Biology Commons^™

Distribution And Genetic Structure Of Pocket Gophers (Genus Geomys) In Kansas, Zachary J. Schwenke

Master's Theses or Doctor of Nursing Practice

The development of informed management practices and insightful research depends not only on an understanding of species natural history and ecology, but information regarding the distributions of these species and how they interact with adjacent taxa. The study of a species distribution can become complicated if the geographic variation within the species is not understood. Pocket gophers, including those in the genus Geomys, display morphological and chromosomal variation across their range, even within the same species. Genetic techniques, including Amplified Fragment Length Polymorphism (AFLP), have clarified population relationships and characterized zones of contact. Previous studies have suggested 2 species and …

Genetic Analysis Of Vancomycin-Resistant Gram-Positive Cocci Isolated From Wild Songbirds, Shingo Ishihara

Master's Theses or Doctor of Nursing Practice

The antibiotic vancomycin was developed by Eli Lilly in the 1950s in response to the growing number of Staphylococcus aureus infections that were resistant to penicillin. Vancomycin was not widely used at the time because of its high toxicity. However, use of vancomycin in the United States has increased dramatically since the 1980s because of the emergence of methicillin resistant Staphylococcus aureus (MRSA) and Enterococcus species. There are three known mechanisms for vancomycin resistance: 1) target site modification by van genes, 2) biofilm formation, and 3) bacterial cell wall thickening. Of these mechanisms, target site modification is the most common. …

Dna Barcoding In The Red Algal Order Gelidiales: Comparison Of Coi With Rbcl And Verification Of The "Barcoding Gap", D. Wilson Freshwater, Kelly Tudor, Katie O'Shaughnessy, Brian Wysor

Arts & Sciences Faculty Publications

Mitochondria-encoded COI and plastid-encoded rbcL sequences were used to assist with the identification or "barcoding" of a variety of red algal species. The rbcL locus has been extensively analyzed within the Gelidiales and general levels of intraspecific and interspecific sequence divergences are established. Complementary COI and rbcL data sets were compared to explore the utility of COI for Gelidiales species identification and verify the presence of a barcoding gap between closely related species. There was no difference between the two loci in the clustering of specimens into species, but the COI sequences were more variable than rbcL and exhibited a …

The Mathematics Of Animal Behavior: An Interdisciplinary Dialogue, Shandelle M. Henson, James L. Hayward

Faculty Publications

No abstract provided.

Genome Dynamics Are Influenced By Food Source In Allogromia Laticollaris Strain Csh (Foraminifera), Laura Wegener Parfrey, Laura A. Katz

Biological Sciences: Faculty Publications

Across the eukaryotic tree of life, genomes vary within populations and within individuals during their life cycle. Understanding intraspecific genome variation in diverse eukaryotes is key to elucidating the factors that underlie this variation. Here, we characterize genome dynamics during the life cycle of Allogromia laticollaris strain CSH, a member of the Foraminifera, using fluorescence microscopy and reveal extensive variation in nuclear size and DNA content. Both nuclear size and DNA content are tightly correlated across a 700-fold range in cell volume. In contrast to models in yeast where nuclear size is determined solely by cell size, the relationship in …

Neural Activity Patterns In Response To Interspecific And Intraspecific Variation In Mating Calls In The Túngara Frog, Mukta Chakraborty, Lisa A. Mangiamele, Sabrina S. Burmeister

Biological Sciences: Faculty Publications

Background: During mate choice, individuals must classify potential mates according to species identity and relative attractiveness. In many species, females do so by evaluating variation in the signals produced by males. Male túngara frogs (Physalaemus pustulosus) can produce single note calls (whines) and multi-note calls (whine-chucks). While the whine alone is sufficient for species recognition, females greatly prefer the whine-chuck when given a choice. Methodology/Principal Findings: To better understand how the brain responds to variation in male mating signals, we mapped neural activity patterns evoked by interspecific and intraspecific variation in mating calls in túngara frogs by measuring expression of …

Designing Marine Reserve Networks For Both Conservation And Fisheries Management, Steven D. Gaines, Crow White, Mark H. Carr, Stephen R. Palumbi

Biological Sciences

Marine protected areas (MPAs) that exclude fishing have been shown repeatedly to enhance the abundance, size, and diversity of species. These benefits, however, mean little to most marine species, because individual protected areas typically are small. To meet the larger-scale conservation challenges facing ocean ecosystems, several nations are expanding the benefits of individual protected areas by building networks of protected areas. Doing so successfully requires a detailed understanding of the ecological and physical characteristics of ocean ecosystems and the responses of humans to spatial closures. There has been enormous scientific interest in these topics, and frameworks for the design of …

Invasive Honeysuckle Eradication Reduces Tick-Borne Disease Risk By Altering Host Dynamics, Brian Allan, Humberto Dutra, Lisa Goessling, Kirk Barnett, Jonathan Chase, Robert Marquis, Genevieve Pang, Gregory Storch, Robert Thach, John Orrock

Biology Department Faculty Works

Despite the ubiquity of invasive organisms and their often deleterious effects on native flora and fauna, the consequences of biological invasions for human health and the ecological mechanisms through which they occur are rarely considered. Here we demonstrate that a widespread invasive shrub in North America, Amur honeysuckle (Lonicera maackii), increases human risk of exposure to ehrlichiosis, an emerging infectious disease caused by bacterial pathogens transmitted by the lone star tick (Amblyomma americanum). Using large-scale observational surveys in natural areas across the St. Louis, Missouri region, we found that white-tailed deer (Odocoileus virginianus), a preeminent tick host and pathogen reservoir, …

Dynamic Evolution Of Precise Regulatory Encodings Creates The Clustered Site Signature Of Enhancers, Justin Crocker, Nathan Potter, Albert Erives

Dartmouth Scholarship

Concentration gradients of morphogenic proteins pattern the embryonic axes of Drosophila by activating different genes at different concentrations. The neurogenic ectoderm enhancers (NEEs) activate different genes at different threshold levels of the Dorsal (Dl) morphogen, which patterns the dorsal/ventral axis. NEEs share a unique arrangement of highly constrained DNA-binding sites for Dl, Twist (Twi), Snail (Sna) and Suppressor of Hairless (Su(H)), and encode the threshold variable in the precise length of DNA that separates one well-defined Dl element from a Twi element. However, NEEs also possess dense clusters of variant Dl sites. Here, we show that these increasingly variant sites …

Cortical Representation Of Lateralized Grasping In Chimpanzees (Pan Troglodytes): A Combined Mri And Pet Study, William D. Hopkins, Jared P. Taglialatela, Jamie L. Russell, Talia M. Nir, Jennifer Schaeffer

Faculty Articles

Functional imaging studies in humans have localized the motor-hand region to a neuroanatomical landmark call the KNOB within the precentral gyrus. It has also been reported that the KNOB is larger in the hemisphere contralateral to an individual's preferred hand, and therefore may represent the neural substrate for handedness. The KNOB has also been neuronatomically described in chimpanzees and other great apes and is similarly associated with handedness. However, whether the chimpanzee KNOB represents the hand region is unclear from the extant literature. Here, we used PET to quantify neural metabolic activity in chimpanzees when engaged in unilateral reach-and-grasping responses …

Octopamine Neuromodulatory Effects On A Social Behavior Decision-Making Network In Drosophila Males, Sarah J. Certel, Adelaine Leung, Chih-Yung Lin, Philip Perez, Ann-Shyn Chiang, Edward A. Kravitz

Biological Sciences Faculty Publications

Situations requiring rapid decision-making in response to dynamic environmental demands occur repeatedly in natural environments. Neuromodulation can offer important flexibility to the output of neural networks in coping with changing conditions, but the contribution of individual neuromodulatory neurons in social behavior networks remains relatively unknown. Here we manipulate the Drosophila octopaminergic system and assay changes in adult male decision-making in courtship and aggression paradigms. When the functional state of OA neural circuits is enhanced, males exhibit elevated courtship behavior towards other males in both behavioral contexts. Eliminating the expression of the male form of the neural sex determination factor, Fruitless …

GenHtr: A Tool For Comparative Assessment Of Genetic Heterogeneity In Microbial Genomes Generated By Massive Short-Read Sequencing, Gongxin Yu

Biology Faculty Publications and Presentations

Background: Microevolution is the study of short-term changes of alleles within a population and their effects on the phenotype of organisms. The result of the below-species-level evolution is heterogeneity, where populations consist of subpopulations with a large number of structural variations. Heterogeneity analysis is thus essential to our understanding of how selective and neutral forces shape bacterial populations over a short period of time. The Solexa Genome Analyzer, a next-generation sequencing platform, allows millions of short sequencing reads to be obtained with great accuracy, allowing for the ability to study the dynamics of the bacterial population at the whole genome …

Osteology, Natural History Notes, And Phylogenetic Relationships Of The Poorly Known Caribbean Frog Leptodactylus Nesiotus (Anura, Leptodactylidae), María Laura Ponssa, Michael J. Jowers, Rafael O. De Sá

Biology Faculty Publications

The Leptodactylus melanonotus group consists of 15 species, but references to skeletal characters are available for only three species: L. leptodactyloides, L. melanonotus, and L. diedrus. Leptodactylus nesiotus is a member of the melanonotus group known only from the type locality, Bonasse swamp, on the Southwestern peninsula of Trinidad, Trinidad and Tobago. This species has been categorized as vulnerable given its restricted distribution. Herein, we report the adult osteology of L. nesiotus, the skeletal characters are compared with the available data from other Leptodactylus species. A phylogenetic analysis recovers a paraphyletic L. melanonotus group relative to the L. …

Genomic Variation And Adaptation In Africa: Implications For Human Evolutionary History And Disease, Michael Campbell

Department of Biology Faculty Publications

Africa contains the greatest levels of human genetic variation and is the source of the worldwide range expansion of all modern humans. However, relatively little is known about genomic variation in ethnically diverse African populations.

Traversing Swanton Road, 2nd Ed., James A. West

Academic, Government & Associated Organizational Research Resources

Situated at the northwest end of Santa Cruz County and occupying circa 30 square miles of sharply contrasted terrain, the Scott Creek Watershed concentrates within its geomorphological boundaries, at least 10-12% of California's flora, both native and introduced. Paradoxically, the use/abuse that the watershed has sustained over the past 140+ years, has not necessarily diminished the biodiversity and perhaps parallels the naturally disruptive but biologically energizing processes (fire, flooding, landslides and erosion), which have also been historically documented for the area for +60 years. This is an early edition of an extensive document by James A. West. Please visit the …

The Genesis Of Pathogenic E. Coli, Alan L. Gillen, Douglas Oliver

Faculty Publications and Presentations

Even though some strains are pathogenic, most E. coli strains still show evidence of being one of God’s “very good” creations.

Fig. 1. E. coli Gram stain (Wiki commons image). E. coli are Gram-negative bacteria, thus red or pink colored. The red color is due to a counterstain, called safranin.

Escherichia coli is frequently in the news (Fig. 1). E. coli often gets “bad press” for contaminating drinking water or causing a food-borne infection (via hamburgers, apple juice, spinach, or other foods). Recently a new strain (E. coli O145) has been implicated in contaminating lettuce in the U.S., while …

Detection And Analysis Of The Bacterium, Xylella Fastidiosa, In Glassy-Winged Sharpshooter, Homalodisca Vitripennis, Populations In Texas, Daymon Hail, Forrest Mitchell, Isabelle Lauziere, Patrick Marshall, Jeff Brady, Blake Bextine

Biology Faculty Publications and Presentations

The glassy-winged sharpshooter, Homalodisca vitripeninis Germar (Hemiptera: Cicadellidae), is a xylophagous insect that is an endemic pest of several economically important plants in Texas. H. vitripennis is the main vector of Xylella fastidiosa Wells (Xanthomonadales: Xanthomonadaceae), the bacterium that causes Pierce's disease of grapevine and can travel long distances putting much of Texas grape production at risk. Understanding the movement of H. vitripennis populations capable of transmitting X. fastidiosa into Pierce's-disease-free areas is critical for developing a management program for Pierce's disease. To that end, the USDA APHIS has developed a program to sample vineyards across Texas to monitor populations …

Evolutionary History And Taxonomy Of The Cuscuta Umbellata Complex (Convolvulaceae): Evidence Of Extensive Hybridization From Discordant Nuclear And Plastid Phylogenies, Mihai Costea, Saša Stefanović

Biology Faculty Publications

The Cuscuta umbellata complex is one of the 15 major clades recently circumscribed in C. subg. Grammica. Most of its members occur in North AMerican and the Caribbean (C. desmouliniana, C. lacerata, C. lacerata, C. leptantha, C. liliputana, C. odontolepsis, C. polyanthemos, C. tuberculata, C. umbellata), but three species (C. acuta, C. membranacea, C. umbellata) grow in South America, and one (C. hyalina) is found as a native species in India, Pakistan and Eastern to South Africa. Basic morphology, scanning electron microscopy and …

Lifelines Fall 2010, Southern Adventist University

Lifelines - Biology Department Newsletter

The Fall 2010 issue of Lifelines contains articles on the Biology Department's display at the General Conference, the addition of Randy Bishop and Dr. Benjamin Thornton to the faculty, and news from the Biology Club.

Toxicity Of Transition Metal Oxide Nanoparticles: Recent Insights From In Vitro Studies, Yue-Wern Huang, Chi-Heng Wu, Robert Aronstam

Biological Sciences Faculty Research & Creative Works

Nanotechnology has evolved to play a prominent role in our economy. Increased use of nanomaterials poses potential human health risk. It is therefore critical to understand the nature and origin of the toxicity imposed by nanomaterials (nanotoxicity). In this article we review the toxicity of the transition metal oxides in the 4th period that are widely used in industry and biotechnology. Nanoparticle toxicity is compellingly related to oxidative stress and alteration of calcium homeostasis, gene expression, pro-inflammatory responses, and cellular signaling events. The precise physicochemical properties that dictate the toxicity of nanoparticles have yet to be defined, but may include …

Pentamidine Inhibits Coxiella Burnetii Growth And 23s Rrna Intron Splicing In Vitro, Michael F. Minnick, Linda D. Hicks, James M. Battisti, Rahul Raghavan

Biological Sciences Faculty Publications

Coxiella burnetii is the bacterial agent of Q fever in humans. Acute Q fever generally manifests as a flu-like illness and is typically self-resolving. In contrast, chronic Q fever usually presents with endocarditis and is often life-threatening without appropriate antimicrobial therapy. Unfortunately, available options for the successful treatment of chronic Q fever are both limited and protracted (>18 months). Pentamidine, an RNA splice inhibitor used to treat fungal and protozoal infections, was shown to reduce intracellular growth of Coxiella by ca. 73% at a concentration of 1 microM (ca. 0.6 microg/mL) compared with untreated controls, with no detectable toxic …

Interactive Effects Of Historical Logging And Fire Exclusion On Ponderosa Pine Forest Structure In The Northern Rockies, Naficy Cameron, Anna Sala, Eric G. Keeling, Jon Graham, Thomas H. Deluca

Biological Sciences Faculty Publications

Increased forest density resulting from decades of fire exclusion is often perceived as the leading cause of historically aberrant, severe, contemporary wildfires and insect outbreaks documented in some fire-prone forests of the western United States. Based on this notion, current U. S. forest policy directs managers to reduce stand density and restore historical conditions in fire-excluded forests to help minimize high-severity disturbances. Historical logging, however, has also caused widespread change in forest vegetation conditions, but its long-term effects on vegetation structure and composition have never been adequately quantified. We document that fire-excluded ponderosa pine forests of the northern Rocky Mountains …

Foraging Strategies Are Related To Skull Morphology And Life History Traits Of Melanerpes Woodpeckers, David L. Leonard Jr., Julie A. Heath

Biology Faculty Publications and Presentations

Links between morphology and foraging strategies have been well established for many vertebrate groups. Foraging strategies of Melanerpes woodpeckers are especially variable, with at least six species being proficient flycatchers; the remainder of the better known species do not flycatch. Our objective was to examine variation in foraging tactics as it relates to skull morphology and other life history traits among these species to better understand the biology of these diverse woodpeckers. We measured eight skull characters from 241 individuals representing 19 species, but focused on eight species for which we had the most data. We used the log-geometric mean …

"Toward Integration: From Quantitative Biology To Mathbio-Biomath?", Pat Marsteller, Lisette G. De Pillis, Ann Findley, Karl Joplin, John Pelesko, Karen Nelson, Katerina Thompson, David Usher, Joseph Watkins

All HMC Faculty Publications and Research

In response to the call of BIO2010 for integrating quantitative skills into undergraduate biology education, 30 Howard Hughes Medical Institute (HHMI) Program Directors at the 2006 HHMI Program Directors Meeting established a consortium to investigate, implement, develop, and disseminate best practices resulting from the integration of math and biology. With the assistance of an HHMI-funded mini-grant, led by Karl Joplin of East Tennessee State University, and support in institutional HHMI grants at Emory and University of Delaware, these institutions held a series of summer institutes and workshops to document progress toward and address the challenges of implementing a more quantitative …

Foundational Checklist Of The Amphibians Of Wise County, Virginia, Sarah R.A. Davidson, David L. Chambers

Virginia Journal of Science

The Appalachian Mountains are arguably home to the highest degree of amphibian diversity in the world, particularly caudate (salamander) biodiversity. Despite the high degree of amphibian endemism in the Appalachians, several regions remain unsurveyed for amphibian species. In addition to this knowledge gap, we are in the midst of alarming amphibian biodiversity loss. Thus, it is of the utmost importance to bridge this knowledge gap by conducting surveys before some of these amphibian species are lost. We surveyed Wise County (previously unsurveyed county in the Appalachian Mountains with no records existing in the primary literature) over two years to assess …

Sperm Use During Egg Fertilization In The Honeybee (Apis Mellifera), Maria Rubinsky

Independent Study Project (ISP) Collection

A technique to quantify sperm use in honeybee queens (Apis mellifera) was developed and used to analyze the number of sperm used in different groups of honeybee queens. To do this a queen was placed on a frame with worker cells containing no eggs, and an excluder box was placed around her. The frame was put back into the colony and removed after two and a half hours. This method reduced stress on the queen so that she felt comfortable enough to lay eggs and did not require the queen to be killed so that she could be sampled multiple …

Rare, Threatened And Endangered Species Of Oregon (2010), James S. Kagan, Sue Vrilakas, Eleanor P. Gaines, Cliff Alton, Lindsey Koepke, John A. Christy, Erin Doyle

Institute for Natural Resources Publications

Extinction is a natural process. Today, however, plant and animal species are disappearing world-wide at an accelerated pace. Based on current trends, half of the species on earth will be extinct within the next 100 years. The major cause of this phenomenon is human caused changes to the environment, which continue to increase - in Oregon and throughout the world.

Once lost, a species can never be recovered, and there is no way of knowing how useful it may have been. We do know that human beings and many of their industries depend on plant and animal products. About 50% …

Mojave Applied Ecology Notes Fall 2010, Adria Decorte, Sharon Altman, Alex Suazo

Mojave Applied Ecology Notes

Adria DeCorte defense, Mojave desert inventory and monitoring mapping project, effect of burial depth on Brassica tournefortii seeds

Unlv Magazine, Tony Allen, Shane Bevell, Donna Mcaleer, Ched Whitney, Cate Weeks

UNLV Magazine

No abstract provided.

A Novel Multifunctional Oligonucleotide Microarray For Toxoplasma Gondii, Amit Bahl, Paul H. Davis, Michael Behnke, Florence Dzierszinski, Manjunatha Jagalur, Feng Chen, Dhanasekaran Shanmugam, Michael W. White, David Kulp, David S. Roos

Biology Faculty Publications

Background: Microarrays are invaluable tools for genome interrogation, SNP detection, and expression analysis, among other applications. Such broad capabilities would be of value to many pathogen research communities, although the development and use of genome-scale microarrays is often a costly undertaking. Therefore, effective methods for reducing unnecessary probes while maintaining or expanding functionality would be relevant to many investigators.

Results: Taking advantage of available genome sequences and annotation for Toxoplasma gondii (a pathogenic parasite responsible for illness in immunocompromised individuals) and Plasmodium falciparum (a related parasite responsible for severe human malaria), we designed a single oligonucleotide microarray capable of supporting …