Incorporating parameter uncertainty into evaluation of spawning habitat limitations on Chinook salmon (Oncorhynchus tshawytscha) populations

2006 ◽  
Vol 63 (6) ◽  
pp. 1242-1250 ◽  
Author(s):  
Timothy J Beechie ◽  
Correigh M Greene ◽  
Lisa Holsinger ◽  
Eric M Beamer

Incorporating parameter uncertainty into a Monte Carlo procedure for estimating spawning habitat capacity helped determine that spawning habitat availability is unlikely to limit recovery of six populations of Chinook salmon (Oncorhynchus tshawytscha) in Puget Sound. Spawner capacity estimates spanned up to four orders of magnitude, yet there was virtually no overlap of distributions of capacity estimates with distributions of current spawner abundance (<0.2% overlap), except for the Suiattle River population (51% overlap). Empirical distributions of input parameters contained several important sources of uncertainty, insuring reasonably wide distributions of capacity estimates. The most defensible ranges of input parameters tended to produce conservative capacity estimates, indicating that increased model accuracy would only strengthen our conclusion that spawning habitat is not a constraint on these populations. There are insufficient data with which to develop parameter distributions that better represent historical capacity, which would certainly be higher than our estimates. Our results suggest that factors other than spawning capacity limit population size and that recovery efforts for Skagit River Chinook salmon need not focus on spawning habitat restoration.

2017 ◽  
Vol 74 (8) ◽  
pp. 1173-1194 ◽  
Author(s):  
Brandon Chasco ◽  
Isaac C. Kaplan ◽  
Austen Thomas ◽  
Alejandro Acevedo-Gutiérrez ◽  
Dawn Noren ◽  
...  

Conflicts can arise when the recovery of one protected species limits the recovery of another through competition or predation. The recovery of many marine mammal populations on the west coast of the United States has been viewed as a success; however, within Puget Sound in Washington State, the increased abundance of three protected pinniped species may be adversely affecting the recovery of threatened Chinook salmon (Oncorhynchus tshawytscha) and endangered killer whales (Orcinus orca) within the region. Between 1970 and 2015, we estimate that the annual biomass of Chinook salmon consumed by pinnipeds has increased from 68 to 625 metric tons. Converting juvenile Chinook salmon into adult equivalents, we found that by 2015, pinnipeds consumed double that of resident killer whales and six times greater than the combined commercial and recreational catches. We demonstrate the importance of interspecific interactions when evaluating species recovery. As more protected species respond positively to recovery efforts, managers should attempt to evaluate tradeoffs between these recovery efforts and the unintended ecosystem consequences of predation and competition on other protected species.


2020 ◽  
Author(s):  
Richard B. Lanman ◽  
Linda Hylkema ◽  
Cristie M. Boone ◽  
Brian Alleé ◽  
Roger O. Castillo ◽  
...  

Understanding a species’ historic range guides contemporary management and habitat restoration. Chinook salmon ( Oncorhynchus tshawytscha ) are an important commercial and recreational gamefish, but nine Chinook subspecies are federally threatened or endangered due to anthropomorphic impacts. Several San Francisco Bay Area streams and rivers currently host spawning Chinook populations, but government agencies consider these non-native hatchery strays. Using ichthyofaunal analysis of 17,288 fish specimens excavated from Native American middens at Mission Santa Clara circa 1781-1834 CE, 86 salmonid vertebrae were identified. Ancient DNA sequencing identified three of these as from Chinook salmon and the remainder from steelhead trout. These findings comprise the first physical evidence of the nativity of salmon to the Guadalupe River in San Jose, California, extending their historic range to include San Francisco Bay’s southernmost watershed.


<em>Abstract.</em>—The Washington Department of Fish and Wildlife and Tribal co-managers are using the Ecosystem Diagnosis and Treatment (EDT) model to identify the spatial and temporal habitat limits of salmon populations and predict the effects of proposed habitat restoration projects for ESA-listed Chinook salmon <em>Oncorhynchus tshawytscha </em>in two Puget Sound watersheds. The collaborative, iterative process focused on habitat-based population models for the Dungeness and Dosewallips watersheds. Workshops were held to develop quantitative characteristics of current, historic, hypothetical properly functioning, and future habitat conditions. The model predicted salmon populations in the watersheds for each set of habitat conditions. Recovery targets were based on the predicted populations for historic and hypothetical properly functioning conditions. Future populations were modeled using projected habitat conditions with individual habitat restoration and protection actions already proposed and combinations of these actions. Populations resulting from further habitat degradation were estimated using the effects of projected human population growth on habitat.


2019 ◽  
Vol 77 (4) ◽  
pp. 1503-1515 ◽  
Author(s):  
William H Satterthwaite ◽  
Kelly S Andrews ◽  
Brian J Burke ◽  
Jennifer L Gosselin ◽  
Correigh M Greene ◽  
...  

Abstract Preseason abundance forecasts drive management of US West Coast salmon fisheries, yet little is known about how environmental variability influences forecast performance. We compared forecasts of Chinook salmon (Oncorhynchus tshawytscha) against returns for (i) key California-Oregon ocean fishery stocks and (ii) high priority prey stocks for endangered Southern Resident Killer Whales (Orcinus orca) in Puget Sound, Washington. We explored how well environmental indices (at multiple locations and time lags) explained performance of forecasts based on different methods (i.e. sibling-based, production-based, environment-based, or recent averages), testing for nonlinear threshold dynamics. For the California stocks, no index tested explained &gt;50% of the variation in forecast performance, but spring Pacific Decadal Oscillation and winter North Pacific Index during the year of return explained &gt;40% of the variation for the sibling-based Sacramento Fall Chinook forecast, with nonlinearity and apparent thresholds. This suggests that oceanic conditions experienced by adults (after younger siblings returned) have the most impact on sibling-based forecasts. For Puget Sound stocks, we detected nonlinear/threshold relationships explaining &gt;50% of the variation with multiple indices and lags. Environmental influences on preseason forecasts may create biases that render salmon fisheries management more or less conservative, and therefore could motivate the development of ecosystem-based risk assessments.


1999 ◽  
Vol 56 (4) ◽  
pp. 570-577 ◽  
Author(s):  
Sean P Gallagher ◽  
Mark F Gard

An index of chinook salmon (Oncorhynchus tshawytscha) spawning habitat predicted using the physical habitat simulation system (PHABSIM) component of the instream flow incremental methodology was compared with redd densities and locations for sites in the Merced River, California, during 1996 and with redd numbers in sites in the Merced and Lower American rivers, California, from 1989 through 1996. Predicted weighted useable area (WUA) was significantly correlated with chinook salmon spawning density and location at five of seven sites in the Merced River. At the microhabitat level, in the Merced River during 1996, there was a significant relationship between chinook salmon redd location and predicted WUA. Cells with more WUA in the Merced River tended to have more redds. At the mesohabitat level, there was a significant relationship between redd density and predicted WUA in both rivers. Transect areas in the Merced River with higher predicted WUA had more redds. Sites with higher numbers of redds had more predicted WUA. Significant correlations between predicted WUA and spawning locations increase confidence in the use of PHABSIM modeling results for fisheries management in the Merced and Lower American rivers as well as in other rivers.


2004 ◽  
Vol 61 (4) ◽  
pp. 590-602 ◽  
Author(s):  
Correigh M Greene ◽  
Timothy J Beechie

Restoring salmon populations depends on our ability to predict the consequences of improving aquatic habitats used by salmon. Using a Leslie matrix model for chinook salmon (Oncorhynchus tshawytscha) that specifies transitions among spawning nests (redds), streams, tidal deltas, nearshore habitats, and the ocean, we compared the relative importance of different habitats under three density-dependent scenarios: juvenile density independence, density-dependent mortality within streams, delta, and nearshore, and density-dependent migration among streams, delta, and nearshore. Each scenario assumed density dependence during spawning. We examined how these scenarios influenced priorities for habitat restoration using a set of hypothetical watersheds whose habitat areas could be systematically varied, as well as the Duwamish and Skagit rivers. In all watersheds, the three scenarios shared high sensitivity to changes in in nearshore and ocean mortality and produced similar responses to changes in other parameters controlling mortality (i.e., habitat quality). However, the three scenarios exhibited striking variation in population response to changes in habitat area (i.e., capacity). These findings indicate that nearshore habitat relationships may play significant roles for salmon populations and that the relative importance of restoring habitat area will depend on the mechanism of density dependence influencing salmon stocks.


2021 ◽  
Author(s):  
Colby L. Hause ◽  
Gabriel P. Singer ◽  
Rebecca A. Buchanan ◽  
Dennis E. Cocherell ◽  
Nann A. Fangue ◽  
...  

AbstractExtirpation of the Central Valley spring-run Chinook Salmon ESU (Oncorhynchus tshawytscha) from the San Joaquin River is emblematic of salmonid declines across the Pacific Northwest. Habitat restoration and fish reintroduction efforts are ongoing, but recent telemetry studies have revealed low outmigration survival of juveniles to the ocean. Previous investigations have focused on modeling survival relative to river discharge and geographic regions, but have largely overlooked the effects of habitat variability. To evaluate the link between environmental conditions and survival of juvenile spring-run Chinook Salmon, we combined high spatial resolution habitat mapping approaches with acoustic telemetry along a 150 km section of the San Joaquin River during the spring of 2019. While overall outmigration survival was low (5%), our habitat-based classification scheme described variation in survival of acoustic-tagged smolts better than other candidate models based on geography or distance. There were two regional mortality sinks evident along the longitudinal profile of the river, revealing poor survival in areas that shared warmer temperatures but that diverged in chlorophyll-α, fDOM, turbidity and dissolved oxygen levels. These findings demonstrate the value of integrating river habitat classification frameworks to improve our understanding of survival dynamics of imperiled fish populations. Importantly, our data generation and modeling methods can be applied to a wide variety of fish species that transit heterogeneous and diverse habitat types.


2010 ◽  
Vol 67 (1) ◽  
pp. 206-208 ◽  
Author(s):  
Ryan P. Walter ◽  
J. Mark Shrimpton ◽  
Daniel D. Heath

Beacham and Withler (2010. Can. J. Fish. Aquat. Sci. 67: 202–205) raise concerns about the experimental design and interpretation of data in the analysis of temporal genetic variation of Chinook salmon ( Oncorhynchus tshawytscha ) from the Upper Fraser River, Canada (Walter et al. 2009. Can. J. Fish. Aquat. Sci. 66: 167–176). They note that for the sampled populations, spatial genetic variance should far exceed temporal variance components based on previously published work and suggest that limited sample sizes biased our results by confounding sampling error with temporal variation. Here, we perform a rarefaction analysis by randomly removing up to 50% of the individuals from sample sites, yet the pattern of temporal versus spatial variation is similar to that reported in our original paper. We reiterate that caution should be applied to the interpretation of migration rates estimated from assignment tests, yet the absolute magnitude of our migration estimates was not central to the goals of the original paper. Although Beacham and Withler raise important points on the validation of genetic stock identification analyses, our analyses of temporal variation in genetic population structure in the Upper Fraser River population likely differ due to demographic differences between the timing of sampling of their earlier work versus our analyses.


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