Index Catalog // ScholarsArchive@OSU

Assessment of the causal linkages between forests and fish: implications for management and monitoring.

Creator:: Martens, Kyle D.
Abstract:: Understanding the causal links between riparian forests, streams, and salmonids is important to help understand the likely effects of forest management practices. Previous studies have identified three major causal pathways (Instream Cover, Light, and Hydrology) through which riparian forests influence streams, and ultimately stream fishes. To evaluate the potential importance...
Resource Type:: Capstone Project
Full Text:: pathways, I developed a conceptual model of how they can be described. From this I evaluated evidence in

The Effects of Language on Cognitive Flexibility and Related Properties of Executive Functioning

Creator:: Hildenbrand, Lena
Abstract:: In the literature, a controversy persists over whether speaking multiple languages may result in what has been referred to as a bilingual advantage that is advantages for executive functioning (EF) skills. While evidence in favor of such a has been reported, the reliability of these findings has been questioned. To...
Resource Type:: Honors College Thesis
Full Text:: Lena Hildenbrand A THESIS submitted to Oregon State University Honors

Snap Bean Association Panel Passport Data

Creator:: Myers, James R. and Celebioglu, Burcu
Abstract:: The accessions used to create the Snap Bean Diversity Panel (SnAP) were 378 snap bean cultivars and germplasm lines selected from North American and European germplasm. This panel supplements the 150 member Bean CAP snap bean diversity panel (SBDP) with an additional 228 snap bean accessions. The Bean CAP SBDP...
Resource Type:: Dataset

Alternate Methods for the Extraction and Measurement of Pore Solution in Fresh Concrete

Creator:: Biever, Joseph
Abstract:: Knowledge of the pore solution composition and pore solution resistivity can be helpful for determining the durability of concrete structures. Most notably, pore solution resistivity can be used in the calculation of the formation factor of concrete, which is a ratio of the electrical resistivities of concrete and its pore...
Resource Type:: Honors College Thesis
Full Text:: A THESIS submitted to Oregon State University Honors College in partial

Gene expression of four carbonic anhydrase paralogs across the symbiotic states of the model temperate sea anemone, Anthopleura elegantissima (Brandt 1835)

Creator:: Meier, Emily K.
Abstract:: Anthropogenic CO₂ emissions are shifting the global climate equilibrium, causing widespread losses in biodiversity. Anthozoan cnidarians are some of the species most vulnerable to environmental change. Environmental stress causes corals and sea anemones to expel their endosymbiotic algae, which constitute a primary source of nutrition for some Anthozoa. Carbonic anhydrase...
Resource Type:: Honors College Thesis
Full Text:: endosymbiotic algae, which constitute a primary source of nutrition for some Anthozoa. Carbonic anhydrase (CA

Effects of Facial Tattoos on Perceptions of Facial Trustworthiness

Creator:: Landrus, Bryn E.
Abstract:: Background: Individuals rapidly infer character traits and behaviors through the process of facial perception. Perceptions of trustworthiness, accurate or not, completed by authorities in the criminal justice system may have implications for individuals suspected of crimes, including harsher or longer sentencing decisions. Objective: The present study concerned how the presence...
Resource Type:: Honors College Thesis
Full Text:: Trustworthiness by Bryn Landrus A THESIS submitted to Oregon

Endogenous Small RNA Mediates Meiotic Silencing of a Novel DNA Transposon

Creator:: Wang, Yizhou, Smith, Kristina M., Taylor, John W., Freitag, Michael, and Stajich, Jason E.
Abstract:: Genome defense likely evolved to curtail the spread of transposable elements and invading viruses. A combination of effective defense mechanisms has been shown to limit colonization of the Neurospora crassa genome by transposable elements. A novel DNA transposon named Sly1-1 was discovered in the genome of the most widely used...
Resource Type:: Article
Full Text:: Endogenous Small RNA Mediates Meiotic Silencing of a Novel

Tree thinning and fire affect ectomycorrhizal fungal communities and enzyme activities

Creator:: Rasmussen, Ann L., Brewer, J. Stephen, Jackson, Colin R., and Hoeksema, Jason D.
Abstract:: Common ecological restoration treatments such as thinning trees and prescribed burning could result in changes to soil fungal communities and changes to the function of those communities. Ectomycorrhizal fungi are especially likely to be affected as they are symbionts on plant roots and exhibit host and niche preferences. Ectomycorrhizal fungi...
Resource Type:: Article
Full Text:: explain a fair amount of variation in their traits (Phillips et al. 2013, Talbot et al. 2015), significant

EMDUniFrac: exact linear time computation of the UniFrac metric and identification of differentially abundant organisms

Creator:: McClelland, Jason and Koslicki, David
Abstract:: Both the weighted and unweighted UniFrac distances have been very successfully employed to assess if two communities differ, but do not give any information about how two communities differ. We take advantage of recent observations that the UniFrac metric is equivalent to the so-called earth mover's distance (also known as...
Resource Type:: Article
Full Text:: METRIC AND IDENTIFICATION OF DIFFERENTIALLY ABUNDANT ORGANISMS JASON MCCLELLAND 1∗, DAVID KOSLICKI 1

GeoPost: An Army Installation GIS Cloud Management System for Facilities and Emergency Services

Creator:: Kaiser, Douglas M.
Abstract:: In the last couple years cloud services have become mainstream and easily accessible for organizations to purchase and utilize. GeoPost is a variant on that by introducing GIS to it cloud services for installation management. GeoPost takes the Microsoft Azure Cloud and using ESRI’s Enterprise builds a cloud GIS platform....
Resource Type:: Capstone Project
Full Text:: 9. Appendix A………………………………………………………………..Page 32 GeoPost 3

Just a tool after all? No evidence for tool-use effects on the body representation across virtual and real environments

Creator:: Bell, Joshua D.
Abstract:: While human tool-use proficiency helped define our history, the cognitive and perceptual mechanics of how humans use tools are not fully understood. This question is of great value to the design of hand-held tools and prosthetics. A prominent theory, tool embodiment, suggests that tool use is facilitated by a flexible...
Resource Type:: Dissertation
Full Text:: : Just a Tool After All? No Evidence for Tool-Use Effects on the Body Representation Across Virtual and

A Dataset on the influence of air voids and fluid absorption on salt-induced calcium oxychloride damage

Creator:: Ghantous, Rita M., Zetterberg, Keegan, Becker, Hope Hall, Behravan, Amir, Ley, M. Tyler, Isgor, O. Burkan, and Weiss, W. Jason
Abstract:: This dataset aims to display damage induced by calcium oxychloride formation with respect to concrete air void content, and boundary conditions. The purpose of this data set is to complete the data in the paper submitted to Cement and Concrete Composites Journal. The citation for this journal paper is :...
Resource Type:: Dataset

Benzimidazoisoquinolines: a new class of rapidly metabolized aryl hydrocarbon receptor (AhR) ligands that induce AhR-dependent Tregs and prevent murine graft-versus-host disease

Creator:: Punj, Sumit, Kopparapu, Prasad, Jang, Hyo Sang, Phillips, Jessica L., Pennington, Jamie, Rohlman, Diana, O'Donnell, Edmond, Iversen, Patrick L., Kolluri, Siva Kumar, and Kerkvliet, Nancy I.
Abstract:: The aryl hydrocarbon receptor (AhR) is a ligand-activated transcription factor that plays multiple roles in regulation of immune and inflammatory responses. The ability of certain AhR ligands to induce regulatory T cells (Tregs) has generated interest in developing AhR ligands for therapeutic treatment of immune-mediated diseases. To this end, we...
Resource Type:: Article

Evaluating the Effect of Emotions on Student Learning using Prescriptive and Open-ended Lab Activities for a Lean Manufacturing Engineering Course

Creator:: Perez, Maritza
Abstract:: Research has shown that emotional connections during lab activities increase learning in chemistry and physics courses. However, little research has examined the effects of emotion in engineering courses, and these studies have recognized a dearth of research examining the ability of students to apply engineering concepts in real-world applications based...
Resource Type:: Masters Thesis
Full Text:: Activities for a Lean Manufacturing Engineering Course. Abstract approved

Discursive and Psychological Processes in Project MATCH Treatment Manuals and 12-Step Program Literature

Creator:: O'Hara, Margaret A.
Abstract:: Addiction is a word that represents a condition that, at best, causes minor disruptions to one’s life and, at worst, is lethal. The current definition was developed by 80 neuroscientists. It references substance use and other behaviors and includes food and sex. Addictions do not seem to be lessening but...
Resource Type:: Dissertation
Full Text:: AN ABSTRACT OF THE DISSERTATION OF Margaret A. O’Hara

Comparing Random and Nonrandom Spatial Patterns of Artifacts within Lithostratigraphic Unit 3 at Cooper’s Ferry, Idaho

Creator:: Gregory, Alex R.
Abstract:: Archaeological investigations at the Cooper's Ferry site in Western Idaho have recovered cultural remains dating to 16,000 years ago, suggesting the oldest human occupation recorded in North America. However, many archaeologists have argued the initial peopling of North America occurred no earlier than the opening of an ice-free corridor between...
Resource Type:: Masters Thesis
Full Text:: cultural occupations but, instead, are a random distribution of artifacts resulting from post

Variable Suites of Non-effector Genes Are Co-regulated in the Type III Secretion Virulence Regulon across the Pseudomonas syringae Phylogeny

Creator:: Mucyn, Tatiana S., Yourstone, Scott, Lind, Abigail L., Biswas, Surojit, Nishimura, Marc T., Baltrus, David A., Cumbie, Jason S., Chang, Jeff H., Jones, Corbin D., Dangl, Jeffery L., and Grant, Sarah R.
Abstract:: Pseudomonas syringae is a phylogenetically diverse species of Gram-negative bacterial plant pathogens responsible for crop diseases around the world. The HrpL sigma factor drives expression of the major P. syringae virulence regulon. HrpL controls expression of the genes encoding the structural and functional components of the type III secretion system...
Resource Type:: Article

Real-time Speech Workload Estimation

Creator:: Fortune, Julian D.
Abstract:: Demanding task environments (e.g., supervising a remotely piloted aircraft) require performing tasks quickly and accurately; however, periods of low and high operator workload can decrease task performance. Intelligent modulation of the system’s demands and interaction modality in response to changes in operator workload state may increase performance by avoiding undesirable...
Resource Type:: Honors College Thesis
Full Text:: Real-time Speech Workload Estimation By Julian Fortune A

Designing and Evaluating a User Interface for Multi-Robot Furniture

Creator:: Stoddard, Brett
Abstract:: A chair, once placed, will stay put until moved. Or will it? With the rise of technology being embeddable into everyday objects, what if that chair could move itself? Such robotic furniture has been featured in advertisements, art, and Human-Robot Interaction (HRI) research. Existing methods for operating robotic furniture have...
Resource Type:: Masters Thesis
Full Text:: ]. Sayers’s system involved an operator using an interface to view a display and send commands to JASON which

A taxonomy of biomolecular features

Creator:: North, Jacob L.
Abstract:: The scientific method applies hypothesis testing to material samples through experimentation, measurement, and data analysis, which produce representations—or features—that describe phenomena of interest. Biomolecular features come in numerous forms such as values, matrices, graphs, three-dimensional structures, trajectories, and molecular surfaces. Researchers have tested thousands of features related to protein molecules...
Resource Type:: Honors College Thesis
Full Text:: A taxonomy of biomolecular features By Jacob L. North A

Mathematical and Computational Considerations of a Model of Microbiologically Induced Calcite Precipitation

Creator:: Barry, Zachary T.
Abstract:: In this paper, we discuss two possible modifications to a numerical solution method for a model of microbiologically induced calcite precipitation (MICP). MICP provides a means to seal cracks in the surfaces of geological structures. From a mathematical and computational point of view MICP has very interesting features which make...
Resource Type:: Capstone Project
Full Text:: of a Model of Microbiologically Induced Calcite Precipitation Author Zachary T. Barry Advisor Dr

River Restoration to Achieve a Stage 0 Condition: Summary of a Workshop Held November 5-6, 2020

Creator:: Behan, Jeff, Fetcho, K., Davis, R., and Gaines, L.
Abstract:: Restoration to achieve Stage 0 is a valley-scale, process-based (hydrologic, geologic and biological) approach that aims to reestablish stream depositional environments to maximize longitudinal, lateral, and vertical connectivity at base flows and facilitate development of dynamic, self-formed and self-sustaining wetland-stream complexes. The term Stage 0 originally described complex multi-channel conditions...
Resource Type:: Technical Report
Full Text:: River Restoration to Achieve a Stage 0 Condition 0

Impacts of Policy and Environmental Change: Understanding Factors of Vulnerability and Resilience in the Face of Change in Oregon Fishing Communities

Creator:: Strawn, Astrea
Abstract:: Commercial fisheries are coupled human-natural systems that cross state borders and integrate private, public, academic sectors and interests. These systems integrate complicated relationships between coastal socioeconomics, resource management and environmental realms. Previous findings from West Coast-based studies have identified aging trends in commercial fisheries participation, commonly referred to as the...
Resource Type:: Masters Thesis
Full Text:: differences and graying remains a gap in fisheries-related social science research. This study approached

Diversity Literary Awards: A Tool for Assessing an Academic Library's Collection

Creator:: Kristick, Laurel L.
Abstract:: Diversity literary awards and other sources were used to create a list of high-quality titles written by and about underrepresented groups. This list was used to assess the diversity and inclusiveness of the library collections of a land-grant university. Gaps in the collection and acquisition processes were identified and will...
Resource Type:: Article
Full Text:: and Honorable Mentions 1936-2018 Abad Faciolince, Hector Joaquin. 2012. Oblivion : a memoir. New York

Adaptive Learning Module for Introduction to Materials Science

Creator:: Nigon, Nutnicha
Abstract:: There is a growing need for individualized instructional designs in 4-year institutions due to: 1) growing undergraduate enrollment trends across the U.S., 2) broader diversity in students backgrounds, and 3) the growing prevalence of asynchronous remote learning. With the growth in computer technology in education, tools such as adaptive intelligent...
Resource Type:: Dissertation
Full Text:: : ____________________________________________________________ Julie D. Tucker Milo D. Koretsky There is a growing need for individualized instructional

Greater sage-grouse vital rates after wildfire

Creator:: Foster, Lee J., Dugger, Katie M., Hagen, Christian A., and Budeau, David A.
Abstract:: Greater sage-grouse (Centrocercus urophasianus) have been subject to long-term and continuing declines in population and habitat since European settlement of western North America. Increased wildfire activity constitutes a primary threat to the species in western portions of their range, with documented declines in wildfire-affected populations. Following a 187,000-ha wildfire in...
Resource Type:: Article
Full Text:: 97331, USA CHRISTIAN A. HAGEN, Oregon State University, Department of Fisheries and Wildlife, 104 Nash

Dissolved Organic Carbon Production and Flux from Long Term Litter Manipulations in a Pacific Northwest Old-Growth Forest

Creator:: Evans, Lucas R.
Abstract:: Dissolved organic carbon (DOC) flux is an important mechanism to convey soil carbon (C) from aboveground organic debris (litter) to deeper soil horizons and can influence the formation of stable soil organic carbon (SOC) compounds. Aboveground litter quantity and quality was manipulated for 20-years in an old-growth Douglas fir forest...
Resource Type:: Honors College Thesis
Full Text:: Long Term Litter Manipulations in a Pacific Northwest Old-Growth Forest by Lucas R. Evans

Discovery of a dune-building hybrid beachgrass (Ammophila arenaria × A. breviligulata) in the U.S. Pacific Northwest

Creator:: Mostow, Rebecca S., Barreto, Felipe, Biel, Reuben, Meyer, Eli, and Hacker, Sally D.
Abstract:: The production of novel hybrid zones is an ecologically important consequence of globally increasing rates of species introductions and invasions. Interspecific hybridization can facilitate gene flow between parent species or produce novel taxa that may alter invasion dynamics or ecosystem services. The coastal sand dunes of the U.S. Pacific Northwest...
Resource Type:: Article
Full Text:: Discovery of a dune‐building hybrid beachgrass

A Dysfunctional System: Policy Recommendations for the Adult (18-65) Homeless and Severely Mentally Ill Population in Oregon

Creator:: Miller, Donielle F.
Abstract:: Adults with severe and persistent mental illness (SPMI) are overrepresented in the homeless population, and Oregon’s homeless population has expanded in recent years. In the 1950s, the mentally ill were moved out of the state hospitals and into the community. However, due to a lack of support services in the...
Resource Type:: Honors College Thesis
Full Text:: A Dysfunctional System: Policy Recommendations for the Adult

Alsea Watershed Study 1959-1972

Creator:: Souder, Jon
Abstract:: To investigate the effects of logging, three small watersheds in the Alsea River basin on the west slope of the Oregon Coast Range were selected for study. This was an interdisciplinary investigation to evaluate the influence of specific logging methods on stream regimen and on aquatic resources. The study plan...
Resource Type:: Dataset
Full Text:: logging one watershed [Needle Branch Creek]; (2) a second watershed with smaller, more space clear cuts

Weight Management for Athletes and Active Individuals: A Brief Review

Creator:: Manore, Melinda M.
Abstract:: Weight management for athletes and active individuals is unique because of their high daily energy expenditure; thus, the emphasis is usually placed on changing the diet side of the energy balance equation. When dieting for weight loss, active individuals also want to preserve lean tissue, which means that energy restriction...
Resource Type:: Article
Full Text:: . Phillips SM. A brief review of higher dietary protein diets in weight loss: a focus on athletes. Sports

What drives interaction strengths in complex food webs? A test with feeding rates of a generalist stream predator

Creator:: Preston, Daniel L., Henderson, Jeremy S., Falke, Landon P., Segui, Leah M., Layden, Tamara J., and Novak, Mark
Abstract:: Describing the mechanisms that drive variation in species interaction strengths is central to understanding, predicting, and managing community dynamics. Multiple factors have been linked to trophic interaction strength variation, including species densities, species traits, and abiotic factors. Yet most empirical tests of the relative roles of multiple mechanisms that drive...
Resource Type:: Article
Full Text:: What drives interaction strengths in complex food webs? A test

AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture

Creator:: Harper, Lisa, Campbell, Jacqueline, Cannon, Steve, Carson, James, Condon, Bradford, Cooper, Laurel, Dunn, Nathan, Elsik, Christine G., Farmer, Andrew, Ficklin, Stephen P., Grant, David, Grau, Emily, Cannon, Ethalinda K. S., Herndon, Nic, Hu, Zhi-Liang, Humann, Jodi, Jaiswal, Pankaj, Jonquet, Clement, Laporte, Marie-Angelique, Larmande, Pierre, Lazo, Gerard, McCarthy, Fiona, Menda, Naama, Jung, Sook, Mungall, Christopher J., Munoz-Torres, Monica C., Naithani, Sushma, Nelson, Rex, Nesdill, Daureen, Park, Carissa, Reecy, James, Reiser, Leonore, Sanderson, Lacey-Anne, Sen, Taner Z., Poelchau, Monica, Staton, Margaret, Subramaniam, Sabarinath, Tello-Ruiz, Marcela Karey, Unda, Victor, Unni, Deepak, Wang, Liya, Ware, Doreen, Wegrzyn, Jill, Williams, Jason, Woodhouse, Margaret, Walls, Ramona, Yu, Jing, Main, Doreen, Andorf, Carson, Arnaud, Elizabeth, Berardini, Tanya Z., and Birkett, Clayton
Abstract:: The future of agricultural research depends on data. The sheer volume of agricultural biological data being produced today makes excellent data management essential. Governmental agencies, publishers and science funders require datamanagement plans for publicly funded research. Furthermore, the value of data increases exponentially when they are properly stored, described, integrated...
Resource Type:: Article
Full Text:: , Deepak Unni12, Liya Wang25, Doreen Ware8,25, Jill Wegrzyn15, Jason Williams26, Margaret Woodhouse27, Jing

Classification of Animal Movement Behavior through Residence in Space and Time

Creator:: Orben, Rachael A., Thompson, David R., Tolkova, Irina, and Torres, Leigh G.
Abstract:: Identification and classification of behavior states in animal movement data can be complex, temporally biased, time-intensive, scale-dependent, and unstandardized across studies and taxa. Large movement datasets are increasingly common and there is a need for efficient methods of data exploration that adjust to the individual variability of each track. We...
Resource Type:: Article
Full Text:: in Space and Time Leigh G. Torres1*, Rachael A. Orben1, Irina Tolkova2, David R. Thompson3 1

Leaf-level physiology in four subalpine plants in tephra-impacted forests during drought

Creator:: Watt, Abby J., Fischer, Dylan G., Antos, Joseph A., and Zobel, Donald B.
Abstract:: Ecological impacts of climate change in the Pacific Northwest may hinge on acclimation to drier summers, highlighting the importance of plant physiological studies in forests. Evaluating dominant forest plant species under old-growth and managed forest conditions is similarly important as timber harvest might change microclimates and alter drought effects on...
Resource Type:: Article
Full Text:: -impacted forests during drought Abby J. Watt, Dylan G. Fischer, Joseph A. Antos, and Donald B. Zobel

Environmental Scan of Distributed Digital Preservation Services : A Collective Case Study

Creator:: Hall, Nathan and Boock, Michael
Abstract:: This paper uses a collective case study to reveal similarities and differences in the operations and service models of nine distributed digital preservation services. The study uncovers a wide range of organizations and technical variations among the nine services, but finds that they can be grouped into three basic service...
Resource Type:: Conference Proceeding
Full Text:: cooperation in this study. REFERENCES [1] Phillips, M., Bailey, J., Goethals, A., & Owens, T. 2013. The

Emergence of Microglia Bearing Senescence Markers During Paralysis Progression in a Rat Model of Inherited ALS

Creator:: Trias, Emiliano, Beilby, Pamela R., Kovacs, Mariangeles, Ibarburu, Sofia, Varela, Valentina, Barreto-Nunez, Romina, Bradford, Samuel C., Beckman, Joseph S., and Barbeito, Luis
Abstract:: Age is a recognized risk factor for amyotrophic lateral sclerosis (ALS), a paralytic disease characterized by progressive loss of motor neurons and neuroinflammation. A hallmark of aging is the accumulation of senescent cells. Yet, the pathogenic role of cellular senescence in ALS remains poorly understood. In rats bearing the ALS-linked...
Resource Type:: Article
Full Text:: During Paralysis Progression in a Rat Model of Inherited ALS fnagi-11-00042 February 26, 2019 Time: 15

Integrating oceans into climate policy : any green new deal needs a splash of blue

Creator:: Dundas, Steven J., Levine, Arielle S., Lewison, Rebecca L., Doerr, Angee N., White, Crow, Galloway, Aaron W. E., Garza, Corey, Hazen, Elliott L., Padilla‐Gamiño, Jacqueline, Samhouri, Jameal F., Spalding, Ana, Stier, Adrian, and White, J. Wilson
Abstract:: Recent warnings from scientists suggest there is limited time to enact policies to avert wide‐ranging ecological and social damage from climate change. In the United States, discussions about comprehensive national policies to avert climate change have begun, with “Green New Deal” proposals and climate plans put forth by members of...
Resource Type:: Article
Full Text:: new deal needs a splash of blue Received: 24 February 2020 Accepted: 19 March 2020 DOI: 10.1111

Potentially adaptive mitochondrial haplotypes as a tool to identify divergent nuclear loci

Creator:: Garvin, Michael R., Templin, William D., Gharrett, Anthony J., DeCovich, Nick, Kondzela, Christine M., Guyon, Jeffrey R., and McPhee, Megan V.
Abstract:: 1. Genetic tools are commonly used for conservation and management of at-risk species. Individuals are often sampled from mixtures that are composed of many populations, which creates a need to assign individuals to their source. This can be problematic when the genetic divergence among source populations is weak but can...
Resource Type:: Article
Full Text:: Potentially adaptive mitochondrial haplotypes as a tool to

Scaling up sustainability in commodity agriculture: Transferability of governance mechanisms across the coffee and cattle sectors in Brazil

Creator:: Hajjar, R., Newton, P., Adshead, D., Bogaerts, M., Maguire-Rajpaul, V. A., Pinto, L. F. G., McDermott, C. L., Milder, J. C., Wollenberg, E., and Agrawal, A.
Abstract:: A number of governance mechanisms address socio-environmental challenges associated with commodity agriculture in tropical forested countries. Governance mechanisms that prove effective in one agricultural sector are often applied to other sectors as well. For example, voluntary certification programs have been adopted by producers of commodities as diverse as beef, coffee,...
Resource Type:: Article
Full Text:: coffee and cattle sectors in Brazil R. Hajjar a, b, *, 1, P. Newton a, c, 1, D. Adshead d, M. Bogaerts a

A doubled down invasion of the northeast Pacific by the Asian mud shrimp, Upogebia major and its coevolved bopyrid isopod parasite, Orthione griffenis

Creator:: Chapman, John W., Li, Jingchun, McGowan, Michael F., Breitenstein, Ralph A., Appy, Ralph, Hieb, Kathryn A., Piotrowski, Christina N., and Elder, Leanne E.
Abstract:: Dramatic declines of the native northeast Pacific mud shrimp, Upogebia pugettensis over the last three decades have occurred in response to intense infestations by the Asian bopyrid isopod parasite, Orthione griffenis, that was introduced in the 1980s. We report herein the arrival of the Asian mud shrimp, Upogebia major, in...
Resource Type:: Article
Full Text:: A doubled down

Recovery of ectomycorrhizal fungus communities fifteen years after fuels reduction treatments in ponderosa pine forests of the Blue Mountains, Oregon

Creator:: Hart, Benjamin T. N., Smith, Jane E., Luoma, Daniel L., and Hatten, Jeff A.
Abstract:: Managers use restorative fire and thinning for ecological benefits and to convert fuel-heavy forests to fuel-lean landscapes that lessen the threat of stand-replacing wildfire. In this study, we evaluated the long-term impact of thinning and prescribed fire on soil biochemistry and the mycorrhizal fungi associated with ponderosa pine (Pinus ponderosa)....
Resource Type:: Article
Full Text:: ,⁎, Daniel L. Luomaa, Jeff A. Hattenc a Department of Forest Ecosystems and Society, College of Forestry

Sex matters: Otolith shape and genomic variation in deacon rockfish (Sebastes diaconus)

Creator:: Vaux, Felix, Rasmuson, Leif K., Kautzi, Lisa A., Rankin, Polly S., Blume, Matthew T. O., Lawrence, Kelly A., Bohn, Sandra, and O'Malley, Kathleen G.
Abstract:: Little is known about intraspecific variation within the deacon rockfish (Sebastes di‐ aconus), a recently described species found in the northeast Pacific Ocean. We in‐ vestigated population structure among fish sampled from two nearshore reefs (Siletz Reef and Seal Rock) and one offshore site (Stonewall Bank) within a <50‐km2 area...
Resource Type:: Article
Full Text:: | INTRODUC TION A high diversity of Sebastes rockfish occur in the northeast Pacific Ocean (Hyde & Vetter

Excited State Structural Evolution of a GFP Single-Site Mutant Tracked by Tunable Femtosecond-Stimulated Raman Spectroscopy

Creator:: Tang, Longteng, Zhu, Liangdong, Taylor, Miles A., Wang, Yanli, Remington, S. James, and Fang, Chong
Abstract:: Tracking vibrational motions during a photochemical or photophysical process has gained momentum, due to its sensitivity to the progression of reaction and change of environment. In this work, we implemented an advanced ultrafast vibrational technique, femtosecond-stimulated Raman spectroscopy (FSRS), to monitor the excited state structural evolution of an engineered green...
Resource Type:: Article
Full Text:: Excited State Structural Evolution of a GFP Single-Site

Ocean Acidification Has Multiple Modes of Action on Bivalve Larvae

Creator:: Waldbusser, George G., Hales, Burke, Langdon, Chris J., Haley, Brian A., Schrader, Paul, Brunner, Elizabeth L., Gray, Matthew W., Miller, Cale A., Gimenez, Iria, and Hutchinson, Greg
Abstract:: Ocean acidification (OA) is altering the chemistry of the world’s oceans at rates unparalleled in the past roughly 1 million years. Understanding the impacts of this rapid change in baseline carbonate chemistry on marine organisms needs a precise, mechanistic understanding of physiological responses to carbonate chemistry. Recent experimental work has...
Resource Type:: Article
Full Text:: Larvae Waldbusser, G. G., Hales, B., Langdon, C. J., Haley, B. A., Schrader, P., Brunner, E. L

Investigating synergistic effects of climate and land-use change on the pollination of a tropical plant, Heliconia tortuosa

Creator:: Dowd, Claire E.
Abstract:: Loss of biodiversity due to the effects of climate and land-use change may have implications for pollination services. Disruption to phenological synchronicity or a reduction in the overlap in species distributions of plants and their pollinators may reduce floral resources to pollinators, forcing them to move farther distances. If pollinators...
Resource Type:: Honors College Thesis
Full Text:: , Phillips NG, Wright SJ (2002) Cloud cover limits net CO2 uptake and growth of a rainforest tree during

Mental Health in Eastern Europe during the COVID-19 Pandemic: A Systematic Review and Meta-Analysis of Depression and Anxiety

Creator:: Miller, Saylor O.
Abstract:: Objective: To perform a systematic review and meta-analysis on the prevalence rate of mental health disorders including anxiety, depression, and insomnia during the COVID-19 pandemic in Eastern Europe in the general population, as well as within select sub-populations (i.e., students, general healthcare workers, and frontline workers). Data sources: Articles in PubMed,...
Resource Type:: Honors College Thesis
Full Text:: Eastern Europe during the COVID-19 Pandemic: A Systematic Review and Meta-Analysis of Depression and

Draft Genome Sequence of Streptomyces sp. Strain ventii, Isolated from a Microbial Mat near Hydrothermal Vents within the Axial Seamount in the Pacific Ocean, and Resequencing of the Type Strains Streptomyces lonarensis NCL 716 and Streptomyces bohaiensis 11A07

Creator:: Loughran, Rachel M., Mitchell, Edward A., Vining, Oliver B., Gallegos, David A., Deadmond, Monica C., Wasson, Benjamin J., Pfannmuller, Kaysa M., Paddock, Brie E., Koyack, Marc J., Oline, David K., Ushijima, Blake, Saw, Jimmy H., McPhail, Kerry L., and Videau, Patrick
Abstract:: The draft genome of Streptomyces sp. strain ventii, an environmental isolate recovered from deep-sea hydrothermal vents in the Pacific Ocean, is presented along with the resequenced draft genomes of the type strains Streptomyces bohaiensis 11A07 and Streptomyces lonarensis NCL 716.
Resource Type:: Article
Full Text:: ventii, Isolated from a Microbial Mat near Hydrothermal Vents within the Axial Seamount in the Pacific

Early to Late Holocene Surface Exposure Ages From Two Marine-Terminating Outlet Glaciers in Northwest Greenland

Creator:: Reusche, Melissa M., Marcott, Shaun A., Ceperley, Elizabeth G., Barth, Aaron M., Brook, Edward J., Mix, Alan C., and Caffee, Marc W.
Abstract:: Terrestrial chronologies from southern Greenland provide a detailed deglacial history of the Greenland Ice Sheet (GIS). The northern GIS margin history, however, is less established. Here we present surface exposure ages from moraines associated with two large outlet glaciers, Petermann and Humboldt, in the northwestern sector of the GIS. These...
Resource Type:: Article
Full Text:: northwest Greenland Authors Melissa M. Reusche1*, Shaun A. Marcott1*, Elizabeth G. Ceperley1, Aaron M

Temporal Genetic Variance and Propagule-Driven Genetic Structure Characterize Naturalized Rainbow Trout (Oncorhynchus mykiss) from a Patagonian Lake Impacted by Trout Farming

Creator:: Benavente, Javiera N., Seeb, Lisa W., Seeb, James E., Arismendi, Ivan, Hernández, Cristián E., Gajardo, Gonzalo, Galleguillos, Ricardo, Cádiz, Maria I., Musleh, Selim S., and Gomez-Uchida, Daniel
Abstract:: Knowledge about the genetic underpinnings of invasions—a theme addressed by invasion genetics as a discipline—is still scarce amid well documented ecological impacts of non-native species on ecosystems of Patagonia in South America. One of the most invasive species in Patagonia’s freshwater systems and elsewhere is rainbow trout (Oncorhynchus mykiss). This...
Resource Type:: Article
Full Text:: Structure Characterize Naturalized Rainbow Trout (Oncorhynchus mykiss) from a Patagonian Lake Impacted by

Wood-Rotting Fungal Pigments as Colorant Coatings on Oil-Based Textile Dyes: A Detailed View of the Interaction between Fungal Pigments and Some Commercial Fabrics

Creator:: Palomino Agurto, Mardonio
Abstract:: Natural dyes have been used to color textiles for centuries, but with the shift to mass production, the use of synthetic dyes has increased due to their lower cost and easy manufacturing volume. However, synthetic dyes (such as disperse blue dyes 106 and 124) have been reported to cause skin...
Resource Type:: Masters Thesis
Full Text:: . Title: Wood-Rotting Fungal Pigments as Colorant Coatings on Oil-Based Textile Dyes: A Detailed View

Instability of the Northeast Greenland Ice Stream over the last 45,000 years

Creator:: Larsen, Nicolaj K., Levy, Laura B., Carlson, Anders E., Buizert, Christo, Olsen, Jesper, Strunk, Astrid, Bjork, Anders A., and Skov, Daniel S.
Abstract:: The sensitivity of the Northeast Greenland Ice Stream (NEGIS) to prolonged warm periods is largely unknown and geological records documenting such long-term changes are needed to place current observations in perspective. Here we use cosmogenic surface exposure and radiocarbon ages to determine the magnitude of NEGIS margin fluctuations over the...
Resource Type:: Article
Full Text:: , Christo Buizert 4, Jesper Olsen5, Astrid Strunk 1, Anders A. Bjørk 2,6 & Daniel S. Skov1 The sensitivity

Volcanic Eruptions in the Deep Sea

Creator:: Rubin, Kenneth H., Soule, S. Adam, Chadwick, William W., Jr., Fornari, Daniel J., Clague, David A., Embley, Robert W., Baker, Edward T., Perfit, Michael R., Caress, David W., and Dziak, Robert P.
Abstract:: Volcanic eruptions are important events in Earth’s cycle of magma generation and crustal construction. Over durations of hours to years, eruptions produce new deposits of lava and/or fragmentary ejecta, transfer heat and magmatic volatiles from Earth’s interior to the overlying air or seawater, and significantly modify the landscape and perturb...
Resource Type:: Article
Full Text:: 1998. Photo sources: (a–c) Jason dive J2-420, 2009; (d) Jason dive J2-189, 2006; (e) Jason dive J2-408

Journal of Open Source Software (JOSS) : design and first-year review

Creator:: Valls Guimera, Roman, Madan, Christopher R., Ram, Karthik, Barba, Lorena A., Prins, Pjotr, Vanderplas, Jacob T., Mayes, Abigail Cabunoc, Githinji, George, Teal, Tracy K., Rokem, Ariel, Huff, Kathryn D., Niemeyer, Kyle E., Smith, Arfon M., Katz, Daniel S., Moerman, Kevin M., and Gymrek, Melissa
Abstract:: This article describes the motivation, design, and progress of the Journal of Open Source Software (JOSS). JOSS is a free and open-access journal that publishes articles describing research software. It has the dual goals of improving the quality of the software submitted and providing a mechanism for research software developers...
Resource Type:: Article
Full Text:: review Arfon M. Smith1, Kyle E. Niemeyer2, Daniel S. Katz3, Lorena A. Barba4, George Githinji5, Melissa

Can Observation Skills of Citizen Scientists Be Estimated Using Species Accumulation Curves?

Creator:: Kelling, Steve, Johnston, Alison, Hochachka, Wesley M., Iliff, Marshall, Fink, Daniel, Gerbracht, Jeff, Lagoze, Carl, La Sorte, Frank A., Moore, Travis, Wiggins, Andrea, Wong, Weng-Keen, Wood, Chris, and Yu, Jun
Abstract:: Volunteers are increasingly being recruited into citizen science projects to collect observations for scientific studies. An additional goal of these projects is to engage and educate these volunteers. Thus, there are few barriers to participation resulting in volunteer observers with varying ability to complete the project’s tasks. To improve the...
Resource Type:: Article
Full Text:: Using Species Accumulation Curves? Kelling, S., Johnston, A., Hochachka, W. M., Iliff, M., Fink, D

The role of allochrony in influencing interspecific differences in foraging distribution during the non-breeding season between two congeneric crested penguin species

Creator:: Green, Cara-Paige, Ratcliffe, Norman, Mattern, Thomas, Thompson, David, Lea, Mary-Anne, Wotherspoon, Simon, Borboroglu, Pablo Garcia, Ellenberg, Ursula, Morrison, Kyle W., Pütz, Klemens, Sagar, Paul M., Seddon, Philip J., Torres, Leigh G., and Hindell, Mark A.
Abstract:: Mechanisms promoting coexistence between closely related species are fundamental for maintaining species diversity. Mechanisms of niche differentiation include allochrony which offsets the peak timing of resource utilisation between species. Many studies focus on spatial and temporal niche partitioning during the breeding season, few have investigated the role allochrony plays in...
Resource Type:: Article
Full Text:: . Sagar12, Philip J. Seddon4, Leigh G. Torres13, Mark A. HindellID 1,7 1 Institute for Marine and

Viruses in unexplained encephalitis cases in American black bears (Ursus americanus)

Creator:: Alex, Charles E., Fahsbender, Elizabeth, Altan, Eda, Bildfell, Robert, Wolff, Peregrine, Jin, Ling, Black, Wendy, Jackson, Kenneth, Woods, Leslie, Munk, Brandon, Tse, Tiffany, Delwart, Eric, and Pesavento, Patricia A.
Abstract:: Viral infections were investigated in American black bears (Ursus americanus) from Nevada and northern California with and without idiopathic encephalitis. Metagenomics analyses of tissue pools revealed novel viruses in the genera Circoviridae, Parvoviridae, Anelloviridae, Polyomaviridae, and Papillomaviridae. The circovirus and parvovirus were of particular interest due to their potential importance...
Resource Type:: Article
Full Text:: , Tiffany Tse1, Eric Delwart2,3, Patricia A. Pesavento1* 1 Department of Pathology, Microbiology, and

Multiple recombination events between two cytochrome P450 loci contribute to global pyrethroid resistance in Helicoverpa armigera

Creator:: Walsh, Thomas K., Joussen, Nicole, Tian, Kai, McGaughran, Angela, Anderson, Craig J., Qiu, Xinghui, Ahn, Seung-Joon, Bird, Lisa, Pavlidi, Nena, Vontas, John, Ryu, Jaeeun, Rasool, Akhtar, Macedo, Isabella Barony, Tay, Wee Tek, Zhang, Yongjun, Whitehouse, Mary E. A., Silvie, Pierre Jean, Downes, Sharon, Nemec, Lori, and Heckel, David G.
Abstract:: The cotton bollworm, Helicoverpa armigera (Hubner) is one of the most serious insect pest species to evolve resistance against many insecticides from different chemical classes. This species has evolved resistance to the pyrethroid insecticides across its native range and is becoming a truly global pest after establishing in South America...
Resource Type:: Article
Full Text:: , Xinghui Qiu3, Seung-Joon AhnID 6¤a, Lisa Bird7, Nena Pavlidi8, John VontasID 9, Jaeeun RyuID 1, Akhtar

Eddy dynamics from satellite altimetry

Creator:: Fu, Lee-Lueng, Chelton, Dudley B., Le Traon, Pierre-Yves, and Morrow, Rosemary
Abstract:: Most of the kinetic energy of ocean circulation is contained in ubiquitous mesoscale eddies. Their prominent signatures in sea surface height have rendered satellite altimetry highly effective in observing global ocean eddies. Our knowledge of ocean eddy dynamics has grown by leaps and bounds since the advent of satellite altimetry...
Resource Type:: Article
Full Text:: launch of Jason-1, T/P was moved into a new orbit for a tandem mission with Jason-1. The new ground

Detecting Fish Vocalizations in American Samoa Using Machine Learning

Creator:: Munger, Jill
Abstract:: A deep neural network was developed and trained to identify the sounds of pomacentrids (damselfishes) in the National Park of American Samoa. Four years of continuous, passive acoustic data were recorded by a single stationary hydrophone. Deep neural networks enable the full utilization of such large datasets by automating laborious...
Resource Type:: Presentation
Full Text:: problem The ocean is a difficult place to conduct research Photo credit: Jason Helyer, NOAA The

Gene expression of four carbonic anhydrase paralogs across the symbiotic states of the temperate sea anemone, Anthopleura elegantissima (Brandt 1835)

Creator:: Meier, Emily K.
Abstract:: Anthropogenic CO₂ emissions are shifting the global climate equilibrium, causing widespread losses in biodiversity. Anthozoan cnidarians are some of the species most vulnerable to environmental change. Environmental stress causes corals and sea anemones to expel their endosymbiotic algae, which constitute a primary source of nutrition for some Anthozoa. Carbonic anhydrase...
Resource Type:: Poster
Full Text:: , Jack Koch Ph.D. candidate, Dr. Jason Presnell, Dr. Felipe Barreto Anthropogenic CO2 emissions are

Visual Metaphors on Album Covers: An Analysis into Graphic Design's Effectiveness at Conveying Music Genres

Creator:: Le, Vivian T.
Abstract:: The rise of digital streaming has largely impacted the way the average listener consumes music. Consequentially, while the role of album art has evolved to meet the changes in music technology, it is hard to measure the effect of digital streaming on modern album art. This research seeks to determine...
Resource Type:: Honors College Thesis
Full Text:: Vivian Le A THESIS submitted to Oregon State University Honors College

Anomalous Diffusion of Sand Tracer Particles Under Waves

Creator:: Wilson, Gregory W.
Abstract:: A model is presented for the horizontal and vertical diffusion of sand tracer particles by waves and is verified using a reanalysis of the experiments of Miller and Komar (1979, ). In the model, sand particles take random jumps at a rate associated with the wave period but also can...
Resource Type:: Article
Full Text:: Abstract10 A model is presented for the horizontal and vertical diffusion of sand tracer particles by11 waves

Evidence of age-related improvement in the foraging efficiency of Adelie penguins

Creator:: Lescroel, Amelie, Ballard, Grant, Massaro, Melanie, Dugger, Katie, Jennings, Scott, Pollard, Annie, Porzig, Elizabeth, Schmidt, Annie, Varsani, Arvind, Gremillet, David, and Ainley, David
Abstract:: Age variation in reproductive performance is well-documented but the mechanisms underlying this variation remain unclear. Foraging efficiency is likely to be a key source of demographic variation as it determines the amount of energy that can be invested in fitness-related activities. Evidence of age related changes in the foraging efficiency...
Resource Type:: Article
Full Text:: mechanisms underlying this variation remain unclear. Foraging efficiency is likely to be a key source of

Eocene Origin of Owens Valley, California

Creator:: Sousa, Francis J.
Abstract:: Bedrock (U-Th)/He data reveal an Eocene exhumation difference greater than four kilometers athwart Owens Valley, California near the Alabama Hills. This difference is localized at the eastern fault-bound edge of the valley between the Owens Valley Fault and the Inyo-White Mountains Fault. Time-temperature modeling of published data reveal a major...
Resource Type:: Article
Full Text:: modeling of published data reveal a major phase of tectonic activity from 55 to 50 Ma that was of a

Hacking RFID Tags to Produce Economical Soil Moisture Sensors

Creator:: Stoddard, Brett S.
Abstract:: Currently available soil moisture sensors have intrinsic limitations that limit their adoption by industry. Depending on the technology, these limitations may include high costs, battery requirements, precice manual installation, high cost, and/or constrictive legislation that regulates their use. A passive soil moisture sensing system based around RFID technology would allay...
Resource Type:: Honors College Thesis
Full Text:: Brett S. Stoddard A THESIS submitted to Oregon State University

Recycled Components in Mantle Plumes Deduced From Variations in Halogens (Cl, Br, and I), Trace Elements, and He-3/He-4 Along the Hawaiian-Emperor Seamount Chain

Creator:: Broadley, Michael W., Sumino, Hirochika, Graham, David W., Burgess, Ray, and Ballentine, Chris J.
Abstract:: Halogens are primarily located within surface reservoirs of the Earth; as such they have proven to be effective tracers for the identification of subducted volatiles within the mantle. Subducting lithologies exhibit a wide variety of halogen compositions, yet the mantle maintains a fairly uniform signature, suggesting halogens may be homogenized...
Resource Type:: Article
Full Text:: for the identification of subducted volatiles within the mantle. Subducting lithologies exhibit a wide

Maternal Depression and Child Health as Predictors of Absenteeism in Preschool Children Eligible to Attend Head Start

Creator:: Longway, Kelly
Abstract:: This study examines how three measures of child health: overall health status, access to health insurance and dental checkup status, predict the likelihood of a child experiencing higher number of absences in children eligible to attend Head Start, and how that association is influenced by the presence of a depressed...
Resource Type:: Masters Thesis
Full Text:: health status, access to health insurance and dental checkup status, predict the likelihood of a child

Development of novel polyethylene air-cathode material for microbial fuel cells

Creator:: Gao, Ningshengjie, Qu, Botong, Xing, Zhenyu, Ji, Xiulei, Zhang, Eugene, and Liu, Hong
Abstract:: Air-cathode fabrication is currently a key factor that hinders the scaling up of microbial fuel cell (MFC) technology. A new type of cathode material that contains porous polyethylene (PE) sheet and a blended activated carbon (AC) and highly conductive carbon back (CB) layer was developed for the first time. The...
Resource Type:: Article
Full Text:: polyethylene air-cathode material for microbial fuel cells Ningshengjie Gao a, Botong Qu b, Zhenyu Xing c

The Use of Effectiveness Monitoring and Reporting for Fish and Wildlife Habitat Restoration Within the Collaborative Forest Landscape Restoration Program 2010-2018

Creator:: Kitayama, Eileen K.
Abstract:: The Collaborative Forest Landscape Restoration Program (CFLRP) is a collection of large-scale restoration projects across the United States that are striving to improve many economic, social, and ecological sustainability issues, including the condition of fish and wildlife habitat. Effectiveness monitoring is a specific type of monitoring that is critically important...
Resource Type:: Capstone Project
Full Text:: Program 2010-2018 by Eileen K. Kitayama A case study submitted to Oregon State University

Initial Designs for Improving Conversations for People Using Speech Synthesizers

Creator:: Nguyen, Duy M.
Abstract:: This thesis aims to determine the impact that Augmentative and Alternative Communication (AAC) devices have on social interactions, and then improves the AAC user experience through a user focus design process. AAC devices enable people who cannot speak to communicate with others. Unfortunately, they are tedious to use and make...
Resource Type:: Masters Thesis
Full Text:: interactions, and then improves the AAC user experience through a user focus design process. AAC devices

Sound and Vibration Analysis of Alternative Rumble Strips

Creator:: Horne, Dylan Ross
Abstract:: Roadway departure crashes accounted for 18,275 fatal crashes in 2017 across the United States (Jones et al. 2017). Rumble strips (RS) provide audible and haptic interior alert when a vehicle is departing the roadway reducing run-off-the road crashes. Although inexpensive to install, and easy to maintain, RS are not installed...
Resource Type:: Dissertation
Full Text:: alert when a vehicle is departing the roadway reducing run-off-the road crashes. Although

Environmental limitation mapping of potential biomass resources across the conterminous United States

Creator:: Daly, Christopher, Halbleib, Michael D., Hannaway, David B., and Eaton, Laurence M.
Abstract:: Several crops have recently been identified as potential dedicated bioenergy feedstocks for the production of power, fuels, and bioproducts. Despite being identified as early as the 1980s, no systematic work has been undertaken to characterize the spatial distribution of their long-term production potentials in the United states. Such information is...
Resource Type:: Article
Full Text:: information is a starting point for planners and economic modelers, and there is a need for this spatial

An auction mechanism for the optimal provision of ecosystem services under climate change

Creator:: Lewis, David J. and Polasky, Stephen
Abstract:: The provision of many ecosystem services depends on the spatial pattern of land use across multiple landowners. Even holding land use constant, ecosystem service provision may change through time due to climate change. This paper develops an auction mechanism that implements an optimal solution for providing ecosystem services through time...
Resource Type:: Article
Full Text:: of their land. Under the auction, each landowner has a dominant strategy to truthfully reveal their

Regionally consistent Western North America paleomagnetic directions from 15 to 35 ka: Assessing chronology and uncertainty with paleosecular variation (PSV) stratigraphy

Creator:: Reilly, Brendan T., Stoner, Joseph S., Hatfield, Robert G., Abbott, Mark B., Marchetti, David W., Larsen, Darren J., Finkenbinder, Matthew S., Hillman, Aubrey L., Kuehn, Stephen C., and Heil, Clifford W., Jr.
Abstract:: New Paleomagnetic Secular Variation (PSV) data from Fish Lake, Utah, USA, along with previously published regional records, allow us to build an independently dated Western North America PSV stack (WNAM17) from about 35 to 15 ka that quantifies dating and paleomagnetic uncertainties. In February 2014, we recovered a composite 11-m-long...
Resource Type:: Article
Full Text:: . Reilly a, *, Joseph S. Stoner a, Robert G. Hatfield a, Mark B. Abbott b, David W. Marchetti c, Darren J

Characterization of the SARS-CoV-2 Nucleocapsid Protein and the Binding to Different Sections of the SARS-CoV-2 Genome

Creator:: Pinckney, Seth H.
Abstract:: The nucleocapsid protein (N protein) of the severe acute respiratory syndrome coronavirus 2 is known to play an essential part of the virus’ functions. The N protein can protect and package the large 29,903 nucleotide genomic RNA whilst also interacting with structural membrane protein M and the spike protein S....
Resource Type:: Honors College Thesis
Full Text:: .2020.47754.2346 Bar-On, Y. M., Flamholz, A., Phillips, R., & Milo, R. (2020). SARS-CoV-2 (COVID-19) by the

Big fishery, big data, and little crabs : using genomic methods to examine the seasonal recruitment patterns of early life stage dungeness crab (Cancer magister) in the California Current ecosystem

Creator:: Lee, Elizabeth M. J. and O'Malley, Kathleen
Abstract:: The California Current Ecosystem (CCE) is a dynamic marine ecosystem from which many socioeconomically important fisheries species are harvested. Here, a genotyping-by-sequencing (GBS) approach was used to examine genomic variation in an early life stage (megalopae) of the Dungeness crab (Cancer magister), which constitutes the most valuable single-species commercial fishery...
Resource Type:: Article
Full Text:: Marine Molecular Biology and Ecology, a section of the journal Frontiers in Marine Science Received: 22

Accelerating solutions of one-dimensional unsteady PDEs with GPU-based swept time-space decomposition

Creator:: Magee, Daniel J. and Niemeyer, Kyle E.
Abstract:: The expedient design of precision components in aerospace and other high-tech industries requires simulations of physical phenomena often described by partial differential equations (PDEs) without exact solutions. Modern design problems require simulations with a level of resolution difficult to achieve in reasonable amounts of time-even in effectively parallelized solvers. Though...
Resource Type:: Article
Full Text:: solutions. Modern design problems require simulations with a level of resolution difficult to achieve in

Habitat Associations and Diet Composition of Western Purple Martins in Western Oregon

Creator:: Sherman, Lorelle M.
Abstract:: The western purple martin (Progne subis arboricola) is a species of conservation concern throughout the Pacific Northwest. In western Oregon, the purple martin nests in three major ecosystem types: inland open-water, coastal, and upland forest. The availability of suitable breeding habitat is a major limiting factor for western purple martin...
Resource Type:: Masters Thesis
Full Text:: purple martin (Progne subis arboricola) is a species of conservation concern throughout the Pacific

Investigating Calving Areas for Rocky Mountain Elk on the Plumas National Forest: Implications for Land Management

Creator:: Marshall, Abigail C.
Abstract:: Sustainable elk (Cervus canadensis) habitat management on U.S. Forest Service (USFS) lands involves a complex relationship between management practices and ecological processes. A relatively novel Rocky Mountain elk population (Cervus canadensis nelsoni) on the Plumas National Forest (PNF) in northeastern California became established in the early 2000s, but there is...
Resource Type:: Capstone Project
Full Text:: Management By Abigail Marshall A case study submitted to Oregon

Beyond Suffrage: Giving Voice to Oregon’s Unsung Women in Medicine

Creator:: Carr, Sujittra Avery
Abstract:: This exhibit was designed to increase awareness of the stories and voices of women who are not heard enough in our Oregon history of women’s rights. Systemic white supremacy, racism, and sexism combine to render some women less visible than others in our history. These women might not have been...
Resource Type:: Other
Full Text:: of these women into the forefront of our history, it is possible to show that we, as a society

Words are monuments: Patterns in US national park place names perpetuate settler colonial mythologies including white supremacy

Creator:: McGill, Bonnie M., Borrelle, Stephanie B., Wu, Grace C., Ingeman, Kurt E., Koch, Jonathan Berenguer Uhuad, and Barnd, Natchee B.
Abstract:: 1. Ecologists, outdoor professionals and the public work and play in lands with complex histories. Part of decolonizing our professional and recreational practices is to expose settler colonial biases and recognize the histories of colonized lands and the peoples who have stewarded these lands for millennia prior to colonization. 2....
Resource Type:: Article
Full Text:: 2021 DOI: 10.1002/pan3.10302 R E S E A R C H A R T I C L E Words are monuments: Patterns in US

Blood chemistry values in nestlings of Rockhopper Penguins (Eudyptes chrysocome): the effect of sex and body condition

Creator:: Morandini, Virginia, Ferrer, Miguel, Perry, Lynelle, and Bechard, Marc
Abstract:: Hematological studies concerned with the determination of normal values of blood parameters in animals have been increasing. However, studies on normal concentration of blood constituents of free-living birds still are not very common, and less than 5% of the species of birds have been analyzed, mostly in captivity. Avian hematology...
Resource Type:: Article
Full Text:: –171 Crossin GT, Trathan PN, Phillips RA, Gorman KB, Dawson A, Saka- moto KQ, Williams TD (2012

Deglacial floods in the Beaufort Sea preceded Younger Dryas cooling

Creator:: Keigwin, L. D., Klotsko, S., Zhao, N., Reilly, B., Giosan, L., and Driscoll, N. W.
Abstract:: A period of cooling about 13,000 years ago interrupted about 2,000 years of deglacial warming. Known as the Younger Dryas (YD), the event is thought to have resulted from a slowdown of the Atlantic meridional overturning circulation in response to a sudden flood of Laurentide Ice Sheet meltwater that reached...
Resource Type:: Article
Full Text:: the Arctic Ocean have a profound effect on the North Atlantic Ocean, for example the Great Salinity

Honey bee (Apis mellifera) colony strength and its effects on pollination and yield in highbush blueberries (Vaccinium corymbosum)

Creator:: Grant, Kennedy J.
Abstract:: Many pollination studies with honey bees have examined the effect of colony density on crop yield and yet overlook the effect of variation in the population size of these colonies. High colony density in northern highbush blueberry has been met with concerns from beekeepers who feel higher densities will intensify...
Resource Type:: Honors College Thesis
Full Text:: Grant A THESIS submitted to Oregon State University Honors

Simulating dynein’s powerstroke using Brownian dynamics

Creator:: Capek, Elliott L.
Abstract:: Dynein is a motor protein which transports cargo along tracks inside the cell. Like related motor proteins kinesin and myosin, dynein uses cellular energy to take steps with its two foot domains. Unlike kinesin or myosin, dynein’s stepping pattern is highly varied: it can take steps between zero and 60nm...
Resource Type:: Undergraduate Thesis
Full Text:: powerstroke using Brownian dynamics Author: Elliott Capek Supervisor: Dr. David Roundy A thesis submitted

The conservation genetics juggling act: integrating genetics and ecology, science and policy

Creator:: Haig, Susan M., Miller, Mark. P., Bellinger, Renee, Draheim, Hope M., Mercer, Dacey M., and Mullins, Thomas D.
Abstract:: The field of conservation genetics, when properly implemented, is a constant juggling act integrating molecular genetics, ecology, and demography with applied aspects concerning managing declining species or implementing conservation laws and policies. This young field has grown substantially since the 1980s following the development of polymerase chain reaction and now...
Resource Type:: Article
Full Text:: of conservation genetics, when properly implemented, is a constant juggling act integrating

Genomic signatures of mitonuclear coevolution across populations of Tigriopus californicus

Creator:: Barreto, Felipe S., Watson, Eric T., Lima, Thiago G., Willett, Christopher S., Edmands, Suzanne, Li, Weizhong, and Burton, Ronald S.
Abstract:: The copepod Tigriopus californicus shows extensive population divergence and is becoming a model for understanding allopatric differentiation and the early stages of speciation. Here, we report a high-quality reference genome for one population (similar to 190 megabases across 12 scaffolds, and similar to 15,500 protein-coding genes). Comparison with other arthropods...
Resource Type:: Article
Full Text:: or beneficial in their original genetic background become detrimental in a hybrid genetic background1

Punitive Versus Rehabilitative Educational and Prison Systems: An In-Depth Comparison and Analysis of the School-to-Prison Pipeline

Creator:: Hawash, Sarra M.
Abstract:: Youth in the United States of America are disproportionately affected by the School-to-Prison Pipeline, especially low-income and/or BIPOC youth. This is a result of centuries of historical classism and racism that serve as the foundation of the United States and is directly correlated with mass incarceration and the Prison Industrial...
Resource Type:: Honors College Thesis
Full Text:: Systems: An In-Depth Comparison and Analysis of the School-to-Prison Pipeline by Sarra Maher Hawash A

Mapping Atmospheric Moisture Climatologies across the Conterminous United States

Creator:: Daly, Christopher, Smith, Joseph I., and Olson, Keith V.
Abstract:: Spatial climate datasets of 1981–2010 long-term mean monthly average dew point and minimum and maximum vapor pressure deficit were developed for the conterminous United States at 30-arcsec (~800m) resolution. Interpolation of long-term averages (twelve monthly values per variable) was performed using PRISM (Parameter-elevation Relationships on Independent Slopes Model). Surface stations...
Resource Type:: Article
Full Text:: monthly minimum and maximum tempera- ture. Therefore, a form of Climatologically-Aided Interpolation (CAI

Inferring Patterns and Processes of Emergence in Clonal Phytophthora Epidemics using Population Genomic Approaches

Creator:: Cauldron, Nicholas C.
Abstract:: Oomycete and fungal pathogens threaten food, fiber, and forests around the world. With climate change, these pathogens are expected to emerge more frequently. Evolution can facilitate their emergence through mechanisms such as mutations that change or expand host range. Characterizing evolutionary mechanisms in plant pathogens will contribute to our ability...
Resource Type:: Dissertation
Full Text:: mechanisms in plant pathogens will contribute to our ability to predict how or when a pathogen might

Do gray whales count calories? Comparing energetic values of gray whale prey across two different feeding grounds in the eastern North Pacific

Creator:: Hildebrand, Lisa, Bernard, Kim S., and Torres, Leigh G.
Abstract:: Predators must consume enough prey to support costly events, such as reproduction. Meeting high energetic requirements is particularly challenging for migrating baleen whales as their feeding seasons are typically restricted to a limited temporal window and marine prey are notoriously patchy. We assessed the energetic value of the six most...
Resource Type:: Article
Full Text:: ., Auth, T. D., and Phillips, A. J. (2019). Major shifts in pelagic micronekton and macrozooplankton

Development of Computational, Visualization, and Molecular Tools for Fungal and Oomycete Community Ecology

Creator:: Foster, Zachary Stephen Longiaru
Abstract:: Oomycetes are an important group of organisms with a variety of ecological roles similar to fungi. Although many are well-studied plant pathogens known for their devastating effects on agricultural systems, most are little-studied saprobes and parasites of plants and animals in nearly every ecosystem on earth. The advent of affordable...
Resource Type:: Dissertation
Full Text:: organisms with a variety of ecological roles sim- ilar to fungi. Although many are well-studied plant

Predicting Fish Recruitment in the Northeast Pacific Using Climate Indices

Creator:: Riley, Shannon L.
Abstract:: Predicting recruitment, which is dependent on parent stock size and climate, is vital for forecasting productivity of fish stocks. The effects of climate can be analyzed via the use of climate indices. Three climate indices, the Pacific Decadal Oscillation, the North Pacific Gyre Oscillation, and the Oceanic Niño Index, describe...
Resource Type:: Honors College Thesis
Full Text:: Pacific Using Climate Indices by Shannon Leah Riley A THESIS

Sensitivity of Evapotranspiration Components in Remote Sensing-Based Models

Creator:: Talsma, Carl J., Good, Stephen P., Miralles, Diego G., Fisher, Joshua B., Martens, Brecht, Jimenez, Carlos, and Purdy, Adam J.
Abstract:: Accurately estimating evapotranspiration (ET) at large spatial scales is essential to our understanding of land-atmosphere coupling and the surface balance of water and energy. Comparisons between remote sensing-based ET models are difficult due to diversity in model formulation, parametrization and data requirements. The constituent components of ET have been shown...
Resource Type:: Article
Full Text:: Martensc, Joshua B. Fisherd, Diego G. Mirallesc, Matthew F. McCabee, Adam J. Purdyf a Department of

Bioswales for Stormwater Treatment: Characterization of Soil Contamination

Creator:: Honeycutt, Nora C.
Abstract:: The OSU-Benton County Green Stormwater Infrastructure Research (OGSIR) Facility was created to test various methods of stormwater treatment. At this facility, runoff from the Benton County Development Department property is captured and pumped into a bioswale. This bioswale is comprised of layers of rock, gravel, sand, and soil, and is...
Resource Type:: Honors College Thesis
Full Text:: Contamination by Nora Honeycutt A THESIS submitted to Oregon State

Meta-Analysis of Physical Activity Levels in Youth With and Without Disabilities

Creator:: Jung, Jaehun, Leung, Willie, Schram, Bridgette Marie, and Yun, Joonkoo
Abstract:: The purpose of this study was to explore the current levels of physical activity among youth with disabilities using meta-analysis. The search identified 11 publications including 729 participants (age 4-20 yr). The overall effect size for 11 studies was Hedges g = 0.60 (SE = 0.18, 95% confidence interval [CI]...
Resource Type:: Article
Full Text:: was Hedges g = 0.60 (SE = 0.18, 95% confidence interval [CI] [0.24, 0.96], p < .05, k = 11) using a

Disposable fabric-based electrochemical sensors fabricated from wax-transfer-printed fluidic cells and stencil-printed electrodes

Creator:: Downs, Corey, Nejely, Arianna, and Fu, Elain
Abstract:: Porous substrates transport fluid via capillary action and can be inexpensive, making them ideal for field-use sensors. Direct wax printing is one of the most commonly used fabrication methods to define fluid paths in standard substrates like cellulose and nitrocellulose. However, direct wax printing is not possible for flexible materials...
Resource Type:: Article
Full Text:: , Lab Chip, 2015, 15, 1598–1608. 10 A. W. Martinez, S. T. Phillips, B. J. Wiley, M. Gupta and G. M

Assessment of the Biological Control Potential of Common Carabid Beetle Species for Autumn- and Winter-Active Pests (Gastropoda, Lepidoptera, Diptera: Tipulidae) in Annual Ryegrass in Western Oregon

Creator:: Reich, Inga, Jessie, Casi, Ahn, Seung-Joon, Choi, Man-Yeon, Williams, Christopher, Gormally, Mike, and Mc Donnell, Rory
Abstract:: Many studies have shown that ground beetles feed on different agricultural pests, but little is known about their species communities from US cropping systems. We assessed the biological control potential of the most common carabid beetle species in Oregon annual ryegrass grown for seed by investigating spatial and temporal overlap...
Resource Type:: Article
Full Text:: carabid beetle species and that only N. brevicollis was significantly associated with a vegetated field

How to Debug Inclusivity Bugs? An Empirical Investigation of Finding-to-Fixing with Information Architecture

Creator:: Guizani, Mariam, Steinmacher, Igor, Emard, Jillian, Fallatah, Abrar, Burnett, Margaret, and Sarma, Anita
Abstract:: Background: Although some previous research has found ways to find inclusivity bugs (biases in software that introduce inequities among cognitively diverse individuals), little attention has been paid to how to go about fixing such bugs. We hypothesized that Information Architecture (IA)--the way information is organized, structured and labeled--may provide the...
Resource Type:: Research Paper
Full Text:: conducted a qualitative empirical investigation in three stages. (Stage 1): An Open Source (OSS) team used

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