Index Catalog // ScholarsArchive@OSU

What influences the worldwide genetic structure of sperm whales (Physeter macrocephalus)?

Creator:: Alexander, Alana, Steel, Debbie, Hoekzema, Kendra, Mesnick, Sarah L., Engelhaupt, Daniel, Kerr, Iain, Payne, Roger, and Baker, C. Scott
Abstract:: The interplay of natural selection and genetic drift, influenced by geographic isolation, mating systems and population size, determines patterns of genetic diversity within species. The sperm whale provides an interesting example of a long-lived species with few geographic barriers to dispersal. Worldwide mtDNA diversity is relatively low, but highly structured...
Resource Type:: Article

The response to forced decompression in six species of Pacific rockfish

Creator:: Pribyl, Alena L., Kent, Michael L., Parker, Steven J., and Schreck, Carl B.
Abstract:: Pacific rockfish experience high discard mortality when captured owing to a condition called barotrauma,which is caused by the change in pressure during capture. This condition appears to be species specific at the macroscopic level; however, little is known about the microscopic tissue-level effects of barotrauma. Determining whether tissue-level injuries are...
Resource Type:: Article

The Genetics of Larval Fitness in the Pacific Oyster: Responses to Acidified Seawater and Temporally Dynamic Selection Processes

Creator:: Durland, Evan R.
Abstract:: The Pacific Oyster (Crassostrea gigas) is one of the most economically and ecologically significant shellfish species worldwide. In the Pacific Northwest United States (PNW), the sustainability oyster stocks is increasingly threatened by ocean acidification (OA), which has had significant negative effects on the aquaculture industry in this region over the...
Resource Type:: Dissertation

Submersible observations of deep-reef fishes of Heceta Bank, Oregon

Creator:: Pearcy, William G., Stein, David L., Hixon, Mark Anthony, Pikitch, Ellen K., Barss, William H., and Starr, Richard M.
Abstract:: Rockfishes, Sebastes spp.. were the most numerous and speciose fishes seen during 16 submersible dives from 64 to 305 m depth in the vicinity of Heceta Bank off the coast of Oregon. Dense schools of juvenile rockfishes and large yellowtail rockfish, S. flavidus, were observed only over rocky, high relief...
Resource Type:: Article

Skin Deep: An Assessment of New Zealand Blue Whale Skin Condition

Creator:: Barlow, Dawn R., Pepper, Acacia L., and Torres, Leigh G.
Abstract:: Skin condition assessment of wildlife can provide insight into individual and population health. Yet, logistics can limit skin condition assessment of large whales. We developed a standardized, quantitative protocol using photographs to assess skin condition of blue whales in New Zealand, and demonstrate the value gained by testing hypotheses, documenting...
Resource Type:: Article

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

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

Sex identification PCR–RFLP assay tested in eight species of Sebastes rockfish

Creator:: Vaux, Felix, Aycock, Hannah M., Bohn, Sandra, Rasmuson, Leif K., and O'Malley, Kathleen G.
Abstract:: The phenotypic identification of sex in Sebastes rockfish is difficult and often impractical from a management perspective, and the genetic basis of sex determination in the genus is currently uncertain. We tested a previously developed sex identifi- cation polymerase chain reaction restriction fragment length polymorphism (PCR–RFLP) assay in eight species...
Resource Type:: Article

Seasonal distribution and environmental associations among late larval and juvenile rockfish (Sebastes spp.) off Oregon and Washington: new insights based on genetics

Creator:: Johansson, Mattias L., Litz, Marisa N. C., Brodeur, Richard D., Britt, Tristan A., Vanegas, Camilo A., Hyde, John R., and Banks, Michael A.
Abstract:: Cytochrome B sequence data (FASTA format) from the paper “Seasonal distribution and environmental associations among late larval and juvenile rockfish (Sebastes spp.) off Oregon and Washington: new insights based on genetics”. The data was generated from a sample of 2534 unknown, field collected late-larval and juvenile rockfishes from the Pacific...
Resource Type:: Dataset

Post-Breeding Season Migrations of a Top Predator, the Harbor Seal (Phoca vitulina richardii), from a Marine Protected Area in Alaska

Creator:: Womble, Jamie N. and Gende, Scott M.
Abstract:: Marine protected areas (MPAs) are increasingly being used as a conservation tool for highly mobile marine vertebrates and the focus is typically on protecting breeding areas where individuals are aggregated seasonally. Yet movements during the non-breeding season can overlap with threats that may be equally as important to population dynamics....
Resource Type:: Article

Population Differentiation in two Northeastern Pacific Marine Species

Creator:: Curran, Lorne Sullivan
Abstract:: Population genetic techniques are now preeminent in differentiating wild populations. Natural resource managers rely on them in their efforts to restore viable populations of fish and wildlife. Overfishing adversely impacted Yelloweye Rockfish (Sebastes ruberrimus) on the U.S. West Coast in the late 20th century. Management actions included shutting down the...
Resource Type:: Masters Thesis

Physiological and behavioral response to intra-abdominal transmitter implantation in Steller sea lions

Creator:: Mellish, Jo-Ann, Thornton, Jamie, and Horning, Markus
Abstract:: The absence of a direct, long-term measure of individual Steller sea lion survival led to the development of implanted, delayed transmission satellite tags specifically for this species (Life History Transmitter, LHX). To assess possible effects of implant procedures and LHX tags, we undertook a two-stage approach to monitor: 1) immediate...
Resource Type:: Article

Long Term Trends and Sources of Sound in United States Waters

Creator:: Haver, Samara M.
Abstract:: Passive acoustic monitoring is a valuable tool for observing the status of marine environments. Comparisons of underwater soundscapes over temporal and spatial scales can provide data to inform marine conservation efforts, including protection of threatened and endangered species. This dissertation utilizes passive acoustic data collected via a broadly spaced array...
Resource Type:: Dissertation

Larval development in the Pacific oyster and the impacts of ocean acidification : differential genetic effects in wild and domesticated stocks

Creator:: Durland, Evan, Pierre De Wit,, Meyer, Eli, and Langdon, Chris
Abstract:: The adaptive capacity of marine calcifiers to ocean acidification (OA) is a topic of great interest to evolutionary biologists and ecologists. Previous studies have provided evidence to suggest that larval resilience to high pCO2 seawater for these species is a trait with a genetic basis and variability in natural populations....
Resource Type:: Article

Identification of Burrowing Shrimp Food Sources Along an Estuarine Gradient Using Fatty Acid Analysis and Stable Isotope Ratios

Creator:: Bosley, Katelyn M., Copeman, Louise A., Dumbauld, Brett R., and Bosley, Keith L.
Abstract:: Two species of burrowing shrimp occur in high densities in US West Coast estuaries, the ghost shrimp, Neotrypaea californiensis, and the blue mud shrimp, Upogebia pugettensis. Both species of shrimp are considered ecosystem engineers as they bioturbate and irrigate extensive galleries within the sediment. While their burrows comprise a dominant...
Resource Type:: Article

Genetic Connectivity of the Dungeness Crab (Cancer magister) Across Oceanographic Regimes

Creator:: Roegner, G. Curtis, Corbett, Kelly, Beacham, Terry D., Jacobson, Dave P., Jackson, Tyler M., and O'Malley, Kathleen G.
Abstract:: Limited approaches exist for studying population connectivity in widely dispersing marine benthic invertebrates. Genetic techniques can provide important insights toward identifying recruitment trajectories. Here, 10 microsatellite loci were used to examine connectivity among Oregon Dungeness crabs (Cancer magister, Dana, 1852) in the California Current System (CCS) (n = 801) as...
Resource Type:: Article

Fishery-specific solutions to seabird bycatch in the U.S. West Coast sablefish fishery

Creator:: Good, Thomas P., Jannot, Jason E., Melvin, Edward F., Gladics, Amanda J., Suryan, Robert M., and Guy, Troy J.
Abstract:: Bird scaring lines (BSLs) protect longline fishing gear from seabird attacks, save bait, reduce incidental seabird mortality and are the most commonly prescribed seabird bycatch mitigation measure worldwide. We collaborated with fishermen to assess the efficacy of applying BSL regulations from the demersal longline sablefish fishery in Alaska to a...
Resource Type:: Article

Evidence for interannual variation in genetic structure of Dungeness crab (Cancer magister) along the California Current System

Creator:: Jackson, Tyler M., Roegner, G. Curtis, and O'Malley, Kathleen G.
Abstract:: Using a combination of population‐ and individual‐based analytical approaches, we provide a comprehensive examination of genetic connectivity of Dungeness crab (Cancer magister) along ~1,200 km of the California Current System (CCS). We sampled individuals at 33 sites in 2012 to establish a baseline of genetic diversity and hierarchal population genetic...
Resource Type:: Article

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

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

Dataset used for “The early life stages of California yellowtail (Seriola dorsalis) and white seabass (Atractoscion nobilis) respond to food particle taste more than smell.”

Creator:: Hawkyard, Matt, Langdon, Chris, Stuart, Kevin, and Drawbridge, Mark
Abstract:: This dataset was produced as a result of experiments conducted with simple and alginate complex particles that were used to evaluate feeding in California yellowtail and white seabass post larvae. Retention data was collected from a series of retention trials whereby particles were suspended in seawater for various lengths of...
Resource Type:: Dataset

Comparing genetic connectivity among Dungeness crab (Cancer magister) inhabiting Puget Sound and coastal Washington

Creator:: Jackson, Tyler M. and O’Malley, Kathleen G.
Abstract:: Understanding connectivity of marine organisms is necessary for determining the appropriate scale of conservation and management strategies. For species that inhabit both the coastal ocean and partially enclosed water bodies (i.e., estuaries or fjords), this information is even more critical since estuaries and fjords are often characterized by hydrological complexities...
Resource Type:: Article

Classification of Animal Movement Behavior through Residence in Space and Time

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

Circumpolar Diversity and Geographic Differentiation of mtDNA in the Critically Endangered Antarctic Blue Whale (Balaenoptera musculus intermedia)

Creator:: Sremba, Angela L., Hancock-Hanser, Brittany, Branch, Trevor A., LeDuc, Rick L., and Baker, C. Scott
Abstract:: The Antarctic blue whale (Balaenoptera musculus intermedia) was hunted to near extinction between 1904 and 1972, declining from an estimated initial abundance of more than 250,000 to fewer than 400. Here, we describe mtDNA control region diversity and geographic differentiation in the surviving population of the Antarctic blue whale, using...
Resource Type:: Article

Characterizing neutral and adaptive genomic differentiation in a changing climate: The most northerly freshwater fish as a model

Creator:: O'Malley, Kathleen G., Vaux, Felix, and Black, Andrew N.
Abstract:: Arctic freshwater ecosystems have been profoundly affected by climate change. Given that the Arctic charr (Salvelinus alpinus) is often the only fish species inhabiting these ecosystems, it represents a valuable model for studying the impacts of climate change on species life‐history diversity and adaptability. Using a genotyping‐by‐se‐ quencing approach, we...
Resource Type:: Article

Characterization of the physiological stress response in lingcod

Creator:: Milston, Ruth H., Davis, Michael W., Parker, Steven J., Olla, Bori L., Clements, Shaun, and Schreck, Carl B.
Abstract:: The goal of this study was to describe the duration and magnitude of the physiological stress response in lingcod Ophiodon elongatus after exposure to brief handling and sublethal air stressors. The response to these stressors was determined during a 24‐h recovery period by measuring concentrations of plasma cortisol, lactate, glucose,...
Resource Type:: Article

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

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

Bacteriophages Significantly Reduce Mortality of Larval Pacific Oysters Crassostrea gigas from Infection by the Pathogenic Bacterium Vibrio coralliilyticus RE98

Creator:: Madison, David B.
Abstract:: Vibrio coralliilyticus (Vcor) is a bacterial pathogen that is well adapted to shellfish hatcheries and is very pathogenic to the larvae of the Pacific oyster Crassostrea gigas. Vcor has been associated with several large scale larval mortality events in the Pacific Northwest that interrupt the supply of seed oysters available...
Resource Type:: Masters Thesis

Automated techniques for measuring meal size in great albatrosses

Creator:: Sugishita, Junichi, McKenzie, Murray, Torres, Leigh G., and Seddon, Philip J.
Abstract:: Periodic weighing of seabird chicks is labour-intensive and repeated handling can cause high levels of disturbance to chicks. Although automatic weighing systems using a fibreglass nest have been designed for albatross species with a pedestal nest made of mud, this approach is inappropriate for great albatross species (genus Diomedea) whose...
Resource Type:: Article

Applications of slow-moving autonomous platforms for passive acoustic monitoring and density estimation of marine mammals

Creator:: Fregosi, Selene
Abstract:: Advances in mobile autonomous vehicles for oceanographic sensing provide new opportunities for passive acoustic monitoring of marine mammals. Acoustically equipped mobile autonomous platforms, including gliders, deep-water profiling floats, and drifting surface buoys can survey for a variety of marine mammal species over intermediate spatiotemporal scales. Additionally, such mobile platforms may...
Resource Type:: Dissertation

An Investigation into the Distribution, Residency Patterns, Population Connectivity, and Abundance of Blue Whales (Balaenoptera musculus) in New Zealand

Creator:: Barlow, Dawn R.
Abstract:: Species conservation depends on robust population assessment. Data on population abundance, distribution, and connectivity are critical for effective management, especially as baseline information for newly documented populations. I describe a pygmy blue whale (Balaenoptera musculus brevicauda) population in New Zealand waters with year-round presence that overlaps with industrial activities. This...
Resource Type:: Masters Thesis

Accounting for Transient Dynamics Improves use of Marine Protected Areas as a Reference Point for Fisheries Management

Creator:: Quennessen, Victoria I.
Abstract:: Fisheries management that is based on quantitative assessment has commonly relied on estimating the unfished biomass of a fished stock to compare current and historical population size. Developing predictive models for this requires many years of catch and abundance data. Smaller, new, or mainly recreational fisheries may not have the...
Resource Type:: Masters Thesis

Abundance, movements, and feeding habits of harbor seals, Phoca vitulina, at Netarts and Tillamook Bays, Oregon

Creator:: Brown, Robin F. and Mate, Bruce R.
Abstract:: Patterns of seasonal abundance of harbor seals at Netarts and Tillamook Bays, Oregon, were documented by recording numbers of seals hauling out on tidally exposed sand flats in both bays. Harbor seal abundance at Tillamook Bay peaked during pupping (May-June) and molting (August) periods, while peak abundance at Netarts Bay...
Resource Type:: Article

A latitudinal cline in the Chinook salmon (Oncorhynchus tshawytscha) Clock gene: evidence for selection on PolyQ length variants

Creator:: O'Malley, Kathleen G. and Banks, Michael A.
Abstract:: A critical seasonal event for anadromous Chinook salmon (Oncorhynchus tshawytscha) is the time at which adults migrate from the ocean to breed in freshwater. We investigated whether allelic variation at the circadian rhythm genes, OtsClock1a and OtsClock1b, underlies genetic control of migration timing among 42 populations in North America. We...
Resource Type:: Article

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