Biology Commons^™

Stream Microbial Communities Along An Agricultural Gradient, Cristine Mcintyre Schucker

EWU Masters Thesis Collection

"Although sediment microbes play key roles in decomposition and nitrogen (N) cycling, responses of microbial communities to N additions within watersheds is not well understood. Agriculture contributes excess N into stream systems, predominantly as ammonia, which is transformed through nitrification into nitrate by prokaryotes that produce the ammonia monooxygenase enzyme (AMO). The Latah Creek watershed in WA State (USA) drains approximately 1178 km², of which half is agricultural. Because the tributary streams reside in forested, agricultural and mixed use drainages, samples from these stream sediments capture microbial communities at different spatial gradients of land use. My research aimed to answer: …

The Makers Of Biology At The University Of North Dakota, Paul B. Kannowski

UND Departmental Histories

No abstract provided.

Angiogenic Effect Of Bioactive Borate Glass Microfibers And Beads In The Hairless Mouse, Richard J. Watters, Roger F. Brown, D. E. Day

Biological Sciences Faculty Research & Creative Works

The purpose of this project was to investigate the angiogenic mechanism of bioactive borate glass for soft tissue repair in a 'hairless' SKH1 mouse model. Subcutaneous microvascular responses to bioactive glass microfibers (45S5, 13-93B3, and 13-93B3Cu) and bioactive glass beads (13-93, 13-93B3, and 13-93B3Cu) were assessed via: noninvasive imaging of skin microvasculature; histomorphometry of microvascular densities; and quantitative PCR measurements of mRNA expression of VEGF and FGF-2 cytokines. Live imaging via dorsal skin windows showed the formation at two weeks of a halo-like structure infused with microvessels surrounding implanted borate-based 13-93B3 and 13-93B3Cu glass beads, a response not observed with …

A Quinol Oxidase, Encoded By Cyoabcd, Is Utilized To Adapt To Lower O2 Concentrations In Rhizobium Etli Cfn42, Zachary Ryan Lunak, K. Dale Noel

Biological Sciences Faculty Research and Publications

Bacteria have branched aerobic respiratory chains that terminate at different terminal oxidases. These terminal oxidases have varying properties such as their affinity for oxygen, transcriptional regulation and proton pumping ability. The focus of this study was a quinol oxidase encoded by cyoABCD. Although this oxidase (Cyo) is widespread among bacteria, not much is known about its role in the cell, particularly in bacteria that contain both cytochrome c oxidases and quinol oxidases. Using Rhizobium etli CFN42 as a model organism, a cyo mutant was analysed for its ability to grow in batch cultures at high (21 % O2) and low …

Wolf-Cougar Co-Occurrence In The Central Canadian Rocky Mountains, Ellen Brandell

Undergraduate Theses, Professional Papers, and Capstone Artifacts

Cougars and wolves are top carnivores that influence the dynamics of an ecosystem, including prey behavior and dynamics, and interspecific competition. Studies about the interactions between wolves and cougars typically find wolves are dominant competitors to cougars. We examined single-species, single-season occupancy models and co-occurrence models of wolves and cougars in the Central Canadian Rocky Mountains to understand interactions between these two species on a grand landscape. Data was collected from 2012-2013 using remote wildlife cameras and separated into seasons. Naïve occupancy estimates were larger for wolves in both seasons, but both species had smaller ranges in winter. There were …

Motor Activity In A Mouse Model Of Tyrosinemia Type 1, Ashton Koenig, Sarah Coker

Summer Community of Scholars Posters (RCEU and HCR Combined Programs)

No abstract provided.

Proteomic Analysis Of Cardiac Response To Thermal Acclimation In The Eurythermal Goby Fish Gillichthys Mirabilis, W. Wesley Dowd, Nishad Jayasundara, Lars Tomanek, George N. Somero

Biology Faculty Works

Cardiac function is thought to play a central role in determining thermal optima and tolerance limits in teleost fishes. Investigating proteomic responses to temperature in cardiac tissues may provide insights into mechanisms supporting the thermal plasticity of cardiac function. Here, we utilized a global proteomic analysis to investigate changes in cardiac protein abundance in response to temperature acclimation (transfer from 13°C to 9, 19 and 26°C) in a eurythermal goby, Gillichthys mirabilis. Proteomic data revealed 122 differentially expressed proteins across acclimation groups, 37 of which were identified using tandem mass-spectrometry. These 37 proteins are involved in energy metabolism, mitochondrial regulation, …

Mining The Phytomicrobiome To Understand How Bacterial Coinoculations Enhance Plant Growth, Nancy Fujishige

Biology Faculty Works

In previous work, we showed that coinoculating Rhizobium leguminosarum bv. viciae 128C53 and Bacillus simplex 30N-5 onto Pisum sativum L. roots resulted in better nodulation and increased plant growth. We now expand this research to include another alpha-rhizobial species as well as a beta-rhizobium, Burkholderia tuberum STM678. We first determined whether the rhizobia were compatible with B. simplex 30N-5 by cross-streaking experiments, and then Medicago truncatula and Melilotus alba were coinoculated with B. simplex 30N-5 and Sinorhizobium (Ensifer) meliloti to determine the effects on plant growth. Similarly, B. simplex 30N-5 and Bu. tuberum STM678 were coinoculated onto Macroptilium atropurpureum. The …

Human Anatomy And Physiology Preparatory Course (1st Edition), Carlos Liachovitzky

Open Educational Resources

The overall purpose of this preparatory course textbook is to help students familiarize with some terms and some basic concepts they will find later in the Human Anatomy and Physiology I course.

The organization and functioning of the human organism generally is discussed in terms of different levels of increasing complexity, from the smallest building blocks to the entire body. This Anatomy and Physiology preparatory course covers the foundations on the chemical level, and a basic introduction to cellular level, organ level, and organ system levels. There is also an introduction to homeostasis at the beginning.

Gene Expression In The Choanoderm, Jesús Federico Peña

Electronic Theses and Dissertations

The body plan of sponges (phylum Porifera) is an outlier among modern animals and is thought to have special evolutionary significance. Sponges lack muscles, nerves and a gut. Instead, they are composed of few cell types and simple tissues that function to pump water through an internal canal network where bacterial prey are filtered by a specialized tissue called the choanoderm. The choanoderm is composed of cells with striking similarity to choanoflagellates, the unicellular relatives of animals. Thus, the traditional view is that the sponge choanoderm is a useful model of the first animal epithelial tissues. Using the freshwater sponge …

The Subject Librarian Newsletter, Biology, Fall 2015, Patti Mccall

Libraries' Newsletters

No abstract provided.

Logging Debris Protects Sugar Maple (Acer Saccharum) Seedlings From White-Tailed Deer (Odocoileus Virginianus) Herbivory In Wolf-Occupied Forest, Ari Erin Sullivan

Browse all Theses and Dissertations

White-tailed deer are a species of great economic and ecological concern. Foresters sometimes leave logging debris known as slash on the forest floor with the intent to protect seedlings from deer herbivory and promote forest regeneration. I examined the effects of slash on rates of deer browsing on sugar maple seedlings in a forest of northern Wisconsin and measured deer foraging behavior using giving-up density and vigilance rates by employing trail cameras. Rates of browsed stems were almost twice as high in the open as within and adjacent to slash. These findings underscore the usefulness of slash for mitigating the …

Effects Of Agricultural Land Use On Stream Fish Communities In Ohio, Usa, Blythe Hazellief

Browse all Theses and Dissertations

Ohio is a state dominated by agricultural land use. Such land use may directly alter stream waters and instream habitat, which may, in turn, affect fish communities. To examine the effects of agricultural land use on Ohio stream fish communities, I analyzed data compiled by the Ohio EPA, spanning 15 years and including 2,474 statewide sites. For 253 of these sites, I derived land use profiles from the 2011 USGS National Land Cover Database. While habitat quality was not correlated with agriculture, nutrient concentrations, alkalinity and total dissolved solids were positively correlated with agricultural land use within the catchment. Fish …

Vertical Distribution Of Wetland Plant Roots And Their Associated Bacteria In Groundwater-Fed Wetlands, Jennifer Diane Bailey

Browse all Theses and Dissertations

As part of the effort to understand the community structure of bacteria and archaea in groundwater fed wetlands, the vertical distribution of plant root density and species presence was studied in correlation with the change in associated bacterial and archaeal communities. Three sampling sites at a local groundwater fed wetland were selected based on surface plant community structure: Site 1 was dominated by Carex stricta, site 2 was dominated by Eleocharis erythropoda, and site 3 was dominated by a 50/50 mix of C. stricta and E. erythropoda. Core samples at 4 depths down to 1.2 m were taken to collect …

Learning To Love Leftovers: Using By-Catch To Expand Our Knowledge In Entomology, John M. Stark, Ricardo A. Ramirez

Biology Faculty Publications

Each year, federal and state agencies, including universities, conduct field surveys for invasive species in an attempt to detect new introductions early in the invasion process. National surveys for invasive insects are administered and coordinated by the United States Department of Agriculture's Animal and Plant Health Inspection Service-Plant Protection and Quarantine (USDA-APHIS-PPQ) and the Forest Service through Farm Bill § 10007 ( www.aphis.usda.gov ), the Cooperative Agricultural Pest Survey (CAPS) (caps.ceris.purdue.edu), and Early Detection Rapid Response (EDRR) ( www.fs.fed.us/invasivespecies ) programs. Thousands of traps are placed annually and monitored usually every one to two weeks throughout the U.S., mostly during …

Introduction Effort, Climate Matching And Species Traits As Predictors Of Global Establishment Success In Non-Native Reptiles, Peter J. Mahoney, Karen H. Beard, Andrew M. Durso, Aimee G. Tallian, Arin Lexine Long, Ryan J. Kindermann, Nicole E. Nolan, Daniel Kinka, Harrison E. Mohn

Biology Faculty Publications

Non-native reptiles are often detrimental to native communities and ecosystems and can be extremely difficult to manage once established. Thus, there is considerable interest in predicting the likelihood of establishment of nonnative reptiles. We assessed three hypotheses describing possible factors contributing to the successful establishment of introduced reptiles in an effort to better identify potential invaders.

Conservation Strategy For The Singapore Freshwater Crab Johora Singaporensis, Djj Ng, Pjk Mcgowan, R Raghavan, Y Cai, N Cumberlidge, G Davison, S Luz, Dcj Yeo

Other

No abstract provided.

Role Of Sox11 During Vertebrate Ocular Morphogenesis And Retinal Neurogenesis, Lakshmi Shashidharan Pillai

Theses and Dissertations--Biology

Microphthalmia, anophthalmia, and coloboma (MAC) are distinct abnormalities demonstrating a continuum of developmental eye defects that contribute to 15-20% of blindness and severe vision deficiencies in children worldwide. The genetic etiology of MAC is large, complex and encompasses the whole developmental biology of the eye. Understanding how the eye develops will aid in identifying genes and developmental pathways involved in MAC. Although investigation of the genetic architecture of congenital anomalies is growing exponentially, much work remains to be accomplished to understand the complex, genetically heterogeneous congenital anomalies, which significantly impact childhood vision.

With an interest in elucidating the mechanisms that …

Context-Dependent Individual Variation In Foraging Behaviour And Parental Care In House Sparrows, David Moldoff

Theses and Dissertations--Biology

Behaviors can exhibit a wide degree of plasticity depending on the environmental context in which they are expressed. Despite this, repeatable differences have been found among and within individuals across a wide range of taxa. For my thesis, I investigated individual differences in foraging and parental care. In the first experiment, I assessed house sparrows (Passer domesticus) for domain-generality among neophobia, habituation and associative learning as they are all responses to novelty. While the results of the study find individual differences in each of these contexts the conclusion supported separate mechanisms for each response (domain-specificity). In the second experiment, I …

Dual Functions For Insulinoma-Associated 1 In Retinal Development, Marie A. Forbes-Osborne

Theses and Dissertations--Biology

Proper visual system function requires tightly controlled proliferation of a pool of relatively homogeneous retinal progenitor cells, followed by the stepwise specification and differentiation of multiple distinct cell types. These retinal cells, both neuronal and glial, must be generated in the correct numbers, and the correct laminar location to permit the formation of synaptic connections between individual cell types. After synapses are made, constant signaling is required as part of normal retinal function, and to maintain cellular identity and connectivity. These processes rely on both extrinsic and intrinsic signaling, with regulation of gene expression by cascades of transcription factors having …

Plant Species’ Origin Predicts Dominance And Response To Nutrient Enrichment And Herbivores In Global Grasslands, Eric W. Seabloom, Elizabeth T. Borer, Yvonne Buckley, Elsa E. Cleland, Kendi F. Davies, Jennifer Firn, W. Stanley Harpole, Yann Hautier, Eric M. Lind, Andrew Macdougall, John L. Orrock, Suzanne M. Prober, Peter B. Adler, T. Michael Anderson, Jonathan D. Bakker, Lori A. Biederman, Dana M. Blumenthal, Cynthia S. Brown, Lars A. Brudvig, Marc W. Cadotte, Chengjin Chu, Kathryn L. Cottingham, Michael J. Crawley, Ellen I. Damschen, Carla M. Dantonio, Nicole M. Decrappeo, Guozhen Du, Philip A. Fay, Paul Frater, Daniel S. Gruner, Nicole Hagenah, Andy Hector, Helmut Hillebrand, Kirsten S. Hofmockel, Hope Humphries, Virginia L. Jin, Adam Kay, Kevin P. Kirkman, Julia A. Klein, Johannes M. H. Knops, Kimberly J. La Pierre, Laura M. Ladwig, John G. Lambrinos, Qi Li, Wei Li, Robin Marushia, Rebecca Mcculley, Brett Melbourne, Charles E. Mitchell, Joslin L. Moore, John Morgan, Brent Mortensen, Lydia R. O'Halloran, David A. Pyke, Anita C. Risch, Mahesh Sankaran, Martin Schuetz, Anna Simonsen, Melinda D. Smith, Carly J. Stevens, Lauren L. Sullivan, Elizabeth M. Wolkovich, Peter D. Wragg, Justin Wright, Louie Yang

School of Biological Sciences: Faculty Publications

Exotic species dominate many communities; however the functional significance of species’ biogeographic origin remains highly contentious. This debate is fuelled in part by the lack of globally replicated, systematic data assessing the relationship between species provenance, function and response to perturbations. We examined the abundance of native and exotic plant species at 64 grasslands in 13 countries, and at a subset of the sites we experimentally tested native and exotic species responses to two fundamental drivers of invasion, mineral nutrient supplies and vertebrate herbivory. Exotic species are six times more likely to dominate communities than native species. Furthermore, while experimental …

A Comparison Of Two Low-Stakes Methods For Administering A Program-Level Biology Concept Assessment, Brian A. Couch, Jennifer K. Knight

School of Biological Sciences: Faculty Publications

Concept assessments are used commonly in undergraduate science courses to assess student learning and diagnose areas of student difficulty. While most concept assessments align with the content of individual courses or course topics, some concept assessments have been developed for use at the programmatic level to gauge student progress and achievement over a series of courses or an entire major. The broad scope of a program-level assessment, which exceeds the content of any single course, creates several test administration issues, including finding a suitable time for students to take the assessment and adequately incentivizing student participation. These logistical considerations must …

Convergent Evolution Of Hemoglobin Function In High-Altitude Andean Waterfowl Involves Limited Parallelism At The Molecular Sequence Level, Chandrasekhar Natarajan, Joana Projecto-Garcia, Hideaki Moriyama, Roy E. Weber, Violeta Muñoz-Fuentes, Andy J. Green, Cecilia Kopuchian, Pablo L. Tubaro, Luis Alza, Mariana Bulgarella, Matthew M. Smith, Robert E. Wilson, Angela Fago, Kevin G. Mccracken, Jay F. Storz

School of Biological Sciences: Faculty Publications

A fundamental question in evolutionary genetics concerns the extent to which adaptive phenotypic convergence is attributable to convergent or parallel changes at the molecular sequence level. Here we report a comparative analysis of hemoglobin (Hb) function in eight phylogenetically replicated pairs of high- and low-altitude waterfowl taxa to test for convergence in the oxygenation properties of Hb, and to assess the extent to which convergence in biochemical phenotype is attributable to repeated amino acid replacements. Functional experiments on native Hb variants and protein engineering experiments based on sitedirected mutagenesis revealed the phenotypic effects of specific amino acid replacements that were …

Gillespie Eco-Evolutionary Models (Gems) Reveal The Role Of Heritable Trait Variation In Eco-Evolutionary Dynamics, John Delong, Jean P. Gibert

School of Biological Sciences: Faculty Publications

Heritable trait variation is a central and necessary ingredient of evolution. Trait variation also directly affects ecological processes, generating a clear link between evolutionary and ecological dynamics. Despite the changes in variation that occur through selection, drift, mutation, and recombination, current ecoevolutionary models usually fail to track how variation changes through time. Moreover, eco-evolutionary models assume fitness functions for each trait and each ecological context, which often do not have empirical validation. We introduce a new type of model, Gillespie eco-evolutionary models (GEMs), that resolves these concerns by tracking distributions of traits through time as ecoevolutionary dynamics progress. This is …

Nutritional Physiology Of Life-History Trade-Offs: How Food Protein–Carbohydrate Content Influences Life-History Traits In The Wing-Polymorphic Cricket Gryllus Firmus, Rebecca M. Clark, Anthony J. Zera, Spencer T. Behmer

School of Biological Sciences: Faculty Publications

Although life-history trade-offs result from the differential acquisition and allocation of nutritional resources to competing physiological functions, many aspects of this topic remain poorly understood. Wing-polymorphic insects, which possess alternative morphs that trade off allocation to flight capability versus early reproduction, provide a good model system for exploring this topic. In this study, we used the wing-polymorphic cricket Gryllus firmus to test how expression of the flight capability versus reproduction trade-off was modified across a heterogeneous protein–carbohydrate nutritional landscape. Newly molted adult female long- and short-winged crickets were given one of 13 diets with different concentrations and ratios of protein …

Globally, Functional Traits Are Weak Predictors Of Juvenile Tree Growth, And We Do Not Know Why, C. E. Timothy Paine, Lucy Amissah, Harald Auge, Christopher Baraloto, Martin Baruffol, Nils Bourland, Helge Bruelheide, Kasso Dainou, Roland C. De Gouvenain, Jean-Louis Doucet, Susan Doust, Paul V. A. Fine, Claire Fortunel, Josephine Haase, Karen D. Holl, Herve Jactel, Xuefei Li, Kaoru Kitajima, Julia Koricheva, Cristina Martinez-Garza, Christian Messier, Alain Paquette, Christopher Philipson, Daniel Piotto, Lourens Poorter, Juan M. Posada, Catherine Potvin, Kalle Rainio, Sabrina E. Russo, Mariacarmen Ruiz-Jaen, Michael Scherer-Lorenzen, Campbell O. Webb, S. Joseph Wright, Rakan A. Zahawi, Andy Hector

School of Biological Sciences: Faculty Publications

1. Plant functional traits, in particular specific leaf area (SLA), wood density and seed mass, are often good predictors of individual tree growth rates within communities. Individuals and species with high SLA, low wood density and small seeds tend to have faster growth rates. 2. If community-level relationships between traits and growth have general predictive value, then similar relationships should also be observed in analyses that integrate across taxa, biogeographic regions and environments. Such global consistency would imply that traits could serve as valuable proxies for the complex suite of factors that determine growth rate, and, therefore, could underpin a …

Evaluation Of Stem Rot In 339 Bornean Tree Species: Implications Of Size, Taxonomy, And Soil-Related Variation For Aboveground Biomass Estimates, K. D. Heineman, S. E. Russo, I. C. Baillie, J. D. Mamit, P. P.-K. Chai, L. Chai, E. W. Hindley, B.-T. Lau, S. Tan, P. S. Ashton

School of Biological Sciences: Faculty Publications

Fungal decay of heart wood creates hollows and areas of reduced wood density within the stems of living trees known as stem rot. Although stem rot is acknowledged as a source of error in forest aboveground biomass (AGB) estimates, there are few data sets available to evaluate the controls over stem rot infection and severity in tropical forests. Using legacy and recent data from 3180 drilled, felled, and cored stems in mixed dipterocarp forests in Sarawak, Malaysian Borneo, we quantified the frequency and severity of stem rot in a total of 339 tree species, and related variation in stem rot …

Transcriptional ‘Memory’ Of A Stress: Transient Chromatin And Memory (Epigenetic) Marks At Stress-Response Genes, Zoya Avramova

School of Biological Sciences: Faculty Publications

Drought, salinity, extreme temperature variations, pathogen and herbivory attacks are recurring environmental stresses experienced by plants throughout their life. To survive repeated stresses, plants provide responses that may be different from their response during the first encounter with the stress. A different response to a similar stress represents the concept of ‘stress memory’. A coordinated reaction at the organismal, cellular and gene/genome levels is thought to increase survival chances by improving the plant’s tolerance/ avoidance abilities. Ultimately, stress memory may provide a mechanism for acclimation and adaptation. At the molecular level, the concept of stress memory indicates that the mechanisms …

Mutations In The Plasmodium Falciparum Chloroquine Resistance Transporter, Pfcrt, Enlarge The Parasite's Food Vacuole And Alter Drug Sensitivities, Serena Pulcini, Henry M. Staines, Andrew H. Lee, Sarah H. Shafik, Guillaume Bouyer, Catherine M. Moore, Daniel A. Daley, Matthew J. Hoke, Lindsey M. Altenhofen, Heather J. Painter, Jainbing Mu, David J.P. Ferguson, Manuel Llinás, Rowena E. Martin, David A. Fidock, Roland A. Cooper, Sanjeev Krishna

Biological Sciences Faculty Publications

Mutations in the Plasmodium falciparum chloroquine resistance transporter, PfCRT, are the major determinant of chloroquine resistance in this lethal human malaria parasite. Here, we describe P. falciparum lines subjected to selection by amantadine or blasticidin that carry PfCRT mutations (C101F or L272F), causing the development of enlarged food vacuoles. These parasites also have increased sensitivity to chloroquine and some other quinoline antimalarials, but exhibit no or minimal change in sensitivity to artemisinins, when compared with parental strains. A transgenic parasite line expressing the L272F variant of PfCRT confirmed this increased chloroquine sensitivity and enlarged food vacuole phenotype. Furthermore, the introduction …

Tipping The Balance Of Double-Strand Break Repair In Cells Modeling Hutchinson-Gilford Progeria Syndrome, Andrew Robert Patrick

Theses and Dissertations

Hutchinson-Gilford Progeria Syndrome is disease of highly accelerated aging. In addition to appearing physically old mere months after birth, patients suffer from maladies typical of the elderly, including heart attack and stroke, two factors which contribute to an average life expectancy of 14 years. The source of progeria has been identified as progerin, a defective variant of nuclear lamina protein lamin A. Progerin has also been found natively in healthy cells (concentration increasing with age), and is known to adversely affect nuclear morphology and chromosomal integrity. This thesis sought to investigate the effect of progerin upon which pathways were favored …