Digital Commons Network^™

Molecular Cloning And Characterization Of Cdnas Encoding Metalloproteinases From Snake Venom Glands, Ying Jia, John C. Perez

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Biology)

Snake venom metalloproteinases (SVMPs) are a superfamily of zinc-dependent proteases and participate in a number of important biological, physiological and pathophysiological processes. In this work, we simultaneously amplified 9 cDNAs encoding different classes of metalloproteinases from glands of four different snake species (Agkistrodon contortrix laticinctus, Crotalus atrox, Crotalus viridis viridis and Agkistrodon piscivorus leucostoma) by RT-PCR with a pair of primers. Among the encoded metalloproteinases, two enzymes (AclVMP-I and AplVMP-I), three enzymes (CaVMP-II, CvvVMP-II and AplVMP-II) and four enzymes (AclVMP-III, CaVMP-III, CvvVMP-III and AplVMP-III) …

Variation In The Heat Shock Response And Its Implication For Predicting The Effect Of Global Climate Change On Species' Biogeographical Distribution Ranges And Metabolic Costs, Lars Tomanek

Biological Sciences

The preferential synthesis of heat shock proteins (Hsps) in response to thermal stress [the heat shock response (HSR)] has been shown to vary in species that occupy different thermal environments. A survey of case studies of aquatic (mostly marine) organisms occupying stable thermal environments at all latitudes, from polar to tropical, shows that they do not in general respond to heat stress with an inducible HSR. Organisms that occupy highly variable thermal environments (variations up to >20°C), like the intertidal zone, induce the HSR frequently and within the range of body temperatures they normally experience, suggesting that the response is …

Positive Carotenoid Balance Correlates With Greater Reproductive Performance In A Wild Bird, Rebecca Safran, Kevin J. Mcgraw, Matt Wilkins, Joanna K. Hubbard, Julie Marling

School of Biological Sciences: Faculty Publications

Background: Carotenoids can confer somatic and reproductive benefits, but most evidence is from captive animal experimentation or single time-point sampling. Another perhaps more informative means by which to assess physiological contributions to animal performance is by tracking an individual’s ability to increase or sustain carotenoids or other health-related molecules over time, as these are likely to be temporally variable.

Methodology/Principal Findings: In a field study of North American barn swallows (Hirundo rustica erythrogaster), we analyzed within-individual changes in carotenoid concentrations by repeatedly sampling the carotenoid profiles of individuals over the course of the breeding season. Our results demonstrate …

Crop Updates 2010 - Genetically Modified Crops, Nutrition And Soils, James Fisher, Désirée Futures, Peter Tozer, Mike Jackson, John Moore, Jamees Neilsen, Geoff Anderson, Wen Chen, Richard Bell, Paul Blackwell, Allan Herbert, Stephen Davies, Ross Brennan, Mike Bolland, James Easton, Ryan Guthrie, Rowan Madderm, Robert Belford, Wal Anderson, Ian Edwards, Reg Lunt, Bill Bowden, Nigel Metz, Peter Newman, Breanne Best, Chris Gazey, Joel Andrew

Crop Updates

GENETICALLY MODIFIED CROPS

1. Evaluation of the environmental and economic impact of Roundup Ready® canola in the Western Australian crop production system, James Fisher and Désirée Futures, York, Western Australia, Peter Tozer, PRT Consulting, Armidale NSW

2. Controlling wild radish (Raphanus raphanistrum) in Roundup Ready®¹ Canola: Outcomes from the Nufarm 2009 Roundup Ready small plot trial Program, Mike Jackson, Nufarm Australia Limited

3. Weed strategies for glyphosate tolerant crops, John Moore, Department of Agriculture and Food

4. Results of the 2009 Western Australia Roundup Ready® canola trials, Dr James Neilsen, Canola Systems …

The Evolution Of Human Genetic And Phenotypic Variation In Africa, Michael Campbell, Sarah Tishkoff

Department of Biology Faculty Publications

Africa is the birthplace of modern humans, and is the source of the geographic expansion of ancestral populations into other regions of the world. Indigenous Africans are characterized by high levels of genetic diversity within and between populations. The pattern of genetic variation in these populations has been shaped by demographic events occurring over the last 200,000 years. The dramatic variation in climate, diet, and exposure to infectious disease across the continent has also resulted in novel genetic and phenotypic adaptations in extant Africans. This review summarizes some recent advances in our understanding of the demographic history and selective pressures …

Analysis Of Primary Risk Factors For Oral Cancer From Us States With Increasing Rates, Anthony Bunnell, Nathan Pettit, Nicole Reddout, Kanika Sharma, Susan O'Malley, Michelle Chino, Karl Kingsley

School of Public Health Faculty Research

Objectives

To examine the primary risk factor for oral cancer in the US, smoking and tobacco use, among the specific US states that experienced short-term increases in oral cancer incidence and mortality.

Methods

Population-based data on oral cancer morbidity and mortality in the US were obtained from the National Cancer Institute's (NCI) Surveillance, Epidemiology, and End Results (SEER) database for analysis of recent trends. Data were also obtained from the Centers for Disease Control and Prevention (CDC) Behavioral Risk Factor Surveillance System (BRFSS) to measure current and former trends of tobacco usage. To comprehensive measures of previous state tobacco use …

Biogeography Of The American Pika (Ochotona Princeps) In Oregon And Southern Washington: Illuminating Genetic Relationships Among Disjunct Populations, George Washington Batten Iii

Dissertations and Theses

The American pika (Ochotona princeps) finds moderately warm temperatures (>25°C) lethally stressful, and at the end of the last Ice Age 10,000 years ago was forced to disperse to cooler, "sky island" mountaintops where they are almost exclusively found today. Thirty six subspecies are recognized, all established using morphological characters, and it is uncertain whether these subspecies' designations are corroborated by genetic analyses. This study elucidates three hypotheses regarding populations in Oregon and southern Washington: 1) O. p. fumosa constitutes a subspecies distinct form O. p. brunnescens, 2) the Columbia River constitutes a barrier to gene …

Detection Of Wuchereria Bancrofti L3 Larvae In Mosquitoes: A Reverse Transcriptase Pcr Assay Evaluating Infection And Infectivity, Sandra J. Laney, Reda M.R. Ramzy, Hanan H. Helmy, Hoda A. Farid, Ameen A. Ashour, Gary J. Weil, Steven A. Williams

Biological Sciences: Faculty Publications

Lymphatic filariasis is a disabling and disfiguring disease caused by a parasite that is transmitted by a mosquito. The life cycle of the parasite requires two hosts: the mosquito vector and the human host. Part of the developmental life cycle of the parasite occurs in the mosquito and the other part in the human host. The parasite develops through four stages in the mosquito, only the last of which is infectious to humans. The third larval stage (L3) is the infective stage that initiates human infections when infective mosquitoes bite humans. There is currently a global program attempting to eliminate …

An Analysis Of Phenotypic Marker Presence On Umr-106 Cells Following Acclimation To Media Reduced In Estrogenic Compounds, Levi Castle

Morehead State Theses and Dissertations

A thesis presented to the faculty of the College of Science and Technology at Morehead State University in partial fulfillment of the requirements for the Degree of Master of Science by Levi Castle on February 12, 2010.

Energetic Basis Of Colonial Living In Social Insects, Chen Hou, Michael Kaspari, Hannah B. Vander Zanden, James F. Gillooly

Biological Sciences Faculty Research & Creative Works

Understanding the ecology and evolution of insect societies requires greater knowledge of how sociality affects the performance of whole colonies. Metabolic scaling theory, based largely on the body mass scaling of metabolic rate, has successfully predicted many aspects of the physiology and life history of individual (or unitary) organisms. Here we show, using a diverse set of social insect species, that this same theory predicts the size dependence of basic features of the physiology (i.e., metabolic rate, reproductive allocation) and life history (i.e., survival, growth, and reproduction) of whole colonies. The similarity in the size dependence of these features in …

Hormones And Reproductive Cycles In Snakes, Emily N. Taylor, Dale F. Denardo

Biological Sciences

The study of the hormonal regulation of reproduction in snakes is in its infancy. Studies have disproportionately examined temperate zone viperid and colubrid snakes, especially the red-sided garter snake (Thamnophis sirtalis parietalis). Indeed, extensive observational and experimental studies on T. s. parietalis form the basis for our understanding of the hormonal regulation of reproduction in snakes. This review focuses on seasonal hormone concentrations in snakes in relation to events in the reproductive cycle; the limited data available on hypothalamic hormones, gonadotropins (GTHs), hormone receptors, and binding globulins; the neuroendocrinology of reproduction; and the environmental, social, physiological, and embryonic aspects of …

A Meta-Analysis Of Resource Pulse-Consumer Interactions, Louie H. Yang, Kyle F. Edwards, Jarrett E. Byrnes, Justin Bastow, Amber N. Wright, Kenneth O. Spence

Biology Faculty Publications

Resource Pulses are infrequent, large-magnitude, and short-duration events of increased resource availability. They include a diverse set of extreme events in a wide range of ecosystems, but identifying general patterns among the diversity of pulsed resource phenomena in nature remains an important challenge. Here we present a meta-analysis of resource pulse-consumer interactions that addresses four key questions: (1) Which characteristics of pulsed resources best predict their effects on consumers? (2) Which characteristics of consumers best predict their responses to resource pulses? (3) How do the effects of resource Pulses differ in different ecosystems? (4) What are the indirect effects of …

Evolution Of Terrestrial Habitat In Manophylax Species (Trichoptera:Apataniidae), With A New Species From Alaska, Suvtsetseg Chuluumbat, John C. Morse, Joanna L. Lessard, M Eric Benbow, Matthew D. Wesener, John Hudson

Publications

The genus Manophylax (Trichoptera:Apataniidae) contains 3 species from the Nearctic Region and 3 species from Japan. A 7th species of Manophylax new for science is described and illustrated from Alaska. Habitats of larvae and pupae of the different Manophylax species are either mostly hygropetric or mostly terrestrial. Phylogenetic analysis infers 3 principal species groups occurring in the eastern and western Nearctic and eastern Palearctic Biogeographic Regions. The habitat of the western Nearctic M. annulatus Species Group is mostly hygropetric and that of the eastern Nearctic M. altus and eastern Palearctic M. futabae Species Groups are mostly terrestrial. The phylogeny suggests …

Fishing Industry Impact Study : James Price Point Proposed Liquefied Natural Gas Precinct, Department Of Fisheries

Fisheries Occasional Publications

No abstract provided.

Latitudinal Differences In The Hibernation Characteristics Of Woodchucks (Marmota Monax), Stam M. Zervanos, Christine R. Maher Phd, Jerry A. Waldvogel, Gregory L. Florant

Faculty Publications

There is little information on the phenotypic flexibility of hibernation characteristics within species. To address this issue, we observed differences in hibernation characteristics of three free-ranging populations of woodchucks (Marmota monax) distributed along a latitudinal gradient from Maine to South Carolina. Data from free-ranging animals exhibited a direct relationship between latitude and length of the hibernation season. As expected, woodchucks in the northern latitudes hibernated longer than those in the southern latitudes. Also, the length of interbout arousals decreased with increase in latitude, whereas the length of torpor bouts and the number of arousals increased. Thus, we observed phenotypic plasticity …

The Presence Of Micropterus Salmoides (Largemouth Bass) Influences The Populations Of Rana Draytonii (California Red-Legged Frog) And Pseudacris Regilla (Pacific Treefrog) In Two Ponds In Santa Barbara County, California, Kenneth Lee Gilliland

Master's Theses

Alien fish have been implicated in the decline of Rana draytonii (California red-legged frog) and Pseudacris regilla (Pacific treefrog) populations. Micropterus salmoides (largemouth bass) is a common sport fish that has been introduced into the sympatric range of these two anuran species; however, no studies have investigated the individual influence that this alien fish has on these two species. I conducted M. salmoides control or eradication experiments during a four year study in two ponds within the Transverse Mountain Range of Santa Barbara County, California. Changes in the densities of all life stages of R. draytonii and P. regilla were …

Evolution & Phylogenetic Analysis: Classroom Activities For Investigating Molecular & Morphological Concepts, Wilfred A. Franklin

Biology Faculty Research and Scholarship

In a flexible multisession laboratory, students investigate concepts of phylogenetic analysis at both the molecular and the morphological level. Students finish by conducting their own analysis on a collection of skeletons representing the major phyla of vertebrates, a collection of primate skulls, or a collection of hominid skulls.

Genome Sequence Of The Pea Aphid Acyrthosiphon Pisum, International Aphid Genomics Consortium, Gregory K. Davis

Biology Faculty Research and Scholarship

Aphids are important agricultural pests and also biological models for studies of insect-plant interactions, symbiosis, virus vectoring, and the developmental causes of extreme phenotypic plasticity. Here we present the 464 Mb draft genome assembly of the pea aphid Acyrthosiphon pisum. This first published whole genome sequence of a basal hemimetabolous insect provides an outgroup to the multiple published genomes of holometabolous insects. Pea aphids are host-plant specialists, they can reproduce both sexually and asexually, and they have coevolved with an obligate bacterial symbiont. Here we highlight findings from whole genome analysis that may be related to these unusual biological …

Genetic Basis For Rhizobium Etli Ce3 O-Antigen O-Methylated Residues That Vary According To Growth Conditions, Kristylea J. Ojeda, Jodie M. Box, K. Dale Noel

Biological Sciences Faculty Research and Publications

The Rhizobium etli CE3 O antigen is a fixed-length heteropolymer with O methylation being the predominant type of sugar modification. There are two O-methylated residues that occur, on average, once per complete O antigen: a multiply O-methylated terminal fucose and 2-O methylation of a fucose residue within a repeating unit. The amount of the methylated terminal fucose decreases and the amount of 2-O-methylfucose increases when bacteria are grown in the presence of the host plant, Phaseolus vulgaris, or its seed exudates. Insertion mutagenesis was used to identify open reading frames required for the presence of these O-methylated …

Chlamydomonas Mutants Display Reversible Deficiencies In Flagellar Beating And Axonemal Assembly, Mei Wei, Priyanka Sivadas, Heather A. Owen, David R. Mitchell, Pinfen Yang

Biological Sciences Faculty Research and Publications

Axonemal complexes in flagella are largely prepackaged in the cell body. As such, one mutation often results in the absence of the co-assembled components and permanent motility deficiencies. For example, a Chlamydomonas mutant defective in RSP4 in the radial spoke (RS), which is critical for bend propagation, has paralyzed flagella that also lack the paralogue RSP6 and three additional RS proteins. Intriguingly, recent studies showed that several mutant strains contain a mixed population of swimmers and paralyzed cells despite their identical genetic background. Here we report a cause underlying these variations. Two new mutants lacking RSP6 swim processively and other …

Use Of Rpsl As A Counterselectable Marker In Borrelia Burgdorferi, Dan Drecktrah, Miles J. Douglas, D. Scott Samuels

Biological Sciences Faculty Publications

We have demonstrated that rpsL, encoding the S12 protein of the small ribosomal subunit, can be used as a counterselectable marker in Borrelia burgdorferi, the causative agent of Lyme disease. Mutations in rpsL confer streptomycin resistance. Streptomycin susceptibility is dominant in an rpsL merodiploid, and streptomycin selects for the loss of wild-type rpsL carried in trans. This is the first description of a counterselectable marker in B. burgdorferi.

Differences In The Transcriptome Signatures Of Two Genetically Related Entamoeba Histolytica Cell Lines Derived From The Same Isolate With Different Pathogenic Properties, Laura Biller, Paul H. Davis, Manuela Tillack, Jenny Matthiesen, Hannelore Lotter, Samuel L. Stanley, Egbert Tannich, Iris Bruchhaus

Biology Faculty Publications

Results: The availability of two genetically very similar cell lines (A and B) derived from the laboratory isolate Entamoeba histolytica HM-1:IMSS, which differ in their virulence properties, provides a powerful tool for identifying pathogenicity factors of the causative agent of human amoebiasis. Cell line A is incapable inducing liver abscesses in gerbils, whereas interaction with cell line B leads to considerable abscess formation. Phenotypic characterization of both cell lines revealed that trophozoites from the pathogenic cell line B have a larger cell size, an increased growth rate in vitro, an increased cysteine peptidase activity and higher resistance to nitric …

Behavioral And Chemical Ecology Of Marine Organisms With Respect To Tetrodotoxin, Becky L. Williams

Biology Faculty Publications

The behavioral and chemical ecology of marine organisms that possess tetrodotoxin (TTX) has not been comprehensively reviewed in one work to date. The evidence for TTX as an antipredator defense, as venom, as a sex pheromone, and as an attractant for TTX-sequestering organisms is discussed. Little is known about the adaptive value of TTX in microbial producers; thus, I focus on what is known about metazoans that are purported to accumulate TTX through diet or symbioses. Much of what has been proposed is inferred based on the anatomical distribution of TTX. Direct empirical tests of these hypotheses are absent in …

The Scale Of Population Structure In Arabidopsis Thaliana, Alexander Platt, Matthew Horton, Yu S. Huang, Yan Li, Alison E. Anastasio, Ni Wayan Mulyati, Jon Agren, Oliver Bossdorf, Diane Byers, Kathleen Donohue, Megan Dunning, Eric B. Holub, Andrew Hudson, Valerie Le Corre, Olivier Loudet, Fabrice Roux, Norman Warthmann, Detlef Weigel, Luz Rivero, Randy Scholl, Magnus Nordborg, Joy Bergelson, Justin O. Borevitz

Faculty Publications – Biological Sciences

The population structure of an organism reflects its evolutionary history and influences its evolutionary trajectory. It constrains the combination of genetic diversity and reveals patterns of past gene flow. Understanding it is a prerequisite for detecting genomic regions under selection, predicting the effect of population disturbances, or modeling gene flow. This paper examines the detailed global population structure of Arabidopsis thaliana. Using a set of 5,707 plants collected from around the globe and genotyped at 149 SNPs, we show that while A. thaliana as a species self-fertilizes 97% of the time, there is considerable variation among local groups. This level …

A Framework For Automated Enrichment Of Functionally Significant Inverted Repeats In Whole Genomes, Cyriac Kandoth, Fikret ErçAl, Ronald L. Frank

Computer Science Faculty Research & Creative Works

Background: RNA transcripts from genomic sequences showing dyad symmetry typically adopt hairpin-like, cloverleaf, or similar structures that act as recognition sites for proteins. Such structures often are the precursors of non-coding RNA (ncRNA) sequences like microRNA (miRNA) and small-interfering RNA (siRNA) that have recently garnered more functional significance than in the past. Genomic DNA contains hundreds of thousands of such inverted repeats (IRs) with varying degrees of symmetry. But by collecting statistically significant information from a known set of ncRNA, we can sort these IRs into those that are likely to be functional.

Results: A novel method was developed to …

Selection Ratios On Community Aggregated Traits To Estimate Ecological Filters Imposed On Species By Sites, Nathanael I. Lichti, Michael T. Murphy

Biology Faculty Publications and Presentations

Variation in community structure is mediated by interactions between species traits and a site's environmental characteristics. Previously, data on community composition at sites has been employed to correlate trait and environmental variables (e.g., RLQ analysis) and to predict community-level expression of quantitative traits (i.e., community aggregated traits). Here, we demonstrate that the selection ratio, a method originating in animal resource selection studies, can estimate the ecological filters that site conditions impose on species traits by combining observed community aggregated traits with null models of species availability. This flexible, nonparametric approach expresses the filter at each site as a probability density …

Range Extension Parameters Of The Opportunistic Bivalve Corbicula Fluminea (Müller, 1774) In New Jersey, Katie Elizabeth Vazquez

Theses, Dissertations and Culminating Projects

The invasive freshwater bivalve Corbicula fluminea has gained notoriety as a macro-fouler of industrial waterways across the United States. Little is known about the specific habitat requirements that contribute to its successful colonization of riverine systems. Small, often immature clams (shell length <14 mm) passively drift downstream. Settlement in unsuitable habitat can limit burrowing, growth and reproduction, and lead to juvenile mortality. Settlement in suitable habitat however can result in population densities in excess of 10,000 ind./m . Sampling was conducted in diverse Northern New Jersey waterways between May and mid-October 2008 to assess the habitat conditions conducive to establishment of new populations. Within these sites there was a significant correlation between clam density and both dissolved oxygen level and Ambient Biological Monitoring Network EPT scores. There was no correlation between clam density and dominant grain size, substratum organic content or turbidity. It appears stochastic events largely governed the dispersal and settlement of juvenile and small mature Asian clams while microhabitat conditions can be associated with population density. Live specimens of C. fluminea were collected at 8 sites half of which appear to house stable reproducing populations of C. fluminea. The remaining sites could represent interim “stops” likely containing specimens that entered as a result of downstream drift. Anthropogenic disturbance regimes in New Jersey waterways may contribute to the successful invasion by the Asian clam. An understanding of the habitat and physicochemical characteristics associated with the spread of juvenile C. fluminea is crucial to predictive modeling of dispersal patterns.

Sperm Morphometrics In The Diamond-Backed Watersnake, Nerodia Rhombifer Hallowell, With Reference To Possible Implications On Sperm Competition, Jonathan Wade Stanley

Student Theses and Dissertations

A total of 46 male Diamond-backed Watersnakes, Nerodia rhombifer Hallowell were collected from Mallard Lake in Mississippi County, Arkansas and a catfish farm in Desha County, Arkansas to determine effects that the farm may have on sperm morphometrics in this species. Snout-vent lengths (SVL) were recorded and blood samples were collected for hematocrit (Hct) determination. Sperm were collected, viewed by scanning electron microscopy, and measured for overall length, head length, and tail length. Snakes from the fish farm had significantly longer SVL than did snakes from Mallard Lake. No correlation was found between Hct values and SVL, but differences were …

A New Species Of Gekko (Squamata: Gekkonidae) From Tà Kóu Nature Reserve, Binh Thuan Province, Southern Vietnam, Van Tri Ngo, Tony Gamble

Biological Sciences Faculty Research and Publications

A new species of Gekko Laurenti is described from Ta Kou Mountain, an isolated granitic peak in Ta Kou Nature Reserve, Ham Thuan Nam district, Binh Thuan province, southern Vietnam. The species is distinguished from its congeners by its moderate size, with snout to vent length (SVL) reaching a maximum 107.0 mm; dorsal pattern of 5–8 white vertebral blotches between the nape and sacrum and 6–8 pairs of short white bars on the flanks; 11–14 precloacal pores in males; 14–17 longitudinal rows of smooth dorsal tubercles; and 18–20 broad lamellae beneath the fourth toe. Gekko takouensis sp. nov. is the …

Estrogen Receptor-Alpha In The Bed Nucleus Of The Stria Terminalis Regulates Social Affiliation In Male Prairie Voles (Microtus Ochrogaster), Kelly Lei, Bruce S. Cushing, Sergei Musatov, Sonoko Ogawa, Kristin M. Kramer

Biology Faculty Research

Estrogen receptor alpha (ER alpha) typically masculinizes male behavior, while low levels of ER alpha in the medial amygdala (MeA) and the bed nucleus of the stria terminalis (BST) are associated with high levels of male prosocial behavior. In the males of the highly social prairie vole (Microtus ochrogaster), increasing ER alpha in the MeA inhibited the expression of spontaneous alloparental behavior and produced a preference for novel females. To test for the effects of increased ER alpha in the BST, a viral vector was used to enhance ER alpha expression in the BST of adult male prairie voles. Following …