Biology Commons^™

Introduction: Protistan Biology, Horizontal Gene Transfer, And Common Descent Uncover Faulty Logic In Intelligent Design, Avelina Espinosa

Arts & Sciences Faculty Publications

THE International Society of Protistologists (ISOP) organized a pre-meeting workshop entitled ‘‘Horizontal Gene Transfer and Phylogenetic Evolution Debunk Intelligent Design,’’ as part of the 1st North American Section meeting held June 11–13, 2009, at Roger Williams University, Bristol, RI, USA. This workshop focused on the acceptance of Darwinian evolution in the United States and the role of intelligent design (ID) in the ongoing controversy between scientific knowledge and popular belief. Intelligent design, a doctrine born in the 1980s, proposes that a ‘‘Designer’’ is responsible for the complexity in biological systems and that Darwinism cannot explain holistically the origin and evolution …

Integrating Horizontal Gene Transfer And Common Descent To Depict Evolution And Contrast It With ‘‘Common Design, Guillermo Paz-Y-Mino C., Avelina Espinosa

Arts & Sciences Faculty Publications

Horizontal gene transfer (HGT) and common descent interact in space and time. Because events of HGT co-occur with phylogenetic evolution, it is difficult to depict evolutionary patterns graphically. Tree-like representations of life’s diversification are useful, but they ignore the significance of HGT in evolutionary history, particularly of unicellular organisms, ancestors of multicellular life. Here we integrate the reticulated-tree model, ring of life, symbiogenesis whole-organism model, and eliminative pattern pluralism to represent evolution. Using Entamoeba histolytica alcohol dehydrogenase 2 (EhADH2), a bifunctional enzyme in the glycolytic pathway of amoeba, we illustrate how EhADH2 could be the product of both horizontally acquired …

Bacterial Acquisition In Juveniles Of Several Broadcast Spawning Coral Species, Koty H. Sharp, Kim B. Ritchie

Arts & Sciences Faculty Publications

Coral animals harbor diverse microorganisms in their tissues, including archaea, bacteria, viruses, and zooxanthellae. The extent to which coral-bacterial associations are specific and the mechanisms for their maintenance across generations in the environment are unknown. The high diversity of bacteria in adult coral colonies has made it challenging to identify species-specific patterns. Localization of bacteria in gametes and larvae of corals presents an opportunity for determining when bacterial-coral associations are initiated and whether they are dynamic throughout early development. This study focuses on the early onset of bacterial associations in the mass spawning corals Montastraea annularis, M. franksi, M. faveolata, …

Stealth Predation And The Predatory Success Of The Invasive Ctenophore Mnemiopsis Leidyi, Sean Colin, John H. Costello, Lars J. Hansson, Josefin Titelman, John O. Dabiri

Arts & Sciences Faculty Publications

In contrast to higher metazoans such as copepods and fish, ctenophores are a basal metazoan lineage possessing a relatively narrow set of sensory-motor capabilities. Yet lobate ctenophores can capture prey at rates comparable to sophisticated predatory copepods and fish, and they are capable of altering the composition of coastal planktonic communities. Here, we demonstrate that the predatory success of the lobate ctenophore Mnemiopsis leidyi lies in its use of cilia to generate a feeding current that continuously entrains large volumes of fluid, yet is virtually undetectable to its prey. This form of stealth predation enables M. leidyi to feed as …

Actions Of Ncx, Pmca And Serca On Short-Term Facilitation And Maintenance Of Transmission In Nerve Terminals, Mohati Desai-Shah, Robin L. Cooper

Biology Faculty Publications

Residual Ca²⁺ can accumulate in the nerve terminal during repetitive stimulation; thus, the basis for short-term facilitation (STF). The plasmalemmal Na⁺/Ca²⁺ exchanger [NCX], the Ca²⁺-ATPase (PMCA) and the sarcoplasmic/endoplasmic reticulum Ca²⁺-ATPase (SERCA) on the endoplasmic reticulum are three important Ca²⁺ regulatory processes in controlling [Ca²⁺]_i. The role of these [Ca²⁺]_i regulators in the development and maintenance of STF was addressed at the neuromuscular junction. When the NCX is compromised by reduced [Na+]o, the EPSP amplitudes decrease, but with KB-R7943 (a reverse blocker of NCX) …

A Spectrographic Analysis Of American Kestrel (Falco Sparverius) Vocalizations : Do Broodmates Sound More Like Each Other Than Non-Related Broods?, Erica Gloria Mueller

Theses, Dissertations and Culminating Projects

Using spectrographic analysis, I studied the vocalizations of American Kestrel (Falco sparverius) chicks to determine if siblings sounded more like each other than nonrelated chicks. I also performed a feasibility study on obtaining and analyzing vocalizations of wild adult kestrels. A total of 144 vocal recordings was obtained from 67 female and 77 male kestrel chicks in the 2005 and 2006 kestrel breeding seasons. Sixteen adult kestrel vocal samples were also obtained from eleven females and five males, each a parent to one of the broods that were audio-recorded.

Fifteen vocal parameters were analyzed through spectrographic analysis for each individual …

Phenotypic Divergence During The Invasion Of Phyla Canescens In Australia And France: Evidence For Selection-Driven Evolution, Cheng-Yuan Xu, Mic H. Julien, Mohammad Fatemi, Christophe Girod, Rieks D. Van Klinken, Caroline L. Gross, Stephen J. Novak

Biology Faculty Publications and Presentations

Rapid adaptive evolution has been advocated as a mechanism that promotes invasion. Demonstrating adaptive evolution in invasive species requires rigorous analysis of phenotypic shifts driven by selection. Here, we document selection-driven evolution of Phyla canescens, an Argentine weed, in two invaded regions (Australia and France). Invasive populations possessed similar or higher diversity than native populations, and displayed mixed lineages from different sources, suggesting that genetic bottlenecks in both countries might have been alleviated by multiple introductions. Compared to native populations, Australian populations displayed more investment in sexual reproduction, whereas French populations possessed enhanced vegetative reproduction and growth. We partitioned …

Roles Of The Sarcoplasmic/Endoplasmic Reticulum Ca2+-Atpase, Plasma Membrane Ca2+-Atpase And Na+/Ca2+ Exchanger In Regulation Of Heart Rate In Larval Drosophila, Mohati Desai-Shah, A. R. Papoy, M. Ward, Robin L. Cooper

Biology Faculty Publications

We investigated the roles of three regulatory proteins that impact [Ca²⁺]_i within cardiac myocytes of Drosophila melanogaster. The NCX (Na⁺/Ca²⁺ exchanger), PMCA (plasma membrane Ca²⁺-ATPase) and SERCA (sarcoplasmic/endoplasmic reticulum Ca²⁺-ATPase) were compromised by ionic, pharmacological, mutationalmanipulation, and with a combination of approaches, while heart rate (HR) was monitored. A decrease in SERCA function reduced HR more for intact larva in comparison to a dissected larva. Dissected preparations were used to expose the heart directly to agents. A compromised PMCA also reduced HR; however, attenuated NCX function by low [Na^{+ …}

A Multidimensional Strategy To Detect Polypharmacological Targets In The Absence Of Structural And Sequence Homology, Jacob D. Durrant, Rommie E. Amaro, Lei Xie, Michael D. Urbaniak, Michael A. J. Ferguson, Antti Haapalainen, Zhijun Chen, Anne Marie Di Guilmi, Frank Wunder, Philip E. Bourne, J. Andrew Mccammon

Publications and Research

Conventional drug design embraces the ‘‘one gene, one drug, one disease’’ philosophy. Polypharmacology, which focuses on multi-target drugs, has emerged as a new paradigm in drug discovery. The rational design of drugs that act via polypharmacological mechanisms can produce compounds that exhibit increased therapeutic potency and against which resistance is less likely to develop. Additionally, identifying multiple protein targets is also critical for side-effect prediction. One third of potential therapeutic compounds fail in clinical trials or are later removed from the market due to unacceptable side effects often caused by off-target binding. In the current work, we introduce a multidimensional …

Mojave Applied Ecology Notes Winter 2010, Scott R. Abella, E. Cayenne Engel

Mojave Applied Ecology Notes

Native species interactions with red brome (Bromus rubens), undergraduate and graduate programs at UNLV, what’s growing in the greenhouse?

Measurements Of Platinum Electrode Potential In Blood And Blood Plasma And Serum, Mogely Khubutiya, Anatoly K. Evseev, Vladimir Kolesnikov, Mikhail M. Goldin, Alexei Davydov, Alexander Volkov, Andrey Stepanov

Faculty Publications and Presentations

The method of electrochemical pretreatment of platinum electrode with the goal of standardizing the initial state of electrode surface and its open-circuit potential (OCP) in the blood and other biological media is proposed. The platinum electrode potential is measured in 0.14 M Na2SO4 aqueous solution, in the blood and blood plasma and serum. By the examples of OCP measured in the blood serum of patients with acute poisoning, acute cerebral pathology and patients treated by the method of hyperbaric oxygenation, it was found that the values of blood serum OCP were different for studied pathological states and healthy people.

Garden Of The Gods At Colorado Springs: Paleozoic And Mesozoic Sedimentation And Tectonics, Marcus R. Ross, William A. Hoesch, Steven A. Austin, John H. Whitmore, Timothy L. Clarey

Faculty Publications and Presentations

Exposed along the southeast fl ank of the Colorado Front Range are rocks that beautifully illustrate the interplay of sedimentation and tectonics. Two major rangebounding faults, the Ute Pass fault and the Rampart Range fault, converge on the Garden of the Gods region west of Colorado Springs. Cambrian through Cretaceous strata upturned by these faults reveal in their grain compositions, textures, and bedforms radically different styles of sedimentation. The Cambrian/Ordovician marine transgressive deposits appear to have come to rest on a passive and tectonically inactive craton. In contrast, coarse-grained Pennsylvanian/Permian marine deposits of the Fountain Formation and Lyons Sandstone reveal …

Ohio Conservation Plan: Plains Gartersnake, Thamnophis Radix, Norman Reichenbach, M. Barrie, K. Becka, G. Burghardt, S. Butterworth, C. Caldwell, F. Dierkes, P. Johantgen, K. Stanford, D. Wynn

Faculty Publications and Presentations

This plan outlines strategies and methods used in an ongoing study initiated in 1999 to restore a selfsustaining population of the Plains gartersnake (Thamnophis radix) in Ohio. Restoring a self-sustaining population would require increases in the current population to where the ratios of T. radix to T. sirtalis are approximately 1:1 in multiple locations in Killdeer Plains Wildlife Area (KPWA). This ratio would be similar to what was seen earlier by Reichenbach and Dalrymple (1986) at one site in KPWA.

The plan was developed by a team of enthusiastic conservationists representing, the Division of Wildlife (ODW), the Columbus and Cleveland …

Evolution Of An Mhc Class La Gene Fragment In Four North American Morone Species, J. X. Liu, Bert Ely

Faculty Publications

A nucleotide sequence analysis of a fragment of a Morone MHC class Ia gene detected high levels of polymorphism in striped bass Morone saxatilis, white perch Morone americana and yellow bass Morone mississippiensis. Extremely low levels of MHC diversity, however, were detected in white bass Morone chrysops, suggesting the possibility of a severe population bottleneck for this species.

Purification And Characterization Of A Leishmania Mitogen Activated Protein Kinase : A Potentially New Anti-Parasitic Drug Target, Sailaja Sankabathula

Theses, Dissertations and Culminating Projects

Synthetic inhibitors of the human mitogen activated protein kinase, p38 MAPK may represent a new class of anti-parasitic agents. p38 MAPK inhibitors have been shown to inhibit replication of Toxoplasma gondii (T.gondii), the causative agent of taxoplasmosis, in vitro and in vivo. Inhibition of parasite replication was due to the inhibition of a T.gondii p38 MAPK homolog called tgmapk-1. Other parasites have MAPKs homologous to tgmapk-1 and these MAPKs may represent novel drug targets for new therapeutics in treating parasitic diseases. We have focused on a MAPK from, Leishmania mexicana (L.mexicana), the causative agent for one form of leishmaniasis. The …

The Impact And Shortfall Of Conservation On The Status Of The World's Vertebrates , M Hoffmann, C Hilton-Taylor, A Angulo, Monica Bohm Phd, Shm Bbutchart, K E. Carpenter, J Chanson, B Collen, N A. Cox, Neil Cumberlidge

Journal Articles

No abstract provided.

From Energy Gradient And Natural Selection To Biodiversity And Stability Of Ecosystems, Bo Deng

Department of Mathematics: Faculty Publications

The purpose of this paper is to incorporate well-established ecological principles into a foodweb model consisting of four trophic levels --- abiotic resources, plants, herbivores, and carnivores. The underlining principles include Kimura's neutral theory of genetic evolution, Liebig's Law of the Minimum for plant growth, Holling's functionals for herbivore foraging and carnivore predation, the One-Life Rule for all organisms, and Lotka-Volterra's model for intraand interspecific competitions. Numerical simulations of the model led to the following statistical findings: (a) particular foodwebs can give contradicting observations on biodiversity and productivity, in particular, all known functional forms -- - positive, negative, sigmoidal, and …

The Fungal Connection: Characterizing The Ectomycorrhizal Community And Belowground Response To Restoration Treatments In Northern Mississippi., Ashley Jane Craig

Electronic Theses and Dissertations

Ectomycorrhizal (ECM) fungi are symbionts on the roots of woody plant species throughout the world. These fungi provide plants with nutrients and are important drivers of ecosystem processes. ECM fungi vary in their effect on host plants and host-specificity, making them important considerations in restoration projects seeking to restore target tree species. Restoration strategies such as burning and thinning may have strong impacts on ECM fungi, and given the that ECM are important in structuring aboveground communities and maintaining certain dominant plant taxa, knowledge of ECM fungal response is needed to ensure restoration efforts succeed. Using molecular methods, this research …

The Effects Of Ecological Restoration On Soil Microbial Enzyme Activities And Leaf Litter Decomposition, Anthony Jason Rietl

Electronic Theses and Dissertations

This study examined the immediate effects of ecological restoration on soil enzyme activities and decomposition. The activities of five enzymes: phosphatase, ?-glucosidase, ?-N-acetylglucosadminidase (NAGase), phenol oxidase, and lignin-peroxidase were measured in both soils and on decomposing Quercus falcata leaf litter in unburned, burned, and burned and thinned plots in a mesic forest in northern Mississippi. Rates of decomposition were also assessed for Q. falcata leaf litter at each plot. The restoration treatments decreased phosphatase activity in relation to an increase in soil organic matter after the fire, and increased NAGase activity in relation to a decrease in leaf litter after …

Apparent Competition With An Invasive Plant Hastens The Extinction Of An Endangered Lupine, Emily M. Dangremond, Eleanor A. Pardini, Tiffany M. Knight

Biology Faculty Research

Invasive plants may compete with native plants by increasing the pressure of native consumers, a mechanism known as "apparent competition." Apparent competition can be as strong as or stronger than direct competition, but the role of apparent competition has rarely been examined in biological invasions. We used four years of demographic data and seed-removal experiments to determine if introduced grasses caused elevated levels of seed consumption on native plant species in a coastal dune system in California, USA. We show that the endangered, coastal dune plant Lupinus tidestromii experiences high levels of pre-dispersal seed consumption by the native rodent Peromyscus …

The Wnt/Β-Catenin Pathway Regulates Growth And Maintenance Of Colonospheres, Shailender S. Kanwar, Yingjie Yu, Jyoti Nautiyal, Bhaumik B. Patel, Adhip Pn Majumdar

Wayne State University Associated BioMed Central Scholarship

Abstract

Background

Recent evidence suggests that epithelial cancers, including colorectal cancer are driven by a small sub-population of self-renewing, multi-potent cells termed cancer stem cells (CSCs) which are thought to be responsible for recurrence of cancer. One of the characteristics of CSCs is their ability to form floating spheroids under anchorage-independent conditions in a serum-free defined media. The current investigation was undertaken to examine the role of Wnt/β-catenin pathway in regulating the growth and maintenance of colonospheres. Human colon cancer cells HCT-116 (p53 wild type; K-ras mutant), HCT-116 (p53 null; K-ras mutant) and HT-29 (p53 mutant) were used.

Results

Colonospheres …

The Drosophila Homolog Of The Mammalian Imprint Regulator, Ctcf, Maintains The Maternal Genomic Imprint In Drosophila Melanogaster, William A. Macdonald, Debashish Menon, Nicholas J. Bartlett, G Elizabeth Sperry, Vanya Rasheva, Victoria Meller, Vett K. Lloyd

Wayne State University Associated BioMed Central Scholarship

Abstract

Background

CTCF is a versatile zinc finger DNA-binding protein that functions as a highly conserved epigenetic transcriptional regulator. CTCF is known to act as a chromosomal insulator, bind promoter regions, and facilitate long-range chromatin interactions. In mammals, CTCF is active in the regulatory regions of some genes that exhibit genomic imprinting, acting as insulator on only one parental allele to facilitate parent-specific expression. In Drosophila, CTCF acts as a chromatin insulator and is thought to be actively involved in the global organization of the genome.

Results

To determine whether CTCF regulates imprinting in Drosophila, we generated CTCF mutant alleles …

Loss Of The Sin3 Transcriptional Corepressor Results In Aberrant Mitochondrial Function, Valerie L. Barnes, Bethany S. Strunk, Icksoo Lee, Maik Hüttemann, Lori A. Pile

Wayne State University Associated BioMed Central Scholarship

Abstract

Background

SIN3 is a transcriptional repressor protein known to regulate many genes, including a number of those that encode mitochondrial components.

Results

By monitoring RNA levels, we find that loss of SIN3 inDrosophilacultured cells results in up-regulation of not only nuclear encoded mitochondrial genes, but also those encoded by the mitochondrial genome. The up-regulation of gene expression is accompanied by a perturbation in ATP levels in SIN3-deficient cells, suggesting that the changes in mitochondrial gene expression result in altered mitochondrial activity. In support of the hypothesis that SIN3 is necessary for normal mitochondrial function, yeastsin3null mutants exhibit very poor …

How Our Health Depends On Biodiversity, Eric Chivian M.D., Aaron Bernstein M.D., M.P.H.

Ecosystem Disruption & Climate Change

The eminent Harvard biology Professor Edward O.Wilson once said about ants, “We need them to survive, but they don’t need us at all.” The same, in fact, could be said about countless other insects, bacteria, fungi, plankton, plants, and other organisms. This fundamental truth, however, is largely lost to many of us. Rather, we humans often act as if we are totally independent of Nature, as if our driving thousands of other species to extinction and disrupting the life-giving services they provide will have no effect on us whatsoever.

This summary, using concrete examples from our award-winning Oxford University Press …

Interaction Between The Biotin Carboxyl Carrier Domain And The Biotin Carboxylase Domain In Pyruvate Carboxylase From Rhizobium Etli, Adam D. Lietzan, Ann L. Menefee, Tonya N. Zeczycki, Sudhanshu Kumar, Paul V. Attwood, John C. Wallace, W. Wallace Cleland, Martin St. Maurice

Biological Sciences Faculty Research and Publications

Pyruvate carboxylase (PC) catalyzes the ATP-dependent carboxylation of pyruvate to oxaloacetate, an important anaplerotic reaction in mammalian tissues. To effect catalysis, the tethered biotin of PC must gain access to active sites in both the biotin carboxylase domain and the carboxyl transferase domain. Previous studies have demonstrated that a mutation of threonine 882 to alanine in PC from Rhizobium etli renders the carboxyl transferase domain inactive and favors the positioning of biotin in the biotin carboxylase domain. We report the 2.4 Å resolution X-ray crystal structure of the Rhizobium etli PC T882A mutant which reveals the first high-resolution description of …

Arthropod Biodiversity In Response To The Restoration Of Former Pine Plantations, John Curtis Burkhalter

UNF Graduate Theses and Dissertations

The goal of ecological restoration is to return degraded or altered ecosystems to their pre-disturbed state with respect to ecosystem structure, function, and composition. In the current study the research objective was to reestablish high levels of biodiversity on two restored pine plantations as well as restore a native pine flatwoods ecosystem. Managed, even-aged pine flatwoods are now the most extensive ecosystem in North Florida, comprising approximately 70% of the forested landscape. Slash pine trees were thinned in the experimental plots to restore the natural slash pine density of native ecosystems. In addition to the thinning treatments, experimental plots have …

Seeking Generalities In Salt Stress Effects On Herbivores: A Multi-Species Approach, Christy Marie Foust

UNF Graduate Theses and Dissertations

Stress has been identified as one of the primary factors influencing the structure of food webs, but few conclusions about the effects of stress on community dynamics have emerged. This study examined generalities that exist between salt stress and insect herbivore responses. Ambient salinity was artificially increased by adding 1.3 kg/m2 of salt to six different plant species: Avicennia germinans, Baccharis halimifolia, Batis maritima, Borrichia frutescens, Iva frutescens, and Spartina alterniflora. By performing a multiple species examination, stress responses were examined to determine if consistencies within and between plant type, ambient salinity conditions, and host plant species (among other criteria) …

Cellular And Molecular Dissection Of Pluripotent Adult Somatic Stem Cells In Planarians, Norito Shibata, Labib Rouhana, Kiyokazu Agata

Biological Sciences Faculty Publications

Freshwater planarians, Plathelminthes, have been an intriguing model animal of regeneration studies for more than 100 years. Their robust regenerative ability is one of asexual reproductive capacity, in which complete animals develop from tiny body fragments within a week. Pluripotent adult somatic stem cells, called neoblasts, assure this regenerative ability. Neoblasts give rise to not only all types of somatic cells, but also germline cells. During the last decade, several experimental techniques for the analysis of planarian neoblasts at the molecular level, such as in situ hybridization, RNAi and fluorescence activated cell sorting, have been established. Moreover, information about genes …

Diel Fish Habitat Selection In A Tributary Stream, Andria K. Salas, Eric B. Snyder

Peer Reviewed Publications

This study investigated the location and diel habitat preferences (at 100 m reach scale) of fish in a small tributary stream in late spring, early summer. During the day, coho (Oncorhynchus kisutch) preferred areas with more cover (deeper, greater extent of undercut banks) vs. night when LWD was preferred (Pearson correlation and step-wise MLR). Chinook (O. tshawytscha) exhibited an opposite pattern, preferring LWD during the day vs. higher velocity at night. This suggests these two potadromous species may be partitioning resources. Pooling coho, chinook and rainbow trout (O. mykiss) indicated reaches with more LWD …

Small-Mammal Seed Predation Limits The Recruitment And Abundance Of Two Perennial Grassland Forbs, Mary Bricker, Dean Pearson, John L. Maron

Biological Sciences Faculty Publications

Although post-dispersal seed predators are common and often reduce seed density, their influence on plant population abundance remains unclear. On the one hand, increasing evidence suggests that many plant populations are seed limited, implying that seed predators could reduce plant abundance. On the other hand, it is generally uncertain whether the magnitude of seed limitation imposed by granivores is strong enough to overcome density-dependent processes that could compensate for seed loss at later stages. We examined the impact of seed predation by small mammals, primarily deer mice (Peromyscus maniculatus), on seedling recruitment and subsequent plant establishment of two …