Oncorhynchus
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Climate vulnerability assessment for Pacific salmon and steelhead in the California Current Large Marine Ecosystem Open
Major ecological realignments are already occurring in response to climate change. To be successful, conservation strategies now need to account for geographical patterns in traits sensitive to climate change, as well as climate threats to…
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Indigenous Systems of Management for Culturally and Ecologically Resilient Pacific Salmon (<i>Oncorhynchus</i>spp.) Fisheries Open
Pacific salmon (Oncorhynchus spp.) are at the center of social–ecological systems that have supported Indigenous peoples around the North Pacific Rim since time immemorial. Through generations of interdependence with salmon, Indigenous Peo…
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A complex phenotype in salmon controlled by a simple change in migratory timing Open
Unexpectedly simple Chinook salmon are known to return to spawn at two distinct times of the year: spring and fall. Individuals that return during these times have generally been referred to as parts of distinct groups, or ecotypes, with t…
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Applications of random forest feature selection for fine‐scale genetic population assignment Open
Genetic population assignment used to inform wildlife management and conservation efforts requires panels of highly informative genetic markers and sensitive assignment tests. We explored the utility of machine‐learning algorithms (random …
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Demographic changes in Chinook salmon across the Northeast Pacific Ocean Open
The demographic structure of populations is affected by life history strategies and how these interact with natural and anthropogenic factors such as exploitation, climate change, and biotic interactions. Previous work suggests that the me…
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Numbers and Biomass of Natural- and Hatchery-Origin Pink Salmon, Chum Salmon, and Sockeye Salmon in the North Pacific Ocean, 1925–2015 Open
Numerical abundance and biomass values presented here for Pink Salmon Oncorhynchus gorbuscha, Chum Salmon O. keta, and Sockeye Salmon O. nerka in the North Pacific Ocean span 90 years (1925–2015), representing the most comprehensive compil…
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Genomic Predictions and Genome-Wide Association Study of Resistance Against <i>Piscirickettsia salmonis</i> in Coho Salmon ( <i>Oncorhynchus kisutch</i> ) Using ddRAD Sequencing Open
Piscirickettsia salmonis is one of the main infectious diseases affecting coho salmon (Oncorhynchus kisutch) farming, and current treatments have been ineffective for the control of this disease. Genetic improvement for P. salmonis resista…
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Soybean meal-induced enteritis in Atlantic salmon ( Salmo salar) and Chinook salmon ( Oncorhynchus tshawytscha ) but not in pink salmon ( O . gorbuscha ) Open
To improve sustainability in the aquaculture industry plant meals are increasingly used to replace fish meal in fish feed. Solvent-extracted soybean meal (SBM) is an attractive protein source for fish feed because of its high protein conte…
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Predator swamping reduces predation risk during nocturnal migration of juvenile salmon in a high‐mortality landscape Open
Summary Animal migrations are costly and are often characterized by high predation risk for individuals. Three of the most oft‐assumed mechanisms for reducing risk for migrants are swamping predators with high densities, specific timing of…
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Can stream and riparian restoration offset climate change impacts to salmon populations? Open
Understanding how stream temperature responds to restoration of riparian vegetation and channel morphology in context of future climate change is critical for prioritizing restoration actions and recovering imperiled salmon populations. We…
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Chinook salmon (Oncorhynchus tshawytscha) genome and transcriptome Open
When unifying genomic resources among studies and comparing data between species, there is often no better resource than a genome sequence. Having a reference genome for the Chinook salmon (Oncorhynchus tshawytscha) will enable the extensi…
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Estimation of a Killer Whale (Orcinus orca) Population’s Diet Using Sequencing Analysis of DNA from Feces Open
Estimating diet composition is important for understanding interactions between predators and prey and thus illuminating ecosystem function. The diet of many species, however, is difficult to observe directly. Genetic analysis of fecal mat…
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Competing tradeoffs between increasing marine mammal predation and fisheries harvest of Chinook salmon Open
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 bioenerge…
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Acute Toxicity of 6PPD-Quinone to Early Life Stage Juvenile Chinook (<i>Oncorhynchus tshawytscha</i>) and Coho (<i>Oncorhynchus kisutch</i>) Salmon Open
The breakdown product of the rubber tire antioxidant N-(1,3-dimethylbutyl)-N'-phenyl-p-phenylenediamine-quinone (6PPD)-6-PPD-quinone has been strongly implicated in toxic injury and death in coho salmon (Oncorhynchus kisutch) in urban wate…
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Endangered wild salmon infected by newly discovered viruses Open
The collapse of iconic, keystone populations of sockeye (Oncorhynchus nerka) and Chinook (Oncorhynchus tshawytscha) salmon in the Northeast Pacific is of great concern. It is thought that infectious disease may contribute to declines, but …
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Future of Pacific Salmon in the Face of Environmental Change: Lessons from One of the World's Remaining Productive Salmon Regions Open
Pacific salmon Oncorhynchus spp. face serious challenges from climate and landscape change, particularly in the southern portion of their native range. Conversely, climate warming appears to be allowing salmon to expand northwards into the…
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Full-Genome Sequencing and Confirmation of the Causative Agent of Erythrocytic Inclusion Body Syndrome in Coho Salmon Identifies a New Type of Piscine Orthoreovirus Open
Erythrocytic inclusion body syndrome (EIBS) causes mass mortality in farmed salmonid fish, including the coho salmon, Onchorhynchus kisutchi, and chinook salmon, O. tshawytscha. The causative agent of the disease is a virus with an icosahe…
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Bringing the analysis of animal orientation data full circle: model-based approaches with maximum likelihood Open
In studies of animal orientation, data are often represented as directions that can be analyzed using circular statistical methods. Although several circular statistical tests exist to detect the presence of a mean direction, likelihood-ba…
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Combined effects of warming and hypoxia on early life stage Chinook salmon physiology and development Open
Early life stages of salmonids are particularly vulnerable to warming and hypoxia, which are common stressors in hyporheic, gravel bed, rearing habitat (i.e. a 'redd'). With the progression of global climate change, high temperatures and h…
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Endangered predators and endangered prey: Seasonal diet of Southern Resident killer whales Open
Understanding diet is critical for conservation of endangered predators. Southern Resident killer whales (SRKW) ( Orcinus orca ) are an endangered population occurring primarily along the outer coast and inland waters of Washington and Bri…
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First description of clinical presentation of piscine orthoreovirus (PRV) infections in salmonid aquaculture in Chile and identification of a second genotype (Genotype II) of PRV Open
To our knowledge the present work constitutes the first published report of HSMI lesions with presence of PRV in farmed Atlantic salmon outside of Europe, and the first report of HSMI-like lesions with presence of PRV in coho salmon in Chi…
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Life history variation is maintained by fitness trade-offs and negative frequency-dependent selection Open
Significance Many populations and species have different strategies for maximizing reproductive success in changing environments. For example, some species of plants reproduce only once in their lifetime (annuals), whereas others can repro…
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Understanding summertime thermal refuge use by adult Atlantic salmon using remote sensing, river temperature monitoring, and acoustic telemetry Open
Adult Atlantic salmon (Salmo salar) return to natal rivers several months before spawning and during summer can be subjected to temperatures that exceed their upper temperature tolerance limits. Salmon use thermal refuges to minimize expos…
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Unnatural selection of salmon life histories in a modified riverscape Open
Altered river flows and fragmented habitats often simplify riverine communities and favor non‐native fishes, but their influence on life‐history expression and survival is less clear. Here, we quantified the expression and ultimate success…
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Pink salmon in Norway: the reluctant invader Open
In 2017, Norway experienced an invasion of the Pacific salmonid pink salmon (Oncorhynchus gorbuscha) in numbers never before seen in rivers all along the coast. Significant numbers were also caught in other parts of northwestern Europe. Pi…
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Tracking wild sockeye salmon smolts to the ocean reveals distinct regions of nocturnal movement and high mortality Open
Few estimates of migration rates or descriptions of behavior or survival exist for wild populations of out‐migrating Pacific salmon smolts from natal freshwater rearing areas to the ocean. Using acoustic transmitters and fixed receiver arr…
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Environmental DNA from Residual Saliva for Efficient Noninvasive Genetic Monitoring of Brown Bears (Ursus arctos) Open
Noninvasive genetic sampling is an important tool in wildlife ecology and management, typically relying on hair snaring or scat sampling techniques, but hair snaring is labor and cost intensive, and scats yield relatively low quality DNA. …
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Environmental influences on life history strategies in partially anadromous brown trout (<i>Salmo trutta</i>, Salmonidae) Open
This paper reviews the life history of brown trout and factors influencing decisions to migrate. Decisions that maximize fitness appear dependent on size at age. In partly anadromous populations, individuals that attain maturity at the par…
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A global synthesis of peer‐reviewed research on the effects of hatchery salmonids on wild salmonids Open
Hatcheries have long produced salmonids for fisheries and mitigation, though their widespread use is increasingly controversial because of potential impacts to wild salmonids. We conducted a global literature search of peer‐reviewed public…
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Signals of large scale climate drivers, hatchery enhancement, and marine factors in Yukon River Chinook salmon survival revealed with a Bayesian life history model Open
Understanding how species might respond to climate change involves disentangling the influence of co‐occurring environmental factors on population dynamics, and is especially problematic for migratory species like Pacific salmon that move …