The Regional Salmon Outmigration Study--survival and migration routing of juvenile Chinook salmon in the Sacramento-San Joaquin River Delta during the winter of 2008-09

Romine, Jason G.; Perry, Russell W.; Brewer, Scott J.; Adams, Noah S.; Liedtke, Theresa L.; Blake, Aaron R.; Burau, Jon R.

doi:10.3133/ofr20131142

Cited by 3 publications

(4 citation statements)

References 10 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The DCC and its two radial gates were constructed by the U.S. Bureau of Reclamation in 1951 to divert freshwater from the Sacramento River into the interior Sacramento-San Joaquin River Delta (henceforth, "the Delta") to improve the water quality of diversions to the State Water Project and Central Valley Project export facilities (State Water Resources Control Board 1978). The opening of the DCC gates alters river and tidal flows in the Estuary and has been shown to incidentally entrain up to 80% of acoustically tagged emigrating juvenile Chinook Salmon into the interior Delta (Perry et al 2010(Perry et al , 2012(Perry et al , 2015(Perry et al , 2018Romine et al 2013;Steel et al 2013;Pope et al 2021). Although entrained individuals may still complete their out-migration, studies have indicated that these individuals may experience considerably higher mortality rates based on exposure to water exportation, high temperatures, increased predation risk, and pollution (Kjelson and Brandes 1989;Brandes and McLain 2001;Newman and Brandes 2010;Buchanan et al 2013).…”

Section: Impact Statementmentioning

confidence: 99%

Imperfect detection and misidentification affect inferences from data informing water operation decisions

Kirsch,

Peterson,

Duarte

et al. 2024

N American J Fish Manag

Self Cite

View full text Add to dashboard Cite

ObjectiveManagers can modify river flow regimes using fish monitoring data to minimize impacts from water management infrastructure. For example, operation of the gate‐controlled Delta Cross Channel (DCC) in California can negatively affect the endangered Sacramento River Winter‐run Chinook Salmon Oncorhynchus tshawytscha. Although guidelines have been developed for DCC operations using real‐time juvenile fish sampling count data, there is uncertainty about how environmental conditions influence fish occupancy and to what extent those relationships are affected by sampling and identification error.MethodsWe evaluated the effect of environmental conditions, imperfect detection, and misidentification error on salmon occupancy by analyzing data using hierarchical multistate occupancy models. A total of 14,147 trawl tows and beach seine hauls were conducted on 1,058 sampling days between October and December from 1996 to 2019. During these surveys, 2,803 juvenile Winter‐run Salmon were identified, and approximately 29% of the sampling days had at least one juvenile Winter‐run Salmon detected.ResultsThe probability of misidentifying an individual juvenile Winter‐run Salmon in the field was estimated to be 0.056 based on fish identification examinations and genetic sampling. Occupancy varied considerably and was related to flow characteristics, water clarity, weather, time of year, and whether occupancy was detected during the previous sampling day. However, these relationships and their significance changed considerably when accounting for imperfect detection and the probability of misidentifying individual juvenile salmon. Detection was less than 0.3 under average sampling conditions during a single sample and was influenced by flow, water clarity, site and volume sampled.ConclusionOur modeling results indicate that DCC gate closure decisions could occur on fewer days when not accounting for imperfect detection and misidentification error. These findings demonstrate the need to account for identification and detection error while using monitoring data to assess factors influencing fish occupancy and inform future management decisions.

show abstract

Section: Impact Statementmentioning

confidence: 99%

Imperfect detection and misidentification affect inferences from data informing water operation decisions

Kirsch,

Peterson,

Duarte

et al. 2024

N American J Fish Manag

Self Cite

View full text Add to dashboard Cite

show abstract

“…The fish used in the 2008-2009 and 2014 studies are juvenile late fall-run Chinook salmon obtained from the Coleman National Fish Hatchery operated by the US Fish and Wildlife Service. The mean fork length of the 3,551 tagged salmon in 2008-2009 is 149.9 mm (Romine et al, 2013), and in year 2014 the average is 157 mm with a range of 109 − 213 mm across the 5,461 individuals with acoustic transmitters (California Department of Water Resources, 2016;Romine et al, 2017).…”

Section: Salmon Field Data Detailsmentioning

confidence: 99%

“…Spatial extent of the hydrodynamic model is based on available river gage (Figure 1) and bathymetric data. ELAM model spatial domain is based on the extent of salmon acoustic-tag telemetry data from 2008 to 2009 (Romine et al, 2013(California Department of Water Resources, 2016Romine et al, 2017). Tagged salmon exits are used to assess the accuracy of simulated individual (particle, salmon) entrainment.…”

Section: Lagrangian Encounters With the Eulerian Mesh Boundarymentioning

confidence: 99%

See 1 more Smart Citation

Predicting near-term, out-of-sample fish passage, guidance, and movement across diverse river environments by cognitively relating momentary behavioral decisions to multiscale memories of past hydrodynamic experiences

Goodwin,

Lai,

Taflin

et al. 2023

Front. Ecol. Evol.

View full text Add to dashboard Cite

Predicting the behavior of individuals acting under their own motivation is a challenge shared across multiple scientific fields, from economic to ecological systems. In rivers, fish frequently change their orientation even when stimuli are unchanged, which makes understanding and predicting their movement in time-varying environments near built infrastructure particularly challenging. Cognition is central to fish movement, and our lack of understanding is costly in terms of time and resources needed to design and manage water operations infrastructure that is able to meet the multiple needs of human society while preserving valuable living resources. An open question is how best to cognitively account for the multi-modal, -attribute, -alternative, and context-dependent decision-making of fish near infrastructure. Here, we leverage agent- and individual-based modeling techniques to encode a cognitive approach to mechanistic fish movement behavior that operates at the scale in which water operations river infrastructure is engineered and managed. Our cognitive approach to mechanistic behavior modeling uses a Eulerian-Lagrangian-agent method (ELAM) to interpret and quantitatively predict fish movement and passage/entrainment near infrastructure across different and time-varying river conditions. A goal of our methodology is to leverage theory and equations that can provide an interpretable version of animal movement behavior in complex environments that requires a minimal number of parameters in order to facilitate the application to new data in real-world engineering and management design projects. We first describe concepts, theory, and mathematics applicable to animals across aquatic, terrestrial, avian, and subterranean domains. Then, we detail our application to juvenile Pacific salmonids in the Bay-Delta of California. We reproduce observations of salmon movement and passage/entrainment with one field season of measurements, year 2009, using five simulated behavior responses to 3-D hydrodynamics. Then, using the ELAM model calibrated from year 2009 data, we predict the movement and passage/entrainment of salmon for a later field season, year 2014, which included a novel engineered fish guidance boom not present in 2009. Central to the fish behavior model’s performance is the notion that individuals are attuned to more than one hydrodynamic signal and more than one timescale. We find that multi-timescale perception can disentangle multiplex hydrodynamic signals and inform the context-based behavioral choice of a fish. Simulated fish make movement decisions within a rapidly changing environment without global information, knowledge of which direction is downriver/upriver, or path integration. The key hydrodynamic stimuli are water speed, the spatial gradient in water speed, water acceleration, and fish swim bladder pressure. We find that selective tidal stream transport in the Bay-Delta is a superset of the fish-hydrodynamic behavior repertoire that reproduces salmon movement and passage in dam reservoir environments. From a cognitive movement ecology perspective, we describe how a behavior can emerge from a repertoire of multiple fish-hydrodynamic responses that are each tailored to suit the animal’s recent past experience (localized environmental context). From a movement behavior perspective, we describe how different fish swim paths can emerge from the same local hydrodynamic stimuli. Our findings demonstrate that a cognitive approach to mechanistic fish movement behavior modeling does not always require the maximum possible spatiotemporal resolution for representing the river environmental stimuli although there are concomitant tradeoffs in resolving features at different scales. From a water operations perspective, we show that a decision-support tool can successfully operate outside the calibration conditions, which is a necessary attribute for tools informing future engineering design and management actions in a world that will invariably look different than the past.

show abstract

Complex Unsteady Flow Patterns at a River Junction and Their Relation with Fish Movement Behavior

Lai

Goodwin

Smith

et al. 2017

World Environmental and Water Resources Congress 2017

View full text Add to dashboard Cite

The Regional Salmon Outmigration Study--survival and migration routing of juvenile Chinook salmon in the Sacramento-San Joaquin River Delta during the winter of 2008-09

Cited by 3 publications

References 10 publications

Imperfect detection and misidentification affect inferences from data informing water operation decisions

Imperfect detection and misidentification affect inferences from data informing water operation decisions

Predicting near-term, out-of-sample fish passage, guidance, and movement across diverse river environments by cognitively relating momentary behavioral decisions to multiscale memories of past hydrodynamic experiences

Complex Unsteady Flow Patterns at a River Junction and Their Relation with Fish Movement Behavior

Contact Info

Product

Resources

About