Biology Commons^™

Bat Habitat Use And Roost Tree Selection For Northern Long-Eared Myotis (Myotis Septentrionalis) In North-Central Ohio, Timothy J. Krynak

Masters Theses

Understanding roosting behavior and habitat use of bats is an important component when unraveling life histories and their ecology. Ohio remains under-represented in published information of bats compared to surrounding states. This large scale survey in 2002–2003 and Myotis septentrionalis radio telemetry study in 2005 is one of the few conducted within the state and is the first in Ohio’s North-Central region. It is also the first study conducted where net sites were chosen randomly and spatially distributed to adequately survey bat populations within Cuyahoga Valley National Park and Cleveland Metroparks. This survey documented seven species (n = 668), with …

Nutrient Flux, Uptake, And Transformation In A Spring-Fed Stream In The Missouri Ozarks, Usa, Dev Niyogi, Janet M. Bandeff, Cem Selman, Drew E. Menke

Biological Sciences Faculty Research & Creative Works

We examined nutrient flux, uptake, and transformation along a spring-fed stream in the Ozark region of Missouri, USA, over the year 2006. Water in Mill Creek originates from several springs, with a single spring contributing over 90% of the stream discharge during much of the year of study. Soluble reactive phosphate concentrations were usually low (< 10 lg L^-1) along Mill Creek but peaked during high discharge. Concentrations of dissolved inorganic nitrogen (DIN) were relatively high in the spring water, mainly as nitrate, but usually declined across a small pond and the 10-km length of Mill Creek. During low flows in …

Small Heat Shock Protein Responses Differ Between Chaparral Shrubs From Contrasting Microclimates, Charles A. Knight

Biological Sciences

Small heat shock protein (sHsp) responses were studied for two evergreen perennial shrubs in the northern California chaparral; one common on warm, south-facing slopes (Ceanothus cuneatus), and the other on cooler, north-facing slopes (Prunus ilicifolia). Small Hsp expression was induced experimentally for field collected leaves. Leaf collections were made where the species co-occur. Small Hsp expression was quantified using two antibodies, one specific to a chloroplast 22 kD sHsp and another that detects a broad range of sHsps. Differences between chloroplast sHsp accumulation, which protects thermally labile proteins in PSII, and the general sHsp response were …

On The Relationship Between Pollen Size And Genome Size, Charles A. Knight, Rachel B. Clancy, Lars Götzenberger, Leighton Dann, Jeremy M. Beaulieu

Biological Sciences

Here we test whether genome size is a predictor of pollen size. If it were, inferences of ancient genome size would be possible using the abundant paleo-palynolgical record. We performed regression analyses across 464 species of pollen width and genome size. We found a significant positive trend. However, regression analysis using phylogentically independent contrasts did not support the correlated evolution of these traits. Instead, a large split between angiosperms and gymnosperms for both pollen width and genome size was revealed. Sister taxa were not more likely to show a positive contrast when compared to deeper nodes. However, significantly more congeneric …

Effects Of Yogurt Starter Cultures On The Survival Of Lactobacillus Acidophilus, Elizabeth W. Ng, Marie Yeung, Phillip S. Tong

Biological Sciences

Recognized to confer health benefits to consumers, probiotics such as Lactobacillus acidophilus are commonly incorporated into fermented dairy products worldwide; among which yogurt is a popular delivery vehicle. To materialize most of the putative health benefits associated with probiotics, an adequate amount of viable cells must be delivered at the time of consumption. However, the loss in their viabilities during refrigerated storage has been demonstrated previously. This study focused on the effects of yogurt starter cultures on the survival of five strains of L. acidophilus, with emphases on low pH and acid production. Differential survival behavior between L. acidophilus strains …

Using On‐Line Data Sources To Allow Students To Test Hypotheses About River Flow And Effects On Remotely Sensed Coastal Ocean Properties., Lawrence B. Cohoon, Kristin M. Hardy, Dustin M. Allen

Biological Sciences

This exercise shows students how to relate remotely sensible properties of coastal waters to variations in river discharge using on‐line data resources. Students can then test hypotheses about the effects of climate changes (drought and wet periods), anthropogenic impacts (urbanized, agricultural, or undeveloped watersheds), or seasonality on river discharges and their consequences, if any, on coastal water quality as determined from remotely sensed properties. River flow has been measured for various periods of time, in some cases from almost the beginning of the 20^th century, at many locations throughout the U.S. by the U.S. Geological Survey, with data on …

Transforming Growth Factor - Beta (Tgfß) Stimulated Isoform Specific Activation Of Akt2 Via Ras Mediates Epithelial-Mesenchymal Transition (Emt), Praveen Chander

ETD Archive

TGFß induces epithelial-mesenchymal transdifferentiation (EMT) accompanied by cellular differentiation and migration. EMT has emerged as a fundamental process governing embryonic development, adult tissue homeostasis and metastatic progression. Our lab had earlier identified a post-transcriptional pathway by which TGFß modulates expression of EMT-specific proteins. It was shown that heterogeneous nuclear ribonucleoprotein E1 (hnRNP E1) binds a structural, 33 nucleotides (nt) TGF beta-activated translation (BAT) element in the 3'-UTR of disabled-2 (Dab2) and interleukin-like EMT inducer (ILEI)transcripts, and repress their translation. This inhibition is removed following hnRNP E1 phosphorylation by activated Akt2. We now show that specific activation of Akt2, and not …

Fur Versus Feathers: Pollen Delivery By Bats And Hummingbirds, And Consequences For Pollen Production, Nathan Muchhala, James Thomson

Biology Department Faculty Works

One floral characteristic associated with bat pollination (chiropterophily) is copious pollen production, a pattern we confirmed in a local comparison of hummingbird- and bat-adapted flowers from a cloud forest site in Ecuador. Previous authors have suggested that wasteful pollen transfer by bats accounted for the pattern. Here we propose and test a new hypothesis: bats select for increased pollen production because they can efficiently transfer larger amounts of pollen, which leads to a more linear male fitness gain curve for bat-pollinated plants. Flight cage experiments with artificial flowers and flowers of Aphelandra acanthus provide support for this hypothesis; in both …

Expression Levels Of Non-Autonomous Retrotransposons In Germ-Line Rodent Tissues, Catherine Elaine Wiesner

Master's Theses and Doctoral Dissertations

SINEs (short interspersed DNA elements) are families of non-coding regions of DNA that amplify within genomes via an RNA intermediate and are referred to as retrotransposons. These elements mobilize using machinery from other retrotransposons and therefore are non-autonomous. It has been demonstrated that both nucleotide sequence and the 3’ A-tail are important contributors for successful amplification. We propose that the level of germ-line transcription of SINE “master genes” is a primary factor in their successful mobility and vertical transmission. RT-PCR and qPCR results suggested higher expression of both SINE and LINE elements in germ-line tissues over somatic. Additionally, the qPCR …

Maria Sibylla Merian's Frogs, Kay Etheridge

Biology Faculty Publications

Maria Sibylla Merian (German, 1647-1717) is best known for her magnificent 1705 publication, Metamorphosis insectorum surinamensium, although she published earlier works on insect metamorphosis. Merian wrote the text and painted all of the illustrations for her books, and for the early volumes she produced most of the engravings. Contemporary scholarship has focused primarily on Merian's detailed images of lepidopteran and host plant life cycles, but Merian's Surinam album also portrays anuram metamorphosis, including the first European depiction of Pipa pipa.

Mathematical Biology At An Undergraduate Liberal Arts College, Stephen C. Adolph, Lisette G. De Pillis

All HMC Faculty Publications and Research

Since 2002 we have offered an undergraduate major in Mathematical Biology at Harvey Mudd College. The major was developed and is administered jointly by the mathematics and biology faculty. In this paper we describe the major, courses, and faculty and student research and discuss some of the challenges and opportunities we have experienced.

Jane: A New Tool For The Cophylogeny Reconstruction Problem, Chris Conow, Daniel Fielder '11, Yaniv J. Ovadia '10, Ran Libeskind-Hadas

All HMC Faculty Publications and Research

Background

This paper describes the theory and implementation of a new software tool, called Jane, for the study of historical associations. This problem arises in parasitology (associations of hosts and parasites), molecular systematics (associations of orderings and genes), and biogeography (associations of regions and orderings). The underlying problem is that of reconciling pairs of trees subject to biologically plausible events and costs associated with these events. Existing software tools for this problem have strengths and limitations, and the new Jane tool described here provides functionality that complements existing tools.

Results

The Jane software tool uses a polynomial time dynamic …

Fishes Of The Columbia And Snake River Basins In Eastern Washington, Allan T. Scholz, Holly J. Mclellan, Fisheries Research Center, Eastern Washington University

Biology Faculty Publications

"This book was prepared through a grant from the United States Department of the Interior, Bureau of Land Management (BLM)."

Chapter 1 Introduction, Chapter 2 Checklist of Fishes Found in Eastern Washington, Chapter 3 Fish Identification and Classification Aids to Identification of Fishes, Chapter 4 Key to Families of Eastern Washington Fishes, Chapter 5 Family Petromyzontidae: Lampreys, Chapter 6 Family Acipenseridae: Sturgeon, Chapter 7 Family Clupeidae: Herrings, Chapter 8 Family Cyprinidae: Carps and Minnows, Chapter 9 Family Catostomidae: Suckers, Chapter 10 Family Ictaluridae: Bullhead Catfishes, Chapter 11 Family Esocidae: Pikes, Chapter 12 Family Salmonidae: Salmon, Trout, Whitefish, Grayling, Chapter 13 …

Development Of Ultra-Sensitive Fluorescence Photoamplification Assays For The Detection Of Molecular Recognition Events, Tiffany Priscilla Gustafson

Electronic Theses and Dissertations

During the course of this research a novel method which couples the molecular recognition-triggered photoamplification chain in diaryl ketone adducts of dithiane with a "turn-off" or "turn-on" fluorescence-based assay for the detection of biological targets and ligands, regardless of their nature, through a molecular recognition event has been developed. This research has included several key steps, the most significant being: (1) the design of fluorophore adducts or dyads which recover fluorescence upon photocleavage for a "turn-on" assay and the identification of fluorophores which are quenched upon the photochemical release of a quencher for a "turn off" assay; (2) Optimization of …

"The Status And Distribution Of Freshwater Crabs [Northern Africa]" , Neil Cumberlidge

Book Sections/Chapters

No abstract provided.

Diversity Of Species In Freshwater Systems, E Balian, I Harrison, S Butchart, P Chambers, J Cordeiro, Neil Cumberlidge, F De Moor, C Gascon, H James, V Kalkman, P P. Van Dijk, D Yeo

Book Sections/Chapters

No abstract provided.

Ligand-Induced Conformations Of Extracellular Loop 2 Of At1r, Hamiyet Unal

ETD Archive

Angiotensin II type 1 receptor (AT1R) is a G-protein coupled receptor (GPCR) and an important regulator of blood pressure. It is a target for drug development, because abnormalities in its function are linked to hypertension, cardiac hypertrophy and heart failure. AT1R is composed of seven transmembrane helices connected by three extracellular loops and three intracellular loops. The extracellular loop 2 (ECL2) of AT1R directly interacts with the ligands. This loop is targeted by autoantibodies that activate AT1R in several pathologies such as preeclampsia, malignant hypertension and vascular allograft rejection. Therefore, we proposed that the conformation of ECL2 in AT1R is …

Probable Causes Of Increasing Brucellosis In Free-Ranging Elk Of The Greater Yellowstone Ecosystem, P. C. Cross, E. K. Cole, A. P. Dobson, W. H. Edwards, K. L. Hamlin, Gordon Luikart, A. D. Middleton, B. M. Scurlock, P. J. White

Biological Sciences Faculty Publications

While many wildlife species are threatened, some populations have recovered from previous Overexploitation, and data linking these population increases with disease dynamics are limited. We present data suggesting that free-ranging elk (Cervus elaphus) are a maintenance host for Brucella abortus in new areas of the Greater Yellowstone Ecosystem (GYE). Brucellosis seroprevalence in free-ranging elk increased from 0-7% in 1991-1992 to 8 20% in 2006-2007 in four of six herd units around the GYE. These levels of brucellosis are comparable to some herd units where elk are artificially aggregated on supplemental feeding grounds. There are several possible mechanisms for this increase …

Merits And Limits Of Ecosystem Protection For Conserving Wild Salmon In A Northern Coastal British Columbia River, Aaron C. Hill, Thomas S. Bansak, Bonnie K. Ellis, Jack Arthur Stanford

Biological Sciences Faculty Publications

Loss and degradation of freshwater habitat reduces the ability of wild salmon populations to endure other anthropogenic stressors such as climate change, harvest, and interactions with artificially propagated fishes. Preservation of pristine salmon rivers has thus been advocated as a cost-effective way of sustaining wild Pacific salmon populations. We examine the value of freshwater habitat protection in conserving salmon and fostering resilience in the Kitlope watershed in northern coastal British Columbia—a large (3186 km²) and undeveloped temperate rainforest ecosystem with legislated protected status. In comparison with other pristine Pacific Rim salmon rivers we studied, the Kitlope is characterized …

Functional Convergence In Reduced Genomes Of Bacterial Symbionts Spanning 200 My Of Evolution, John P. Mccutcheon, Nancy A. Moran

Biological Sciences Faculty Publications

The main genomic changes in the evolution of host-restricted microbial symbionts are ongoing inactivation and loss of genes combined with rapid sequence evolution and extreme structural stability; these changes reflect high levels of genetic drift due to small population sizes and strict clonality. This genomic erosion includes irreversible loss of genes in many functional categories and can include genes that underlie the nutritional contributions to hosts that are the basis of the symbiotic association. Candidatus Sulcia muelleri is an ancient symbiont of sap-feeding insects and is typically coresident with another bacterial symbiont that varies among host subclades. Previously sequenced Sulcia …

Are Forested Buffers An Effective Conservation Strategy For Riparian Fauna? An Assessment Using Meta-Analysis, Laurie B. Marczak, Takashi Sakamaki, Shannon L. Turvey, Isabelle Deguise, Sylvia L. R. Wood, John S. Richardson

Biological Sciences Faculty Publications

Historically, forested riparian buffers have been created to provide protection for aquatic organisms and aquatic ecosystem functions. Increasingly, new and existing riparian buffers are being used also to meet terrestrial conservation requirements. To test the effectiveness of riparian buffers for conserving terrestrial fauna, we conducted a meta-analysis using published data from 397 comparisons of species abundance in riparian buffers and unharvested (reference) riparian sites. The response of terrestrial species to riparian buffers was not consistent between taxonomic groups; bird and arthropod abundances were significantly greater in buffers relative to unharvested areas, whereas amphibian abundance decreased. Edge-preferring species were more abundant …

Full Issue: Volume 3, Number 1

The Science Journal of the Lander College of Arts and Sciences

No abstract provided.

Transforming Growth Factor-Beta (Tgfβ)-Mediated Post-Transcriptional Regulation Of Epithelial-Mesenchymal Transdifferentiation (Emt), Arindam Chaudhury

ETD Archive

TGF├ƒ induces epithelial-mesenchymal transdifferentiation (EMT) accompanied by cellular differentiation and migration, a process fundamental during embryonic development and one that is reactivated in a variety of diseases including fibrosis and cancer. Despite extensive transcriptomic profiling, identification of TGF├ƒ-inducible, EMT-specific genes has met with limited success. Here, we report a novel post-transcriptional pathway by which TGF├ƒ modulates expression of EMT-specific proteins and EMT itself. We show that heterogeneous nuclear ribonucleoprotein E1 (hnRNP E1) binds a structural, 33 nucleotides (nt) TGF-beta-activated translation (BAT) element in the 3'-untranslated regions (UTRs) of disabled-2 (Dab2) and interleukin-like EMT inducer (ILEI) transcripts, and repress their translation. …

How U.S. Ocean Policy And Market Power Can Reform The Coral Reef Wildlife Trade, Brian N. Tissot, Barbara A. Best, Eric H. Borneman, Andrew W. Bruckner, Cara H. Cooper, Heather D’Agnes, Timothy P. Fitzgerald, Amanda Leland, Susan Lieberman, Amy Mathews Amos, Rashid Sumaila, Teresa M. Telecky, Frazer Mcgilvray, Brian J. Plankis, Andrew L. Rhyne, Glynnis G. Roberts, Benjamin Starkhouse, Todd C. Stevenson

Arts & Sciences Faculty Publications

As the world’s largest importer of marine ornamental species for the aquaria, curio, home décor, and jewelry industries, the United States has an opportunity to leverage its considerable market power to promote more sustainable trade and reduce the effects of ornamental trade stress on coral reefs worldwide. Evidence indicates that collection of some coral reef animals for these trades has caused virtual elimination of local populations, major changes in age structure, and promotion of collection practices that destroy reef habitats. Management and enforcement of collection activities in major source countries such as Indonesia and the Philippines remain weak. Strengthening US …

Contrasting Patterns Of Phylogeographic Relationships In Sympatric Sister Species Of Ironclad Beetles (Zopheridae: Phloeodes Spp.) In California's Transverse Ranges, Michael S. Caterino, Maxi Polihronakis

Publications

Comparative phylogeography of sympatric sibling species provides an opportunity to isolate the effects of geography and demographics on the evolutionary history of two lineages over the same, known time scale. In the current study, we investigated the phylogeographic structure of two zopherid beetle species, Phloeodes diabolicus and P. plicatus, where their ranges overlap in California's Transverse Ranges.

Treefrog (Hyla Squirella) Responses To Rangeland And Management In Semi-Tropical Florida, Usa, Kathryn Windes

Electronic Theses and Dissertations

As urban areas expand, agricultural lands become increasingly important habitat for many species. Compared to some types of agricultural land-use, ranchlands provide vast expanses of minimally modified habitat that support many threatened and endangered species. Conservation biologists can promote ecologically sound management approaches by quantifying the effects of agricultural practices on resident species. I examined the effects of pasture management, cattle grazing, and landscape characteristics on both adult and larval treefrogs in a ranchland in south-central Florida. I experimentally determined optimal deployment of artificial treefrog shelters constructed of polyvinylchloride (PVC) pipe to efficiently sample adult treefrogs (Chapter 1). Seventy-two shelters …

Latitudinal Variation In Seasonal Activity And Mortality In Ratsnakes (Elaphe Obsoleta), Jinelle H. Sperry, Gabriel Blouin-Demers, Gerardo L.F. Carfagno, Patrick J. Weatherhead

Biology Faculty Publications

The ecology of ectotherms should be particularly affected by latitude because so much of their biology is temperature dependent. Current latitudinal patterns should also be informative about how ectotherms will have to modify their behavior in response to climate change. We used data from a total of 175 adult black ratsnakes (Elaphe obsoleta) radio tracked in Ontario, Illinois, and Texas, a latitudinal distance of > 1500 km, to test predictions about how seasonal patterns of activity and mortality should vary with latitude. Despite pronounced differences in temperatures among study locations, and despite ratsnakes in Texas not hibernating and switching from diurnal …

Nip/Duoxa Is Essential For Drosophila Embryonic Development And Regulates Oxidative Stress Response., Xiaojun Xie, Jack Hu, Xiping Liu, Hanjuan Qin, Anthony Percival-Smith, Yong Rao, Shawn S C Li

Biochemistry Publications

NIP/DuoxA, originally cloned as a protein capable of binding to the cell fate determinant Numb in Drosophila, was recently identified as a modulator of reactive oxygen species (ROS) production in mammalian systems. Despite biochemical and cellular studies that link NIP/DuoxA to the generation of ROS through the dual oxidase (Duox) enzyme, the in vivo function of NIP/DuoxA has not been characterized to date. Here we report a genetic and functional characterization of nip in Drosophila melanogaster. We show that nip is essential for Drosophila development as nip null mutants die at the 1(st) larval instar. Expression of UAS-nip, but not …

The Role Of Ceruloplasmin In Colitis, Bakytzhan Bakhautdin

ETD Archive

Ceruloplasmin (Cp) is an acute phase, plasma protein with multiple enzymatic activities consistent with both pro- and anti-inflammatory functions. Our laboratory has recently reported the presence of Cp in intestinal epithelial cells. To determine the potential role of Cp in intestinal inflammation, we induced colitis in Cp-deficient mice by continuous administration of dextran sodium sulfate (DSS) ad libitum in the drinking water. The Cp-null mice rapidly lost weight and all were moribund by day 14, while about 90 of the wild-type (WT) mice survived at least 20 days. Higher amounts of TNF-alpha, and neutrophil (KC) and macrophage (MCP-1) chemokines, were …

Genetics And Genomics Of Complex Diseases;Mouse Atherosclerosis Modifier Genes And Human Gene Expression After Bariatric Surgery, Stela Z. Berisha

ETD Archive

The overall goal of our research was to study and identify genes involved in the development of complex diseases in mice and humans through integrative genetic/genomic approaches. Two complex diseases were the focus of research, atherosclerosis and type 2 diabetes. Mouse models of atherosclerosis, in which the genetic background and the environment can be controlled for, were used to identify and validate atherosclerosis modifier genes. We studied an atherosclerosis quantitative trait locus (QTL) on the distal end of chromosome 5, called Ath24, and generated interval-specific congenic mice on the atherosclerosis resistant AKR and susceptible DBA/2 apoE-deficient strains. To date we …