Life Sciences Commons^™

Transcriptomic Analysis Of The Entomopathogenic Nematode Heterorhabditis Bacteriophora Tto1, Byron J. Adams, Xiaodong Bai, Todd A. Ciche, Sandra Clifton, Randy Gaugler, Parwinder S. Grewal, Saskia A. Hogenhout, John Spieth, Paul W. Sternberg, Richard K. Wilson

Faculty Publications

Background: The entomopathogenic nematode Heterorhabditis bacteriophora and its symbiotic bacterium, Photorhabdus luminescens, are important biological control agents of insect pests. This nematode-bacterium-insect association represents an emerging tripartite model for research on mutualistic and parasitic symbioses. Elucidation of mechanisms underlying these biological processes may serve as a foundation for improving the biological control potential of the nematode-bacterium complex. This large-scale expressed sequence tag (EST) analysis effort enables gene discovery and development of microsatellite markers. These ESTs will also aid in the annotation of the upcoming complete genome sequence of H. bacteriophora. Results: A total of 31,485 high quality ESTs were generated …

Ionic Selectivity In L-Type Calcium Channels By Electrostatics And Hard-Core Repulsion, Dezso Boda, Douglas Henderson, Monika Valisko, Bob Eisenberg, Dirk Gillespie

Faculty Publications

A physical model of selective "ion binding" in the L-type calcium channel is constructed, and consequences of the model are compared with experimental data. This reduced model treats only ions and the carboxylate oxygens of the EEEE locus explicitly and restricts interactions to hard-core repulsion and ion–ion and ion–dielectric electrostatic forces. The structural atoms provide a flexible environment for passing cations, thus resulting in a self-organized induced-fit model of the selectivity filter. Experimental conditions involving binary mixtures of alkali and/or alkaline earth metal ions are computed using equilibrium Monte Carlo simulations in the grand canonical ensemble. The model pore rejects …

Controlled Assembly Of Rodlike Viruses With Polymers, Tao Li, Laying Wu, Nisaraporn Suthiwangcharoen, Michael A. Bruckman, Dayton Cash, Joan S. Hudson, Soumitra Ghoshroy, Qian Wang

Faculty Publications

A practical method to assemble rodlike tobacco mosaic virus and bacteriophage M13 with polymers was developed, which afforded a 3D core–shell composite with morphological control.

Faculty Should Consider Peer Review As A Means Of Improving Students' Scientific Reasoning Skill, Briana Eileen Timmerman, Denise Strickland

Faculty Publications

The following article provides highlights of a larger body of work on the impact of peer review on undergraduate biology students’ scientific reasoning, scientific writing and attitudes. Results suggest that undergraduates, even freshman can be effective peer reviewers and that peer review improves scientific writing, content knowledge, and scientific reasoning skills. Students report peer review to be a beneficial experience both within the course and in terms of helping them to develop as aspiring scientists. Science faculty are therefore encouraged to consider incorporating peer review as a regular part of instruction.

Historical Account Of The Two Family-Group Names In Use For The Single Accepted Family Comprising The "Fish Blood Flukes", Stephen A. Bullard, Kirsten Jensen, Robin M. Overstreet

Faculty Publications

The family-group name for the "fish blood flukes" is unstable, with both "Aporocotylidae Odhner, 1912" and "Sanguinicolidae von Graff, 1907 "in use for the single family. Although "Sanguinicolidae von Graff, 1907" (or "Graff, 1907") has been a widely-accepted family-group name for the fish blood flukes subsequent to Yamaguti's 1954 and 1958 synoptical publications ("Systema Helminthum"), a critical examination of the relevant literature, much of it published in German during 1900 through 1926, reveals that "Aporocotylidae Odhner, 1912" is the earliest available family-group name for these flukes. The name Aporocotylidae, moreover, was in wide usage by alpha taxonomists before 1954 and …

From Cells To Coastlines: How Can We Use Physiology To Forecast The Impacts Of Climate Change?, Brian Helmuth

Faculty Publications

The interdisciplinary fields of conservation physiology, macrophysiology, and mechanistic ecological forecasting have recently emerged as means of integrating detailed physiological responses to the broader questions of ecological and evolutionary responses to global climate change. Bridging the gap between large-scale records of weather and climate (as measured by remote sensing platforms, buoys and ground-based weather stations) and the physical world as experienced by organisms (niche-level measurements) requires a mechanistic understanding of how ‘environmental signals’ (parameters such as air, surface and water temperature, food availability, water flow) are translated into signals at the scale of the organism or cell (e.g. body temperature, …

Desiccation Survival In An Antarctic Nematode: Molecular Analysis Using Expressed Sequenced Tags, Byron J. Adams, Bishwo N. Adhikari, Diana H. Wall

Faculty Publications

Background: Nematodes are the dominant soil animals in Antarctic Dry Valleys and are capable of surviving desiccation and freezing in an anhydrobiotic state. Genes induced by desiccation stress have been successfully enumerated in nematodes; however we have little knowledge of gene regulation by Antarctic nematodes which can survive multiple environmental stresses. To address this problem we investigated the genetic responses of a nematode species, Plectus murrayi, that is capable of tolerating Antarctic environmental extremes, in particular desiccation and freezing. In this study, we provide the first insight into the desiccation induced transcriptome of an Antarctic nematode through cDNA library construction …

Ca2+ Extrusion By Ncx Is Compromised In Olfactory Sensory Neurons Of Omp-/- Mice, Hyun J. Kwon, Jae Hyung Koo, Frank Zufall, Trese Leinders-Zufall, Frank L. Margolis

Faculty Publications

Background: The role of olfactory marker protein (OMP), a hallmark of mature olfactory sensory neurons (OSNs), has been poorly understood since its discovery. The electrophysiological and behavioral phenotypes of OMP knockout mice indicated that OMP influences olfactory signal transduction. However, the mechanism by which this occurs remained unknown. Principal Findings: We used intact olfactory epithelium obtained from WT and OMP-/- mice to monitor the Ca2+ dynamics induced by the activation of cyclic nucleotide-gated channels, voltage-operated Ca2+ channels, or Ca2+ stores in single dendritic knobs of OSNs. Our data suggested that OMP could act to modulate the Ca2+-homeostasis in these neurons …

Health Effects Of Vegan Diets, Winston J. Craig

Faculty Publications

Recently, vegetarian diets have experienced an increase in popularity. Avegetarian diet is associated with many health benefits because of its higher content of fiber, folic acid, vitamins C and E, potassium, magnesium, and many phytochemicals and a fat content that is more unsaturated. Compared with other vegetarian diets, vegan diets tend to contain less saturated fat and cholesterol and more dietary fiber. Vegans tend to be thinner, have lower serum cholesterol, and lower blood pressure, reducing their risk of heart disease. However, eliminating all animal products from the diet increases the risk of certain nutritional deficiencies. Micronutrients of special concern …

Satellite-Detected Fluorescence Reveals Global Physiology Of Ocean Phytoplankton, Michael J. Behrenfeld, T.K. Westberry, Emmanuel Boss, R.T. O'Malley, D.A. Siegel, Jerry D. Wiggert, B.A. Franz, G.C. Feldman, S.C. Doney, J.K. Moore, G. Dall'olmo, A.J. Milligan, I. Lima, N. Mahowald

Faculty Publications

Phytoplankton photosynthesis links global ocean biology and climate-driven fluctuations in the physical environment. These interactions are largely expressed through changes in phytoplankton physiology, but physiological status has proven extremely challenging to characterize globally. Phytoplankton fluorescence does provide a rich source of physiological information long exploited in laboratory and field studies, and is now observed from space. Here we evaluate the physiological underpinnings of global variations in satellite-based phytoplankton chlorophyll fluorescence. The three dominant factors influencing fluorescence distributions are chlorophyll concentration, pigment packaging effects on light absorption, and light-dependent energy-quenching processes. After accounting for these three factors, resultant global distributions of …

Detection Of Free-Ranging West Indian Manatees Trichechus Manatus Using Side-Scan Sonar, Daniel Gonzalez-Socoloske, Leon David Olivera-Gomez, Robert E. Ford

Faculty Publications

Turbid and tannin-stained waterways are difficult habitats to study and present problems with respect to the management of aquatic fauna, and especially of endangered and cryptic animals such as manatees Trichechus spp. Linnaeus. Throughout much of the range of the extant trichechid species (T. inunguis, T. manatus, and T. senegalensis), the scientific approaches that are used successfully to document the status of the Florida subspecies (T. m. latirostris) are not feasible, due either to constraints associated with habitat or to the high costs involved. We examined the use of side-scan sonar as a novel way to acoustically detect free-ranging West …

A Microrna Imparts Robustness Against Environmental Fluctuation During Development, Xin Li, Justin J. Cassidy, Catherine A. Reinke, Stephen Fischboeck, Richard W. Carthew

Faculty Publications

The microRNA miR-7 is perfectly conserved from annelids to humans, and yet some of the genes that it regulates in Drosophila are not regulated in mammals. We have explored the role of lineage restricted targets, using Drosophila , in order to better understand the evolutionary significance of microRNA-target relationships. From studies of two well characterized developmental regulatory networks, we find that miR-7 functions in several interlocking feedback and feedforward loops, and propose that its role in these networks is to buffer them against perturbation. To directly demonstrate this function for miR-7, we subjected the networks to temperature fluctuation and found …

Habitat Selection By Anolis Carolinensis (Green Anole) In Open Pine Forests In Eastern Texas, Richard R. Schaefer, Robert R. Fleet, D. Craig Rudolph, Nancy E. Koerth

Faculty Publications

We initiated a mark-recapture study to determine the effects of shrub density on Anolis carolinensis (Green Anole) populations. Green Anole perch site, shrub species, and shrub volume preferences were also examined. We established two study plots of different shrub densities in open pine forests on the Angelina National Forest in eastern Texas. In late spring, the Green Anole population at the higher shrub-density plot was estimated to be 16 times greater than the population at the lower shrub-density plot. Green Anoles most commonly perched on live shrubs, but exhibited very little preference or avoidance of any particular species of live …

A New Whole-Stand Model For Unmanaged Loblolly And Slash Pine Plantations In East Texas, Dean W. Coble

Faculty Publications

A new compatible whole-stand growth-and-yield model to predict total tree cubic-foot volume per acre yield (outside and inside bark) was developed for unmanaged loblolly pine (Pinus taeda) and slash pine (Pinus elliottii) plantations in East Texas. This model was compared with the noncompatible whole-stand model of Lenhart (Lenhart, 1996, Total and partial stand-level yield prediction for loblolly and slash pine plantations in east Texas, South. J. Appl. For. 20(1):36–41) and the Lenhart (1996) model refit to current data. For the two species, all three models were evaluated with independent observed data. The model developed in this study outperformed both Lenhart …

Habitat Use Of American Alligators In East Texas, Warren C. Conway, Kevin Webb, Gary Calkins, Jeffrey Duguay

Faculty Publications

The American alligator (Alligator mississippiensis) has made a remarkable recovery throughout its range during the last halfcentury. In Texas, USA, current inland alligator population and harvest management strategies rely on generalized and often site-specific habitat and population data generated from coastal populations, because it is assumed that habitat and demographic similarities exist between inland and coastal populations. These assumptions have not been verified, however, and no studies have specifically examined inland alligator habitat use in Texas. We quantified alligator habitat use in East Texas during 2003–2004 to address this information gap and to facilitate development of regionally specific management strategies. …

Recovery Of Nesting Bald Eagles In Texas (Abstract), Sarah T. Saalfeld, Warren C. Conway

Faculty Publications

One of the most successful conservation stories in United States' history resulted in Haliaeetus leucocephalus (Bald Eagle) being removed recently from the federal endangered species list. Few studies, however, have documented regional long-term recovery trends for Bald Eagles. We quantified Bald Eagle nesting density, distribution, and productivity trends by using aerial surveys of nests located 69 counties in eastern Texas from 1971-2005. The total number of occupied nests, productive nests, and offspring produced increased exponentially during that time with the most dramatic increases occurring from 1995-2005. Since 1971, the total number of occupied nests increased 13% per year, from 5 …

Wintering Yellow-Bellied Sapsucker Time Activity Budgets In East Texas Bottomland Hardwood Forests (Abstract), Jason R. Speights, Warren C. Conway

Faculty Publications

We developed time-activity budgets for 286 Yellow-bellied Sapsuckers (Sphyrapicus varius) from October 2005/2006 to March 2006/2007 in east Texas bottomland hardwood forests. Behaviors were similar between genders and study sites (P > 0.05), but varied (P = 0.008) between years. Sapsuckers spent more time foraging upon arrival in wintering areas and during morning throughout the study periods. Deviation from monthly average low temperature was an important (P = 0.038) covariate during the second study year, when sapsuckers increased time spent foraging during colder than average temperatures and increased time perching on days with warmer than average …

Invertebrate Biomass And Richness In Various Food Plot Types In East Texas, Charles W. Anderson, R. Montague Whiting Jr., Donald R. Dietz, Richard M. Capps

Faculty Publications

As northern bobwhite (Colinus virginianus) chicks are dependent on invertebrates for food, land managers often use spring/summer food plots to meet these needs. We examined invertebrate production in native vegetation and 6 different food plot types (i.e., fallow disking only; fallow disking and fertilizing; or disking, fertilizing, and planting a single species [browntop millet, iron and clay peas, or sorghum] or a multi-species mix [browntop millet, catjang peas, iron and clay peas, Japanese millet, and pearl millet]) in the Pineywoods of east Texas. Invertebrates were collected weekly during the summers of 1997 and 1999 and for 5 weekly sampling periods …

Winter Food Habits And Preferences Of Northern Bobwhites In East Texas, Donald R. Dietz, R. Montague Whiting Jr., Nancy E. Koerth

Faculty Publications

During late winter, 1994 and 1995, we investigated food habits and preferences of northern bobwhites (Colinus virginianus; hereafter, bobwhites) collected on forested lands in east Texas. Crops for bobwhites were collected from areas under 3 management regimes, namely intensively managed for bobwhites (QMA) (i.e., tree basal area reduced, annually burned, numerous multi-stage food plots, etc.), extensively managed for timber and wildlife (NBS) (i.e., burned every 3-5 years, scattered 2-stage food plots with corn feeders), and unmanaged for wildlife (i.e., burned every 5-7 years). With years pooled, partridge pea (Cassia fasciculata), Hercules club (Zanthoxylum clava-herculis), and pine (Pinus spp.) seeds, and …

Forval: Computer Software Package For Agricultural And Natural Resources Investment Analysis, T. J. Straka, Steven H. Bullard

Faculty Publications

The valuation of agricultural and natural resource investments presents challenging analysis problems that often require the use of computer software. Most of these computer packages are complex and costly. FORVAL is a free, user-friendly, menu-driven, agricultural and natural resource investment analysis package. It can accommodate any investment scenario and includes the standard financial criteria (net present value, rate of return, equal annual income, benefit/cost ratio, and land expectation value for forestry investments). FORVAL accommodates various cash flows like single sum, terminating annual and periodic series, and perpetual annual and periodic series. It also has options for payment and price projections.

Performance Comparison Between The Use And Nonuse Of An Enteric Health Medication Program Across Five Consecutive Commercial Broiler Flocks, Joey Lynn Bray, C. S. Taylor, T. E. Cherry, J. Carey

Faculty Publications

A study was conducted to examine broiler performance and carcass yield across 5 consecutive commercial broiler flocks after the removal of roxarsone (ROX) and growth-promoting antibiotics (GPA) from the feed. Over a 1-yr period, approximately 552,000 broilers were reared in 4 solid-walled, tunnel-ventilated houses, divided into 2 paired-house facilities, and were assigned 1 of 2 dietary treatments. The treated group received basal diets containing salinomycin, ROX, and GPA, whereas the control group received the same diets without ROX and GPA. Average BW were recorded for 200 sample birds/treatment per flock at 18, 35, and 48 d of age. Average BW, …

Effects Of Intermittent Suckling On Sow And Piglet Performance, Erin G. Brown, Lindsey B. Krebs, Chris L. Boone, Ty Cauthen

Faculty Publications

The objective of this study was to evaluate effects of intermittent suckling on sow and litter performance. Seventeen crossbred sows and litters were randomly assigned to treatment groups seven days prior to weaning: continuous suckling (CS) and intermittent suckling (IS; litters removed for 6 hr each from day 21 to 28). Litters were weaned at 28 days of age. Feed and water were available to litters and sows at all times. Feed intake was recorded. Body condition scores were collected on sows before farrowing and at weaning. Number of days to return-to-estrus for the sows was also recorded. Litters were …

Fin-Mutant Female Zebrafish (Danio Rerio) Exhibit Differences In Association Preferences For Male Fin Length, Jennifer M. Gumm, Jennifer L. Snekser, M. Kathryn Lovine

Faculty Publications

Females often choose to associate with males that have exaggerated traits. In fishes, this may reflect an overall preference for larger size in a potential mate. Female zebrafish (Danio rerio) prefer males with larger bodies but not longer fins. The availability of mutant and transgenic strains of zebrafish make this a unique model system in which to study the role of phenotypic variation in social and sexual behavior. We used mutant strains of zebrafish with truncated (short fin) and exaggerated (long fin) fins to further examine female preferences for fin length in dichotomous association tests. Wild type females showed no …

A Primitive Aphidiine Wasp In Albian Amber From Spain And A Northern Hemisphere Origin For The Subfamily (Hymenoptera: Braconidae: Aphidiinae), Jaime Ortega-Blanco, Daniel J. Bennett, Xavier Delclòs, Michael S. Engel

Faculty Publications

A description of a new genus and species of braconid, Archephedrus stolamissus, from Early Cretaceous (Albian) amber from Moraza-Peñacerrada I (Spain) is here provided. This is the first fossil Aphidiinae described in Cretaceous amber. The fossil has some typical characters of the subfamily but possesses a unique assemblage of characters among aphidiines, such as a fairly robust abdomen, with a more pronounced articulation between the first and second, instead of the second and third, metasomal segments, as well as several wing venational traits. The distribution of this and other aphidiine fossils, as well as their putative phylogenetic placement as …

A Remarkable Tiphiiform Wasp In Mid-Cretaceous Amber From Myanmar (Hymenoptera: Tiphiidae), Michael S. Engel, Jaime Ortega-Blanco, Daniel J. Bennett

Faculty Publications

The first tiphiid wasp (Aculeata: Euaculeata: Vespoidea: Tiphiiformes) in Cretaceous amber is described and figured. Thanatotiphia nyx, new genus and species, is represented by a male entombed in mid-Cretaceous (latest Albian) amber from Myanmar. Thanatotiphia possesses remarkable apomorphies in wing venation, lacks key traits of modern subfamilies, and is thus classified in a new subfamily, Thanatotiphiinae. The fossil is further shown to be nested well within the family, indicating that major lineages of Tiphiidae diverged by the mid-Cretaceous. The new taxon is compared with modern tiphiid subfamilies and the sparse fossil history of the family briefly overviewed.

Thermoregulation Of Male Elaphe Spiloides In An Agriculturally-Fragmented Forest In Illinois, C. Drew Foster, Sarabeth Klueh, Stephen J. Mullin

Faculty Publications

Anthropogenic forest fragmentation increases the amount of edge habitat. Although edges are harsh environments for many native species, ratsnakes often prefer this habitat. We examined thermoregulatory effectiveness of Central Ratsnakes (Elaphe spiloides) using forest edges preferentially to determine if edge preference is driven by increased thermoregulatory efficiencies. Six male subjects were located every 1-2 days using radio-telemetry and temperature sensitive transmitters. Subjects did not thermoregulate more efficiently in edges than in forest. Snakes were thermoconformers in both habitat types suggesting edge preference might be driven by other factors.

Demographics Of A Geographically-Isolated Population Of Threatened Salamander (Caudata: Ambystomatidae) In Central Illinois, Stephen J. Mullin, Sarabeth Klueh

Faculty Publications

Amphibian populations that use small isolated wetlands are often small in size, susceptible to stochastic extinction processes, and have little to no contact with other populations. One can ascertain the persistence of such populations only by obtaining data that allow the prediction of future changes in population’s size, and propensity to achieve a sustainable number of individuals. The number of metamorphosing larvae leaving a pond predicts the viability of a salamander population, and thus, the number recruited into the terrestrial adult population. The Jefferson Salamander, Ambystoma jeffersonianum, is a listed threatened species in Illinois, occurring at fewer than 15 ponds …

A Survey Of Reptiles And Amphibians On Kinmen Island, Taiwan, Daniel Saenz, Heather V. Podlipny, Pei-Yu Tasi, Brent Burt, Hsiao-Wei Yuan

Faculty Publications

Little is known about the reptiles and amphibians of Kinmen Island, Taiwan. Until recently, Kinmen had been off-limits to outsiders. It wasn’t until the mid 1990’s that civilian travel was allowed to and from the island. We surveyed 8 sites from 19 May through 18 July 2005, using 15 m drift fences with collapsible funnel traps on the ends. We documented encounters with animals outside the traps and observed 258 individuals of 7 species during our survey. The herpetofauna encountered consisted of two anuran, two lizard, and three snake species. The two anuran species made up over 97% of the …

Ecological Parameters Of Coluber Constrictor Etheridgei, With Comparisons To Other Coluber Constrictor Subspecies, Robert R. Fleet, D. Craig Rudolph, J. D. Camper, J. Niederhofer

Faculty Publications

In 1998, we conducted a radio-telemetry study of Coluber constrictor etheridgei (Tan Racer) in the Angelina National Forest in eastern Texas. Individuals were located once daily from 12 June to 14 August. We determined home-range size, movement distances, movement frequency, and habitat use for this short-term study. We also determined food habits of this population by examination of fecal samples. We compared these parameters to other Racer taxa in Utah (C. c. mormon [Western Yellow-bellied Racer]), Kansas (C. c. fl aviventris [Eastern Yellow-bellied Racer]), and South Carolina (C.c. priapus [Southern Black Racer]). Compared to these populations, Texas Racers exhibited larger …

A Distribution-Free Convolution Model For Background Correction Of Oligonucleotide Microarray Data, Zhongxue Chen, Monnie Mcgee, Qingzhong Liu, Megan Kong, Youping Deng, Richard H. Scheuermann

Faculty Publications

Introduction

Affymetrix GeneChip^® high-density oligonucleotide arrays are widely used in biological and medical research because of production reproducibility, which facilitates the comparison of results between experiment runs. In order to obtain high-level classification and cluster analysis that can be trusted, it is important to perform various pre-processing steps on the probe-level data to control for variability in sample processing and array hybridization. Many proposed preprocessing methods are parametric, in that they assume that the background noise generated by microarray data is a random sample from a statistical distribution, typically a normal distribution. The quality of the final results depends …