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Selection Of Reference Genes For Rt-Qpcr Analysis In The Monarch Butterfly, Danaus Plexippus (L.), A Migrating Bio-Indicator, Huipeng Pan, Xiaowei Yang, Keith Bidne, Richard L. Hellmich, Blair D. Siegfried, Xuguo Zhou

Department of Entomology: Faculty Publications

Reverse transcriptase-quantitative polymerase chain reaction (RT-qPCR) is a powerful technique to quantify gene expression. To facilitate gene expression study and obtain accurate results, normalization relative to stably expressed reference genes is crucial. The monarch butterfly, Danaus plexippus (L.), is one of the most recognized insect species for its spectacular annual migration across North America. Besides its great voyages, D. plexippus has drawn attention to its role as a bio-indicator, ranging from genetically modified organisms (GMOs) to natural ecosystems. In this study, nine reference genes from D. plexippus genome were selected as the candidate reference genes. The expression profiles of these …

Abiotic And Biotic Stressors Causing Equivalent Mortality Induce Highly Variable Transcriptional Responses In The Soybean Aphid, Laramy S. Enders, Ryan D. Bickel, Jennifer A. Brisson, Tiffany Heng-Moss, Blair D. Siegfried, Anthony J. Zera, Nicholas Miller

Department of Entomology: Faculty Publications

Environmental stress affects basic organismal functioning and can cause physiological, developmental, and reproductive impairment. However, in many nonmodel organisms, the core molecular stress response remains poorly characterized and the extent to which stress-induced transcriptional changes differ across qualitatively different stress types is largely unexplored. The current study examines the molecular stress response of the soybean aphid (Aphis glycines) using RNA sequencing and compares transcriptional responses to multiple stressors (heat, starvation, and plant defenses) at a standardized stress level (27% adult mortality). Stress-induced transcriptional changes showed remarkable variation, with starvation, heat, and plant defensive stress altering the expression of …

Beetles (Coleoptera) Of Peru: A Survey Of The Families. Scarabaeoidea, Brett C. Ratcliffe, M. L. Jameson, L. Figueroa, R. D. Cave, M. J. Paulsen, Enio B. Cano, C. Beza-Beza, L. Jimenez-Ferbans, P. Reyes-Castillo

Department of Entomology: Faculty Publications

The 1042 species of Scarabaeoidea known to occur in Peru are listed with their taxonomic placement in families, subfamilies, and tribes.

Predation Of Introduced Mosquito Larvae By The Midge Metriocnemus Knabi In The Phytotelma Of The Pitcher Plant Sarracenia Purpurea And Colonization Following Dry Conditions, Gary Joseph Torrisi, W. Wyatt Hoback, John E. Foster, Elvis A. Heinrichs, Leon G. Higley

Department of Entomology: Faculty Publications

The leaves of the carnivorous Sarracenia purpurea (Purple Pitcher Plant) provide habitat for obligate insects. Within the pitchers of this plant, Metriocnemus knabi (Pitcher Plant Midge) larvae coexist with Wyeomyia smithii (Pitcher Plant Mosquito) larvae. No other mosquito species has been reported to utilize this habitat in the presence of the midge. We tested whether the midge larvae were responsible for the elimination of other mosquito species. We introduced 1 Aedes triseriatus (Eastern Treehole Mosquito) larva, into each of 90 different pitchers. After 45–75 minutes, we extracted the fluid from the Purple Pitcher Plant and counted mosquito and midge larvae. …

Patterns Of Differential Gene Expression In Adult Rotation-Resistant And Wild-Type Western Corn Rootworm Digestive Tracts, Chia-Ching Chu, Jorge A. Zavala, Joseph L. Spencer, Matías J. Curzi, Christopher J. Fields, Jenny Drnevich, Blair D. Siegfried, Manfredo J. Seufferheld

Department of Entomology: Faculty Publications

The western corn rootworm (WCR, Diabrotica virgifera virgifera LeConte) is an important pest of corn. Annual crop rotation between corn and soybean disrupts the corn-dependent WCR life cycle and is widely adopted to manage this pest. This strategy selected for rotation-resistant (RR) WCR with reduced ovipositional fidelity to corn. Previous studies revealed that RR-WCR adults exhibit greater tolerance of soybean diets, different gut physiology, and host–microbe interactions compared to rotation-susceptible wild types (WT). To identify the genetic mechanisms underlying these phenotypic changes, a de novo assembly of the WCR adult gut transcriptome was constructed and used for RNA-sequencing analyses of …

Development Of Listeriabase And Comparative Analysis Of Listeria Monocytogenes, Mui Fern Tan, Cheuk Chuen Siow, Avirup Dutta, Naresh Vr Mutha, Wei Yee Wee, Hamed Heydari, Shi Yang Tan, Mia Yang Ang, Guat Jah Wong, Siew Woh Choo

School of Computing: Faculty Publications

Background: Listeria consists of both pathogenic and non-pathogenic species. Reports of similarities between the genomic content between some pathogenic and non-pathogenic species necessitates the investigation of these species at the genomic level to understand the evolution of virulence-associated genes. With Listeria genome data growing exponentially, comparative genomic analysis may give better insights into evolution, genetics and phylogeny of Listeria spp., leading to better management of the diseases caused by them.

Description: With this motivation, we have developed ListeriaBase, a web Listeria genomic resource and analysis platform to facilitate comparative analysis of Listeria spp. ListeriaBase currently houses 850,402 protein-coding genes, 18,113 …

Optimization And Control Of Cyber-Physical Vehicle Systems, Justin M. Bradley, Ella M. Atkins

School of Computing: Faculty Publications

A cyber-physical system (CPS) is composed of tightly-integrated computation, communication and physical elements. Medical devices, buildings, mobile devices, robots, transportation and energy systems can benefit from CPS co-design and optimization techniques. Cyber-physical vehicle systems (CPVSs) are rapidly advancing due to progress in real-time computing, control and artificial intelligence. Multidisciplinary or multi-objective design optimization maximizes CPS efficiency, capability and safety, while online regulation enables the vehicle to be responsive to disturbances, modeling errors and uncertainties. CPVS optimization occurs at design-time and at run-time. This paper surveys the run-time cooperative optimization or co-optimization of cyber and physical systems, which have historically been …

Chaos, Reports, And Quests: Narrative Agency And Co-Workers In Stories Of Workplace Bullying, Stacy Tye-Williams, Kathleen J. Krone

Department of Communication Studies: Faculty Publications

This study examined narratives that targets of workplace bullying told about their difficult work experiences along with how co-workers were framed in these narratives. Three different narrative types emerged from their accounts: chaos, report, and quest narratives. Co-worker responses of support or lack thereof were related to the construction of various narrative forms and the level of narrative agency evident in target accounts. The study has important implications for the difference co-workers can make in a target’s ability to withstand bullying and narrate his or her experience.

Salmonella Enterica Serovar Typhimurium-Infected Pigs With Different Shedding Levels Exhibit Distinct Clinical, Peripheral Cytokine And Transcriptomic Immune Response Phenotypes, Susan M. Knetter, Shawn M. D. Bearson, Ting-Hua Huang, Dason Kurkiewicz, Martine Schroyen, Dan Nettleton, Daniel Berman, Valerie Cohen, Joan K. Lunney, Amanda E. Ramer-Tait, Michael J. Wannemuehler, Christopher K. Tuggle

Department of Food Science and Technology: Faculty Publications

Foodborne salmonellosis costs the US $2.7 billion/year, including $100.0 million in annual losses to pork producers. Pigs colonized with Salmonella are usually asymptomatic with varied severity and duration of fecal shedding. Thus, understanding the responses that result in less shedding may provide a mechanism for control. Fifty-four pigs were inoculated with Salmonella enterica serovar Typhimurium (ST) and clinical signs, fecal ST shedding, growth performance, peripheral cytokines and whole blood gene expression were measured. Persistently shedding (PS) pigs had longer pyrexia and elevated serum IL-1b, TNF-a and IFN-g compared with low shedding (LS) pigs, while LS pigs had brief pyrexia, less …

Sourdough Lactic Acid Bacteria As Antifungal And Mycotoxin-Controlling Agents, Yousef I. Hassan, Ting Zhou, Lloyd B. Bullerman

Department of Food Science and Technology: Faculty Publications

Sourdough starter cultures are rich sources of endogenous lactic acid bacteria. The extended shelf lives of sourdough breads are attributed to a large array of organic acids and low-molecular-weight metabolites produced during the fermentation process. Different species belonging to the lactic acid bacteria group of microorganisms, mainly Lactobacillus and Leuconostoc, are increasingly gaining the attention as possible means for inhibiting mold growth in animal feed and human food chains. In addition, certain lactic acid bacteria strains isolated from sourdough starters were also shown to reduce mycotoxins concentrations in contaminated products either by binding or degradation. This short review will …

Processing Effects On Four Prebiotic Carbohydrates Supplemented In An Extruded Cereal And A Low Ph Drink, Rebbeca M. Duar, Pei Tze Ang, Michelle Hoffman, Randy Wehling, Robert W. Hutkins, Vicki Schlegel

Department of Food Science and Technology: Faculty Publications

Prebiotic carbohydrates are added as functional ingredients to a variety of processed foods. Data on the stability of prebiotics during food processing in complex matrices remain limited. The objective of this project was to determine the stability of fructooligosaccharides (FOS), inulin, galactooligosaccharides (GOS), and resistant starch (RS₂), when added as ingredients (1% w/w) to an extruded cereal and a low pH drink. The cereal was prepared using different screw speeds and barrel temperatures. GOS was not affected by any of the extrusion conditions, whereas inulin decreased significantly at 140 and 170°C. FOS levels decreased in all extrusion conditions, …

Host Genetic Architecture And The Landscape Of Microbiome Composition: Humans Weigh In, Andrew K. Benson

Department of Food Science and Technology: Faculty Publications

Comparative analyses of the control of mammalian microbiomes by host genetic architecture reveal striking conserved features that have implications for the evolution of host–microbiome interactions.

Feed The Future Ipm Innovation Lab: A Critical Role In Global Food Security, R. Muniappan, Elvis A. Heinrichs

Department of Entomology: Faculty Publications

The World Food Summit of 1966 defined ”food security” as existing “when all people at all times have access to sufficient, safe, and nutritious food to maintain a healthy and active life.” Food insecurity is part of a continuum that includes hunger (food deprivation), malnutrition (deficiencies, imbalances, or excess of nutrients), and famine. The world faces three major challenges: (1) to match the rapidly changing demand for food, (2) to do so in ways that are environmentally and socially acceptable, and (3) to ensure that the world’s poorest people are no longer hungry. World population is expected to reach 9 …

Quantitative Real-Time Polymerase Chain Reaction For Detecting Mycoplasma Hyosynoviae And Mycoplasma Hyorhinis In Pen-Based Oral, Tonsillar, And Nasal Fluids, João Carlos Gomes Neto, Leslie Bower, Barbara Z. Erickson, Chong Wang, Matthew Raymond, Erin L. Strait

Department of Food Science and Technology: Faculty Publications

Mycoplasma (M.) hyorhinis and M. hyosynoviae are pathogens known to cause disease in pigs post-weaning. Due to their fastidious nature, there is increased need for culture-independent diagnostic platforms to detect these microorganisms. Therefore, this study was performed to develop and optimize quantitative real-time PCR (qPCR) assays to rapidly detect M. hyorhinis and M. hyosynoviae in pen-based oral fluids as well as nasal and tonsillar fluids as proxies for samples used in swine herd surveillance. Two methods of genomic DNA extraction, automated versus manual, were used to compare diagnostic test performance. A wean-to-finish longitudinal study was also carried out to demonstrate …

In Vivo Selection To Identify Bacterial Strains With Enhanced Ecological Performance In Synbiotic Applications, Janina A. Krumbeck, Maria X. Maldonado-Gomez, Ines Martınez, Steven Frese, Thomas E. Burkey, Karuna Rasineni, Amanda E. Ramer-Tait, Edward N. Harris, Robert W. Hutkins, Jens Walter

Department of Food Science and Technology: Faculty Publications

One strategy for enhancing the establishment of probiotic bacteria in the human intestinal tract is via the parallel administration of a prebiotic, which is referred to as a synbiotic. Here we present a novel method that allows a rational selection of putative probiotic strains to be used in synbiotic applications: in vivo selection (IVS). This method consists of isolating candidate probiotic strains from fecal samples following enrichment with the respective prebiotic. To test the potential of IVS, we isolated bifidobacteria from human subjects who consumed increasing doses of galactooligosaccharides (GOS) for 9 weeks. A retrospective analysis of the fecal microbiota …

Sandwich Enzyme-Linked Immunosorbent Assay For Detecting Sesame Seed In Foods, Stef J. Koppelman, Gülsen Söylemez, Lynn Niemann, Ferdelie E. Gaskin, Joseph L. Baumert, Steve L. Taylor

Department of Food Science and Technology: Faculty Publications

Small amounts of sesame can trigger allergic reactions in sesame-allergic patients. Because sesame is a widely used food ingredient, analytical methods are needed to support quality control and food safety programs in the food industry. In this study, polyclonal antibodies against sesame seed proteins were raised, and an enzyme-linked immunosorbent assay (ELISA) was developed for the detection and quantification of sesame seed residue in food. A comparison was made between this ELISA and other assays, particularly focusing on recovery of sesame seed residue from different food matrices. The developed ELISA is sensitive with a lower limit of quantification of 0.5 …

Food Processing And Allergenicity, Kitty C. M. Verhoeckx, Yvonne M. Vissers, Joseph L. Baumert, Roland Faludi, Marcel Feys, Simon Flanagan, Corinne Herouet-Guicheney, Thomas Holzhauser, Ryo Shimojo, Nieke Van Der Bolt, Harry Wichers, Ian Kimber

Department of Food Science and Technology: Faculty Publications

Food processing can have many beneficial effects. However, processing may also alter the allergenic properties of food proteins. A wide variety of processing methods is available and their use depends largely on the food to be processed.

In this review the impact of processing (heat and non-heat treatment) on the allergenic potential of proteins, and on the antigenic (IgG-binding) and allergenic (IgE-binding) properties of proteins has been considered. A variety of allergenic foods (peanuts, tree nuts, cows’ milk, hens’ eggs, soy, wheat and mustard) have been reviewed.

The overall conclusion drawn is that processing does not completely abolish the allergenic …

Humanized Microbiota Mice As A Model Of Recurrent Clostridium Difficile Disease, James Collins, Jennifer M. Auchtung, Laura Schaefer, Kathryn A. Eaton, Robert A. Britton

Department of Food Science and Technology: Faculty Publications

Background: Clostridium difficile disease is the leading antibiotic-associated cause of diarrhea and nosocomial acquired infection in the western world. The per annum burden in the USA alone amounts to 250,000 cases with 14,000 ascribed deaths and medical costs in excess of a billion dollars. Novel models for the study of C. difficile infection are therefore pertinent.

Results: Germ free C57BL/6 mice gavaged with a healthy human fecal microbiota maintained a stable “humanized” microbiota over multiple generations when housed under specific pathogen-free (SPF) conditions. As with mice containing a conventional microbiota, treatment with a five-antibiotic cocktail followed by a single dose …

Cultivation Of Stable, Reproducible Microbial Communities From Different Fecal Donors Using Minibioreactor Arrays (Mbras), Jennifer M. Auchtung, Catherine D. Robinson, Robert A. Britton

Department of Food Science and Technology: Faculty Publications

Background: Continuous-flow culture models are one tool for studying complex interactions between members of human fecal microbiotas because they allow studies to be completed during an extended period of time under conditions where pH, nutrient availability, and washout of waste products and dead cells can be controlled. Because many of the existing well-validated continuous-flow models are large and complex, we were interested in developing a simpler continuous-flow system that would allow microbial community dynamics to be examined in higher throughput while still maintaining complex microbial communities. To this end, we developed minibioreactor arrays (MBRAs), small volume bioreactors (15 ml) that …

Stalk Strenght And Sugar Content Of 55 Dual-Purpose Sorghum Inbreds, S. F. Chen, M.-G. C. Danao, P. J. Brown

Department of Food Science and Technology: Faculty Publications

In 2012, sorghum was approved by the U.S. Environmental Protection Agency (EPA) as an “advanced” bioenergy feedstock in cases where both the grain and stover are both used for energy production (USEPA, 2012). It is desirable, therefore, to develop taller varieties of sorghum to increase biomass yields. However the taller the plant gets, the more susceptible it becomes to lodging, reducing grain yield in the end. Additionally the ability to characterize the storage stability of new sorghum varieties in terms of moisture content and free sugars content is advantageous. In this study, high throughput assays to characterize stalk strength based …

Promises And Prospects Of Microbiome Studies, Maria C. Rivera, Jacques Izard

Department of Food Science and Technology: Faculty Publications

Since Anthony van Leeuwenhoek, first microscopic observations of the unseen microbiota and the more recent realization that little of the microbes in the biosphere are known, humans have developed a deep curiosity to fully understand the inner workings of the microbial realm. Our ability to characterize the complexity of microbial communities in their natural habitats has dramatically improved over the past decade thanks to advances in high-throughput methodologies. By eliminating the need to isolate and culture individual species, metagenomics approaches have removed many of the obstacles that hindered research in the ecology of mixed microbial consortia, providing valuable information about …

International Knowledge Flows And Technological Advance: The Role Of Migration, Kacey N. Douglas

Department of Economics: Faculty Publications

This paper investigates whether knowledge flows from host to source country as a result of migration, alleviating the negative effects associated with outward migration. Using a fixed effects Poisson regression, patent citations are used as a proxy for knowledge flows and regressed on immigration and other control variables; the effect of immigration on patent citations is found to be positive and statistically significant. Additionally, the coefficient on immigration is found to be robust to different parameter changes in the model. These results suggest that reverse knowledge flows from outward migration help mitigate negative effects of outward migration on source countries.

A Dream Best Forgotten: The Phenomenology Of Karen Refugees’ Pre-Resettlement Stressors, Theodore T. Bartholomew, Brittany E. Gundel, Neeta Kantamneni

Department of Educational Psychology: Faculty Publications

Refugees are often forced into states of imposed vulnerability in which loss is common and migration is normative. Karen refugees from Myanmar have endured a long civil war with the Burmese government, followed by their forced relocation to refugee camps and subsequent global resettlement. This phenomenological study aimed to understand the meanings ascribed to pre-resettlement stress among resettled Karen refugees. We interviewed six participants who were identified through purposeful sampling in a Karen refugee community. Using phenomenological analysis, we identified and interpreted 286 meaning units. The meaning units were then grouped into four themes: (a) Loss From Oppression, (b) Resignation …

Inducing Persistent Flow Disturbances Accelerates Atherogenesis And Promotes Thin Cap Fibroatheroma Development In D374y-Pcsk9 Hypercholesterolemic Minipigs, Ryan M. Pedrigi, Christian Bo Poulsen, Vikram V. Mehta, Niels Ramsing Holm, Nilesh Pareek, Anouk L. Post, Ismail Dogu Kilic, Winston A.S. Banya, Gianni Dall'ara, Alessio Mattesini, Martin M. Bjorklund, Niels P. Andersen, Anna K. Grondal, Enrico Petretto, Nicolas Foin, Justin E. Davies, Carlo Di Mario, Jacob Fog Bentzon, Hans Erik Botker, Erling Falk, Rob Krams, Ranil De Silva

Department of Mechanical and Materials Engineering: Faculty Publications

Background—Although disturbed flow is thought to play a central role in the development of advanced coronary atherosclerotic plaques, no causal relationship has been established. We evaluated whether inducing disturbed flow would cause the development of advanced coronary plaques, including thin cap fibroatheroma (TCFA).

Methods and Results—D374Y-PCSK9 hypercholesterolemic minipigs (N=5) were instrumented with an intracoronary shear-modifying stent (SMS). Frequency-domain optical coherence tomography was obtained at baseline, immediately post-stent, 19, and 34 weeks and used to compute shear stress metrics of disturbed flow. At 34 weeks, plaque type was assessed within serially-collected histological sections and co-registered to …

Trophic Cascades From Wolves To Grizzly Bears Or Changing Abundance Of Bears And Alternate Foods?, Shannon M. Barber-Meyer

United States Geological Survey, Northern Prairie Wildlife Research Center: Publications

In ‘Trophic cascades from wolves to grizzly bears in Yellowstone’, Ripple et al. (2014) hypothesize that a wolf (Canis lupus)-caused trophic cascade has resulted in increased consumption of fruit by grizzly bears (Ursus arctos) in Yellowstone National Park (YNP). The authors proposed that in the absence of wolves, competition between grizzly bears and elk (Cervus elaphus) for berryproducing shrubs, along with high elk numbers, resulted in decreased fruit availability to grizzly bears. They further hypothesized that post-wolf reintroduction (with a subsequently reduced elk population), there would be an increase in the establishment of …

Mmi: Multimodel Inference Or Models With Management Implications?, John Fieberg, Douglas H. Johnson

United States Geological Survey, Northern Prairie Wildlife Research Center: Publications

We consider a variety of regressionmodeling strategies for analyzing observational data associated with typical wildlife studies, including all subsets and stepwise regression, a single full model, and Akaike’s Information Criterion (AIC)-based multimodel inference. Although there are advantages and disadvantages to each approach, we suggest that there is no unique best way to analyze data. Further, we argue that, although multimodel inference can be useful in natural resourcemanagement, the importance of considering causality and accurately estimating effect sizes is greater than simply considering a variety ofmodels. Determining causation is far more valuable than simply indicating how the response variable and explanatory …

Growth Rates And Variances Of Unexploited Wolf Populations In Dynamic Equilibria, L. David Mech, John Fieberg

United States Geological Survey, Northern Prairie Wildlife Research Center: Publications

Several states have begun harvesting gray wolves (Canis lupus), and these states and various European countries are closely monitoring their wolf populations. To provide appropriate perspective for determining unusual or extreme fluctuations in their managed wolf populations, we analyzed natural, longterm, wolf-population-density trajectories totaling 130 years of data from 3 areas: Isle Royale National Park in Lake Superior, Michigan, USA; the east-central Superior National Forest in northeastern Minnesota, USA; and Denali National Park, Alaska, USA. Ratios between minimum and maximum annual sizes for 2 mainland populations (n = 28 and 46 yr) varied from 2.5–2.8, whereas for …

Population Dynamics Of Amur Tigers (P. T. Altaica, Temminck 1884) In Sikhote-Alin Zapovednik: 1966-2012, Dale Miquelle, Evgeny N. Smirnov, Olga Yu. Zaumyslova, Svetlana V. Soutryina, Douglas H. Johnson

United States Geological Survey, Northern Prairie Wildlife Research Center: Publications

The world’s tiger (Panthera tigris, Linnaeus 1758) range countries agreed to double tiger numbers over twelve years, but whether such an increase is biologically feasible has not been assessed. Long-term monitoring of tigers in Sikhote-Alin Biosphere Zapovednik (SABZ), Russia provided an opportunity to determine growth rates of a recovering population. A 41-year growth phase was followed by a rapid decline in tiger numbers. Annual growth rates during the growth phase averaged 4.6%, beginning near 10% in the earliest years but quickly dropping below 5%. Sex ratio (females per male) mirrored growth rates, declining as population size increased. The …

Group Composition Effects On Aggressive Interpack Interactions Of Gray Wolves In Yellowstone National Park, Kira A. Cassidy, Daniel R. Macnulty, Daniel R. Stahler, Douglas W. Smith, L. David Mech

United States Geological Survey, Northern Prairie Wildlife Research Center: Publications

Knowledge of characteristics that promote group success during intraspecific encounters is key to understanding the adaptive advantages of sociality for many group-living species. In addition, some individuals in a group may be more likely than others to influence intergroup conflicts, a relatively neglected idea in research on social animals. Here we use observations of aggressive interactions between wolf (Canis lupus) packs over an extended period and use pack characteristics to determine which groups had an advantage over their opponents. During 16 years of observation in Yellowstone National Park from 1995 to 2010, we documented 121 interpack aggressive interactions. We recorded …

Evaluation Of A Formula That Categorizes Female Gray Wolf Breeding Status By Nipple Size, Shannon M. Barber-Meyer, L. David Mech

United States Geological Survey, Northern Prairie Wildlife Research Center: Publications

The proportion by age class of wild Canis lupus (Gray Wolf) females that reproduce in any given year remains unclear; thus, we evaluated the applicability to our long-term (1972–2013) data set of the Mech et al. (1993) formula that categorizes female Gray Wolf breeding status by nipple size and time of year. We used the formula to classify Gray Wolves from 68 capture events into 4 categories (yearling, adult non-breeder, former breeder, current breeder). To address issues with small sample size and variance, we created an ambiguity index to allow some Gray Wolves to be classed into 2 categories. We …