@mastersthesis {83177, title = {Are They What They Eat? A Stable GIT Microbiome Characterized in P. resecata}, year = {2020}, note = {{\textquotedblleft}Intertidal herbivores, such as isopods, help regulate and contribute to nutrient cycling and organic carbon flow through the trophic levels in estuaries and coastal ecosystems. Though much is known about the microbiomes of macrophyte leaves that serve as the primary food source for isopods, and (to a lesser extent) the microbiomes of herbivores themselves, little has been studied about the community assembly dynamics of herbivore microbial communities{\textquotedblright} (from the Abstract). This Honors Bachelor of Science thesis describes a project to better understand the microbiomes associated with these isopods. Isopods were gathered from Netarts Bay, while the intertidal vegetation they fed on was gathered at Yaquina Bay. The isopods were fed diets limited to one plant species and then their gastrointestinal microbes were genetically sequenced to determine if the microbiomes changed due to diet. They did not, which supports work indicating that marine isopods have stable gastrointestinal tract microbiomes}, month = {2020}, pages = {39}, school = {Oregon State University}, type = {Bachelors Thesis (Honors)}, edition = {Honors Baccalaureate of Science}, chapter = {Department of Biochemistry \& Biophysics. Biochemistry and Molecular Biology Program}, address = {Corvallis, Or.}, keywords = {diet, eelgrass = Zostera marina, Eelgrass isopod = Pentidotea resecata, Gastrointestinal, genetics, Microbes, Netarts Bay, Sea lettuce = Ulva lactuca, Sugar kelp = Laminaria saccharina, Yaquina Bay}, url = {https://ir.library.oregonstate.edu/concern/honors_college_theses/47429h530 }, author = {Gustafson, Tarah N.} } @article {82161, title = {Environmental controls of oyster-pathogenic Vibrio spp. In Oregon estuaries and a shellfish hatchery}, journal = {Applied and Environmental Microbiology}, volume = {84 }, year = {2018}, note = {Vibrio species present huge problems for oyster hatcheries. They can cause foodborne illnesses, and some species kill shellfish. This article gives the result of a study of the presence of Vibrios in Netarts Bay, Yaquina Bay and the Whiskey Creek Shellfish Hatchery in Netarts Bay. Efforts to reduce Vibrio species at the hatchery are described. These efforts met with success with many species, but not with regard to Vibrio coralliilyticus, a pathogen that kills larval oysters. Conditions in Netarts Bay that may favor this particular species are described. This is an open-access article.}, month = {2018, May}, pages = {e02156-17, 16 p}, keywords = {aquaculture, bacteria, genetics, Hatfield Marine Science Center, molecular biology, Netarts Bay, Vibrio = Vibrio coralliilyticus, Vibrio spp., Whiskey Creek Shellfish Hatchery, Yaquina Bay}, doi = {10.1128/AEM.02156-17}, url = {https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5930336/ }, author = {Gradoville, Mary R. and Crump, Byron C. and Hase, Claudia C. and White, Angelicque E.} } @article {82856, title = {Genetic by environment interactions for harvest traits of the Pacific oyster Crassostrea gigas (Thunberg) across different environments on the West Coast, USA}, journal = {Journal of Shellfish Research}, volume = {37}, number = {1}, year = {2018}, note = {Oyster growers in the Pacific Northwest operate under a wide range of environmental conditions, from the sedate waters of Puget Sound to the dynamic coastal seas. How can Pacific oysters be bred to increase yields in such different conditions? This article describes a study of oysters grown in nine different test localities, describes the test results and outlines a strategy for increasing yield while maintaining genetic diversity.}, month = {2018, Apr.}, pages = {p.49-61}, keywords = {aquaculture, aquatic invertebrates, bivalves, Dabob Bay (Wa.), genetics, hypoxia, Molluscan Broodstock Program, molluscs, Netarts Bay, ocean acidification, Oyster Bay (Wa.), Pacific oyster = Crassostrea gigas, salinity, Sequim Bay (Wa.), Thorndyke Bay (Wa.), Totten Inlet (Wa.), Westcott Bay (Wa.), Willapa Bay (Wa.), Yaquina Bay}, doi = {https://doi.org/10.2983/035.037.0104 }, author = {RodriguesDeMelo, Claudio Manoel and Morvezen, Romain and Durland, Evan and Langdon, Christopher J.} } @article {54926, title = {Evaluating the Population Genetic Structure of Dungeness Crab (Cancer magister) off the Oregon Coast}, year = {2014}, note = {{\textquotedblleft}The goal of this study was to evaluate the genetic diversity and population genetic structure of Dungeness crab off the Oregon coast and provide baseline data that could be used to help inform decisions on marine spatial planning. From a conservation and management standpoint, it is critical to determine the population genetic structure and genetic diversity within subpopulations to ensure the long term viability of a species.{\textquotedblright} (p.4-5) There are clear and helpful explanations of the concepts and issues involved in this study. Nicely done.}, pages = {20 p.}, institution = {Oregon Wave Energy Trust,}, address = {Portland, Or.}, keywords = {Astoria, Brookings, Coos Bay, Dungeness crab = Metacarcinus magister (Cancer magister), Garibaldi, general, genetics, Newport (Or.), population biology, Port Orford}, url = {https://ir.library.oregonstate.edu/concern/technical_reports/w0892g295}, author = {O{\textquoteright}Malley, Kathleen and Roegner, Curtis and Oregon. Wave Energy Trust, and Oregon. Dungeness Crab Commission,} } @article {13721, title = {Improvement of disease resistance and understanding of summer mortality in Pacific oyster Crassostrea gigas}, volume = {23}, number = {1}, year = {2004}, note = {Abstract only. Discusses summer mortalities of Pacific oysters and points to genetics as a major factor. "During the 2002 to 2003 growing season, . . . farmers in Carlsbad, CA, Netarts Bay, OR, and Willapa Bay and south Puget Sound, Washington reported up to a 50\% loss of market-ready oysters occurring over a brief 2 to 3 week span."}, month = {2004}, pages = {284-285}, abstract = {Pacific oyster (Crassostrea gigas) summer mortalities are a recurring problem in the United States, Japan, France, and Mexico. During the 2002 to 2003 growing season, for example, farmers in Carlsbad, CA, Netarts Bay, OR, and Willapa Bay and south Puget Sound, Washington reported up to a 50\% loss of market-ready oysters occurring over a brief 2 to 3 week span. Research findings indicate genetic pedigree, ploidy, culture practice, and prior exposure to environmental stress have varying influences on the expression of the summer mortality disease in Pacific oysters. Key facets of research to date include (1) the ability of oysters to survive episodes of summer mortality is in part genetically determined and perhaps can be enhanced through selective breeding of families showing high survival traits. Pedigreed lines of oysters with different genetic histories, produced by the Oregon State University Molluscan Broodstock Program (MBP), displayed markedly differential survival, yields, and growth rates during episodes of summer mortality at project study locations in California and Washington. There is a strong and consistent genetic response of families to environmental stress that is independent of when the families were produced and planted. In addition, prior inconsistent mortalities occurring across large culture plots can, at least in part, be explained by differential genetic backgrounds of the oyster crops. (2) Triploid and diploid oysters appear to have different optimal environments and definition of their respective requirements and response is essential for maximizing their survival and productivity. Field experiments and grower observations have demonstrated sporadic high triploid mortalities and wide variation in survival compared with diploid oysters planted at the same locations. Overall, triploid oysters grown at Puget Sound test sites in 2000 to 2002 experienced a cumulative mortality of 8\%-28\% above the mortality rates of diploid oysters planted in comparable plots.}, keywords = {bivalves, genetics, human use and impacts, molluscs, mortality, Netarts Bay, Pacific oyster = Crassostrea gigas, shellfish}, doi = {org/10.2983/035.030.0310}, author = {Cheney, D. and Burnett, L. and Christy, A. and Davis, J. and Elston, R. and Friedman, C. and Griffin, F. and Langdon, C. and Suhrbier, A.} } @book {36746, title = {Status review of coastal cutthroat trout from Washington, Oregon, and California}, series = {NOAA Technical Memorandum NMFS-NWFSC}, year = {1999}, note = {The Biological Review Team concluded that coastal stocks of cutthroat trout were not presently at risk of extinction. Appendix 1-A gives the known history of hatchery releases in streams and lakes.}, month = {1999}, publisher = {Northwest Fisheries Science Center}, organization = {Northwest Fisheries Science Center}, address = {[Seattle, Wash.]}, keywords = {Alsea Fish Hatchery, Alsea River, Chetco River, Coos Bay, Coos River, Coquille River, cutthroat trout = Oncorhynchus clarki, Devils Lake, endangered species, environmental policy and law, general ecosystem description, genetics, hatcheries, history, Kilchis River, life history information, Miami River, Millicoma River, natural resource management, Necanicum River, Nehalem River, Nestucca River, population biology, population count, Rogue River, Salmon River, salmonid species, Sand Creek, Siltcoos Lake, Siuslaw River, Smith River, statistics, Tahkenitch Lake, Tenmile Creek, Tillamook River, Trask River, Umpqua River, Wilson River, Yachats River, Yaquina River}, url = {https://repository.library.noaa.gov/view/noaa/3066}, author = {Johnson, Orlay W. and Ruckelshaus, Mary H. and Grant, W. Stewart and Waknitz, F. William and Garrett, Ann M. and Bryant, Gregory J. and Neely, Kathleen and Hard, Jeffrey J. and Northwest Fisheries Science Center (U.S.),} } @article {13926, title = {Status review of chum salmon from Washington, Oregon, and California}, volume = {no.32}, year = {1997}, note = {While the Oregon Coast population of chum salmon was severely depressed, Washington stocks were doing well enough for the "Pacific Coast Evolutionarily Significant Unit" to not be considered endangered. "The primary cause of the depressed status of Oregon coastal populations appears to be habitat degradation." (p.212)}, pages = {280 p.}, institution = {U.S. Dept. of Commerce, National Oceanic and Atmospheric Administration, National Marine Fisheries Service}, address = {[Seattle, Wash.]}, keywords = {chum salmon = Oncorhynchus keta, Clear Creek (Kilchis), endangered species, environmental policy and law, general ecosystem description, genetics, hatcheries, history, Kilchis River, life history information, Little North Fork, Moss Creek (Kilchis), natural resource management, Necanicum River, Nestucca Bay, Netarts Bay, population biology, population count, salmonid species, Siletz Bay, statistics, Tillamook Bay, Wilson River}, url = {https://repository.library.noaa.gov/view/noaa/3029}, author = {Johnson, Orlay W. and Grant, W. Stewart and Kope, Robert G. and Neely, Kathleen and Waknitz, F. William and Waples, Robin S.} } @mastersthesis {14976, title = {Genetics of the Pacific Oyster; Biological and Economic Implications}, year = {1973}, note = {Larval oysters reared in Yaquina Bay were cultured at Netarts Bay. Oysters were reared in trays. Netarts Bay, however, is not the subject of this dissertation: the heritability of traits and suggestions and cautions for improving oyster breeding are the subjects.}, month = {1973}, pages = {104 p}, school = {Oregon State University,}, type = {Doctoral dissertation}, edition = {Ph. D.}, chapter = {Dept. of Fisheries and Wildlife, Fisheries Science}, address = {Corvallis, Or.}, abstract = { Variance among individuals within populations are influenced by environmental and genetic factors. Utilizing quantitative genetic theory, environmental and genetic components of variance have been compartmented for a variety of quantitative characters of the Pacific oyster, Crassostrea gigas. A significant genetic component of variance in a quantitative attribute related to reproductive fitness implies that selection is being effected upon the system. In the present investigation, the variance of larval survival has been subjected to a genetic evaluation. A statistically significant genetic component of variance has been observed. It is concluded that under the conditions observed, genetic selection is inherent in hatchery operations directed toward the management of this species. The genetic implications of these selective practices are discussed in the text of this thesis. It is suggested that this method for the genetic evaluation of hatchery practices is applicableto other aquatic animals which are propagated in hatcheries. The genetic and environmental components of variance have been estimated for several other economically significant attributes of C. gigas. In every case, a significant genetic component of vanance was observed. Further compartmenting of the genetic variance into additive and non-additive genetic components revealed that a large non-additive component was present in every case observed. This is interpreted as being a consequence of introducing a wild animal into a selective, quasi-domestic culture situation. It is considered likely that after several generations of hatchery culture, selection plateaus will be attained and additive genetic variance will increase relative to other variance components. Based upon these observations, a method for selective breeding of oysters has been proposed. It is suggested that progeny testing is the breeding method best suited for the early stages of selective breeding with oysters and probably for aquaculture in general. Preliminary tests of this method suggest that significant economic gains may be realized through selective breeding of the Pacific oyster.}, keywords = {aquaculture, genetics, Pacific oyster = Crassostrea gigas, shellfish, theses}, url = {https://ir.library.oregonstate.edu/concern/graduate_thesis_or_dissertations/q811kn84d}, author = {Lannan, James E., Jr.} }