Index Catalog // ScholarsArchive@OSU

MHC Class I Antigen Presentation of DRiP-Derived Peptides from a Model Antigen Is Not Dependent on the AAA ATPase p97

Creator:: Palmer, Amy L. and Dolan, Brian P.
Abstract:: CD8⁺ T cells are responsible for killing cells of the body that have become infected or oncogenically transformed. In order to do so, effector CD8⁺ T cells must recognize their cognate antigenic peptide bound to a MHC class I molecule that has been directly presented by the target cell. Due...
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Full Text:: -Derived Peptides from a Model Antigen Is Not Dependent on the AAA ATPase p97 Amy L. Palmer, Brian P. Dolan

Growing our vision together : forming a sustainability community within the American Library Association

Creator:: Filar Williams, Beth, Charney, Madeleine, and Smith, Bonnie
Abstract:: As long-standing keepers of democracy and information stewardship, library professionals are a natural fit for advocating and promoting sustainability within their communities. From seed libraries to Occupy Wall Street libraries, their view of sustainability extends beyond environmental concerns to include community activism, economic development, and social equity. Empowering people, facilitating...
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Full Text:: webinars or becoming otherwise involved (Smith et al. 2012a). Gathering this information was important

Elemental Markers in Elasmobranchs: Effects of Environmental History and Growth on Vertebral Chemistry

Creator:: Smith, Wade D., Miller, Jessica A., and Heppell, Selina S.
Abstract:: Differences in the chemical composition of calcified skeletal structures (e.g. shells, otoliths) have proven useful for reconstructing the environmental history of many marine species. However, the extent to which ambient environmental conditions can be inferred from the elemental signatures within the vertebrae of elasmobranchs (sharks, skates, rays) has not been...
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Full Text:: of elasmobranch population structure, movement, and habitat use. Citation: Smith WD, Miller JA

Comparative Composition, Diversity and Trophic Ecology of Sediment Macrofauna at Vents, Seeps and Organic Falls

Creator:: Bernardino, Angelo F., Levin, Lisa A., Thurber, Andrew R., and Smith, Craig R.
Abstract:: Sediments associated with hydrothermal venting, methane seepage and large organic falls such as whale, wood and plant detritus create deep-sea networks of soft-sediment habitats fueled, at least in part, by the oxidation of reduced chemicals. Biological studies at deep-sea vents, seeps and organic falls have looked at macrofaunal taxa, but...
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Full Text:: and Citation: Bernardino AF, Levin LA, Thurber AR, Smith CR (2012) Comparative Composition, Diversity

BCL11B Regulates Epithelial Proliferation and Asymmetric Development of the Mouse Mandibular Incisor

Creator:: Kyrylkova, Kateryna, Kyryachenko, Sergiy, Biehs, Brian, Klein, Ophir, Kioussi, Chrissa, and Leid, Mark
Abstract:: Mouse incisors grow continuously throughout life with enamel deposition uniquely on the outer, or labial, side of the tooth. Asymmetric enamel deposition is due to the presence of enamel-secreting ameloblasts exclusively within the labial epithelium of the incisor. We have previously shown that mice lacking the transcription factor BCL11B/CTIP2 (BCL11B...
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Full Text:: Asymmetric Development of the Mouse Mandibular Incisor Kateryna Kyrylkova1, Sergiy Kyryachenko1, Brian Biehs2

Using assessment of NSF data management plans to enable evidence-based evolution of research data services

Creator:: Whitmire, Amanda L., Carlson, Jake, Hswe, Patricia, Wells Parham, Susan, Rolando, Lizzy, and Westra, Brian
Abstract:: Funding agencies increasingly require a data management plan (DMP) with funding proposals, which describe how data generated in the proposed work will be managed, preserved and shared. Data management plans are a rich source of information about an institution’s researchers and their research data management (RDM) knowledge, capabilities, and needs....
Resource Type:: Presentation
Full Text:: Hswe, Susan Wells Parham, Lizzy Rolando & Brian Westra @DMPResearch This presentation is shared

Five new species and three new subspecies of Erebidae and Noctuidae (Insecta, Lepidoptera) from Northwestern North America, with notes on Chytolita Grote (Erebidae) and Hydraecia Guenée (Noctuidae)

Creator:: Crabo, Lars G., Davis, Melanie, Hammond, Paul, Mustelin, Tomas, and Shepard, Jon
Abstract:: Several taxonomic issues in the moth families Erebidae and Noctuidae are addressed for Northwestern North America. Drasteria parallela Crabo & Mustelin and Cycnia oregonensis tristis Crabo in the Erebidae and Eudryas brevipennis bonneville Shepard & Crabo, Resapamea diluvius Crabo, Resapamea angelika Crabo, Resapamea mammuthus Crabo, Fishia nigrescens Hammond & Crabo,...
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Full Text:: Barnes & Benjamin with Gortyna obliqua Harvey; and Hydroecia pallescens Smith with Hydroecia medialis

The Genome of Tolypocladium inflatum: Evolution, Organization, and Expression of the Cyclosporin Biosynthetic Gene Cluster

Creator:: Bushley, Kathryn E., Raja, Rajani, Jaiswal, Pankaj, Cumbie, Jason S., Nonogaki, Mariko, Boyd, Alexander E., Owensby, C. Alisha, Knaus, Brian J., Elser, Justin, Miller, Daniel, Di, Yanming, McPhail, Kerry L., and Spatafora, Joseph W.
Abstract:: The ascomycete fungus Tolypocladium inflatum, a pathogen of beetle larvae, is best known as the producer of the immunosuppressant drug cyclosporin. The draft genome of T. inflatum strain NRRL 8044 (ATCC 34921), the isolate from which cyclosporin was first isolated, is presented along with comparative analyses of the biosynthesis of...
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Full Text:: Owensby1, Brian J. Knaus1, Justin Elser1, Daniel Miller1, Yanming Di4, Kerry L. McPhail2, Joseph W

Predicting foundation bunchgrass species abundances: model-assisted decision-making in protected-area sagebrush steppe

Creator:: Rodhouse, Thomas J., Irvine, Kathryn M., Sheley, Roger L., Smith, Brenda S., Hoh, Shirley, Esposito, Daniel M., and Mata-Gonzalez, Ricardo
Abstract:: Foundation species are structurally dominant members of ecological communities that can stabilize ecological processes and influence resilience to disturbance and resistance to invasion. Being common, they are often overlooked for conservation but are increasingly threatened from land use change, biological invasions, and over‐exploitation. The pattern of foundation species abundances over...
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Full Text:: ., Sheley, R. L., Smith, B. S., Hoh, S., Esposito, D. M., & Mata-Gonzalez, R. (2014). Predicting foundation

Factors affecting female space use in ten populations of prairie chickens

Creator:: Winder, Virginia L., Carrlson, Kaylan M., Gregory, Andrew J., Hagen, Christian A., Haukos, David A., Kesler, Dylan C., Larsson, Lena C., Matthews, Ty W., McNew, Lance B., Patten, Michael A., Pitman, Jim C., Powell, Larkin A., Smith, Jennifer A., Thompson, Tom, Wolfe, Donald H., and Sandercock, Brett K.
Abstract:: Conservation of wildlife depends on an understanding of the interactions between animal movements and key landscape factors. Habitat requirements of wide-ranging species often vary spatially, but quantitative assessment of variation among replicated studies at multiple sites is rare. We investigated patterns of space use for 10 populations of two closely...
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Full Text:: . Kesler, L C. Larsson, T. W. Matthews, L. B. McNew, M. A. Patten, J. C. Pitman, L. A. Powell, J. A. Smith

Gas transport in firn: multiple-tracer characterisation and model intercomparison for NEEM, Northern Greenland

Creator:: Buizert, C., Martinerie, P., Petrenko, V. V., Severinghaus, J. P., Trudinger, C. M., Witrant, E., Rosen, J. L., Orsi, A. J., Rubino, M., Etheridge, D. M., Steele, L. P., Hogan, C., Laube, J. C., Sturges, W. T., Levchenko, V. A., Smith, A. M., Levin, I., Conway, T. J., Dlugokencky, E. J., Lang, P. M., Kawamura, K., Jenk, T. M., White, J. W. C., Sowers, T., Schwander, J., and Blunier, T.
Abstract:: Air was sampled from the porous firn layer at the NEEM site in Northern Greenland. We use an ensemble of ten reference tracers of known atmospheric history to characterise the transport properties of the site. By analysing uncertainties in both data and the reference gas atmospheric histories, we can objectively...
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Genes Related to Ion-Transport and Energy Production Are Upregulated in Response to CO₂-Driven pH Decrease in Corals: New Insights from Transcriptome Analysis

Creator:: Vidal-Dupiol, Jeremie, Zoccola, Didier, Tambutté, Eric, Grunau, Christoph, Cosseau, Céline, Smith, Kristina M., Freitag, Michael, Dheilly, Nolwenn M., Allemand, Denis, and Tambutté, Sylvie
Abstract:: Since the preindustrial era, the average surface ocean pH has declined by 0.1 pH units and is predicted to decline by an additional 0.3 units by the year 2100. Although subtle, this decreasing pH has profound effects on the seawater saturation state of carbonate minerals and is thus predicted to...
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A regional real-time forecast of marine boundary layers during VOCALS-REx

Creator:: Wang, S., O'Neill, L. W., Jiang, Q., de Szoeke, Simon P., Hong, X., Jin, H., Thompson, W. T., and Zheng, X.
Abstract:: This paper presents an evaluation and validation of the Naval Research Laboratory's COAMPS® real-time forecasts during the VOCALS-REx over the area off the west coast of Chile/Peru in the Southeast Pacific during October and November 2008. The analyses focus on the marine boundary layer (MBL) structure. These forecasts are compared...
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Full Text:: S. Wang1, L. W. O’Neill2, Q. Jiang1, S. P. de Szoeke3, X. Hong1, H. Jin1, W. T. Thompson1, and X

Catalyst selective and regiodivergent O- to C- or N-carboxyl transfer of pyrazolyl carbonates: synthetic and computational studies

Creator:: Gould, Eoin, Walden, Daniel M., Kasten, Kevin, Johnston, Ryne C., Wu, Jiufeng, Slawin, Alexandra M., Mustard, Thomas J. L., Johnston, Brittany, Davies, Tony, Cheong, Paul Ha-Yeon, and Smith, Andrew D.
Abstract:: The regiodivergent O- to C- or N-carboxyl transfer of pyrazolyl carbonates is described, with DMAP giving preferential N-carboxylation and triazolinylidenes promoting selective C-carboxylation (both with up to >99 : 1 regioselectivity). An enantioselective O- to C-carboxyl variant using NHC catalysis is demonstrated (up to 92% ee), while mechanistic and DFT studies outline...
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Full Text:: ., ... & Smith, A. D. (2014). Catalyst selective and regiodivergent O- to C- or N-carboxyl transfer of pyrazolyl

Evaluation and improvement of the Community Land Model (CLM4) in Oregon forests

Creator:: Hudiburg, T. W., Law, B. E., and Thornton, P. E.
Abstract:: Ecosystem process models are important tools for determining the interactive effects of global change and disturbance on forest carbon dynamics. Here we evaluated and improved terrestrial carbon cycling simulated by the Community Land Model (CLM4), the land model portion of the Community Earth System Model (CESM1.0.4). Our analysis was conducted...
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Full Text:: Evaluation and improvement of the Community Land Model (CLM4) in Oregon forests T. W. Hudiburg1, B. E. Law2

An update to the Surface Ocean CO₂ Atlas (SOCAT version 2)

Creator:: Bakker, D. C. E., Pfeil, B., Smith, K., Hankin, S., Olsen, A., Alin, S. R., Cosca, C., Harasawa, S., Kozyr, A., Nojiri, Y., O'Brien, K. M., Schuster, U., Telszewski, M., Tilbrook, B., Wada, C., Akl, J., Barbero, L., Bates, N. R., Boutin, J., Bozec, Y., Cai, W.-J., Castle, R. D., Chavez, F. P., Chen, L., Chierici, M., Currie, K., de Baar, H. J. W., Evans, W., Feely, R. A., Fransson, A., Gao, Z., Hales, B., Hardman-Mountford, N. J., Hoppema, M., Huang, W.-J., Hunt, C. W., Huss, B., Ichikawa, T., Johannessen, T., Jones, E. M., Jones, S. D., Jutterström, S., Kitidis, V., Körtzinger, A., Landschützer, P., Lauvset, S. K., Lefèvre, N., Manke, A. B., Mathis, J. T., Merlivat, L., Metzl, N., Murata, A., Newberger, T., Omar, A. M., Ono, T., Park, G.-H., Paterson, K., Pierrot, D., Ríos, A. F., Sabine, C. L., Saito, S., Salisbury, J., Sarma, V. V. S. S., Schlitzer, R., Sieger, R., Skjelvan, I., Steinhoff, T., Sullivan, K. F., Sun, H., Sutton, A. J., Suzuki, T., Sweeney, C., Takahashi, T., Tjiputra, J., Tsurushima, N., van Heuven, S. M. A. C., Vandemark, D., Vlahos, P., Wallace, D. W. R., Wanninkhof, R., and Watson, A. J.
Abstract:: The Surface Ocean CO2 Atlas (SOCAT), an activity of the international marine carbon research community, provides access to synthesis and gridded fCO2 (fugacity of carbon dioxide) products for the surface oceans. Version 2 of SOCAT is an update of the previous release (version 1) with more data (increased from 6.3...
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Full Text:: , A., Pfeil, B., Smith, K., Alin, S. R., ... & Murata, A. (2014). An update to the Surface Ocean CO

Amplification and dampening of soil respiration by changes in temperature variability

Creator:: Sierra, C. A., Harmon, M. E., Thomann, E., Perakis, S. S., and Loescher, H. W.
Abstract:: Accelerated release of carbon from soils is one of the most important feedbacks related to anthropogenically induced climate change. Studies addressing the mechanisms for soil carbon release through organic matter decomposition have focused on the effect of changes in the average temperature, with little attention to changes in temperature variability....
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Full Text:: . Harmon1, E. Thomann2, S. S. Perakis3, and H. W. Loescher4 1Department of Forest Ecosystems and Society

Does wildfire likelihood increase following insect outbreaks in conifer forests?

Creator:: Meigs, Garrett W., Campbell, John L., Zald, Harold S. J., Bailey, John D., Shaw, David C., and Kennedy, Robert E.
Abstract:: Although there is acute concern that insect-caused tree mortality increases the likelihood or severity of subsequent wildfire, previous studies have been mixed, with findings typically based on stand-scale simulations or individual events. This study investigates landscape- and regional-scale wildfire likelihood following outbreaks of the two most prevalent native insect pests...
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Full Text:: outbreaks in conifer forests? Meigs, G. W., Campbell, J. L., Zald, H. S., Bailey, J. D., Shaw, D. C

Does wildfire likelihood increase following insect outbreaks in conifer forests?

Creator:: Meigs, Garrett W., Campbell, John L., Zald, Harold S. J., Bailey, John D., Shaw, David C., and Kennedy, Robert E.
Abstract:: Although there is acute concern that insect‐caused tree mortality increases the likelihood or severity of subsequent wildfire, previous studies have been mixed, with findings typically based on stand‐scale simulations or individual events. This study investigates landscape‐ and regional‐scale wildfire likelihood following outbreaks of the two most prevalent native insect pests...
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Full Text:: outbreaks in conifer forests? Meigs, G. W., Campbell, J. L., Zald, H. S. J., Bailey, J. D., Shaw, D. C

Does wildfire likelihood increase following insect outbreaks in conifer forests?

Creator:: Meigs, Garrett W., Campbell, John L., Zald, Harold S. J., Bailey, John D., Shaw, David C., and Kennedy, Robert E.
Abstract:: Although there is acute concern that insect‐caused tree mortality increases the likelihood or severity of subsequent wildfire, previous studies have been mixed, with findings typically based on stand‐scale simulations or individual events. This study investigates landscape‐ and regional‐scale wildfire likelihood following outbreaks of the two most prevalent native insect pests...
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Full Text:: outbreaks in conifer forests? Meigs, G. W., Campbell, J. L., Zald, H. S. J., Bailey, J. D., Shaw, D. C

How Effective Are DNA Barcodes in the Identification of African Rainforest Trees?

Creator:: Parmentier, Ingrid, Duminil, Jérôme, Kuzmina, Maria, Philippe, Morgane, Thomas, Duncan W., Kenfack, David, Chuyong, George B., Cruaud, Corinne, and Hardy, Olivier J.
Abstract:: Background: DNA barcoding of rain forest trees could potentially help biologists identify species and discover new ones. However, DNA barcodes cannot always distinguish between closely related species, and the size and completeness of barcode databases are key parameters for their successful application. We test the ability of rbcL, matK and...
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Full Text:: Philippe1, Duncan W. Thomas4, David Kenfack5, George B. Chuyong6, Corinne Cruaud7, Olivier J. Hardy1* 1

Viewing forests through the lens of complex systems science

Creator:: Filotas, Elise, Parrott, Lael, Burton, Philip J., Chazdon, Robin L., Coates, K. David, Coll, Lluis, Haeussler, Sybille, Martin, Kathy, Nocentini, Susanna, Puettmann, Klaus J., Putz, Francis E., Simard, Suzanne W., and Messier, Christian
Abstract:: Complex systems science provides a transdisciplinary framework to study systems characterized by (1) heterogeneity, (2) hierarchy, (3) self‐organization, (4) openness, (5) adaptation, (6) memory, (7) non‐linearity, and (8) uncertainty. Complex systems thinking has inspired both theory and applied strategies for improving ecosystem resilience and adaptability, but applications in forest ecology...
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Full Text:: HAEUSSLER,8 KATHY MARTIN,9 SUSANNA NOCENTINI,10 KLAUS J. PUETTMANN,11 FRANCIS E. PUTZ,12 SUZANNE W. SIMARD

Evaluating the agreement between measurements and models of net ecosystem exchange at different times and timescales using wavelet coherence: an example using data from the North American Carbon Program Site-Level Interim Synthesis

Creator:: Stoy, P. C., Dietze, M. C., Richardson, A. D., Vargas, R., Barr, A. G., Anderson, R. S., Arain, M. A., Baker, Ian T., Black, T. Andrew, Chen, J. M., Cook, R. B., Gough, C. M., Grant, R. F., Hollinger, D. Y., Izaurralde, R. C., Kucharik, C. J., Lafleur, P., Law, B. E., Liu, S., Lokupitiya, E., Luo, Y., Munger, J. W., Peng, C., Poulter, B., Price, D. T., Ricciuto, D. M., Riley, W. J., Sahoo, A. K., Schaefer, K., Schwalm, C. R., Tian, H., Verbeeck, H., and Weng, E.
Abstract:: Earth system processes exhibit complex patterns across time, as do the models that seek to replicate these processes. Model output may or may not be significantly related to observations at different times and on different frequencies. Conventional model diagnostics provide an aggregate view of model–data agreement, but usually do not...
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Full Text:: , C. J. Kucharik16, P. Lafleur17, B. E. Law18, S. Liu19, E. Lokupitiya20, Y. Luo21, J. W. Munger22, C

The VAMOS Ocean-Cloud-Atmosphere-Land Study Regional Experiment (VOCALS-REx): goals, platforms, and field operations

Creator:: Wood, R., Mechoso, C. R., Bretherton, C. S., Weller, R. A., Huebert, B., Straneo, F., Albrecht, B. A., Coe, H., Allen, G., Vaughan, G., Daum, P., Fairall, C., Chand, D., Klenner, L. Gallardo, Garreaud, R., Grados, C., Covert, D. S., Bates, T. S., Krejci, R., Russell, L. M., de Szoeke, Simon P., Brewer, A., Yuter, S. E., Springston, S. R., Chaigneau, A., Toniazzo, T., Minnis, P., Palikonda, R., Abel, S. J., Brown, W. O. J., Williams, S., Fochesatto, J., Brioude, J., and Bower, K. N.
Abstract:: The VAMOS Ocean-Cloud-Atmosphere-Land Study Regional Experiment (VOCALS-REx) was an international field program designed to make observations of poorly understood but critical components of the coupled climate system of the southeast Pacific. This region is characterized by strong coastal upwelling, the coolest SSTs in the tropical belt, and is home to...
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Full Text:: . Palikonda23, S. J. Abel19, W. O. J. Brown20, S. Williams20, J. Fochesatto21, J. Brioude22,8, and K. N. Bower6

Using data management plans as a research tool for improving data services in academic libraries

Creator:: Whitmire, Amanda L.
Abstract:: To provide research data management (RDM) support services, libraries need to develop expertise in data curation and management within the library. Many academic libraries are reorganizing to initiate RDM service structures, but may lack staff expertise in this area. Funding agencies increasingly require a data management plan (DMP) with funding...
Resource Type:: Presentation
Full Text:: Whitmire, Lizzy Rolando & Brian Westra IASSIST 2015 Minneapolis, MN 2-6 June 2015 This presentation is

Linked Data Report and Recommendations for Oregon State University Libraries and Press

Creator:: Boock, Michael
Abstract:: Executive Summary: Oregon State University Libraries and Press (OSULP) demonstrates the value of openness in a variety of ways. We worked with faculty to pass an open access policy to provide the broadest possible access to university scholarship. We teach faculty and students to use data tools that promote the...
Resource Type:: Technical Report
Full Text:: assisting with the creation of this report: Brian Davis, Digital Production Unit Supervisor Mike Eaton

AI, Robot: A Rhetorical Analysis of Jeopardy! Matches Featuring IBM’s Artificial Intelligence

Creator:: Steele, Evan T.
Abstract:: The relationship between the public and new technologies has historically been a tumultuous one, with public perceptions ranging from excited rapid adoption to standoffish pessimism. In 2011, IBM tried to use competition as a means of showcasing a new technology to the public. This thesis is a work of rhetorical...
Resource Type:: Masters Thesis
Full Text:: Study, New York Free Press, 1994, p.126. 5 Shannon, C. & Weaver, W. The Mathematical Theory of

An evaluation of low-cost data collection platforms for structure from motion on subaerial beaches and dunes

Creator:: Conlin, Matthew P.
Resource Type:: Undergraduate Thesis
Full Text:: , and any camera Smith et al., 2009 Introduc)on

Climate and Demography Dictate the Strength of Predator-Prey Overlap in a Subarctic Marine Ecosystem

Creator:: Hunsicker, Mary E., Ciannelli, Lorenzo, Bailey, Kevin M., Zador, Stephani, and Stige, Leif Christian
Abstract:: There is growing evidence that climate and anthropogenic influences on marine ecosystems are largely manifested by changes in species spatial dynamics. However, less is known about how shifts in species distributions might alter predator-prey overlap and the dynamics of prey populations. We developed a general approach to quantify species spatial...
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Full Text:: Overlap PLOS ONE | www.plosone.org 2 June 2013 | Volume 8 | Issue 6 | e66025 yyr,(w,l)~g1(d(w,l))zs1(w

Study of Organic Semiconductors Using Time-Resolved Charge Measurements at the Microscale

Creator:: Wallace, Richard
Abstract:: Understanding charge transfer in organic semiconductors is important for developing devices like organic light emitting diodes and flexible electronics. Optical tweezers have been used in many disciplines for trapping, manipulating, and analyzing microscopic objects such as microspheres, micro-organisms, and other colloidal particles. Using optical tweezers, studies have measured the average...
Resource Type:: Undergraduate Thesis
Full Text:: Thomas W. LeBrun. Contact electrification of individual dielec- tric microparticles measured by optical

Two new combinations in Euploca Nutt. (Heliotropiaceae, Boraginales) and a conspectus of the species of the Guiana Shield area

Creator:: Feuillet, Christian
Abstract:: Heliotropium foliatum and Tournefortia humilis are transferred to Euploca Nutt. respectively as Euploca foliata comb. n. and Euploca humilis comb. n. A collection from Guyana has been recently identified as Euploca humistrata, a species previously considered a Brazilian endemic. A collection from French Guiana documents for the first time the...
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Full Text:: , designated by Förther 1998, pg. 195: B-W 3246/1 n.v. Christian Feuillet / PhytoKeys 61: 101–124 (2016

Astragaloside IV Inhibits NF-κB Activation and Inflammatory Gene Expression in LPS-Treated Mice

Creator:: Zhang, Wei-Jian and Frei, Balz
Abstract:: In this study we investigated the role of astragaloside IV (AS-IV), one of the major active constituents purified from the Chinese medicinal herb Astragalus membranaceus, in LPS-induced acute inflammatory responses in mice in vivo and examined possible underlying mechanisms. Mice were assigned to four groups: vehicle-treated control animals; AS-IV-treated animals...
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Full Text:: . 421–429, 2009. [18] J. B. Jiang, J. D. Qiu, L. H. Yang, J. P. He, G. W. Smith, and H. Q. Li

The status and challenge of global fire modelling

Creator:: Hantson, Stijn, Arneth, Almut, Harrison, Sandy P., Kelley, Douglas I., Prentice, I. Colin, Rabin, Sam S., Archibald, Sally, Mouillot, Florent, Arnold, Steve R., Artaxo, Paulo, Bachelet, Dominique, Ciais, Philippe, Forrest, Matthew, Friedlingstein, Pierre, Hickler, Thomas, Kaplan, Jed O., Kloster, Silvia, Knorr, Wolfgang, Lasslop, Gitta, Li, Fang, Mangeon, Stephane, Melton, Joe R., Meyn, Andrea, Sitch, Stephen, Spessa, Allan, van der Werf, Guido R., Voulgarakis, Apostolos, and Yue, Chao
Abstract:: Biomass burning impacts vegetation dynamics, biogeochemical cycling, atmospheric chemistry, and climate, with sometimes deleterious socio-economic impacts. Under future climate projections it is often expected that the risk of wildfires will increase. Our ability to predict the magnitude and geographic pattern of future fire impacts rests on our ability to model...
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Full Text:: General Ecosystem Simulator (LPJ-GUESS; Smith et al., 2001), the Biosphere Energy-Transfer Hydrology model

A potential implicit particle method for high-dimensional systems

Creator:: Weir, B., Miller, R. N., and Spitz, Y. H.
Abstract:: This paper presents a particle method designed for high-dimensional state estimation. Instead of weighing random forecasts by their distance to given observations, the method samples an ensemble of particles around an optimal solution based on the observations (i.e., it is implicit). It differs from other implicit methods because it includes...
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Full Text:: and Djuríc (2003), Smith (2007), Hoteit et al. (2008), Dovera and Rossa(2011), Stordal et al.(2011

Regional variation in stand structure and development in forests of Oregon, Washington, and inland Northern California

Creator:: Reilly, Matthew J. and Spies, Thomas A.
Abstract:: Despite its importance to biodiversity and ecosystem function, patterns and drivers of regional scale variation in forest structure and development are poorly understood. We characterize structural variation, create a hierarchical classification of forest structure, and develop an empirically based framework for conceptualizing structural development from 11,091 plots across 25 million...
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Full Text:: Potential developmental pathways Vegetation zone Evidence (1.1) Very Low Live Biomass and Density w/ Very

Enhancing the T-shaped learning profile when teaching hydrology using data, modeling, and visualization activities

Creator:: Sanchez, Christopher A., Ruddell, Benjamin L., Ruddell, Benjamin L., and Merwade, Venkatesh
Abstract:: Previous research has suggested that the use of more authentic learning activities can produce more robust and durable knowledge gains. This is consistent with calls within civil engineering education, specifically hydrology, that suggest that curricula should more often include professional perspective and data analysis skills to better develop the "T-shaped"...
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Full Text:: of this solution, as such activi- ties are often implemented in group settings (Smith et al., 2005

Enhancing the T-shaped learning profile when teaching hydrology using data, modeling, and visualization activities

Creator:: Sanchez, C. A., Ruddell, B. L., Schiesser, R., and Merwade, V.
Abstract:: Previous research has suggested that the use of more authentic learning activities can produce more robust and durable knowledge gains. This is consistent with calls within civil engineering education, specifically hydrology, that suggest that curricula should more often include professional perspective and data analysis skills to better develop the ‘T-shaped’...
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Full Text:: , 2005. 24 Smith, K. A., Sheppard, S. D., Johnson, D. W., & Johnson, R. T. Pedagogies of engagement: 25

Using Gross Energy Improves Metabolizable Energy Predictive Equations for Pet Foods Whereas Undigested Protein and Fiber Content Predict Stool Quality

Creator:: Hall, Jean A., Melendez, Lynda D., and Jewell, Dennis E.
Abstract:: Because animal studies are labor intensive, predictive equations are used extensively for calculating metabolizable energy (ME) concentrations of dog and cat pet foods. The objective of this retrospective review of digestibility studies, which were conducted over a 7-year period and based upon Association of American Feed Control Officials (AAFCO) feeding...
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Full Text:: Publication. 5. Kendall PT, Burger IH, Smith PM (1985) Methods of estimation of the metabolizable energy

Intra‐ and inter‐annual variation in gray whale body condition on a foraging ground

Creator:: Soledade Lemos, Leila, Burnett, Jonathan D., Chandler, Todd E., Sumich, James L., and Torres, Leigh G.
Abstract:: Baleen whales store energy gained on foraging grounds to support reproduction and other metabolic needs while fasting for long periods during migration. Whale body condition can be used to monitor foraging success, and thus better understand and anticipate individual‐ and population‐level trends in reproduction and survival. We assessed the body...
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Full Text:: (Christiansen et al. 2016, Smith et al. 2016, Burnett et al. 2018) than previously attainable. We implement the

Response of the nitrogen-fixing lichen Lobaria pulmonaria to phosphorus, molybdenum, and vanadium

Creator:: Marks, Jade A., Pett-Ridge, Julie C., Perakis, Steven S., Allen, Jessica L., and McCune, Bruce
Abstract:: Nitrogen-fixing lichens (cyanolichens) are an important source of nitrogen (N) in Pacific Northwest forests, but limitation of lichen growth by elements essential for N fixation is poorly understood. To investigate how nutrient limitation may affect cyanolichen growth rates, we fertilized a tripartite cyanobacterial lichen (Lobaria pulmonaria) and a green algal...
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Full Text:: (43.082268 N, 123.522078 W), southwest of Roseburg, near the town of Tenmile. Because Usnea was not present

Analysis and Expansion of the Role of the Escherichia coli Protein ProQ

Creator:: Sheidy, Daniel T. and Zielke, Ryszard A.
Abstract:: The decrease in proline transport by the proline porter ProP in a Delta proQ strain has been well documented; however, the reason for this phenotype remains undefined. Previous studies have speculated that ProQ facilitates translation of proP mRNA. Here, we demonstrate that ProQ is enriched in the polysome fractions of...
Resource Type:: Article
Full Text:: in Escherichia coli. J Bacteriol 171: 947-951. PubMed: 2536686. 12. Smith MN, Crane RA, Keates RA

Evolutionary Biology for the 21st Century

Creator:: Losos, Jonathan B., Arnold, Stevan J., Bejerano, Gill, Brodie, E. D. III, Hibbett, David, Hoekstra, Hopi E., Mindell, David P., Monteiro, Antonia, Moritz, Craig, Orr, H. Allen, Petrov, Dmitri A., Renner, Susanne S., Ricklefs, Robert E., Soltis, Pamela S., and Turner, Thomas L.
Abstract:: We live in an exciting time for biology. Technological advances have made data collection easier and cheaper than we could ever have imagined just 10 years ago. We can now synthesize and analyze large data sets containing genomes, transcriptomes, proteomes, and multivariate phenotypes. At the same time, society's need for...
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Full Text:: , P. Parks, K. Roy, S. Smith, J. Trimble, and A. Weirman for help procuring images. Glossary

Absolute humidity and the seasonal onset of influenza in the continental United States

Creator:: Shaman, Jeffrey, Pitzer, Virginia E., Viboud, Cecile, Grenfell, Bryan T., and Lipsitch, Marc
Abstract:: Corrections 18 Mar 2010: Shaman J, Pitzer VE, Viboud C, Grenfell BT, Lipsitch M (2010) Correction: Absolute Humidity and the Seasonal Onset of Influenza in the Continental United States. PLOS Biology 8(3): 10.1371/annotation/35686514-b7a9-4f65-9663-7baefc0d63c0. 15 Mar 2010: Shaman J, Pitzer VE, Viboud C, Grenfell BT, Lipsitch M (2010) Correction: Absolute Humidity...
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Full Text:: (Kelvin) Solar Radiation9 (W/m2) 0.005 20.138 (,0.00002) 20.420 (0.00166) 20.221 (0.00004) 0.431 (0.0397

Patterns of loggerhead turtle ontogenetic shifts revealed through isotopic analysis of annual skeletal growth increments

Creator:: Ramirez, Matthew D., Avens, Larisa, Seminoff, Jeffrey A., Goshe, Lisa R., and Heppell, Selina S.
Abstract:: Ontogenetic changes in resource use often delimit transitions between life stages. Ecological and individual factors can cause variation in the timing and consistency of these transitions, ultimately affecting community and population dynamics through changes in growth and survival. Therefore, it is important to document and understand behavioral and life history...
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Full Text:: not always fixed within species (Skulason and Smith 1995, Bolnick et al. 2003). For example

Macroalgae Decrease Growth and Alter Microbial Community Structure of the Reef-Building Coral, Porites astreoides

Creator:: Thurber, Rebecca Vega, Burkepile, Deron E., Correa, Adrienne M. S., Thurber, Andrew R., Shantz, Andrew A., Welsh, Rory, Pritchard, Catharine, and Rosales, Stephanie
Abstract:: With the continued and unprecedented decline of coral reefs worldwide, evaluating the factors that contribute to coral demise is of critical importance. As coral cover declines, macroalgae are becoming more common on tropical reefs. Interactions between these macroalgae and corals may alter the coral microbiome, which is thought to play...
Resource Type:: Article
Full Text:: difference among coral-algae treatments and controls are denoted by lowercase letters w-z. *Galaxaura

Post-fire tree establishment and early cohort development in conifer forests of the western Cascades of Oregon, USA

Creator:: Tepley, Alan J., Swanson, Frederick J., and Spies, Thomas A.
Abstract:: Early‐seral ecosystems make important contributions to regional biodiversity by supporting high abundance and diversity of many plant and animal species that are otherwise rare or absent from closed‐canopy forests. Therefore, the period of post‐fire tree establishment is a key stage in forest stand and ecosystem development that can be viewed...
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Recruitment, Growth and Mortality of an Antarctic Hexactinellid Sponge, Anoxycalyx joubini

Creator:: Dayton, Paul K., Kim, Stacy, Jarrell, Shannon C., Oliver, John S., Hammerstrom, Kamille, Fisher, Jennifer L., O'Connor, Kevin, Barber, Julie S., Robilliard, Gordon, Barry, James, Thurber, Andrew R., and Conlan, Kathy
Abstract:: Polar ecosystems are sensitive to climate forcing, and we often lack baselines to evaluate changes. Here we report a nearly 50-year study in which a sudden shift in the population dynamics of an ecologically important, structure-forming hexactinellid sponge, Anoxycalyx joubini was observed. This is the largest Antarctic sponge, with individuals...
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Full Text:: , and detritivory. Mar Ecol Prog Ser 371: 155–164. 21. Dinniman MS, Klink M, Smith WO (2007) Influence

Technical note: Time lag correction of aquatic eddy covariance data measured in the presence of waves

Creator:: Berg, P., Reimers, Clare E., Rosman, J. H., Huettel, M., Delgard, M. L., Reidenbach, M. A., and Özkan-Haller, H. Tuba
Abstract:: Extracting benthic oxygen fluxes from eddy covariance time series measured in the presence of surface gravity waves requires careful consideration of the temporal alignment of the vertical velocity and the oxygen concentration. Using a model based on linear wave theory and measured eddy covariance data, we show that a substantial...
Resource Type:: Article
Full Text:: (Partch and Smith, 1978). More recently, concurrent heat and salt fluxes have also been measured over

Technical note: Time lag correction of aquatic eddy covariance data measured in the presence of waves

Creator:: Berg, P., Reimers, Clare E., Rosman, J. H., Huettel, M., Delgard, M. L., Reidenbach, M. A., and Özkan-Haller, H. Tuba
Abstract:: Extracting benthic oxygen fluxes from eddy covariance time series measured in the presence of surface gravity waves requires careful consideration of the temporal alignment of the vertical velocity and the oxygen concentration. Using a model based on linear wave theory and measured eddy covariance data, we show that a substantial...
Resource Type:: Article
Full Text:: (Partch and Smith, 1978). More recently, con- current heat and salt fluxes have also been measured over

A first chronology for the North Greenland Eemian Ice Drilling (NEEM) ice core

Creator:: Rasmussen, S. O., Abbott, P. M., Blunier, T., Bourne, A. J., Brook, Edward J., Buchardt, S. L., Buizert, Christo, Chappellaz, J., Clausen, H. B., Cook, E., Dahl-Jensen, D., Davies, S. M., Guillevic, M., Kipfstuhl, S., Laepple, T., Seierstad, I. K., Severinghaus, J. P., Steffensen, J. P., Stowasser, C., Svensson, A., Vallelonga, P., Vinther, B. M., Wilhelms, F., and Winstrup, M.
Abstract:: A stratigraphy-based chronology for the North Greenland Eemian Ice Drilling (NEEM) ice core has been derived by transferring the annual layer counted Greenland Ice Core Chronology 2005 (GICC05) and its model extension (GICC05modelext) from the NGRIP core to the NEEM core using 787 match points of mainly volcanic origin identified...
Resource Type:: Article
Full Text:: core was drilled during 2008–2010 through the ice sheet in Northwest Greenland (77.45◦ N, 51.07◦ W, sur

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