range or experience lower attack from natural enemies in the introduced range relative to native species (i.e., the enemy-release hypothesis). However, little is known about how invasive plants interact with co-introduced herbivores or natural enemies of the introduced herbivores. We focus on Phragmites australis, a wetland grass native to Europe (EU) and North America (NA). Within the past 100–150 years, invasive European genotypes of P. australis and several species of specialist Lipara gall flies have spread within …

Tissue-Specific Contributions Of Paternally Expressed Gene 3 In Lactation And Maternal Care Of Mus Musculus, Wesley D. Frey, Joomyeong Kim

Faculty Publications

© 2015 Frey, Kim.This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in anymedium, provided the original author and source are credited. Paternally Expressed Gene 3 (Peg3) is an imprinted gene that controls milk letdown and maternal-caring behaviors. In this study, a conditional knockout allele has been developed in Mus musculus to further characterize these known functions of Peg3 in a tissue-specific manner. The mutant line was first crossed with a germline Cre. The progeny of this cross displayed growth retardation phenotypes. This is consistent with …

The Seesaw Effect Of Winter Temperature Change On The Recruitment Of Cotton Bollworms Helicoverpa Armigera Through Mismatched Phenology, Gadi V.P. Reddy, Peijian Shi, Cang Hui, Xiaofei Cheng, Fang Ouyang, Feng Ge

Faculty Publications

Knowing how climate change affects the population dynamics of insect pests is critical for the future of integrated pest management. Rising winter temperatures from global warming can drive increases in outbreaks of some agricultural pests. In contrast, here we propose an alternative hypothesis that both extremely cold and warm winters can mismatch the timing between the eclosion of overwintering pests and the flowering of key host plants. As host plants normally need higher effective cumulative temperatures for flowering than insects need for eclosion, changes in flowering time will be less dramatic than changes in eclosion time, leading to a mismatch …

Mathematics Library News 14, Aaron Lercher

Faculty Publications

No abstract provided.

Failure Of A Heterologous Recombinant Sca5/Ompb Protein-Based Vaccine To Elicit Effective Protective Immunity Against Rickettsia Rickettsii Infections In C3h/Hen Mice, Sean P. Riley, Marissa M. Cardwell, Yvonne G. Chan, Ludovic Pruneau, Fabio Del Piero, Juan J. Martinez

Faculty Publications

Spotted fever group (SFG) rickettsial species are obligate intracellular tick-borne pathogens that are responsible for important human diseases. Previous reports have demonstrated the feasibility of using recombinant surface cell antigen Sca5/OmpB to elicit protective immunity against homologous challenges using murine models of Mediterranean spotted fever and Rocky Mountain spotted fever. In addition, the feasibility of generating cross-protective immunity against related rickettsial species has also been established, but the molecular basis for these phenomena was not explored. Here, we demonstrate that vaccination of C3H/HeN mice with a recombinant OmpB domain derived from Rickettsia conorii induced high titer humoral immune responses that …

Island Vs. Countryside Biogeography: An Examination Of How Amazonian Birds Respond To Forest Clearing And Fragmentation, Jared D. Wolfe, Philip C. Stouffer, Karl Mokross, Luke L. Powell, Marina M. Anciaes

Faculty Publications

Avian diversity in fragmented Amazonian landscapes depends on a balance between extinction and colonization in cleared and disturbed areas. Regenerating forest facilitates bird dispersal within degraded Amazonian landscapes and may tip the balance in favor of persistence in habitat patches. Determining the response of Amazonian birds to fragmentation may be hindered because many species use adjacent second growth matrices thereby limiting the applicability of island biogeography to predict species loss; alternatively, a countryside biogeographic framework to evaluate the value of regenerating forest may be more appropriate. Here, we used point-count and capture data to compare Amazonian bird communities among continuous …

Environmentally Persistent Free Radical-Containing Particulate Matter Competitively Inhibits Metabolism By Cytochrome P450 1a2, James R. Reed, Albert Leo N. Dela Cruz, Slawo M. Lomnicki, Wayne L. Backes

Faculty Publications

Combustion processes generate different types of particulate matter (PM) that can have deleterious effects on the pulmonary and cardiovascular systems. Environmentally persistent free radicals (EPFRs) represent a type of particulate matter that is generated after combustion of environmental wastes in the presence of redox-active metals and aromatic hydrocarbons. Cytochromes P450 (P450/CYP) are membrane-bound enzymes that are essential for the phase I metabolism of most lipophilic xenobiotics. The EPFR formed by chemisorption of 2-monochlorophenol to silica containing 5% copper oxide (MCP230) has been shown to generally inhibit the activities of different forms of P450s without affecting those of cytochrome P450 reductase …

Phylogeography Of The Military Macaw (Ara Militaris) And The Great Green Macaw (A. Ambiguus) Based On Mtdna Sequence Data, Jessica R. Eberhard, Eduardo E. Iñigo-Elias, Ernesto Enkerlin-Hoeflich, E. Paùl Cun

Faculty Publications

© 2015 The Wilson Ornithological Society. The Military Macaw (Ara militaris) and the Great Green Macaw (A. ambiguus) are species whose close relationship is reflected in their morphological similarity as well as their geographic ranges. Military Macaws have a disjunct distribution, found in Mexico as well as several areas in South America, while Great Green Macaws have two or more disjunct populations from Honduras to eastern Ecuador. We used mitochondrial sequence data to examine the phylogenetic relationships between these two species, and also among representative samples across their ranges. Our data clearly support recognition of the two species as being …

Dollfustrema Durum N. Sp. And Heterobucephalopsis Perardua N. Sp. (Digenea: Bucephalidae) From The Giant Moray Eel, Gymnothorax Javanicus (Bleeker) (Anguilliformes: Muraenidae), And Proposal Of The Heterobucephalopsinae N. Subfam, Matthew J. Nolan, Stephen S. Curran, Terrence L. Miller, Scott C. Cutmore, Cinzia Cantacessi, Thomas H. Cribb

Faculty Publications

Two new species of bucephalid trematode (Platyhelminthes: Digenea) are described from the giant moray eel, Gymnothorax javanicus (Anguilliformes: Muraenidae), from off Lizard Island, Australia. We used a combined morphological and molecular-based approach targeting the internal transcribed spacer 2 (ITS2) of the ribosomal DNA (rDNA) and the D1–D3 region of the large subunit (28S) of rDNA to circumscribe the species. Dollfustrema durum n. sp. is distinguished from seven congeners in having 5–6 rows of enlarged body spines circling the anterior portion of the rhynchus. From the remaining 10 species, D. durum n. sp. differs in body length, and in having a …

An Enantiodivergent Synthesis Of CΑ-Methyl Nipecotic Acid Analogues From δ-Lactam Derivatives Obtained Through A Highly Stereoselective Cyclization Strategy, Souvik Banerjee, Emily R. Vogel, Daniel Hinton, Michael Sterling, Douglas S. Masterson

Faculty Publications

A stereoselective and enantiodivergent strategy for the construction of δ-lactams is described. The strategy utilizes chiral malonic esters prepared from enantiomerically enriched mono esters of disubstituted malonic acid. A cyclization occurs with the selective displacement of a substituted benzyl alcohol as the leaving group. The resulting δ-lactams are then converted into nipecotic acid analogues using straightforward transformations. The resulting nipecotic acid analogues proved capable organocatalysts in Mannich reactions.

Energy-Environment Policy Alignments, Todd S. Aagaard

Faculty Publications

Energy law focuses on making energy widely available at reasonable cost, and environmental law focuses on preventing pollution. As a result of these differences in their respective orientations, the two fields often work incoherently and even in conflict. Historically, federal energy law and environmental law have attempted to manage their interrelationships by imposing negative constraints on each other: Energy policies of the Federal Energy Regulatory Commission (FERC) must comply with requirements set forth in environmental statutes, and the Environmental Protection Agency’s (EPA’s) statutes contain energy-related requirements and exemptions. More recently, however, FERC and EPA have begun developing policies that create …

Differences In Patterns Of Reproductive Allocation Between The Sexes In Nicrophorus Orbicollis, Ashlee N. Smith, J. Curtis Creighton, Mark C. Belk

Faculty Publications

Organisms are selected to maximize lifetime reproductive success by balancing the costs of current reproduction with costs to future survival and fecundity. Males and females typically face different reproductive costs, which makes comparisons of their reproductive strategies difficult. Burying beetles provide a unique system that allows us to compare the costs of reproduction between the sexes because males and females are capable of raising offspring together or alone and carcass preparation and offspring care represent the majority of reproductive costs for both sexes. Because both sexes perform the same functions of carcass preparation and offspring care, we predict that they …

Predicted Binding Site Information Improves Model Ranking In Protein Docking Using Experimental And Computer-Generated Target Structures, Surabhi Maheshwari, Michal Brylinski

Faculty Publications

© 2015 Maheshwari and Brylinski. Background: Protein-protein interactions (PPIs) mediate the vast majority of biological processes, therefore, significant efforts have been directed to investigate PPIs to fully comprehend cellular functions. Predicting complex structures is critical to reveal molecular mechanisms by which proteins operate. Despite recent advances in the development of new methods to model macromolecular assemblies, most current methodologies are designed to work with experimentally determined protein structures. However, because only computer-generated models are available for a large number of proteins in a given genome, computational tools should tolerate structural inaccuracies in order to perform the genome-wide modeling of PPIs. …

Novel Mode Of Defective Neural Tube Closure In The Non-Obese Diabetic (Nod) Mouse Strain, J. Michael Salbaum, Claudia Kruger, Jacalyn Macgowan, Nils J. Herion, David Burk, Claudia Kappen

Faculty Publications

Failure to close the neural tube results in birth defects, with severity ranging from spina bifida to lethal anencephaly. Few genetic risk factors for neural tube defects are known in humans, highlighting the critical role of environmental risk factors, such as maternal diabetes. Yet, it is not well understood how altered maternal metabolism interferes with embryonic development, and with neurulation in particular. We present evidence from two independent mouse models of diabetic pregnancy that identifies impaired migration of nascent mesodermal cells in the primitive streak as the morphogenetic basis underlying the pathogenesis of neural tube defects. We conclude that perturbed …

Multipart Chaperone-Effector Recognition In The Type Iii Secretion System Of Chlamydia Trachomatis, Li Shen, Megan A. Macnaughtan, Kyla M. Frohlich, Yanguang Cong, Octavia Y. Goodwin, Chau Wen Chou, Louis Lecour, Kristen Krup, Miao Luo, David K. Worthylake

Faculty Publications

© 2015 by The American Society for Biochemistry and Molecular Biology, Inc. Secretion of effector proteins into the eukaryotic host cell is required for Chlamydia trachomatis virulence. In the infection process, Scc1 and Scc4, two chaperones of the type III secretion (T3S) system, facilitate secretion of the important effector and plug protein, CopN, but little is known about the details of this event. Here we use biochemistry, mass spectrometry, nuclear magnetic resonance spectroscopy, and genetic analyses to characterize this trimolecular event. We find that Scc4 complexes with Scc1 and CopN in situ at the late developmental cycle of C. trachomatis. …

Large Scale Patterns Of Genetic Variation And Differentiation In Sugar Maple From Tropical Central America To Temperate North America, Yalma L. Vargas-Rodriguez, William J. Platt, Lowell E. Urbatsch, David W. Foltz

Faculty Publications

© 2015 Vargas-Rodriguez et al. Background: Geological events in the latter Cenozoic have influenced the distribution, abundance and genetic structure of tree populations in temperate and tropical North America. The biogeographical history of temperate vegetation that spans large ranges of latitude is complex, involving multiple latitudinal shifts that might have occurred via different migration routes. We determined the regional structuring of genetic variation of sugar maple (Acer saccharum subsp. saccharum) and its only subspecies in tropical America (Acer saccharum subsp. skutchii) using nuclear and chloroplast data. The studied populations span a geographic range from Maine, USA (46°N), to El Progreso, …

River Discharge, R. M. Holmes, Alexander I. Shiklomanov, Suzanne E. Tank, James W. Mcclelland, M. Tretiakov

Faculty Publications

In 2014, combined discharge from the eight largest Arctic rivers (2,487 km3) was 10% greater than average discharge for the period 1980-1989. Values for 2013 (2,282 km3) and 2012 (2,240 km3) were 1% greater than and 1% less than the 1980-1989 average, respectively. For the first seven months of 2015, the combined discharge for the six largest Eurasian Arctic rivers shows that peak discharge was 10% greater and five days earlier than the 1980-1989 average for those months.