Index Catalog // ScholarsArchive@OSU

Populations of aspen (Populus tremuloides Michx.) with different evolutionary histories differ in their climate occupancy

Creator:: Greer, Burke T., Still, Christopher, Howe, Glenn T., Tague, Christina, and Roberts, Dar A.
Abstract:: Quaking aspens (Populus tremuloides Michx.) are found in diverse habitats throughout North America. While the biogeography of aspens' distribution has been documented, the drivers of the phenotypic diversity of aspen are still being explored. In our study, we examined differences in climate between northern and southwestern populations of aspen, finding...
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Polyploidy influences plant-environment interactions in quaking aspen (Populus tremuloides Michx.)

Creator:: Greer, Burke T., Still, Christopher, Cullinan, Grace L., Brooks, J. Renee, and Meinzer, Frederick C.
Abstract:: Quaking aspen (Populus tremuloides Michx.), a widespread and keystone tree species in North America, experienced heat and drought stress in the years 2002 and 2003 in the southwestern United States. This led to widespread aspen mortality that has altered the composition of forests, and is expected to occur again if...
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Full Text:: , phyloclimatic modeling. Correspondence Burke T. Greer, Forest Ecosystems and Society, Oregon State University

Respiration, dissolution, and the lysocline

Creator:: Hales, Burke
Abstract:: Here I synthesize the results of several types of measurements of organic carbon respiration and calcium carbonate dissolution rates in pelagic seafloor sediments. Measurements of pore water oxygen demonstrate that most of the respiration takes place very near the sediment-water interface, with a scale depth of a few millimeters. The...
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Full Text:: pa000915 1..14 Respiration, dissolution, and the lysocline Burke

Fine-scale planktonic habitat partitioning at a shelf-slope front revealed by a high-resolution imaging system

Creator:: Greer, Adam T., Cowen, Robert K., Guigand, Cedric M., and Hare, Jonathan A.
Abstract:: Ocean fronts represent productive regions of the ocean, but predator-prey interactions within these features are poorly understood partially due to the coarse-scale and biases of net-based sampling methods. We used the In Situ Ichthyoplankton Imaging System (ISIIS) to sample across a front near the Georges Bank shelf edge on two...
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Full Text:: partitioning at a shelf-slope front revealed by a high-resolution imaging system Greer, A. T., Cowen, R. K

Larval fishes utilize Batesian mimicry as a survival strategy in the plankton

Creator:: Greer, Adam T., Woodson, C. Brock, Guigand, Cedric M., and Cowen, Robert K.
Abstract:: Marine teleost fishes often experience over 99% mortality in the early life stages (eggs and larvae), yet larval survival is essential to population sustainability. Marine fish larvae from a wide range of families display elaborate, delicate features that bear little resemblance to adult forms and hinder their swimming escape ability...
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The Pumping SeaSoar: A High-Resolution Seawater Sampling Platform

Creator:: Hales, Burke and Takahashi, Taro
Abstract:: The first results obtained with the Lamont Pumping SeaSoar (LPS), a combination measurement and sampling platform towed by a research ship at speeds of 6–7 kt, are presented. The system allows not only measurement of a suite of oceanographic parameters with in situ sensors, but also delivery of seawater samples...
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Full Text:: atot_19_901.1096_1104.tp 1096 VOLUME 19J O U R N A L O F A T

Mesoscale biogeochemical responses to iron fertilization in the upper layers of the Southern Ocean Iron Experiment areas

Creator:: Hales, Burke and Takahashi, Taro
Abstract:: During the Southern Ocean Iron Experiment (SOFeX), January-February 2002, two iron fertilization experiments were conducted at the south (66.45°S, 171.8°W) and north (56.23°S, 172°W) patches. The south patch was replete with all macronutrients, whereas the north patch was nearly depleted of silicate. Using a towed water sampling/measurement system, high resolution...
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Full Text:: responses to iron fertilization in the upper layers of the Southern Ocean Iron Experiment areas Burke

High-resolution biogeochemical investigation of the Ross Sea, Antarctica, during the AESOPS (U. S. JGOFS) Program

Creator:: Hales, Burke and Takahashi, Taro
Abstract:: The results of high-resolution biogeochemical measurements in the upper 200 m of the Ross Sea, Antarctica, obtained during the AESOPS (U. S. JGOFS) program using the Lamont Pumping SeaSoar (LPS) are presented. They consist of three west-east transects from 170°E to 180° longitude along the AESOPS study line at 76.5°S...
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Full Text:: the Ross Sea, Antarctica, during the AESOPS (U. S. JGOFS) Program Burke Hales College of Oceanic and

Calcite dissolution in sediments of the Ontong-Java Plateau : In situ measurements of pore water O₂ and pH

Creator:: Hales, Burke and Emerson, Steve
Abstract:: We present in situ electrode measurements of sediment resistivity, pore water oxygen, and pore water pH from three stations between 2300 and 3000 m depth on the Ontong-Java Plateau in the western equatorial Pacific. One of these stations is also the site of a concurrent benthic chamber incubation experiment [Jahnke...
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Full Text:: situ measurements of pore water Oz and pH Burke Hales Lamont-Doherty Earth Observatory of Columbia

Potato Response to Simulated Glyphosate Drift

Creator:: Felix, Joel, Boydston, Rick, and Burke, Ian C.
Abstract:: Field studies were conducted in 2008 in Ontario, OR and Paterson, WA to determine the effect of simulated glyphosate drift on 'Ranger Russet' potato, including visual injury, shikimic acid accumulation, and tuber yield. Glyphosate was applied at 8.5, 54, 107, 215, and 423 g ae ha(-1); which corresponds to 0.01,...
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Full Text:: Boydston, and Ian C. Burke* Field studies were conducted in 2008 in Ontario, OR and Paterson, WA to

Atmosperic CO₂ uptake by a coastal upwelling system

Creator:: Hales, Burke, Takahashi, Taro, and Bandstra, Leah M.
Abstract:: A biological pump for transferring atmospheric CO₂ to deep ocean regimes has been identified in the upwelling zone of the U.S. Pacific coast off Oregon using high-resolution measurements of Pco₂ and nutrient concentrations that were made in May through August 2001. Surface water over most of the shelf was a...
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Full Text:: system Burke Hales College of Oceanic and Atmospheric Sciences, Oregon State University, Corvallis

High-frequency measurement of partial pressure and total concentration of carbon dioxide in seawater using microporous hydrophobic membrane contractors

Creator:: Hales, Burke, Chipman, David, and Takahashi, Taro
Abstract:: To investigate CO₂ chemistry in ocean water with greater time-space resolutions, we systems, which have state-of-the-art precision but an order of magnitude or better analysis, for carbon dioxide partial pressures (Pco₂) and total carbon dioxide Pco₂ system was based on equilibration of a CO₂-free carrier gas stream with seawater sample...
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Full Text:: Burke Hales, David W Chipman, Taro T Takahashi, High-frequency

Turbulent supply of nutrients to phytoplankton at the New England shelf break front

Creator:: Hales, Burke, Hebert, Dave, and Marra, John
Abstract:: We present observations from deployments of a microstructure turbulence instrument (the Towed Microstructure and Auxiliary Sensor Instrument) aboard a pumping profiling vehicle (the Lamont Pumping SeaSoar) towed behind a research vessel at the New England shelf break front in August 2002. From these we determined coincident fine-scale vertical eddy diffusivity...
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Full Text:: the New England shelf break front Burke Hales,1 Dave Hebert,2 and John Marra3 Received 10 July 2008

Seasonal cycle of surface ocean pCO₂ on the Oregon shelf

Creator:: Evans, Wiley, Hales, Burke, and Strutton, Peter G.
Abstract:: Previous work has shown that the Oregon shelf is a sink for atmospheric carbon dioxide (CO₂) during the upwelling season; however, until now, summertime variability in CO₂ exchange and sign of the flux for the rest of the year were unknown. Observations of the partial pressure of CO₂ (pCO₂) in...
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Full Text:: Oregon shelf Wiley Evans,1 Burke Hales,1 and Peter G. Strutton2 Received 30 August 2010; revised 8

Iron links river runoff and shelf width to phytoplankton biomass along the U.S. West Coast

Creator:: Chase, Zanna, Strutton, Peter G., and Hales, Burke
Abstract:: A poleward increase in phytoplankton biomass along the West Coast of North America has been attributed to increasing river runoff towards the north. We combine streamflow and shelf width data with satellite-derived estimates of phytoplankton biomass to quantify the relationship between these variables. We find that a combination of winter...
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Full Text:: phytoplankton biomass along the U.S. West Coast Zanna Chase,1 Peter G. Strutton,1 and Burke Hales1 Received 4

Ocean acidification stress index for shellfish (OASIS): Linking Pacific oyster larval survival and exposure to variable carbonate chemistry regimes

Creator:: Hales, Burke, Gimenez, Iria, and Waldbusser, George G.
Abstract:: Understanding larval bivalve responses to variable regimes of seawater carbonate chemistry requires realistic quantification of physiological stress. Based on a degree-day modeling approach, we developed a new metric, the ocean acidification stress index for shellfish (OASIS), for this purpose. OASIS integrates over the entire larval period the instantaneous stress associated...
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Full Text:: chemistry regimes Iria Gimenez, George G. Waldbusser and Burke Hales Understanding larval bivalve responses

High-frequency measurement of seawater chemistry: Flow-injection analysis of macronutrients

Creator:: Hales, Burke, van Geen, Alexander, and Takahashi, Taro
Abstract:: We adapted a commercially available flow‐injection autoanalyzer (Lachat Quik‐Chem 8000) to measure seawater nitrate concentrations at a rate of nearly 0.1 Hz and phosphate and silicate concentrations at a rate half that. Several minor improvements, including reduced sample‐loop size, high sample flushing rate, modified carrier chemistry, and use of peak...
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Full Text:: Burke Hales, Alexander van Geen, and Taro Takahashi. High

Response of Direct-Seeded Dry Bulb Onion to Simulated Glyphosate Drift with Variable Rates and Application Timings

Creator:: Felix, Joel, Boydston, Rick, and Burke, Ian C.
Abstract:: Field studies were conducted in 2011 at the Malheur Experiment Station, Ontario, OR and Prosser, WA to evaluate the effect of simulated glyphosate drift on direct-seeded dry bulb onion. Glyphosate was applied at 8.6, 25.8, 86, 290, 434, and 860 g ae ha⁻¹ when onion plants were at the flag-,...
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Full Text:: Boydston, and Ian C. Burke* Field studies were conducted in 2011 at the Malheur Experiment Station

Identification of MIR390a precursor processing defective mutants in Arabidopsis by direct genome sequencing

Creator:: Cuperus, Josh T., Montgomery, Taiowa A., Fahlgren, Noah, Burke, Russell T., Townsend, Tiffany, Sullivan, Christopher M., and Carrington, James C.
Abstract:: Transacting siRNA (tasiRNA) biogenesis in Arabidopsis is initiated by microRNA (miRNA) –guided cleavage of primary transcripts. In the case of TAS3 tasiRNA formation, ARGONAUTE7 (AGO7)– miR390 complexes interact with primary transcripts at two sites, resulting in recruitment of RNA-DEPENDENT RNA POLYMERASE6 for dsRNA biosynthesis. An extensive screen for Arabidopsis mutants...
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Full Text:: processing- defective mutants in Arabidopsis by direct genome sequencing Josh T. Cuperusa,b, Taiowa A

Environmental drivers of the fine-scale distribution of a gelatinous zooplankton community across a mesoscale front

Creator:: Luo, Jessica Y., Grassian, Benjamin, Tang, Dorothy, Irisson, Jean-Olivier, Greer, Adam T., Guigand, Cedric M., McClatchie, Sam, and Cowen, Robert K.
Abstract:: Mesoscale fronts occur frequently in many coastal areas and often are sites of elevated productivity; however, knowledge of the fine-scale distribution of zooplankton at these fronts is lacking, particularly within the mid-trophic levels. Furthermore, small (<13 cm) gelatinous zooplankton are ubiquitous, but are under-studied, and their abundances underestimated due to...
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Aragonite saturation state dynamics in a coastal upwelling zone

Creator:: Harris, Katherine E., DeGrandpre, Michael D., and Hales, Burke
Abstract:: Abstract: Coastal upwelling zones may be at enhanced risk from ocean acidification as upwelling brings low aragonite saturation state (Ω[subscript Ar]) waters to the surface that are further suppressed by anthropogenic CO₂. Ω[subscript Ar] was calculated with pH, pCO₂, and salinity-derived alkalinity time series data from autonomous pH and pCO₂...
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Full Text:: coastal upwelling zone Katherine E. Harris,1 Michael D. DeGrandpre,1 and Burke Hales2 Received 11

Extensive CO₂ emissions from shallow coastal waters during passage of Hurricane Irene (August 2011) over the Mid-Atlantic Coast of the U.S.A.

Creator:: Crosswell, Joseph R., Wetz, Michael S., Hales, Burke, and Paerl, Hans W.
Abstract:: Shallow coastal waters serve an important role as long-term carbon (C) sinks because they capture terrestrial C and retain internally produced C in wetlands and sediments. We show that tropical cyclones (TCs) can lead to rapid CO₂ efflux from estuaries, driven by physical and biogeochemical perturbation of these coastal C...
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Full Text:: . Joseph R. Crosswell,1,2,* Michael S. Wetz,3 Burke Hales,4 and Hans W. Paerl 1 1 Institute of Marine

Global calcite cycling constrained by sediment preservation controls

Creator:: Dunne, John P., Hales, Burke, and Toggweiler, J. R.
Abstract:: We assess the global balance of calcite export through the water column and burial in sediments as it varies regionally. We first drive a comprehensive 1-D model for sediment calcite preservation with globally gridded field observations and satellite-based syntheses. We then reformulate this model into a simpler five-parameter box model,...
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Full Text:: controls Global calcite cycling constrained by sediment preservation controls John P. Dunne,1 Burke

Irreversible nitrate fluxes due to turbulent mixing in a coastal upwelling system

Creator:: Hales, Burke, Moum, James N., Covert, P., and Perlin, A.
Abstract:: Detailed and repeated measurements of nitrate across the Oregon shelf, made coincident with turbulence measurements, reveal the importance of cross-isopycnal mixing via turbulence in providing nitrate to the upper water column. Spatial distributions of vertical gradients and turbulent fluxes in the Oregon coastal ocean reveal variability that could not have...
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Full Text:: . Conkright, M. E., S. Levitus, and T. P. Boyer (1994), World Ocean Atlas 1994, vol. 1, Nutrients, NOAA Atlas

Air-water CO₂ fluxes in the microtidal Neuse River Estuary, North Carolina

Creator:: Crosswell, Joseph R., Wetz, Michael S., Hales, Burke, and Paerl, Hans W.
Abstract:: From June 2009 to July 2010, we conducted 27 continuous-flow surveys of surface water CO₂ partial pressure (pCO₂) along the longitudinal axis of the Neuse River Estuary (NRE), North Carolina ranging from the tidal freshwater region to the polyhaline border with the Pamlico Sound. Lateral transects were also conducted at...
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Full Text:: ,1 Michael S. Wetz,2 Burke Hales,3 and Hans W. Paerl1 Received 27 January 2012; revised 15 June 2012

Oxygen production and carbon sequestration in an upwelling coastal margin

Creator:: Hales, Burke, Karp-Boss, Lee, Perlin, Alexander, and Wheeler, Patricia A.
Abstract:: We examined high-resolution cross-shelf distributions of particulate organic carbon (POC) and dissolved O₂ during the upwelling season off the Oregon coast. Oxygen concentrations were supersaturated in surface waters, and hypoxic in near-bottom waters, with greatly expanded hypoxic conditions late in the season. Simplified time-dependent mass balances on cross-shelf integrated concentrations...
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Full Text:: upwelling coastal margin Burke Hales,1 Lee Karp-Boss,2 Alexander Perlin,1 and Patricia A. Wheeler1

Applied Fisheries Oceanography: Ecosystem Indicators of Ocean Conditions Inform Fisheries Management in the California Current

Creator:: Peterson, William T., Fisher, Jennifer L., Peterson, Jay O., Morgan, Cheryl A., Burke, Brian J., and Fresh, Kurt L.
Abstract:: Fisheries oceanography is the study of ecological relationships between fishes and the dynamics of their marine environments and aims to characterize the physical, chemical, and biological factors that affect the recruitment and abundance of harvested species. A recent push within the fisheries management community is toward ecosystem-based management. Here, we...
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Full Text:: Peterson, W. T., Fisher, J. L., Peterson, J. O., Morgan, C. A., Burke, B. J., & Fresh, K. L. (2014

Multivariate Models of Adult Pacific Salmon Returns

Creator:: Burke, Brian J., Peterson, William T., Beckman, Brian R., Morgan, Cheryl, Daly, Elizabeth A., and Litz, Marisa
Abstract:: Most modeling and statistical approaches encourage simplicity, yet ecological processes are often complex, as they are influenced by numerous dynamic environmental and biological factors. Pacific salmon abundance has been highly variable over the last few decades and most forecasting models have proven inadequate, primarily because of a lack of understanding...
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Full Text:: Returns Brian J. Burke1*, William T. Peterson2, Brian R. Beckman3, Cheryl Morgan4, Elizabeth A. Daly4

Physicochemical and biological controls on primary and net community production across northeast Pacific seascapes

Creator:: Kavanaugh, Maria T., Emerson, Steven R., Hales, Burke, Lockwood, Deirdre M., Quay, Paul D., and Letelier, Ricardo M.
Abstract:: The subarctic-subtropical transition zone in the North Pacific represents the second largest sink of atmospheric carbon dioxide in the world ocean, yet the relative importance of physical and biological processes in this uptake is debated. In a step toward understanding the spatiotemporal variability of environmental, physiological, and ecological factors that...
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Full Text:: northeast Pacific seascapes Maria T. Kavanaugh,1,* Steven R. Emerson,2 Burke Hales,3 Deirdre M. Lockwood,2

Persistent Chaos of Measles Epidemics in the Prevaccination United States Caused by a Small Change in Seasonal Transmission Patterns

Creator:: Dalziel, Benjamin D., Bjørnstad, Ottar N., van Panhuis, Willem G., Burke, Donald S., Metcalf, C. Jessica E., and Grenfell, Bryan T.
Abstract:: Epidemics of infectious diseases often occur in predictable limit cycles. Theory suggests these cycles can be disrupted by high amplitude seasonal fluctuations in transmission rates, resulting in deterministic chaos. However, persistent deterministic chaos has never been observed, in part because sufficiently large oscillations in transmission rates are uncommon. Where they...
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Satellite-based prediction of pCO₂ in coastal waters of the eastern North Pacific

Creator:: Hales, Burke, Strutton, Peter G., Saraceno, Martin, Letelier, Ricardo, Takahashi, Taro, Feely, Richard, Sabine, Christopher, and Chavez, Francisco
Abstract:: Continental margin carbon cycling is complex, highly variable over a range of space and time scales, and forced by multiple physical and biogeochemical drivers. Predictions of globally significant air–sea CO₂ fluxes in these regions have been extrapolated based on very sparse data sets. We present here a method for predicting...
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Full Text:: Pacific Burke Hales a,⇑, Peter G. Strutton g, Martin Saraceno b,c, Ricardo Letelier a, Taro Takahashi d

The Pacific oyster, Crassostrea gigas, shows negative correlation to naturally elevated carbon dioxide levels: Implications for near-term ocean acidification effects

Creator:: Barton, Alan, Hales, Burke, Waldbusser, George G., Langdon, Chris, and Feely, Richard A.
Abstract:: We report results from an oyster hatchery on the Oregon coast, where intake waters experienced variable carbonate chemistry (aragonite saturation state < 0.8 to > 3.2; pH < 7.6 to > 8.2) in the early summer of 2009. Both larval production and midstage growth (∼ 120 to ∼ 150 µm)...
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Full Text:: acidification effects Alan Barton,a Burke Hales,b,* George G. Waldbusser,b Chris Langdon,c and Richard A

Distribution and variability of iron input to Oregon coastal waters during the upwelling season

Creator:: Chase, Zanna, Hales, Burke, Cowles, Timothy J., Schwartz, Roseanne, and van Geen, Alexander
Abstract:: We measured iron concentrations off the Oregon coast in spring (May–June) and summer (August) of 2001 as part of the Coastal Ocean Advances in Shelf Transport (COAST) program. Dissolvable and total dissolvable iron levels in surface waters were generally higher in spring (mean of 2.1 and 33.9 nmol L¯¹, respectively)...
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Full Text:: Oregon coastal waters during the upwelling season Zanna Chase, Burke Hales, and Timothy Cowles College

Riverine input of macronutrients, iron, and organic matter to the coastal ocean off Oregon, U.S.A., during the winter

Creator:: Wetz, Michael S., Hales, Burke, Chase, Zanna, Wheeler, Patricia A., and Whitney, Michael M.
Abstract:: Three cross‐shelf transects were conducted off northern Oregon in February, 2003, coincident with flooding of Coast Range rivers, to assess the riverine impact on coastal ocean biogeochemistry. During downwelling conditions, low salinity river‐influenced water was located in a narrow band near the coast and contained elevated macronutrient, iron, and organic...
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Full Text:: Wetz, Michael S., Burke Hales, Zanna Chase, Patricia A. Wheeler

Particle size characterization of historic sediment deposition from a closed estuarine lagoon, Central California

Creator:: Watson, Elizabeth Burke, Pasternack, Gregory B., Gray, Andrew B., Goñi, Miguel, and Woolfolk, Andrea M.
Abstract:: Recent studies of estuarine sediment deposits have focused on grain size spectra as a tool to better understand depositional processes, in particular those associated with tidal inlet and basin dynamics. The key to accurate interpretation of lithostratigraphic sequences is establishing clear connections between morphodynamic changes and the resulting shifts in...
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Full Text:: sediment deposition from a closed estuarine lagoon, Central California Elizabeth Burke Watson a,*, Gregory

The Western Pacific barred knifejaw, Oplegnathus fasciatus (Temminck & Schlegel, 1844) (Pisces: Oplegnathidae), arriving with tsunami debris on the Pacific coast of North America

Creator:: Chapman, John W., Ta, Nicholas, Miller, Jessica A., Carlton, James T., Miller-Morgan, Timothy, Calvanese, Thomas, Pleus, Allen E., and Burke, James
Abstract:: The Western Pacific Ocean barred knifejaw Oplegnathus fasciatus was found from 2013 to 2015 along the Pacific Coast of North America from Washington to California. The knifejaw was found in derelict vessels that had arrived on the Pacific Coast and that had been lost during the March 2011 Great Japan...
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Full Text:: T. Carlton6,* 1California State University, Monterey Bay, Marina, California 93933, USA 2Department

A novel method for determination of aragonite saturation state on the continental shelf of central Oregon using multi-parameter relationships with hydrographic data

Creator:: Juranek, L. W., Freely, R. A., Peterson, W. T., Alin, S. R., Hales, Burke, Lee, K., Sabine, C. L., and Peterson, J.
Abstract:: We developed a multiple linear regression model to robustly determine aragonite saturation state (Ωarag) from observations of temperature and oxygen (R² = 0.987, RMS error 0.053), using data collected in the Pacific Northwest region in late May 2007. The seasonal evolution of Ωarag near central Oregon was evaluated by applying...
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Full Text:: hydrographic data L. W. Juranek,1 R. A. Feely,1 W. T. Peterson,2 S. R. Alin,1 B. Hales,3 K. Lee,4 C. L

The changing carbon cycle in the Southern Ocean

Creator:: Takahashi, Taro, Sweeney, Colm, Hales, Burke, Chipman, David W., Newberger, Timothy, Goddard, John G., Iannuzzi, Richard A., and Sutherland, Stewart C.
Abstract:: Various human activities, including fossil fuel combustion and forest clearing, emit about eight petagrams (or billion tons) of carbon in the form of CO2 into the atmosphere annually. The global ocean absorbs about two petagrams of CO2, and about a half of that amount is absorbed by the Southern Ocean...
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Full Text:: Takahashi, T., C. Sweeney, B. Hales, D.W. Chipman, T. Newberger, J.G. Goddard, R.A. Iannuzzi, and S.C

A developmental and energetic basis linking larval oyster shell formation to acidification sensitivity

Creator:: Waldbusser, George G., Brunner, Elizabeth L., Haley, Brian A., Hales, Burke, Langdon, Christopher J., and Prahl, Frederick G.
Abstract:: Acidified waters are impacting commercial oyster production in the U.S. Pacific Northwest, and favorable carbonate chemistry conditions are predicted to become less frequent. Within 48 h of fertilization, unshelled Pacific oyster (Crassostrea gigas) larvae precipitate roughly 90% of their body weight as calcium carbonate. We measured stable carbon isotopes in...
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Full Text:: Elizabeth L. Brunner,1 Brian A. Haley,1 Burke Hales,1 Christopher J. Langdon,2 and Frederick G. Prahl1

Development of a 10,000 Locus Genetic Map of the Sunflower Genome Based on Multiple Crosses

Creator:: Bowers, John E., Bachlava, Eleni, Brunick, Robert L., Rieseberg, Loren H., Knapp, Steven J., and Burke, John M.
Abstract:: Genetic linkage maps have the potential to facilitate the genetic dissection of complex traits and comparative analyses of genome structure, as well as molecular breeding efforts in species of agronomic importance. Until recently, the majority of such maps was based on relatively low-throughput marker technologies, which limited marker density across...
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Full Text:: L. Brunick,‡ Loren H. Rieseberg,§,** Steven J. Knapp,†,1 and John M. Burke*,2 *Department of Plant

How Can Present and Future Satellite Missions Support Scientific Studies that Address Ocean Acidification?

Creator:: Salisbury, Joseph, Vandemark, Douglas, Jönsson, Bror, Balch, William, Chakraborty, Sumit, Lohrenz, Steven, Chapron, Bertrand, Hales, Burke, Mannino, Antonio, Mathis, Jeremy T., Reul, Nicolas, Signorini, Sergio R., Wanninkhof, Rik, and Yates, Kimberly K.
Abstract:: Space-based observations offer unique capabilities for studying spatial and temporal dynamics of the upper ocean inorganic carbon cycle and, in turn, supporting research tied to ocean acidification (OA). Satellite sensors measuring sea surface temperature, color, salinity, wind, waves, currents, and sea level enable a fuller understanding of a range of...
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Full Text:: , William Balch, Sumit Chakraborty, Steven Lohrenz, Bertrand Chapron, Burke Hales, Antonio Mannino, Jeremy

Interpretation and design of ocean acidification experiments in upwelling systems in the context of carbonate chemistry co-variation with temperature and oxygen

Creator:: Reum, Jonathan C. P., Alin, Simone R., Harvey, Chris J., Bednaršek, Nina, Evans, Wiley, Feely, Richard A., Hales, Burke, Lucey, Noelle, Mathis, Jeremy T., McElhany, Paul, Newton, Jan, and Sabine, Christopher L.
Abstract:: Coastal upwelling regimes are some of the most productive ecosystems in the ocean but are also among the most vulnerable to ocean acidification (OA) due to naturally high background concentrations of CO₂. Yet our ability to predict how these ecosystems will respond to additional CO₂ resulting from anthropogenic emissions is...
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Th-234 applied to particle removal rates from the surface ocean: A mathematical treatment revisited

Creator:: Alleau, Y., Colbert, D., Covert, P., Haley, Brian A., Qiu, X., Collier, Robert W., Falkner, Kelly, Hales, Burke, Prahl, Fredrick, and Gordon, L.
Abstract:: It has been recognized since the 1950's that radioisotopic disequilibrium between naturally occurring parent-daughter isotope pairs in seawater can provide information on the rate of processes segregating them. In the surface ocean, the U-238:Th-234 parent-daughter pair tends to display measurable disequilibrium that is attributable to the effects of scavenging on...
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Full Text:: 0t -- .0-T-t-•T) and the total Th-234 activity ZTh is a simple sum of the dissolved and particulate

Water quality criteria for an acidifying ocean: Challenges and opportunities for improvement

Creator:: Weisberg, Stephen B., Bednaršek, Nina, Feely, Richard A., Chan, Francis, Boehm, Alexandria B., Sutula, Martha, Ruesink, Jennifer L., Hales, Burke, Largier, John L., and Newton, Jan A.
Abstract:: This is PMEL Contribution 4396. Acidification has sparked discussion about whether regulatory agencies should place coastal waters on the Clean Water Act 303(d) impaired water bodies list. Here we describe scientific challenges in assessing impairment with existing data, exploring use of both pH and biological criteria. Application of pH criteria...
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Full Text:: , Alexandria B. Boehm e, Martha Sutula a, Jennifer L. Ruesink f, Burke Hales g, John L. Largier h, Jan A

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...
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Full Text:: Acidification Has Multiple Modes of Action on Bivalve Larvae George G. Waldbusser1*, Burke Hales1, Chris J

Saturation-state sensitivity of marine bivalve larvae to ocean acidification

Creator:: Waldbusser, George G., Hales, Burke, Langdon, Chris J., Haley, Brian A., Schrader, Paul, Brunner, Elizabeth L., Gray, Matthew W., Miller, Cale A., and Gimenez, Iria
Abstract:: Ocean acidification results in co-varying inorganic carbon system variables. Of these, an explicit focus on pH and organismal acid-base regulation in has failed to distinguish the mechanism of failure in highly sensitive bivalve larvae. With unique chemical manipulations of seawater we show definitively that larval bivalve shell development and growth...
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Full Text:: : George G. Waldbusser1*, Burke Hales1, Chris J. Langdon2, Brian A. Haley1, Paul 7 Schrader2, Elizabeth L

Winter ichthyoplankton biomass as a predictor of early summer prey fields and survival of juvenile salmon in the northern California Current

Creator:: Daly, Elizabeth A., Auth, Toby D., Brodeur, Richard D., and Peterson, William T.
Abstract:: Diets of juvenile coho Oncorhynchus kisutch and Chinook O. tshawytscha salmon are made up primarily of winter-spawning fish taxa in the late-larval and early juvenile stages that are undersampled in plankton and larger trawl nets. Although we have no direct measure of the availability of fish prey important to juvenile...
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Full Text:: northern California Current Elizabeth A. Daly1,*, Toby D. Auth2, Richard D. Brodeur3, William T. Peterson3

Subsidies promote use of drought tolerant maize varieties despite variable yield performance under smallholder environments in Malawi

Creator:: Holden, Stein T. and Fisher, Monica
Abstract:: This study used a three-year panel dataset for 350 Malawian farm households to examine the potential for widespread adoption of drought tolerant (DT) maize varieties, a technology that holds considerable promise for helping smallholder farmers in Sub-Saharan Africa (SSA) adapt to drought risk. Regression results revealed that DT maize cultivation...
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Full Text:: smallholder environments in Malawi Stein T. Holden1 & Monica Fisher2 Received: 11 February 2015 /Accepted

Competing tradeoffs between increasing marine mammal predation and fisheries harvest of Chinook salmon

Creator:: Chasco, Brandon E., Kaplan, Isaac C., Thomas, Austen C., Acevedo-Gutiérrez, Alejandro, Noren, Dawn P., Ford, Michael J., Hanson, M. Bradley, Scordino, Jonathan J., Jeffries, Steven J., Marshall, Kristin N., Shelton, Andrew O., Matkin, Craig, Burke, Brian J., and Ward, Eric J.
Abstract:: Many marine mammal predators, particularly pinnipeds, have increased in abundance in recent decades, generating new challenges for balancing human uses with recovery goals via ecosystem-based management. We used a spatio-temporal bioenergetics model of the Northeast Pacific Ocean to quantify how predation by three species of pinnipeds and killer whales (Orcinus...
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Full Text:: northeast Pacific. Daily energy (EDp h j y t i a s, , , , , , , ; Eq. 1; kcal/day) obtained through

Competing tradeoffs between increasing marine mammal predation and fisheries harvest of Chinook salmon

Creator:: Acevedo-Gutiérrez, Alejandro, Chasco, Brandon E., Ward, Eric J., Ford, Michael J., Shelton, Andrew O., Thomas, Austen C., Burke, Brian J., Marshall, Kristin N., Matkin, Craig, Jeffries, Steven J., Noren, Dawn P., Kaplan, Isaac C., Scordino, Jonathan J., and Hanson, M. Bradley
Abstract:: Many marine mammal predators, particularly pinnipeds, have increased in abundance in recent decades, generating new challenges for balancing human uses with recovery goals via ecosystem-based management. We used a spatio-temporal bioenergetics model of the Northeast Pacific Ocean to quantify how predation by three species of pinnipeds and killer whales (Orcinus...
Resource Type:: Article
Full Text:: northeast Pacific. Daily energy (EDp h j y t i a s, , , , , , , ; Eq. 1; kcal/day) obtained through

Impacts of Coastal Acidification on the Pacific Northwest Shellfish Industry and Adaptation Strategies Implemented in Response

Creator:: Barton, Alan, Waldbusser, George G., Feely, Richard A., Weisberg, Stephen B., Newton, Jan A., Hales, Burke, Cudd, Sue, Eudeline, Benoit, Langdon, Chris J., Jefferds, Ian, King, Teri, Suhrbier, Andy, and McLaughlin, Karen
Abstract:: In 2007, the US west coast shellfish industry began to feel the effects of unprecedented levels of larval mortality in commercial hatcheries producing the Pacific oyster Crassostrea gigas. Subsequently, researchers at Whiskey Creek Shellfish Hatchery, working with academic and government scientists, showed a high correlation between aragonite saturation state (Ω[subscript]arag)...
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Full Text:: . Newton, Burke Hales, Sue Cudd, Benoit Eudeline, Chris J. Langdon, Ian Jefferds, Teri King, Andy

Lidar-derived canopy architecture predicts brown creeper occupancy of two western coniferous forests

Creator:: Vogeler, Jody C., Hudak, Andrew T., Vierling, Lee A., and Vierling, Kerri T.
Abstract:: In western conifer-dominated forests where the abundance of old-growth stands is decreasing, species such as the Brown Creeper (Certhia americana) may be useful as indicator species for monitoring the health of old-growth systems because they are strongly associated with habitat characteristics associated with old growth and are especially sensitive to...
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Full Text:: OCCUPANCY OF TWO WESTERN CONIFEROUS FORESTS JODY C. VOGELER1,4, ANDREW T. HUDAK2, LEE A. VIERLING3, AND

Understanding and overcoming risks to cooperation along transboundary rivers

Creator:: Subramanian, Ashok, Brown, Bridget, and Wolf, Aaron T.
Abstract:: This study reviews the experience of cooperation in five international river basins, focusing on the perceptions of risks and opportunities by country decision makers responding to a specific prospect of cooperation, and the effects of risk reduction and opportunity enhancement on the cooperation process. We explore the following five categories...
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Full Text:: rivers Subramanian, A., Brown, B., & Wolf, A. T. (2014). Understanding and overcoming risks to

Intra‐populational variation of ejaculate traits and sperm depletion in red‐sided garter snakes

Creator:: Friesen, Christopher R., Squire, Mattie K., and Mason, Robert T.
Abstract:: Female sexual promiscuity is a prevalent element of mating systems. One consequence of female sexual promiscuity is that male‐male competition often continues post‐copulation within the female’s reproductive tract. According to theory, the number of sperm a male inseminates relative to his rivals strongly predicts his fertilization success. However, sperm quality...
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Full Text:: integrated approach. Journal of Thermal 3 Biology 1: 153‐156. 4 Birkhead T, Martinez J, Burke T, Froman D

Spinal and Supraspinal Motor Control Predictors of Rate of Torque Development

Creator:: Johnson, Samuel T., Kipp, Kristof, Norcross, Marc F., and Hoffman, Mark A.
Abstract:: During explosive movements and potentially injurious situations the ability to rapidly generate torque is critical. Previous research has suggested different phases of rate of torque development (RTD) are differentiately controlled. However, the extent to which supraspinal and spinal mechanisms predict RTD at different time intervals is unknown. RTD of the...
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Full Text:: Spinal and Supraspinal Motor Control Predictors of Rate of Torque Development Samuel T Johnson1

Impact of Cultivation Legacies on Rehabilitation Seedings and Native Species Re-Establishment in Great Basin Shrublands

Creator:: Morris, L. R., Monaco, T. A., and Sheley, R. L.
Abstract:: Little is known about how cultivation legacies affect the outcome of rehabilitation seedings in the Great Basin, even though both frequently co-occur on the same lands. Similarly, there is little known about how these legacies affect native species re-establishment into these seedings. We examined these legacy effects by comparing areas...
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Full Text:: Rehabilitation Seedings and Native Species Re-Establishment in Great Basin Shrublands Morris, L. R., Monaco, T

Kinetic Prefactors of Reactions on Solid Surfaces

Creator:: Campbell, Charles T., Árnadóttir, Liney, and Sellers, Jason R. V.
Abstract:: Adsorbed molecules are involved in many reactions on solid surfaces that are of great technological importance. As such, there has been tremendous effort worldwide to learn how to theoretically predict rates for reactions involving adsorbed molecules. Theoretical calculations of rate constants require knowing both their activation energy and prefactor. Recent...
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Full Text:: Prefactors of Reactions on Solid Surfaces Campbell, C. T., Árnadóttir, L., & Sellers, J. R. (2013). Kinetic

Effects of elevated CO2 and temperature on seed quality

Creator:: Hampton, J. G., Boelt, B., Rolston, M. P., and Chastain, T. G.
Abstract:: Successful crop production depends initially on the availability of high-quality seed. By 2050 global climate change will have influenced crop yields, but will these changes affect seed quality? The present review examines the effects of elevated carbon dioxide (CO₂) and temperature during seed production on three seed quality components: seed...
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Full Text:: Effects of elevated CO2 and temperature on seed quality J. G. HAMPTON1*, B. BOELT2, M. P. ROLSTON3 AND T

H. pylori virulence factor CagA increases intestinal cell proliferation by Wnt pathway activation in a transgenic zebrafish model

Creator:: Neal, James T., Peterson, Tracy S., Kent, Michael L., and Guillemin, Karen
Abstract:: Infection with Helicobacter pylori is a major risk factor for the development of gastric cancer, and infection with strains carrying the virulence factor CagA significantly increases this risk. To investigate the mechanisms by which CagA promotes carcinogenesis, we generated transgenic zebrafish expressing CagA ubiquitously or in the anterior intestine. Transgenic...
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Full Text:: activation in a transgenic zebrafish model James T. Neal1,*, Tracy S. Peterson2,‡, Michael L. Kent2 and Karen

Forest Structure Affects Soil Mercury Losses in the Presence and Absence of Wildfire

Creator:: Homann, Peter S., Darbyshire, Robyn L., Bormann, Bernard T., and Morrissette, Brett A.
Abstract:: Soil is an important, dynamic component of regional and global mercury (Hg) cycles. This study evaluated how changes in forest soil Hg masses caused by atmospheric deposition and wildfire are affected by forest structure. Pre and postfire soil Hg measurements were made over two decades on replicate experimental units of...
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Full Text:: , 6074−6083. (17) Burke, M. P.; Hogue, T. S.; Ferreira, M.; Mendez, C. B.; Navarro, B.; Lopez, S.; Jay, J

Biological and physical ocean indicators predict the success of an invasive crab, Carcinus maenas, in the northern California Current

Creator:: Yamada, Sylvia Behrens, Peterson, William T., and Kosro, P. Michael
Abstract:: An introduced population of European green crabs Carcinus maenas was established in San Francisco Bay (California, USA) prior to 1989. Subsequently, their larvae were likely carried northward into the embayments of Oregon, Washington (USA), and British Columbia (Canada) by the unusually strong Davidson Current during the winter of the El...
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Full Text:: northern California Current Sylvia Behrens Yamada1,*, William T. Peterson2, P. Michael Kosro3

The impact of El Niño events on the pelagic food chain in the northern California Current

Creator:: Fisher, Jennifer L., Peterson, William T., and Rykaczewski, Ryan R.
Abstract:: The zooplankton of the northern California Current are typically characterized by an abundance of lipid-rich copepods that support rapid growth and survival of ecologically, commercially, and recreationally valued fish, birds, and mammals. Disruption of this food chain and reduced ecosystem productivity are often associated with climatic variability such as El...
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Full Text:: northern California Current Fisher, J. L., Peterson, W. T., & Rykaczewski, R. R. (2015). The impact of El

Marine environment-based forecasting of coho salmon (Oncorhynchus kisutch) adult recruitment

Creator:: Rupp, David E., Wainwright, Thomas C., Lawson, Peter W., and Peterson, William T.
Abstract:: Generalized additive models (GAMs) were used to investigate the relationships between annual recruitment of natural coho salmon (Oncorhynchus kisutch) from Oregon coastal rivers and indices of the physical ocean environment. Nine indices were examined, ranging from large-scale ocean indicators, e.g., Pacific Decadal Oscillation (PDO), to indicators of the local ecosystem...
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Full Text:: . LAWSON2 AND WILLIAM T. PETERSON2 1Cooperative Institute for Marine Resources Studies, Hatfield Marine

Risk-Benefit Analysis of Seafood Consumption: A Review

Creator:: Hellberg, Rosalee S., DeWitt, Christina A. Mireles, and Morrissey, Michael T.
Abstract:: Seafood, defined here as marine and freshwater fish and shellfish, is recognized as a healthy food choice because it is a low-fat protein source that provides long-chain omega-3 fatty acids important for early development along with eye and heart health. However, seafood is also known to contain certain contaminants, such...
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Full Text:: : A Review Rosalee S. Hellberg, Christina A. Mireles DeWitt, and Michael T. Morrissey Abstract

Effects of a commercial canine gonadotropin releasing hormone vaccine on estrus suppression and estrous behavior in mares

Creator:: Donovan, C. E., Hazzard, T., Schmidt, A., LeMieux, J., Hathaway, F., and Kutzler, M. A.
Abstract:: We investigated the effect of immunization against gonadotropin releasing hormone (GnRH) using a commercial canine GnRH vaccine on estrus suppression and unwanted estrous behavior in mares. In experiment 1, mares were immunized (n=6) twice with vaccine (5mL) given intramuscularly 4 weeks apart or received a control diluent (n=5). Transrectal ultrasonographic...
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Full Text:: suppression and estrous behavior in mares Author: C.E. Donovan T. Hazzard A. Schmidt J. LeMieux F. Hathaway

Early Childhood Teachers’ Relationships with Families When Children Experience Adversity

Creator:: Lewis, Hillary R., Lipscomb, Shannon T., Hatfield, Bridget E., Jäderholm, Christina M., and Tominey, Shauna L.
Abstract:: Quality relationships among families and teachers in early care and education (ECE) hold promise to nurture resilience among children impacted by adversity. However, little is known about how adverse childhood experiences (ACEs) may also affect the interactions between families and teachers. This study uses quantitative survey data from families (N...
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Full Text:: When Children Experience Adversity Hillary R. Lewisa lewishi@oregonstate.edu Shannon T

Influence of ocean ecosystem variation on trophic interactions and survival of juvenile coho and Chinook salmon

Creator:: Losee, James P., Miller, Jessica A., Peterson, William T., Teel, David J., and Jacobson, Kym C.
Abstract:: The community of trophically transmitted marine parasites of juvenile coho (Oncorhynchus kisutch) and Chinook (Oncorhynchus tshawytscha) salmon across 8 years (2002–2009) was related to indices of physical and biological ocean conditions and adult returns. When the biomass of lipid-poor, southern origin copepods in the coastal ocean was high during juvenile...
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Full Text:: ., Peterson, W. T., Teel, D. J., & Jacobson, K. C. (2014). Influence of ocean ecosystem variation on trophic

Overlap of North Pacific albatrosses with the U.S. west coastgroundfish and shrimp fisheries

Creator:: Guy, T. J., Jennings, S. L., Suryan, R. M., Melvin, E. F., Bellman, M. A., Ballance, L. T., Blackie, B. A., Croll, D. A., Deguchi, T., Geernaert, T. O., Henry, R. W., Hester, M., Hyrenbach, K. D., Jahncke, J., Kappes, M. A., Ozaki, K., Roletto, J., Sato, F., Sydeman, W. J., and Zamon, J. E.
Abstract:: We used a combination of seabird data (both fishery-dependent and fishery-independent) and fishing-effort data to evaluate the relative fisheries risk of five west coast groundfish fisheries and oneshrimp fishery to black-footed (Phoebastria nigripes), short-tailed (P. albatrus) and Laysan albatrosses(P. immutabilis). To assess risk, an overlap index was derived as the...
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Full Text:: U.S. west coast groundfish and shrimp fisheries O g T B K W a b c A d e f g h i j k l m

Finding Our Way through Phenotypes

Creator:: Deans, Andrew R., Lewis, Suzanna E., Huala, Eva, Anzaldo, Salvatore S., Ashburner, Michael, Balhoff, James P., Blackburn, David C., Blake, Judith A., Burleigh, J. Gordon, Chanet, Bruno, Cooper, Lauren D., Courtot, Mélanie, Csösz, Sándor, Cul, Hong, Dahdul, Wasila, Das, Sandip, Dececchi, T. Alexander, Dettal, Agnes, Diogo, Rui, Druzinsky, Robert E., Dumontier, Michel, Franz, Nico M., Friedrich, Frank, Gkoutos, George V., Haendel, Melissa, Harmon, Luke J., Hayamizu, Terry F., He, Yongqun, Hines, Heather M., Ibrahim, Nizar, Jackson, Laura M., Jaiswal, Pankaj, James-Zorn, Christina, Köhler, Sebastian, Lecointre, Guillaume, Lapp, Hilmar, Lawrence, Carolyn J., Le Novère, Nicolas, Lundberg, John G., Macklin, James, Mast, Austin R., Midford, Peter E., Mikó, István, Mungall, Christopher J., Oellrich, Anika, Osumi-Sutherland, David, Parkinson, Helen, Ramírez, Martín J., Richter, Stefan, Robinson, Peter N., Ruttenberg, Alan, Schulz, Katja S., Segerdell, Erik, Seltmann, Katja C., Sharkey, Michael J., Smith, Aaron D., Smith, Barry, Specht, Chelsea D., Squires, R. Burke, Thacker, Robert W., Thessen, Anne, Fernandez-Triana, Jose, Vihinen, Mauno, Vize, Peter D., Vogt, Lars, Wall, Christine E., Walls, Ramona L., Westerfeld, Monte, Wharton, Robert A., Wirkner, Christian S., Woolley, James B., Yoder, Matthew J., Zorn, Aaron M., and Mabee, Paula
Abstract:: Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human- and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bottleneck to integration across...
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Full Text:: Csösz14, Hong Cui15, Wasila Dahdul16, Sandip Das17, T. Alexander Dececchi16, Agnes Dettai11, Rui Diogo18

Environmental drivers and reproductive consequences of variation in the diet of a marine predator

Creator:: Gladics, Amanda J., Suryan, Robert M., Parrish, Julia K., Horton, Cheryl A., Daly, Elizabeth A., and Peterson, William T.
Abstract:: Ocean conditions can greatly impact lower trophic level prey assemblages in marine ecosystems, with effects of ocean state propagating to higher trophic levels. In many regions throughout their range, common murre (Uria aalge) exhibit narrow dietary breadth in feeding chicks and therefore are vulnerable to recruitment failures of dominant prey...
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Full Text:: ., Parrish, J. K., Horton, C. A., Daly, E. A., & Peterson, W. T. (2015). Environmental drivers and

Biogeographically distinct controls on C₃ and C₄ grass distributions: merging community and physiological ecology

Creator:: Griffith, Daniel M., Anderson, T. Michael, Osborne, Colin P., Strömberg, Caroline A. E., Forrestel, Elisabeth J., and Still, Christopher J.
Abstract:: AIM: C₄ photosynthesis is an adaptation that maintains efficient carbon assimilation in warm and low-CO₂ conditions. Due to the importance of C₄ grasses for carbon and surface energy fluxes numerous models have been proposed to describe their spatial distribution and forecast responses to climate change. These models often rely on...
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Full Text:: Griffith, D. M., Anderson, T. M., Osborne, C. P., Strömberg, C. A. E., Forrestel, E. J., & Still, C. J

Evaluation of the Ryegrass Stem Rust Model STEMRUST_G and Its Implementation as a Decision Aid

Creator:: Pfender, W. F., Coop, L. B., Seguin, S. G., Mellbye, M. E., Gingrich, G. A., and Silberstein, T. B.
Abstract:: STEMRUST_G, a simulation model for epidemics of stem rust in perennial ryegrass grown to maturity as a seed crop, was validated for use as a heuristic tool and as a decision aid for disease management with fungicides. Multistage validation had been used in model creation by incorporating previously validated submodels...
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Full Text:: ., Gingrich, G. A., & Silberstein, T. B. (2015). Evaluation of the ryegrass stem rust model STEMRUST_G and

Cyclic mechanical loading promotes bacterial penetration along composite restoration marginal gaps

Creator:: Khuostenko, D., Salehi, S., Naleway, S. E., Hilton, T. J., Ferracane, J. L., Mitchell, J. C., and Kruzic, J. J.
Abstract:: OBJECTIVES: Secondary caries is the most common reason for composite restoration replacement and usually forms between dentin and the filling. The objective of this study was to investigate the combined effect of cyclic loading and bacterial exposure on bacterial penetration into gaps at the interface between dentin and resin composite...
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Full Text:: ., Hilton, T. J., Ferracane, J. L., Mitchell, J. C., & Kruzic, J. J. (2015). Cyclic mechanical loading

Potential limitations of NRC in predicting energetic requirements of beef females within western U.S. grazing systems

Creator:: Petersen, M. K., Mueller, C. J., Mulliniks, J. T., Roberts, A. J., DelCurto, Tim, and Waterman, R. C.
Abstract:: Assessment of beef cow energy balance and efficiency in grazing-extensive rangelands has occurred on a nominal basis over short time intervals and has not accounted for the complexity of metabolic and digestive responses; behavioral adaptations to climatic, terrain, and vegetation variables; and documentation of the effects of nutrient form and...
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Full Text:: . T., Roberts, A. J., DelCurto, T., & Waterman, R. C. (2014). Potential limitations of NRC in

A SNP resource for Douglas-fir: de novo transcriptome assembly and SNP detection and validation

Creator:: Howe, Glenn T., Yu, Jianbin, Knaus, Brian, Cronn, Richard, Kolpak, Scott, Dolan, Peter, Lorenz, W. Walter, and Dean, Jeffrey F. D.
Abstract:: (0) Save to: more options A SNP resource for Douglas-fir: de novo transcriptome assembly and SNP detection and validation Author(s): Howe, GT (Howe, Glenn T.)[ 1 ] ; Yu, JB (Yu, Jianbin)[ 1 ] ; Knaus, B (Knaus, Brian)[ 2 ] ; Cronn, R (Cronn, Richard)[ 2 ] ; Kolpak,...
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Full Text:: assembly and SNP detection and validation Glenn T Howe1*, Jianbin Yu1,2, Brian Knaus3, Richard Cronn3

The need to breed crop varieties suitable for organic farming using wheat, tomato and broccoli as examples: A review

Creator:: Lammerts van Bueren, E. T., Jones, S. S., Tamm, L., Murphy, K. M., Myers, J. R., Leifert, C., and Messmer, M. M.
Abstract:: It is estimated that more than 95% of organic production is based on crop varieties that were bred for the conventional high-input sector. Recent studies have shown that such varieties lack important traits required under organic and low-input production conditions. This is primarily due to selection in conventional breeding programmes...
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Full Text:: address: edith.lammertsvanbueren@wur.nl (Edith Lammerts van Bueren) 20 21 22 A B S T R A C T 23

Surface Origin of High Conductivities in Undoped In2O3 Thin Films

Creator:: Lany, S., Zakutayev, A., Mason, T. O., Wager, J. F., Poeppelmeier, K. R., Perkins, J. D., Berry, J. J., Ginley, D. S., and Zunger, A.
Abstract:: The microscopic cause of conductivity in transparent conducting oxides like ZnO, In₂O₃, and SnO₂ is generally considered to be a point defect mechanism in the bulk, involving intrinsic lattice defects, extrinsic dopants, or unintentional impurities like hydrogen. We confirm here that the defect theory for O-vacancies can quantitatively account for...
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Full Text:: Thin Films S. Lany,1 A. Zakutayev,1 T. O. Mason,2 J. F. Wager,3 K. R. Poeppelmeier,2 J. D. Perkins,1

Reduction in carbon uptake during turn of the century drought in western North America

Creator:: Schwalm, Christopher R., Williams, Christopher A., Schaefer, Kevin, Baldocchi, Dennis D., Black, T. Andrew, Goldstein, Allen H., Law, Beverly E., Oechel, Walter C., Paw U, Kyaw Tha, and Scott, Russel L.
Abstract:: Fossil fuel emissions aside, temperate North America is a net sink of carbon dioxide at present¹⁻³. Year-to-year variations in this carbon sink are linked to variations in hydroclimate that affect net ecosystem productivity³,⁴. The severity and incidence of climatic extremes, including drought, have increased as a result of climate warming⁵⁻⁸....
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Full Text:: , T. Andrew Black6, Allen H. Goldstein4,5,7, Beverly E. Law8, Walter C. Oechel9,10, Kyaw Tha Paw U11

Functional Analysis of Three Arabidopsis ARGONAUTES Using Slicer-Defective Mutants

Creator:: Carbonell, Alberto, Fahlgren, Noah, Garcia-Ruiz, Hernan, Gilbert, Kerrigan B., Montgomery, Taiowa A., Nguyen, Tammy, Cuperus, Josh T., and Carrington, James C.
Abstract:: In RNA-directed silencing pathways, ternary complexes result from small RNA-guided ARGONAUTE (AGO) associating with target transcripts. Target transcripts are often silenced through direct cleavage (slicing), destabilization through slicer-independent turnover mechanisms, and translational repression. Here, wild-type and active-site defective forms of several Arabidopsis thaliana AGO proteins involved in posttranscriptional silencing were...
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Full Text:: Kerrigan B. Gilbert,a Taiowa A. Montgomery,b,1 Tammy Nguyen,b Josh T. Cuperus,b,2 and James C. Carringtona

The interactive effects of excess reactive nitrogen and climate change on aquatic ecosystems and water resources of the United States

Creator:: Baron, J. S., Hall, E. K., Nolan, B. T., Finlay, J. C., Bernhardt, E. S., Harrison, J. A., Chan, F., and Boyer, E. W.
Abstract:: Nearly all freshwaters and coastal zones of the US are degraded from inputs of excess reactive nitrogen (Nr), sources of which are runoff, atmospheric N deposition, and imported food and feed. Some major adverse effects include harmful algal blooms, hypoxia of fresh and coastal waters, ocean acidification, long-term harm to...
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Full Text:: . Hall • B. T. Nolan • J. C. Finlay • E. S. Bernhardt • J. A. Harrison • F. Chan • E. W. Boyer

Diffusion-free Grotthuss topochemistry for high-rate and long-life proton batteries

Creator:: Wu, Xianyong, Hong, Jessica J., Shin, Woochul, Ma, Lu, Liu, Tongchao, Bi, Xuanxuan, Yuan, Yifei, Qi, Yitong, Surta, T. Wesley, Huang, Wenxi, Neuefeind, Joerg, Wu, Tianpin, Greaney, P. Alex, Lu, Jun, and Ji, Xiulei
Abstract:: The design of Faradaic battery electrodes that exhibit high rate capability and long cycle life equivalent to those of the electrodes of electrical double-layer capacitors is a big challenge. Here we report a strategy to fill this performance gap using the concept of Grotthuss proton conduction, in which proton transfer...
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Full Text:: Bi3, Yifei Yuan 3, Yitong Qi1, T. Wesley Surta1, Wenxi Huang4, Joerg Neuefeind 5, Tianpin Wu2, P

Hypertension and low HDL cholesterol were associated with reduced kidney function across the age spectrum: a collaborative study

Creator:: Odden, Michelle C., Tager, Ira B., Gansevoort, Ron T., Bakker, Stephan J.L., Fried, Linda F., Newman, Anne B., Katz, Ronit, Satterfield, Suzanne, Harris, Tamara B., Sarnak, Mark J., Siscovick, David, and Shlipak, Michael G.
Abstract:: Purpose: To determine if the associations among established risk factors and reduced kidney function vary by age. Methods: We pooled cross-sectional data from 14,788 nondiabetics aged 40 to 100 years in 4 studies: Cardiovascular Health Study, Health, Aging, and Body Composition Study, Multi-Ethnic Study of Atherosclerosis, and Prevention of Renal...
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Full Text:: Michelle C. Odden PhD a,*, Ira B. Tager MD, MPHb, Ron T. Gansevoort MD, PhD c, Stephan J.L. Bakker MD, PhD

A comprehensive approach for habitat restoration in the Columbia Basin

Creator:: Rieman, Bruce E., Smith, Courtland L., Naiman, Robert J., Ruggerone, Gregory T., Wood, Christ C., Huntly, Nancy, Merril, Erik N., Alldredge, J. Richard, Bisson, Peter A., Congleton, James, Fausch, Kurt D., Levings, Colin, Pearcy, William, Scarnecchia, Dennis, and Smouse, Peter
Abstract:: The Columbia Basin once supported a diversity of native fishes and large runs of anadromous salmonids that sustained substantial fisheries and cultural values. Extensive land conversion, watershed disruptions, and subsequent fishery declines have led to one of the most ambitious restoration programs in the world. Progress has been made, but...
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Full Text:: , B. E., Smith, C. L., Naiman, R. J., Ruggerone, G. T., Wood, C. C., Huntly, N., ... & Smouse, P

Early Ocean Dispersal Patterns of Columbia River Chinook and Coho Salmon

Creator:: Fisher, J. P., Weitkamp, L. A., Teel, D. J., Hinton, S. A., Orsi, J. A., Farley, E. V., Jr., Morris, J. F. T., Thiess, M. E., Sweeting, R. M., and Trudel, M.
Abstract:: Several evolutionarily significant units (ESUs) of Columbia River basin Chinook Salmon Oncorhynchus tshawytscha and Coho Salmon O. kisutch are listed as threatened or endangered under the U.S. Endangered Species Act. Yet little is known about the spatial and temporal distributions of these ESUs immediately following ocean entry, when year-class success...
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Full Text:: Stevens Marine Research Institute, 17109 Point Lena Loop Road, Juneau, Alaska 99801, USA J. F. T. Morris

Kinetic Analysis of BCL11B Multisite Phosphorylation–Dephosphorylation and Coupled Sumoylation in Primary Thymocytes by Multiple Reaction Monitoring Mass Spectroscopy

Creator:: Vogel, Walter K., Gafken, Philip R., Leid, Mark, and Filtz, Theresa M.
Abstract:: Transcription factors with multiple post-translational modifications (PTMs) are not uncommon, but comprehensive information on site-specific dynamics and interdependence is comparatively rare. Assessing dynamic changes in the extent of PTMs has the potential to link multiple sites both to each other and to biological effects observable on the same time scale....
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Full Text:: . R., Leid, M., & Filtz, T. M. (2014). Kinetic Analysis of BCL11B Multisite Phosphorylation

Divergent life-history races do not represent Chinook salmon coast-wide: the importance of scale in Quaternary biogeography

Creator:: Moran, Paul, Teel, David J., Banks, Michael A., Beacham, Terry D., Bellinger, M. Renee, Blankenship, Scott M., Candy, John R., Garza, John Carlos, Hess, Jon E., Narum, Shawn R., Seeb, Lisa W., Templin, William D., Wallace, Colin G., and Smith, Christian T.
Abstract:: The dynamic Quaternary geology of the Pacific Ring of Fire created substantial challenges for biogeography. Fish life history and population genetic variation were shaped by climate change, repeated formation and subsidence of ice sheets, sea-level change, volcanism and tectonics, isostatic rebound, and now human activities. It is widely recognized in...
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Full Text:: G. Wallace, and Christian T. Smith Abstract: The dynamic Quaternary geology of the Pacific Ring of

Energy Frontier Research Center for Solid-State Lighting Science: Exploring New Materials Architectures and Light Emission Phenomena

Creator:: Coltrin, Michael E., Armstrong, Andrew M., Brener, Igal, Chow, Weng W., Crawford, Mary H., Fischer, Arthur J., Kelley, David F., Koleske, Daniel D., Lauhon, Lincoln J., Martin, James E., Nyman, May, Schubert, E. Fred, Shea-Rohwer, Lauren E., Subramania, Ganapathi, Tsao, Jeffrey Y., Wang, George T., Wierer, Jonathan J., Jr., and Wright, Jeremy B.
Abstract:: The Energy Frontier Research Center (EFRC) for Solid-State Lighting Science (SSLS) is one of 46 EFRCs initiated in 2009 to conduct basic and use-inspired research relevant to energy technologies. The overarching theme of the SSLS EFRC is the exploration of energy conversion in tailored photonic structures. In this article we...
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Full Text:: Subramania,† Jeffrey Y. Tsao,† George T. Wang,† Jonathan J. Wierer, Jr.,† and Jeremy B. Wright† †Sandia

River influences on shelf ecosystems: Introduction and synthesis

Creator:: Hickey, B. M., Kudela, R. M., Nash, Jonathan, Bruland, K. W., Peterson, W. T., MacCready, P., Lessard, E. J., Jay, D. A., Banas, N. S., Baptista, A. M., Dever, Edward P., Kosro, P. Michael, Kilcher, L. K., Homer-Devine, A. R., Zaron, E. D., McCabe, R. M., Peterson, J. O., Orton, P. M., Pan, J., and Lohan, M. C.
Abstract:: River Influences on Shelf Ecosystems (RISE) is the first comprehensive interdisciplinary study of the rates and dynamics governing the mixing of river and coastal waters in an eastern boundary current system, as well as the effects of the resultant plume on phytoplankton standing stocks, growth and grazing rates, and community...
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Full Text:: : Introduction and synthesis B. M. Hickey,1 R. M. Kudela,2 J. D. Nash,3 K. W. Bruland,2 W. T. Peterson,4 P

Regional Contingencies in the Relationship between Aboveground Biomass and Litter in the World’s Grasslands

Creator:: O’Halloran, Lydia R., Chu, Chengjin, Bakker, Jonathan D., Davies, Kendi F., Du, Guozhen, Firn, Jennifer, Hagenah, Nicole, Hofmockel, Kirsten S., Knops, Johannes M. H., Li, Wei, Melbourne, Brett A., Borer, Elizabeth T., Morgan, John W., Orrock, John L., Prober, Suzanne M., Stevens, Carly J., Seabloom, Eric W., MacDougall, Andrew S., Cleland, Elsa E., McCulley, Rebecca L., Hobbie, Sarah, Harpole, W. Stan, and DeCrappeo, Nicole M.
Abstract:: Based on regional-scale studies, aboveground production and litter decomposition are thought to positively covary, because they are driven by shared biotic and climatic factors. Until now we have been unable to test whether production and decomposition are generally coupled across climatically dissimilar regions, because we lacked replicated data collected within...
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Full Text:: between Aboveground Biomass and Litter in the World’s Grasslands Lydia R. O’Halloran1*, Elizabeth T

Linking structure to fragility in bulk metallic glass-forming liquids

Creator:: Wei, Shuai, Stolpe, Moritz, Gross, Oliver, Evenson, Zach, Gallino, Isabella, Hembree, William, Bednarcik, Jozef, Kruzic, Jamie J., and Busch, Ralf
Abstract:: Using in-situ synchrotron X-ray scattering, we show that the structural evolution of various bulk metallic glass-forming liquids can be quantitatively connected to their viscosity behavior in the supercooled liquid near T[subscript g]. The structural signature of fragility is identified as the temperature dependence of local dilatation on distinct key atomic...
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Full Text:: , 3728 (1969). 12G. N. Greaves, A. L. Greer, R. S. Lakes, and T. Rouxel, Nat. Mater. 10, 823 (2011). 13T

Yellow Nutsedge Control and Reduced Tuber Production with S-metolachlor, Halosulfuron plus Dicamba, and Glyphosate in Furrow Irrigated Corn

Creator:: Felix, Joel and Newberry, George
Abstract:: Yellow nutsedge is an important weed problem in the furrow irrigated fields in the Treasure Valley of eastern Oregon and southwestern Idaho. Field studies were conducted in 2008 and 2009 to evaluate the effect of PPI S-metolachlor or EPTC followed by POST halosulfuron and dicamba plus glyphosate or glyphosate alone...
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Full Text:: yield of 8.2 T ha-1 compared to 6.6 T ha-1 with sequential glyphosate alone. There was a correlation

Ecological Change on California’s Channel Islands from the Pleistocene to the Anthropocene

Creator:: Rick, Torben C., Sillett, T. Scott, Ghalambor, Cameron K., Hofman, Courtney A., Ralls, Katherine, Anderson, R. Scott, Boser, Christina L., Braje, Todd J., Cayan, Daniel R., Chesser, R. Terry, Collins, Paul W., Erlandson, Jon M., Faulkner, Kate R., Fleischer, Robert, Funk, W. Chris, Galipeau, Russell, Huston, Ann, King, Julie, Laughrin, Lyndal, Maldonado, Jesus, McEachern, Kathryn, Muhs, Daniel R., Newsome, Seth D., Reeder-Myers, Leslie, Still, Christopher, and Morrison, Scott A.
Abstract:: Historical ecology is becoming an important focus in conservation biology and offers a promising tool to help guide ecosystem management. Here, we integrate data from multiple disciplines to illuminate the past, present, and future of biodiversity on California’s Channel Islands, an archipelago that has undergone a wide range of land-use...
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Full Text:: the Anthropocene Rick, T. C., Sillett, T. S., Ghalambor, C. K., Hofman, C. A., Ralls, K., Anderson, R

Kinetic characterization of the soluble butane monooxygenase from Thauera butanivorans, formerly ‘Pseudomonas butanovora’

Creator:: Cooley, Richard B., Dubbels, Bradley L., Sayavedra-Soto, Luis A., Bottomley, Peter J., and Arp, Daniel J.
Abstract:: Soluble butane monooxygenase (sBMO), a three-component di-iron monooxygenase complex expressed by the C2–C9 alkane-utilizing bacterium Thauera butanivorans, was kinetically characterized by measuring substrate specificities for C1–C5 alkanes and product inhibition profiles. sBMO has high sequence homology with soluble methane monooxygenase (sMMO) and shares a similar substrate range, including gaseous and...
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Full Text:: specific for physiologically relevant substrates of T. butanivorans. Methanol, the product of methane

Segmentation of the Blanco Transform Fault Zone from earthquake analysis: Complex tectonics of an oceanic transform fault

Creator:: Braunmiller, Jochen and Nábělek, John
Abstract:: The Blanco Transform Fault Zone (BTFZ) forms the ~350 km long Pacific–Juan de Fuca plate boundary between the Gorda and Juan de Fuca ridges. Nearby broadband seismic networks provide a unique framework for a detailed, long-term seismotectonic study of an entire oceanic transform fault (OTF) system. We use regional waveforms...
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Full Text:: parallel normal faulting T axes. Spreading is currently tectonic; 9 km deep earthquakes indicate a deep

New Venture Teams: A Review of the Literature and Roadmap for Future Research

Creator:: Klotz, Anthony C., Hmieleski, Keith M., Bradley, Bret H., and Busenitz, Lowell W.
Abstract:: As entrepreneurship research has matured, scholars have increasingly recognized that the formation of new ventures is commonly accomplished by teams as opposed to lone entrepreneurs. Over the past two decades, the upper echelons perspective has served as the primary lens for investigating new venture team functioning and performance. However, researchers...
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Full Text:: , Greer, & Jehn, 2012) such as task complexity (Jehn, 1995), psychological safety climate (Bradley et al

Transkingdom network reveals bacterial players associated with cervical cancer gene expression program

Creator:: Lam, Khiem Chi, Vyshenska, Dariia, Hu, Jialu, Rodrigues, Richard Rosario, Nilsen, Anja, Zielke, Ryszard A., Brown, Nicholas Samuel, Aarnes, Eva-Katrine, Sikora, Aleksandra E., Shulzhenko, Natalia, Lyng, Heidi, and Morgun, Andrey
Abstract:: Cervical cancer is the fourth most common cancer in women worldwide with human papillomavirus (HPV) being the main cause the disease. Chromosomal amplifications have been identified as a source of upregulation for cervical cancer driver genes but cannot fully explain increased expression of immune genes in invasive carcinoma. Insight into...
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Full Text:: ; Fujimura & Lynch, 2015; Geng et al., 2013; Greer et al., 2016; Hosgood et al., 2014; Knights, Lassen

Remodeling of skeletal muscle mitochondrial proteome with high-fat diet involves greater changes to beta-oxidation than electron transfer proteins in mice

Creator:: Dasari, Surendra, Newsom, Sean A., Ehrlicher, Sarah E., Stierwalt, Harrison D., and Robinson, Matthew M.
Abstract:: Excess fat intake can increase lipid oxidation and expression of mitochondrial proteins, indicating remodeling of the mitochondrial proteome. Yet intermediates of lipid oxidation also accumulate, indicating a relative insufficiency to completely oxidize lipids. We investigated remodeling of the mitochondrial proteome to determine mechanisms of changes in lipid oxidation following high-fat...
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Full Text:: , and 1 g/l bovine serum albumin). Statistics. Unpaired t-tests were used to compare univariate data

Comparison of fixatives and fixation time for PCR detection of Mycobacterium in zebrafish Danio rerio

Creator:: Peterson, Tracy S., Kent, Michael L., Ferguson, Jayde A., Watral, Virginia G., and Whipps, Christopher M.
Abstract:: Mycobacteriosis is a common disease of laboratory zebrafish Danio rerio. Different infection patterns occur in zebrafish depending on mycobacterial species. Mycobacterium marinum and M. haemophilum produce virulent infections associated with high mortality, whereas M. chelonae is more widespread and is not associated with high mortality. Identification of mycobacterial infections to...
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Full Text:: DNA from tissues (Tokuda et al. 1990, Greer et al. 1991). Fixative formulations, especially those

Characterization of fatigue-induced free volume changes in bulk metallic glass using positron annihilation spectroscopy

Creator:: Vallery, R. S., Liu, M., Gidley, D. W., Launey, M. E., and Kruzic, J. J.
Abstract:: Depth-profiled Doppler broadening spectroscopy of positron annihilation on the cyclic fatigue-induced fracture surfaces of three amorphous Zr₄₄Ti₁₁Ni₁₀Cu₁₀Be₂₅ metallic glass specimens reveals the presence of a 30–50 nm layer of increased free volume that is generated by the propagating fatigue crack tip. The presence and character of this fatigue transformation zone...
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Full Text:: Zr44Ti11Ni10Cu10Be25 compact tension C!T" specimens !2.2 mm thick". In addition, positron annihi- lation lifetime

Total synthesis of the marine toxin phorboxazole A using palladium(II)-mediated intramolecular alkoxycarbonylation for tetrahydropyran synthesis

Creator:: Kuntiyong, Punlop, Lee, Tae Hee, Kranemann, Christian L., and White, James D.
Abstract:: The potent antitumor agent phorboxazole A was synthesized from six subunits comprising C1-C2 (115), C3-C8 (98), C9-C19 (74), C20-C32 (52), C33-C41 (84) and C42-C46 (85). Tetrahydropyrans B and C containing cis-2,6-disubstitution were fabricated via palladium(II)-mediated intramolecular alkoxycarbonylation which, in the case of tetrahydropyran C, was carried out with catalytic palladium(II)...
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Full Text:: , -78 oC Et2O, 69% 38 39 41 O N OR , t-BuOK, n-BuLi, THF (+)-(Ipc)2BOMe, THF

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