Biology Commons^™

The Burden Of Motherhood: The Effect Of Reproductive Load On Female Lizard Locomotor, Foraging, And Social Behavior, Michele A. Johnson, J. L. Caton, R. E. Cohen, J. R. Vandecar, J. Wade

Biology Faculty Research

The costs of reproduction, involving demands associated with both current and future reproductive efforts, may place a substantial burden on females. However, animals may minimize these costs by modifying their behavior across the reproductive cycle. We examined the effects of reproductive load on three types of behavior (locomotion, foraging, and social displays) in green anole lizards (Anolis carolinensis) by comparing egg, follicle, and oviduct mass and volume with field observational data. We found that female locomotor and social display behaviors decreased as reproductive load increased, suggesting behavioral modification in these traits, but we detected no relationship between foraging and …

Description Of The Tadpole Of Proceratophrys Renalis (Miranda-Ribeiro, 1920) (Anura: Cycloramphidae), Filipe Augusto C. Do Nascimento, Barnagleison S. Lisboa, Gabriel O. Skuk, Rafael O. De Sá

Biology Faculty Publications

The tadpole of Proceratophrys renalis is described based on specimens from Maceió, State of Alagoas, northeastern Brazil. At stage 35 the body is slightly dorso-ventrally depressed, ovoid in lateral, dorsal, and ventral views. Oral disc is ventral with lateral emarginations, surrounded by a single row of marginal papillae with a large gap on the upper labium. Labial tooth row formula is 2(2)/3(1 ). The analysis of internal oral anatomy revealed two possible characters that readily distinguish P. renalis from P. boiei, supporting the recent resurrection of P. renal is. Comparisons with available descriptions of the larvae for other species in …

Ecology And Transmission Of Buruli Ulcer Disease: A Systematic Review, Richard W. Merritt, Edward D. Walker, Pamela L. C. Small, John R. Wallace, Paul D. R. Johnson, Mark Eric Benbow, Daniel A. Boakye

Biology Faculty Publications

Buruli ulcer is a neglected emerging disease that has recently been reported in some countries as the second most frequent mycobacterial disease in humans after tuberculosis. Cases have been reported from at least 32 countries in Africa (mainly west), Australia, Southeast Asia, China, Central and South America, and the Western Pacific. Large lesions often result in scarring, contractual deformities, amputations, and disabilities, and in Africa, most cases of the disease occur in children between the ages of 4–15 years. This environmental mycobacterium, Mycobacterium ulcerans, is found in communities associated with rivers, swamps, wetlands, and human-linked changes in the aquatic environment, …

Identification Of Functional Elements And Regulatory Circuits By Drosophila Modencode, Sushmita Roy, Jason Ernst, Peter Kharchenko, Pouya Kheradpour, Nicolas Negre, Matthew Eaton, Jane Landolin, Christopher Bristow, Lijia Ma, Michael Lin, Stefan Washietl, Bradley Arshinoff, Ferhat Ay, Patrick Meyer, Nicolas Robine, Nicole Washington, Luisa Di Stefano, Eugene Berezikov, Christopher Brown, Rogerio Candeias, Joseph Carlson, Adrian Carr, Irwin Jungreis, Daniel Marbach, Rachel Sealfon, Michael Tolstorukov, Sebastian Will, Artyom Alekseyenko, Carlo Artieri, Benjamin Booth, Angela Brooks, Qi Dai, Carrie Davis, Michael Duff, Xin Feng, Andrey Gorchakov, Tingting Gu, Jorja Henikoff, Philipp Kapranov, Renhua Li, Heather Macalpine, John Malone, Aki Minoda, Jared Nordman, Katsutomo Okamura, Marc Perry, Sara Powell, Nicole Riddle, Akiko Sakai, Anastasia Samsonova, Jeremy Sandler, Yuri Schwartz, Noa Sher, Rebecca Spokony, David Sturgill, Marijke Van Baren, Kenneth Wan, Li Yang, Charles Yu, Elise Feingold, Peter Good, Mark Guyer, Rebecca Lowdon, Kami Ahmad, Justen Andrews, Bonnie Berger, Steven Brenner, Michael R. Brent, Lucy Cherbas, Sarah C.R. Elgin, Thomas Gingeras, Robert Grossman, Roger Hoskins, Thomas Kaufman, William Kent, Mitzi Kuroda, Terry Orr-Weaver, Norbert Perrimon, Vincenzo Pirrotta, James Posakony, Bing Ren, Steven Russell, Peter Cherbas, Brenton Graveley, Suzanna Lewis, Gos Micklem, Brian Oliver, Peter Park, Susan Celniker, Steven Henikoff, Gary Karpen, Eric Lai, David Macalpine, Lincoln Stein, Kevin White, Manolis Kellis

Biology Faculty Publications & Presentations

To gain insight into how genomic information is translated into cellular and developmental programs, the Drosophila model organism Encyclopedia of DNA Elements (modENCODE) project is comprehensively mapping transcripts, histone modifications, chromosomal proteins, transcription factors, replication proteins and intermediates, and nucleosome properties across a developmental time course and in multiple cell lines. We have generated more than 700 data sets and discovered protein-coding, noncoding, RNA regulatory, replication, and chromatin elements, more than tripling the annotated portion of the Drosophila genome. Correlated activity patterns of these elements reveal a functional regulatory network, which predicts putative new functions for genes, reveals stage- and …

Approximate Approach To The Das Model Of Fractional Logistic Population Growth, S. Das, P. K. Gupta, K. Vishal

Applications and Applied Mathematics: An International Journal (AAM)

In this article, the analytical method, Homotopy perturbation method (HPM) has been successfully implemented for solving nonlinear logistic model of fractional order. The fractional derivatives are described in the Caputo sense. Using initial value, the explicit solutions of population size for different particular cases have been derived. Numerical results show that the method is extremely efficient to solve this complicated biological model.

Counterintuitive Effects Of Large-Scale Predator Removal On A Midlatitude Rodent Community, John L. Maron, Dean E. Pearson, Robert J. Fletcher Jr.

Biological Sciences Faculty Publications

Historically, small mammals have been focal organisms for studying predator–prey dynamics, principally because of interest in explaining the drivers of the cyclical dynamics exhibited by northern vole, lemming, and hare populations. However, many small-mammal species occur at relatively low and fairly stable densities at temperate latitudes, and our understanding of how complex predator assemblages influence the abundance and dynamics of these species is surprisingly limited. In an intact grassland ecosystem in western Montana, USA, we examined the abundance and dynamics of Columbian ground squirrels (Spermophilus columbianus), deer mice (Peromyscus maniculatus), and montane voles (Microtus montanus …

What Brown Saw And You Can Too, Philip Pearle, Brian Collett, Kenneth Bart, David Bilderback, Dara Newman, D. Scott Samuels

Biological Sciences Faculty Publications

A discussion of Robert Brown’s original observations of particles ejected by pollen of the plant Clarkia pulchella undergoing what is now called Brownian motion is given. We consider the nature of those particles and how he misinterpreted the Airy disk of the smallest particles to be universal organic building blocks. Relevant qualitative and quantitative investigations with a modern microscope and with a “homemade” single lens microscope similar to Brown’s are presented.

Hsp70 And Hsp40 Functionally Interact With Soluble Mutant Huntingtin Oligomers In A Classic Atp-Dependent Reaction Cycle, Gregor P. Lotz, Justin Legleiter, Rebecca Aron, Emily M. Sontag, Shao-Yi Huang, Cheping Ng, Charles G. Glabe, Leslie M. Thompson, Paul J. Muchowski

Biological Sciences Faculty Research and Publications

Inclusion bodies of aggregated mutant huntingtin (htt) fragments are a neuropathological hallmark of Huntington disease (HD). The molecular chaperones Hsp70 and Hsp40 colocalize to inclusion bodies and are neuroprotective in HD animal models. How these chaperones suppress mutant htt toxicity is unclear but might involve direct effects on mutant htt misfolding and aggregation. Using size exclusion chromatography and atomic force microscopy, we found that mutant htt fragments assemble into soluble oligomeric species with a broad size distribution, some of which reacted with the conformation-specific antibody A11. Hsp70 associated with A11-reactive oligomers in an Hsp40- and ATP-dependent manner and inhibited their …

Labile Soil Carbon Inputs Mediate The Soil Microbial Community Composition And Plant Residue Decomposition Rates, Marie-Anne De Graaff, Aimee T. Classen, Hector F. Castro, Christopher W. Schadt

Biology Faculty Publications and Presentations

• Root carbon (C) inputs may regulate decomposition rates in soil, and in this study we ask: how do labile C inputs regulate decomposition of plant residues, and soil microbial communities?

• In a 14 d laboratory incubation, we added C compounds often found in root exudates in seven different concentrations (0, 0.7, 1.4, 3.6, 7.2, 14.4 and 21.7 mg C g soil) to soils amended with and without ¹³C-labeled plant residue. We measured CO₂ respiration and shifts in relative fungal and bacterial rRNA gene copy numbers using quantitative polymerase chain reaction (qPCR).

• Increased labile C input …

Development Of A Carbohydrate Microarray System And A Microcantilever-Based Biosensor For Detection Of Target Bacteria, Yunyan Cheng

All Theses

The increasing number of disease outbreaks results in a demand for novel pathogen detectors. Carbohydrates serving as receptors for pathogen lectins have become the focus of such research. Two primary sugars, ‡-D-mannose and ‡-L-fucose, as receptors for Escherichia coli and Pseudomonas aeruginosa, respectively, are of great interest to researchers due to their high affinity. These interactions can be studied using carbohydrate microarrays, which are also suitable platforms for detecting bacterial pathogens. In addition, carbohydrates have the potential to act as sensing molecules in microcantilever-based biosensors. The goal of this research was to design a carbohydrate microarray system to study the …

Protein Preservation In Fossil Whale Bones Of The Miocene/Pliocene Pisco Formation, Peru, Uriel Leme Vidal

Loma Linda University Electronic Theses, Dissertations & Projects

Fossil remains have recently been the focus of considerable attention due to several independent reports of protein and soft-tissue preservation in ancient biological remains. The fossil whales from the Pisco Formation in Peru were previously reported to be very well preserved. A considerable percentage of these whales have their bones still articulated, and not a few have fossil baleen in life position. In this study we assayed bone samples from some fossil whales for ultrastructure preservation and the presence of original protein/proteinaceous materials. For analysis of fine details of structural preservation we used light microscopy and Scanning Electron Microscopy (SEM). …

Cloning Of A Chlamydomonas Reinhardtii Marker Into A Rna Interference Construct To Test Whether The Photoreceptor Chlamyrhodopsin Is Involved In Circadian Clock Resetting, Shravya Reddy Maddi

Masters Theses & Specialist Projects

Chlamydomonas reinhardtii, a unicellular eukaryotic green alga, serves as a model organism to study the circadian clock in plants and animals. Rhodopsins are blue/green-light photoreceptors also found in C. reinhardtii. Chlamyrhodopsin (COP), the most abundant eyespot protein, was reported to have no role in the phototactic and photophobic responses in C. reinhardtii. Its function is yet unknown.
In the present study, we hypothesized that the function of COP is to mediate entrainment of the circadian clock by light. In order to test this hypothesis, a C. reinhardtii selection marker conferring resistance to the antibiotic paromomycin was cloned …

Intraspecific Variation In Two Cosmopolitan Myxomycetes, Didymium Squamulosum And Didymium Difforme (Physarales: Didymiaceae), Katherine Elizabeth Winsett

Graduate Theses and Dissertations

The myxomycetes (plasmodial slime molds or myxogastrids) are one of three groups considered to be true slime molds (class Eumycetozoa sensu Olive 1975). Two vegetative states--amoebae and plasmodia--along with a spore-producing fruiting body characterize the life cycle of the myxomycetes. These organisms are associated with decaying plant material and are found in all terrestrial habitats worldwide. A number of species are considered cosmopolitan, being found worldwide, where they are associated with a diversity of microhabitats and substrates. A review of the literature, including molecular investigations in all three groups of slime molds, is presented, and this is followed by four …

Physiological Implications Of Natural Versus Induced Arousal From Torpor, Jenifer C. Utz

UNLV Theses, Dissertations, Professional Papers, and Capstones

During the hibernation season, animals oscillate between periods of torpor and periods of interbout arousal (IBA). During torpor, body temperature is often near 0° C and metabolism is severely depressed. Oxygen consumption, a proxy for aerobic metabolism, may fall to 1% of active values. Many physiological processes including cardiovascular, respiratory, and cellular functions nearly cease. During the IBA, euthermic body temperature is restored and most systemic and cellular processes function at fully active levels. The transition period between these two physiologically dissimilar states is called arousal.

The rate of rewarming (RRW) during arousal was previously expected to progressively increase until …

Investigating Heavy Metal Accumulation And Oxidative Stress Tolerance Of Non-Accumulators And Hyperaccumulators In The Brassicaceae Plant Family, Fritzie Joy Into

Theses and Dissertations - UTB/UTPA

Physiological and enzymatic analysis indicated that the non-accumulator A. thaliana showed an oxidative stress response in all assays except for protein carbonylation. Other non-accumulator plant species showed a significant difference in oxidative stress response in the TBARS assay; however, for some assays no stress response was evident. The hyperaccumulator plant species showed no significant difference in oxidative stress as indicated by the all of the assays with the exception of T. montanum var. montanum which showed an oxidative stress response in the SOD assay. Basal catalase enzyme activity was notably higher in the hyperaccumulators T. montanum var. montanum and T. …

Eighteen Microsatellite Loci Developed From Western Burrowing Owls (Athene Cunicularia Hypugaea), Brant C. Faircloth, Alexandra Title, Kevin Tan, Justin Welty, James R. Belthoff, Patricia Adair Gowaty

Biology Faculty Publications and Presentations

Western burrowing owls (Athene cunicularia hypugaea) are ground-dwelling owls distributed throughout western North America. Because of population declines, this species is considered endangered in Canada, and burrowing owls are listed as a species of conservation concern in states of the western USA. Korfanta et al. (2002) previously presented primers for seven microsatellite loci in burrowing owls. Parentage and relatedness studies require a larger number of markers for accuracy and precision. Here, we developed and characterized 18 additional microsatellite DNA loci, and we tested these loci in 23 individuals. The number of alleles per locus ranged from 2 to …

Structure And Expression Of Two Nuclear Receptor Genes In Marsupials: Insights Into The Evolution Of The Antisense Overlap Between The Α-Thyroid Hormone Receptor And Rev-Erbα, Brandon C. Rindfleisch, M. Scott Brown, John L. Vandeberg, Stephen Munroe

Biological Sciences Faculty Research and Publications

Background: Alternative processing of α-thyroid hormone receptor (TRα, NR1A1) mRNAs gives rise to two functionally antagonistic nuclear receptors: TRα1, the α-type receptor, and TRα2, a non-hormone binding variant that is found only in mammals. TRα2 shares an unusual antisense coding overlap with mRNA for Rev-erbα (NR1D1), another nuclear receptor protein. In this study we examine the structure and expression of these genes in the gray short-tailed opossum, Monodelphis domestica, in comparison with that of eutherian mammals and three other marsupial species, Didelphis virginiana, Potorous tridactylus and Macropus eugenii, in order to understand the evolution and regulatory …

Science As A Human Right: Esa And The Aaas Science And Human Rights Coalition, Clifford Duke, George Middendorf, Jessica Wyndham

Department of Biology Faculty Publications

No abstract provided.

Plasmacytoid Dendritic Cells Sense Skin Injury And Promote Wound Healing Through Type I Interferons, Josh D. Gregorio

Dissertations & Theses (Open Access)

Plasmacytoid dendritic cells (pDCs) are a rare population of circulating cells, which selectively express intracellular Toll-like receptors (TLR)-7 and TLR-9 and have the capacity to produce large amounts of type I IFNs (IFN-a/b) in response to viruses or host derived nucleic acid containing complexes. pDCs are normally absent in skin but accumulate in the skin of psoriasis patients where their chronic activation to produce IFN-a/b drives the disease formation. Whether pDCs and their activation to produce IFN-a/b play a functional role in healthy skin is unknown. Here we show that pDCs are rapidly and transiently recruited into healthy human and …

14-3-3sigma Negatively Regulates The Stability And Subcellular Localization Of Cop1, Chun-Hui Su

Dissertations & Theses (Open Access)

Mammalian constitutive photomorphogenic 1 (COP1), a p53 E3 ubiquitin ligase, is a key negative regulator for p53. DNA damage leads to the translocation of COP1 to the cytoplasm, but the underlying mechanism remains unknown. We discovered that 14-3-3σ controlled COP1 subcellular localization and protein stability. Investigation of the underlying mechanism suggested that, upon DNA damage, 14-3-3σ bound to phosphorylated COP1 at S387, resulting in COP1 translocation to the cytoplasm and cytoplasmic COP1 ubiquitination and proteasomal degradation. 14-3-3σ targeted COP1 for degradation to prevent COP1-mediated p53 degradation, p53 ubiquitination, and p53 transcription repression. COP1 expression promoted cell proliferation, cell transformation, and …

[Accepted Article Manuscript Version (Postprint)] Pex5 Mutants That Differentially Disrupt Pts1 And Pts2 Peroxisomal Matrix Protein Import In Arabidopsis, Bibi Khan, Bethany Zolman

Biology Department Faculty Works

PEX5 and PEX7 are receptors required for the import of peroxisome-bound proteins containing one of two peroxisomal targeting signals (PTS1 or PTS2). To better understand the role of PEX5 in plant peroxisomal import, we characterized the Arabidopsis (Arabidopsis thaliana) pex5-10 mutant, which has a T-DNA insertion in exon 5 of the PEX5 gene. Sequencing results revealed that exon 5, along with the T-DNA, is removed in this mutant, resulting in a truncated pex5 protein. The pex5-10 mutant has germination defects and is completely dependent on exogenous Suc for early seedling establishment, based on poor utilization of seed-storage fatty acids. This …

A Comparison Of Cumulative-Germination Response Of Cheatgrass (Bromus Tectorum L.) And Five Perennial Bunchgrass Species To Simulated Field-Temperature Regimes, Stuart P. Hardegree, Corey A. Moffet, Bruce A. Roundy, Thomas A. Jones, Stephen J. Novak, Patrick E. Clark, Frederick B. Pierson, Gerald N. Flerchinger

Biology Faculty Publications and Presentations

Cheatgrass (Bromus tectorum L.) has come to dominate millions of hectares of rangeland in the Intermountain western United States. Previous studies have hypothesized that one mechanism conferring a competitive advantage to this species is the ability to germinate rapidly at low temperatures in the fall, winter and spring and, therefore, initiate growth and establishment more rapidly than more desirable perennial bunchgrass species. In this experiment, we developed thermal-germination-response models for multiple seedlots of cheatgrass and five perennial grass species. We conducted sensitivity analysis on potentialcumulative- germination response to a 38-y simulation of field-variable conditions of seedbed temperature and moisture. …

Microsatellite Development, Population Structure And Demographic Histories For Two Species Of Amazonian Peacock Bass Cichla Temensis And Cichla Monoculus (Perciformes: Cichlidae)., Jason C. Macrander

School of Biological Sciences: Dissertations, Theses, and Student Research

The Neotropics of South America represent one of the most diverse assemblages of freshwater organisms in the world. The geologic and ecological changes that have occurred throughout the Amazon and Orinoco River basins have resulted in the two most diverse rivers in the world producing very heterogeneous environments potentially influencing current population structure of Neotropical species. To investigate specific ecological and geological events influencing populations in these regions, I explore population structure and demographic histories of two species from the genus Cichla with wide distributions among the Amazon and Orinoco. First, I describe the methods used to isolate and characterize …

Role Of Eukaryotic Sel-1 Like Repeat Containing Genes In Helicobacter Pylori Evolution And Pathogenesis., Kalyani Putty

Electronic Theses and Dissertations

Background: Helicobacter pylori (Hp) establishes life-long gastric infection in billions of humans, and is often responsible for diseases such as peptic ulcer and gastric cancer. Cumulative actions of genetic drift and natural selection over several millennia sculpted the present Hp population structure, which is characterized by extreme genetic diversity and striking geographic clustering of genotypes. Natural selection is more commonly imprinted in DNA sequences of Hp proteins that interact with host components; however, in most instances biological relevance of selection during Hp infection remains unknown. Here, I attempted to elucidate the consequence of natural selection in two different contexts: (1) …

Geological And Ichthyological Investigations Into Palaeodrainage Hypothesis For The Tennessee River, Andrea Karen Persons

Dissertations

The course of the ancestral Tennessee River has been debated in both the geological and biological literature for over 100 years. Several of the proposed courses for the ancestral Tennessee place its course across the state of Mississippi. Geochemical analysis of sedimentary rocks in the Pascagoula River basin supports these hypotheses suggesting that the rocks in the Pascagoula basin were derived from the Highland Rim of Tennessee and northern Alabama, while geochemical analysis of rocks from the Pearl River basin point to deposition from a mixture of sources including the ancestral Mississippi River and perhaps the ancestral Tennessee. To delve …

Regulation Of Biofilm And Antibiotic-Resistance By The Modulator Of Sara (Msa) In Staphylococcus Aureus, Antony Schwartz

Dissertations

Staphylococcus aureus is an important human pathogen that is the causative agent of life-threatening diseases such as endocarditis and osteomyelitis. The ability of S. aureus to thrive as a successful pathogen can be partially attributed to its ability to form biofilm. Biofilm is an extracellular polysaccharide, protein, and DNA-based slime layer that protects the bacterial community. The global regulator sarA is essential for biofilm formation. Since the modulator of sarA (msa) gene regulates several virulence factors and is required for the full expression of sarA, the capacity of the msa mutant to form a biofilm was examined. The mutation of …

Toxicogenomics Analysis Of Non-Model Transcriptomes Using Next-Generation Sequencing And Microarray, Arun Rawat

Dissertations

With the advent of next generation technologies like Roche/454 Life Sciences that require low cost and less time for sequencing will help in providing a workable draft of non-model species genomes. Availability of high throughput microarray technologies for gene expression profiling provides low-cost tools for investigation of highly-integrated responses to various stimuli. These advancements along with bioinformatics processing have led to an increasing number of non-model species having well-annotated transcriptomes. The project focuses on the life cycle of development, functional annotation, and utilization of genomic tools for the avian wildlife species to determine the molecular impacts of exposure to munitions …

A Comprehensive Uncertainty Analysis And Method Of Geometric Calibration For A Circular Scanning Airborne Lidar, Michael Oliver Gonsalves

Dissertations

This dissertation describes an automated technique for ascertaining the values of the geometric calibration parameters of an airborne lidar. A least squares approach is employed that adjusts the point cloud to a single planar surface which could be either a narrow airport runway or a dynamic sea surface. Going beyond the customary three boresight angles, the proposed adjustment can determine up to eleven calibration parameters to a precision that renders a negligible contribution to the point cloud’s positional uncertainty.

Presently under development is the Coastal Zone Mapping and Imaging Lidar (CZMIL), which, unlike most contemporary systems that use oscillating mirrors …

Life History And Habitat Use Of The Juvenile Alabama Shad (Alosa Alabamae) In Northern Gulf Of Mexico Rivers, Paul Fraser Mickle

Dissertations

The Alabama shad, Alosa alabamae, is an anadromous species that is in decline and has seen extirpations from impoundments as well as decreased water quality. Alabama shad live in the Gulf of Mexico and ascend Northern Gulf of Mexico Drainages to reproduce early in the year (January-May). The juveniles spend the majority of the year in these freshwater systems before emigrating out to the Gulf of Mexico as late as December.

This dissertation focuses on the juvenile life stages that occur within the Northern Gulf of Mexico drainages. Spawning conditions of the river, as well as the habitat and diet, …

Folate Receptor-Targeted Delivery Of Small Interfering Rna To Cancer Cells, Yilin Zhang

Dissertations

The vitamin folic acid (folate, FA) has been extensively explored as a targeting ligand to deliver a variety of diagnostic/prognostic/therapeutic agents into various tumors through the assistance of its receptor – the folate receptor (FR). FR is over-expressed in many types of human cancer and can mediate internalization of FA-conjugates through an endocytic pathway. The discovery of small interfering RNA (siRNA), which is cable of inducing potent gene silencing in a sequence-specific manner, provides an excellent molecular tool to suppress aberrant gene expression in malignancies, and therefore siRNA has the potential to revolutionize cancer therapeutics. Towards the goal of developing …