A sequence of volcanic, volcaniclastic, and epiclastic deposits from Oligocene to Recent age are exposed in the region from Lake
Simtustus to Madras in central Oregon. The epiclastic sediments of the Oligocene John Day Formation are unconformably overlain by two flows of the middle Miocene Columbia River Basalt Group. The...
Full Text:
TO MADRAS
IN CENTRAL OREGON
by
JeremyBarthJay
A THESIS
submitted to
Oregon State University
A sequence of volcanic, volcaniclastic, and epiclastic deposits from Oligocene to Recent age are exposed in the region from Lake
Simtustus to Madras in central Oregon. The epiclastic sediments of the Oligocene John Day Formation are unconformably overlain by two flows of the middle Miocene Columbia River Basalt Group. The...
A sequence of volcanic, volcaniclastic, and epiclastic deposits from Oligocene to Recent age are exposed in the region from Lake
Simtustus to Madras in central Oregon. The epiclastic sediments of the Oligocene John Day Formation are unconformably overlain by two flows of the middle Miocene Columbia River Basalt Group. The...
In the summer of 2007, a biophysical experiment was conducted to identify physical processes that determine the delivery of invertebrate larvae and juvenile rockfish to rocky intertidal and kelp forest communities in northern Monterey Bay, California. The experiment was sponsored by the Partnership for Interdisciplinary
Studies of Coastal Oceans (PISCO)...
To date, the use of oceanographic data in fisheries management has been limited by the scarcity and the difficulty of accessing complete oceanographic datasets. Consequently, fish stocks are managed with limited knowledge about the habitat where fish live and incomplete understanding of what oceanographic conditions affect their populations. With the...
Freshwater provided from river discharge influences the dynamics and circulation of most continental shelves around the world. It has profound effects on the transport and fate of materials and substances originated from rivers and estuaries, as well as on the ocean biogeochemistry and marine ecosystems. The effect of buoyancy forcing...
Recruitment of larvae from the plankton is an important determinant of
community structure in marine systems. In populations of many marine species,
recruitment determines the basic demographic parameters of immigration, emigration,
and reproduction. Moreover, the effect of recruitment as an "ecological subsidy" can
determine the strength of interactions among species...
As part of an experiment to study wind-driven coastal circulation, 17 hydrographic
surveys of the middle to inner shelf region off the coast of Newport, OR (44.65°N, from
roughly the 90 m isobath to the 10 m isobath) were performed during Summer 1999
with a small, towed, undulating vehicle. The...
Drifters released offshore of Oregon during predominantly downwelling favorable alongshore winds during three different deployments (October 1994, January 1998, and September 1998) display similar behavior: after being advected around in the offshore eddy field, they move onshore to a particular isobath and are advected poleward alongshore, without coming ashore. Numerical...
The goal of dissertation research was to use geochemical, statistical and geological methods to constrain and understand climate variability over several different time scales. Specifically, I have addressed three questions regarding past climate change: (1) how does the record of Irish cirque glaciers constrain the dimensions of the Irish Ice...
Oregon Fishermen in Ocean Observing Research (OrFIOOR) is a cooperative research program between ocean scientists and fishermen in the Pacific Northwest. Dungeness crab fishermen attach sensor packages (temperature and dissolved oxygen) to crab pots. The pots serve as platforms of opportunity for ocean observing. This study examines three principle questions...
Ocean Acidification (OA) has emerged as a major threat to marine ecosystems, particularly regarding calcifying organisms. A growing body of literature describing laboratory investigations into pH stress indicates broadly deleterious effects for calcifiers, but responses vary greatly across taxa and can be influenced by variations in other environmental characteristics. Scaling...
High early strength concrete (HESC) allows for faster construction with less impact on traffic, thus reducing the indirect costs associated with a project. There are multiple methods for achieving early strength, such as alternative cements like calcium sulfoaluminate (CSA) or chemically accelerated portland cements. The standard criteria for an HESC...
Reinforcement learning has emerged as a popular tool for solving control tasks, with multiple works focusing on the complex and dynamic task of locomotion. However, the naive application of reinforcement learning to this problem often produces maladaptive policies that exploit the model or reward function. This results in behavior that...
Bird and bat mortalities caused by interactions with wind turbines is a critical concern that requires addressing for conservation purposes. Deploying a low cost sensor array will be instrumental during site permitting, conducting impact assessments of existing wind farms, and assessing efficacy of wildlife mortality mitigation or wildlife deterrent technologies....
This dissertation explores one overarching question relevant to the
paleoclimate of the latest Pleistocene glacial cycle (approximately the last
130,000 years): “How did spatial and temporal evolution of ocean
temperature, both at the surface and interior, relate to other parts of the
climate system in the late Pleistocene?” Results from...
Elevated groundwater nitrate (NO3
-) concentrations in the Southern Willamette
Valley (SWV) caused the Oregon Department of Environmental Quality (ODEQ) to
declare a Groundwater Management Area (GWMA) in Spring, 2004. To better
understand direction of groundwater flow, groundwater age, and nitrate transport
pathways of the SWV we developed a steady-state...
This dissertation presents the results of statistical analyses of large climate datasets from two time intervals – the 20th century instrumental record and the proxy record of the last deglaciation – in order to understand the forcings and mechanisms of past climate variability.
A longstanding question in climate dynamics concerns...
A carefully calibrated primitive-equation model from 41°N to 48°N is used to study the poleward undercurrent off the US west coast. Chapter 2 describes poleward flow over the slope from Eulerian and Lagrangian perspectives. The model is robust, in the sense of several characteristics being qualitatively consistent with observational and...
Large burrowing owl (Aihene cunicularia) populations exist in areas of intensive agriculture in California, and pesticide exposure has been identified as a potential threat to population persistence. I evaluated breeding season use of agricultural fields by adult male owls using radio telemetry, and examined egg contaminant residues to estimate population-level...
This thesis presents the results of a formal evaluation of a new AOGCM, GENMOM, demonstrating its ability to simulate present-day climate and ENSO dynamics. The model is applied to simulate climate for the Last Glacial Maximum, deglacial, and Holocene time periods. The model output is evaluated against the best available...
Conservation is, among other things, the expression of a relationship between humans and nonhuman nature. This relationship can be described empirically using the methods of social science, but it can also be prescribed in the form of philosophical arguments. Scholars in the field of environmental ethics have discussed and debated...
During Spring and Summer 1999, as part of the Oregon State University National Oceanographic Partnership Program (OSU-NOPP) field program, 20 successful hydrographic surveys were undertaken on the Oregon mid- to inner shelf, all near Yaquina Bay. These consisted of 17 cross-shelf sections along the Newport Hydrographic line ( extending approximately...
Robotic Bipedal locomotion holds the potential for efficient, robust traversal of difficult terrain. The difficulty lies in the dynamics of locomotion which complicate control and motion planning. Bipedal locomotion dynamics are dimensionally large problems, extremely nonlinear, and operate on the limits of actuator capabilities, which limit the performance of generic...
The Columbia River delivers the greatest amount of freshwater to the coastal ocean along the U.S. Pacific coast. This freshwater forms the Columbia River plume, a mesoscale plume with significant implications on coastal ocean physical, biological, chemical, and geological processes. The plume is transported south and offshore during the upwelling...
The effects of wind forcing on coastal ocean circulation are studied using a
numerical modeling approach. The first region of interest is on the North Carolina
shelf, where the Coastal Ocean Processes (CoOP) Inner Shelf Study (ISS) took place
during August - November 1994. ISS observations are used to initialize,...
During fall/winter off the Oregon coast, oceanographic surveys are relatively scarce because of rough
weather conditions. This challenge has been overcome by the use of autonomous underwater gliders deployed
along the Newport hydrographic line (NH-Line) nearly continuously since 2006. The discharge from the
coastal rivers between northern California and the...
Knowledge of nutrient pathways and their resulting ecological interactions can alleviate numerous environmental problems associated with nutrient increases in both natural and managed systems. Although not unique, coastal systems are particularly prone to complex ecological interactions resulting from nutrient inputs from both the land and sea. Nutrient inputs to coastal...
The filamentous fungus Neurospora crassa responds to light in complex ways. To thoroughly study the transcriptional response of this organism to light, RNA-seq was used to analyze capped and polyadenylated mRNA prepared from mycelium grown for 24 hr in the dark and then exposed to light for 0 (control) 15,...
Changes in ocean conditions influenced by climatic fluctuations have lead to changes in individual species distributions, which alter the diversity, communities and species interactions across marine ecosystems worldwide. Assessing the species composition and identifying regions and habitats that can safeguard the persistence of biota are critically important. In this dissertation,...
Currently, forecasts produced by the Oregon-Washington (OR-WA) Coastal Ocean Forecast System are constrained by assimilation of only surface observations. The 4-dimensional variational (4DVAR) data assimilation (DA) algorithm is utilized to combine the model and the data, with the time-independent forecast ("background'') error covariance B. In this study, two possible improvements...
The accumulation of fuels in fire prone landscapes, and changing climatic conditions, have resulted in increasingly volatile fire behaviors. As a result, social and operational risk, management expenditures, and budgetary requirements for responsible agencies are increasing. The United States Forest Service (USFS) manages 193 million acres across the United States...
This study addresses the occurrence, severity, and extent of hypoxia over the continental shelf of the northern
California Current (40–48.5°N latitude) from 1998 to 2012. Clear seasonal trends exist in the timing and duration
of hypoxia. The highest bottom-water dissolved oxygen concentrations occurred from November to March, and
levels below...
In late spring of 2010, the northern California Current (NCC) experienced a transition from El Niño to La Niña conditions resulting in anomalous distributions and concentrations within the ichthyoplankton community. We analyzed larval fish data collected during the four months before and after this transition and compared them to data...
The synchrony between coastal and shelf-slope copepod communities was investigated in the northern California Current (NCC) system, a strong upwelling zone, using time series of zooplankton sampled from a nearshore station (9 km offshore, water depth 62 m) and a shelf-slope station (46 km offshore, water depth 297 m). Long-term...
This project was carried out collaboratively by Oregon State University (OSU) and the Oregon Department of Geology and Mineral Industries (DOGAMI) and involved baseline observations and
modeling at the proposed wave energy conversion (WEC) array site near Reedsport, OR. In particular, observations and predictions of the wave conditions at the...
Full Text:
-Haller, J.C. Allan, J.A. Barth, M.C. Haller,
R.A. Holman, and P. Ruggiero
This project was
This project was carried out collaboratively by Oregon State University (OSU) and the Oregon Department of Geology and Mineral Industries (DOGAMI) and involved baseline observations and
modeling at the proposed wave energy conversion (WEC) array site near Reedsport, OR. In particular, observations and predictions of the wave conditions at the...
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graduate students Erica
Harris, Jeremy Mull and Heather Baron. The survey consisted of 45 cross-shore
From mid-May to August 2011, extreme runoff in the Columbia River ranged from 14,000 to over 17,000 m³/s, more than two standard deviations above the mean for this period. The extreme runoff was the direct result of both melting of anomalously high snowpack and rainfall associated with the 2010–2011 La Niña....
We inferred the population densities of blue whales (Balaenoptera musculus) and short-beaked
common dolphins (Delphinus delphis) in the Northeast Pacific Ocean as functions
of the water-column’s physical structure by implementing hierarchical models in a Bayesian
framework. This approach allowed us to propagate the uncertainty of the field observations
into the...
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Beier2, Diane Gendron4, Karin A. Forney3,
Susan J. Chivers3, Jay Barlow3, Daniel M. Palacios5
1 Posgrado
Large rivers represent gateways for the transport of
terrigenous and anthropogenic material to the coastal ocean.
Here we document a ∼700 km2 recirculation or bulge associated
with the Columbia River plume that retains recently discharged
river water sufficiently to create a regional bioreactor.
Fueled by a fluvial nitrate source, this...
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...
Full Text:
. Harvey1, Nina Bednaršek2, Wiley Evans2,3,
Richard A. Feely2, Burke Hales4, Noelle Lucey5, Jeremy T
Consistent with its charge under Oregon House Bill 3543, the Oregon Climate Change Research Institute (OCCRI) conducts a biennial assessment of the state of climate change science, including biological, physical, and social science, as it relates to Oregon and the likely effects of climate change on Oregon. This fifth Oregon...
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...
The state of the California Current System (CCS)
since spring 2011 has evolved in response to dissipation
of La Niña through spring and summer, resurgence of
cooler La Niña conditions in fall and winter, and finally
a transition towards ENSO-neutral conditions in spring
2012. The resurgence of La Niña was...
The past three years have underscored the importance of quality digital library resources and services. Oregon Digital (https://oregondigital.org), the shared digital collections repository for the University of Oregon and Oregon State University, launched a new platform in February 2023. This poster will showcase the development and migration work that the...
Coastal hypoxia, or low oxygen episodes pose a threat to marine resources in the Pacific Northwest. Previous research into nearshore oxygen dynamics have linked coastal upwelling to this seasonally occurring phenomenon, however the manifestation of hypoxic waters over coastal fishing grounds was not well understood. Through a partnership with Dungeness...
The high productivity of Eastern Boundary Upwelling Ecosystems (EBUE), some of the most productive ecosystems in the globe, is attributed to the nutrient rich waters brought up through upwelling. Climate change scenarios for coastal upwelling systems, predict an intensification of coastal upwelling winds. Associated with intensification in upwelling are biogeochemical...
A pair of hydrographic sections, one north and one south of Cape Blanco at 42.9N, was sampled in five summers (1998–2000 and 2002–2003). The NH line at 44.6N lies about 130 km south of the Columbia River, and spans a relatively wide shelf off Newport, Oregon. The CR line at...
Realistic hindcast of the Columbia River estuarine-plume-shelf circulation in summer
2004 using the Regional Ocean Modeling System nested within the Navy Coastal Ocean
Model (NCOM) is quantitatively evaluated with an extensive set of observations. The
model has about equal skill at tidal and subtidal properties. Tidal circulation and water
properties...
Marine sediment core OC1706B-02J ( 46° 15.4178 N, 125° 42.4543 W, at water depth 2263m), was collected on the lower continental slope near the base of the Willapa Canyon. It is a rapidly accumulating site (~30cm/kyr) located near the thrust front of the Cascadia Subduction Zone. The site is also...
I researched depictions of dragons in several works of modern literature to conceptualize what a dragon looks like and how they generally function in popular media. From there, I researched several key characteristics of dragons to see how they work with science’s current understanding. I looked into size and scaling,...
Freshwater discharge from large rivers into the coastal ocean creates tidally-driven frontal systems
known to enhance mixing, primary production, and secondary production. Many authors suggest that
tidal plume fronts increase energy flow to fish-eating predators by attracting planktivorous fishes to feed
on plankton aggregated by the fronts. However, few studies...
The commercial groundfish fishing industry and groundfish research have a long concurrent history of activity on the Oregon continental margin. Within the non-whiting groundfish fishery, the target species are primarily flatfishes, sablefish, lingcod, and rockfishes, though landings of each have fluctuated over time. Recent work shows that over the past...
Three stations, at similar to ~80 m water depth on the Oregon shelf between 44.7 degrees N and 43.9 N, were studied under hypoxic conditions in late spring and summer of 2009 to determine benthic oxygen consumption rates. Oxygen fluxes were derived from eddy correlation (EC) measurements made from an...
Three stations, at ∼80 m water depth on the Oregon shelf between 44.7°N and 43.9 N, were studied under hypoxic conditions in late spring and summer of 2009 to determine benthic oxygen consumption rates. Oxygen fluxes were derived from eddy correlation (EC) measurements made from an autonomous lander deployed for...
Most climate change predictions focus on the response of individual species to changing local conditions and ignore species interactions, largely due to the lack of a sound theoretical foundation for how interactions are expected to change with climate and how to incorporate them into climate change models. Much of the...
The growth of foster care, particularly kin foster care has greatly outpaced our knowledge. The purpose of this exploratory qualitative study was to develop a more informed understanding of foster family functioning from the perspective of foster parents. This study examined the experiences of 9 kin and 12 nonkin foster...
Significant seabird mortality on the Oregon (OR) and Washington (WA) coast in 2009 has been attributed
to a massive bloom of the dinoflagellate Akashiwo sanguinea (K. Hirasaka) G. Hansen & Ø. Moestrup.
Initial, albeit limited, observations suggested this bloom began in WA and reached OR waters through
southward transport. Here,...
Concentrations of domoic acid (DA) above the regulatory limit in Washington coast razor clams are usually higher on northern beaches from summer to fall. Recent field studies have confirmed that the primary source of toxic Pseudo-nitzschia (PN) cells in those seasons is a semi-retentive topographically trapped seasonal eddy located offshore...
During the summer of 2016, Oregon State University conducted preliminary excavations of the hospital at Fort Yamhill, Oregon (35PO75). Fort Yamhill (1856-1866), has long been a focus of OSU’s field schools, offering glimpses into garrison life through the eyes of the officers and the enlisted men. However, up until recently,...
Harmful algal blooms (HABs) are a problem for coastal communities, the fishing industry, and coastal organisms. Pseudo-nitzschia spp. is a regularly occurring diatom in Oregon’s coastal waters. At times, Pseudo-nitzschia spp. can facultatively produce domoic acid, a neurotoxin that can bioaccumulate in the food chain. While regular shore-based sampling provides...
Phytoplankton species were enumerated from 72 samples collected biweekly during the upwelling season (May to August) of 2001−2010 to test for effects of interannual variations in upwelling and decadal basin-scale variability on phytoplankton species composition and community structure. Cluster analysis of phytoplankton community structure identified 7 groups; 1 group was...
This research focused on population dynamics of two gelatinous zooplankters (Aequorea & Pyrosoma atlanticum) in the northern California Current to assess their relationship to environmental conditions and role in the pelagic ecosystem. Data collected since 1999 showed seasonal and interannual fluctuations in the abundance and distribution of Aequorea in the...
Riverine plumes in nearshore coastal waters are areas of enhanced production and accumulation of prey and may increase availability of food during a critical period of juvenile salmon survival and hence serve as a nursery area for these juveniles. Physical and biological sampling was conducted along a cross-shelf transect through...
The results presented in this dissertation address a number of questions regarding late Pleistocene and Holocene ice-sheet and climate interactions, spanning disciplines involving paleoclimatology and atmospheric science. These studies use various techniques in geochemistry, climate modeling, and ice-sheet modeling to address ice- sheet response to climate and the attendant interactions...
Dislodged macroalgae and seagrasses, also known as marine wrack, frequently wash into coastal ecosystems from the ocean and are potentially important ecological resources for biological communities. These!nutrient and organic matter subsidies may be especially important on sandy beaches, where little in situ primary productivity exists for higher trophic levels. To...
The influence of the physical environment on organisms has long been a subject of ecological research. But, the complex drivers of environmental variation, and the multiple scales at which this can occur, make studying this topic a difficult challenge. In rocky intertidal habitats, oceanographic- and climate-scale variability influence benthic communities...
The tidally varying circulation, stratification, and salt flux mechanisms are
investigated in a shallow salt wedge estuary where fluvial and tidal velocities are large and
the steady baroclinic circulation is comparatively weak. The study integrates field
observations and numerical simulations of the Merrimack River estuary. At moderate to
high discharge...
The intermittent upwelling hypothesis (IUH) predicts that the strength of
ecological subsidies, organismal growth responses, and species interactions will vary
unimodally along a gradient of upwelling from persistent downwelling to persistent upwelling,
with maximal levels at an intermediate or ‘‘intermittent’’ state of upwelling. To test this model,
we employed the...
Carbon dioxide (CO₂) fluxes between the ocean and atmosphere on continental margins are difficult to diagnose because these regions experience large variability over spatial and temporal scales spanning meters to basins and hours to years, respectively. In a global sense, continental margins could represent a significant atmospheric CO₂ sink, equivalent...
Alongshore transport was estimated from the gridded AVISO altimeter data and water level data from NOAA tide gauges (1993–2010) for the northern California Current (NCC) system. The biomass of the cold neritic copepods including Calanus marshallae, Pseudocalanus mimus and Acartia longiremis (dominants in the eastern Bering Sea, coastal Gulf of...
Two bloom-detection products were developed for the Oregon coast that describe the relative percent change observed between successive pairs of 8-day chlorophyll-a (CHL) and fluorescence line-height (FLH) products obtained from the MODerate Resolution Imaging Spectroradiometer aboard the Aqua spacecraft (MODIS-Aqua). The CHL[subscript dev] and FLH[subscript dev] products, respectively, were optimized...
The purpose of this thesis is to analyze an abrupt case of climate change in the past as a means to understand the mechanisms that force climate change. By looking to past analogs of climate change, we hopefully will gain an understanding of these events, which could be used to...
Low-tech habitat restoration techniques, including Stage 0 treatments, are increasingly applied but often lack robust evaluation of their effects. In 2018, one kilometer of the South Fork McKenzie (SFMK) River, OR was modified to the Stage 0 condition for the benefit of ESA-listed Chinook by raising the incised channel to...
Copper and iron are essential micronutrients that are required by marine primary producers for a variety of metabolic processes. Over 99% of both copper and iron are bound within organic complexes in the marine environment, however the molecular identity of many of these complexes remains unknown. The speciation of these...
Physical exchange between estuarine and continental shelf waters impacts flushing dynamics of the estuary and determines rates of ocean inputs of nutrients and plankton. To investigate the occurrence and propagation of shelf water intrusions into the Narragansett Bay estuary, we collected velocity data near the estuarine–shelf interface during three summer...
Early ocean residence is considered a critical period for juvenile salmon although specific survival mechanisms are often unidentified and may vary by species or life stage. Columbia River spring-run Chinook salmon Oncorhynchus tshawytscha abundance has declined dramatically since the early 1900s. To elucidate mechanisms of early marine survival, we tested...
While bubble plumes have been acoustically imaged in the water column above marine gas
hydrate deposits in many studies, little is known about the temporal variation in plume intensity. In
July 2008, we conducted surveys using 3.5 and 12 kHz echosounders and a 75 kHz acoustic Doppler
current profiler (ADCP)...
In 1976-77 and 2010, Oregon State University (OSU) excavated portions of the enlisted men’s barracks and privy at Fort Hoskins, a Civil War-era fort. In operation from 1856 to 1865, this fort served as part of a security network to protect and monitor the recently created Coast Indian Reservation. The...
Most marine fishes experience high rates of mortality during their early life history stages with far reaching consequences for adult population dynamics. Within a few weeks of hatching, relatively small changes in larval growth and mortality rates can lead to orders of magnitude variability in year-class strength. Growth and survival...