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All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Passage and survival of juvenile salmonid smolts through dams in the Columbia and Snake Rivers, 2010-2018

Minimizing the mortality and migration time of juvenile salmon (smolts) passing dams is a longstanding objective in the pursuit of salmon recovery in the Columbia River Basin. We compiled and analyzed 40 juvenile salmonid acoustic-tag studies that were performed at seven of the eight hydroelectric projects in the Federal Columbia River Power System between 2010–2018. We found the utilization of non-turbine routes decreased monotonically moving downstream from the Snake River to the mainstem Columbia River and that route usage and associated mortality differed substantially between the dams in the two rivers. Spillways were the predominant passage route at mainstem Columbia River dams, whereas passage through surface weirs and juvenile bypass systems was more common and generally provided higher survival at Snake River dams. Stocks exhibited variable passage behaviors and mortalities, with the estimated probability of an individual passing through all eight dams in the system and never using a turbine route at 0.31, 0.47, and 0.60 for subyearling Chinook Salmon, yearling Chinook Salmon, and steelhead, respectively. Although subyearling Chinook Salmon were generally more likely to pass through a turbine route, they also experienced less turbine-associated mortality than other stocks, especially steelhead. Notably, the proportion of smolts passing through the spillway relative to the amount of water released was lowest at Bonneville Dam, the largest and lowermost dam in the system. Bonneville Dam also stood out as having the highest proportion of smolts passing through turbines, but the lowest rate of turbine-associated mortality.

Skalski, J R.↗
DOE OSTI2022

An EvoDevo Study of Salmonid Visual Opsin Dynamics and Photopigment Spectral Sensitivity

Salmonids are ideal models as many species follow a distinct developmental program from demersal eggs and a large yolk sac to hatching at an advanced developmental stage. Further, these economically important teleosts inhabit both marine- and freshwaters and experience diverse light environments during their life histories. At a genome level, salmonids have undergone a salmonid-specific fourth whole genome duplication event (Ss4R) compared to other teleosts that are already more genetically diverse compared to many non-teleost vertebrates. Thus, salmonids display phenotypically plastic visual systems that appear to be closely related to their anadromous migration patterns. This is most likely due to a complex interplay between their larger, more gene-rich genomes and broad spectrally enriched habitats; however, the molecular basis and functional consequences for such diversity is not fully understood. This study used advances in genome sequencing to identify the repertoire and genome organization of visual opsin genes (those primarily expressed in retinal photoreceptors) from six different salmonids [Atlantic salmon ( Salmo salar ), brown trout ( Salmo trutta ), Chinook salmon ( Oncorhynchus tshawytcha ), coho salmon ( Oncorhynchus kisutch ), rainbow trout ( Oncorhynchus mykiss ), and sockeye salmon ( Oncorhynchus nerka )] compared to the northern pike ( Esox lucius ), a closely related non-salmonid species. Results identified multiple orthologues for all five visual opsin classes, except for presence of a single short-wavelength-sensitive-2 opsin gene. Several visual opsin genes were not retained after the Ss4R duplication event, which is consistent with the concept of salmonid rediploidization. Developmentally, transcriptomic analyzes of Atlantic salmon revealed differential expression within each opsin class, with two of the long-wavelength-sensitive opsins not being expressed before first feeding. Also, early opsin expression in the retina was located centrally, expanding dorsally and ventrally as eye development progressed, with rod opsin being the dominant visual opsin post-hatching. Modeling by spectral tuning analysis and atomistic molecular simulation, predicted the greatest variation in the spectral peak of absorbance to be within the Rh2 class, with a ∼40 nm difference in λ max values between the four medium-wavelength-sensitive photopigments. Overall, it appears that opsin duplication and expression, and their respective spectral tuning profiles, evolved to maximize specialist color vision throughout an anadromous lifecycle, with some visual opsin genes being lost to tailor marine-based vision.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

A dendritic strontium river isoscape for fisheries applications in the Sacramento River basin, California, USA

Objective Understanding the origins and movements of fish is fundamental to effective conservation and fisheries management. Strontium isotope ratios ( 87 Sr/ 86 Sr) in otoliths provide a powerful tracer of natal origin and migratory pathways. However, existing 87 Sr/ 86 Sr isoscapes for the Sacramento River basin, an ecosystem that supports ecologically and economically important salmon populations, rely on discrete classification approaches that overlook unsampled habitats and do not incorporate spatial uncertainty. Our objective was to develop a continuous, network-explicit 87 Sr/ 86 Sr isoscape with quantified uncertainty to fill in data gaps and enable probabilistic assignments of fish origin and movement. Methods We used river water 87 Sr/ 86 Sr data from 106 sites (1997–2021) to develop spatial stream network models that use dendritic connectivity and watershed characteristics (lithology, bedrock age, and land cover) to predict river water 87 Sr/ 86 Sr throughout the basin. Models were fitted using maximum and restricted likelihood and were evaluated via Akaike’s information criterion and leave-one-out cross validation. We produced both historical (pre-dam) and present-day (below-dam) isoscapes, delineated uncertainty-informed isotopic ranges using k -means clustering, and applied a proof-of-concept Bayesian assignment to estimate natal origins and early rearing habitats for two endangered winter-run Chinook Salmon Oncorhynchus tshawytscha. Results Cross validation indicated strong performance of the 87 Sr/ 86 Sr model (leave-one-out cross validation: R 2 = 0.91; root mean square error = 0.0005). Uncertainty-informed clustering identified 19 isotopic “suites” (reaches with indistinguishable 87 Sr/ 86 Sr values) in present-day anadromous habitats and 25 suites in the historical network. Example natal and early rearing assignments included predictions that challenged expectations for juvenile salmon migration based on predicted river 87 Sr/ 86 Sr compositions. Conclusions This study developed a continuous, network-explicit 87 Sr/ 86 Sr isoscape that integrates existing river data to predict 87 Sr/ 86 Sr in unsampled reaches and the likely achievable range and resolution of otolith-based origin and life history inference. The resulting river isoscape provides a valuable tool to predict salmon movements and identify habitats supporting their survival and growth that otherwise might remain undetected. Coupling these predictions with complementary approaches that ground-truth juvenile presence (e.g., targeted fish surveys) represents an important step toward science-informed restoration and management of critical habitats throughout the Sacramento River basin.

Environmental sciences↗
DOE OSTI2021

Integrating New Arctic Plant Functional Types in a Land Surface Model Using Above- and Belowground Field Observations: Modeling Archive

This Modeling Archive is in support of an NGEE Arctic publication "Integrating New Arctic Plant Functional Types in a Land Surface Model Using Above- and Belowground Field Observations". We used field observations of biomass and leaf traits (Salmon et al., 2019b) across a gradient of plant communities on the Seward Peninsula in northwest Alaska (Breen et al., 2020; Iversen et al., 2017) to replace the original ELM configuration with nine, arctic-specific PFTs. Original arctic PFTs in the model were (1) broadleaf deciduous boreal shrub and (2) C3 arctic grass. New PFTs were (1) lichen, (2) bryophyte, (3) evergreen dwarf shrub, (4) deciduous dwarf shrub, (5) deciduous low shrub, (6) deciduous low to tall shrub, (7) alder shrub, (8) forb, and (9) graminoid. New PFTs were parameterized and evaluated using site-level trait and biomass measurements (Salmon et al., 2019b), root C:N ratios and rooting depth patterns (Salmon et al., 2019c), and root biomass (Salmon et al., 2020). This archive contains forcing data and model output from ELM simulations conducted at the Kougarok Hillslope site (Kougarok Road Mile Marker 64). Simulations were conducted for the Kougarok Hillslope site using meteorological driving data from the Scenarios Network for Alaska and Arctic Planning (SNAP) downscaled climate projection dataset using NCAR-CCSM forcing (Bieniek et al., 2020 dataset; Walsh et al., 2018). The archive includes three versions of model simulations representing a progression from the original model configuration to an Arctic-specific configuration (see Output section below). Simulation 1 used grid cell data from a global E3SM configuration, including the fractional area of E3SM PFTs assigned to the grid cell containing the Kougarok Hillslope site in global simulations. This simulation did not distinguish between different plant communities on the Kougarok Hillslope, but instead used a single point simulation to represent the entire area. Simulation 2 used default E3SM PFT definitions combined with adjusted depth to bedrock for plant communities with shallow rocky layers to represent the role of abiotic soil factors in driving site differences (based on depth measurements of Iversen et al., 2019a), and adjusted the relative areas of the broadleaf deciduous boreal shrub and C3 arctic grass PFTs to reflect the observed spatial coverage of shrub and non-shrub PFTs across Kougarok Hillslope plant communities. Simulation 3 used the new arctic PFT definitions and parameterizations based on the vegetation types present at the site, along with the adjusted soil depths used in Simulation 2. Included are *.pdf, *.nc (NetCDF), *tar.gz, *.py, and *.bash files. We would like to thank Mary's Igloo Native Corporation for allowing us to perform this research on their land and giving us the opportunity to share this research with their community. Thanks to Shawn Serbin and Alistair Rogers for helpful discussions. Holly Vander Stel, Joanne Childs, and Stan Wullschleger helped with collection of field data. The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic), was a research effort to reduce uncertainty in Earth System Models by developing a predictive understanding of carbon-rich Arctic ecosystems and feedbacks to climate. NGEE Arctic was supported by the Department of Energy's Office of Biological and Environmental Research. The NGEE Arctic project had two field research sites: 1) located within the Arctic polygonal tundra coastal region on the Barrow Environmental Observatory (BEO) and the North Slope near Utqiagvik (Barrow), Alaska and 2) multiple areas on the discontinuous permafrost region of the Seward Peninsula north of Nome, Alaska. Through observations, experiments, and synthesis with existing datasets, NGEE Arctic provided an enhanced knowledge base for multi-scale modeling and contributed to improved process representation at global pan-Arctic scales within the Department of Energy's Earth system Model (the Energy Exascale Earth System Model, or E3SM), and specifically within the E3SM Land Model component (ELM).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Action Effectiveness Monitoring and Research of Dredged Material Placement at Woodland Islands (Final Report)

Benthic invertebrates play critical ecosystem roles including the breakdown of organic matter, sediment mixing, and nutrient cycling. In the lower Columbia River and estuary, benthic invertebrates provide a foraging resource for threatened and endangered juvenile salmon. Driven by the goal to create low velocity, shallow water, and riparian shrub habitats to benefit juvenile salmon, the USACE placed 237,000 CY of dredged material, resulting in the deposition of 13.5 acres of sand on the off-channel margins at Woodland Islands. The Pacific Northwest National Laboratory (PNNL) designed and implemented an action effectiveness research study to understand how dredged material placement at Woodland Islands affected sediment conditions and benthic invertebrate assemblages. A Before-After-Control-Impact, or BACI, study design was used to evaluate the response of environmental conditions and benthic invertebrates to dredged material placement. The design included one impact site and two control sites. Sampling occurred for two years prior to dredged material placement and two years after. Our study found that spatial variation was a significant factor for both environmental and biological response variables which suggests local conditions are important considerations for mechanisms affecting benthic assemblages. We found that off-channel habitats across all locations sampled were producing benthic invertebrates, many of which are common prey items for juvenile salmon and steelhead—e.g., insects, chironomids, crustaceans, and corophium. There was a significant BACI effect (i.e., an effect at the dredged material placement site, relative to conditions at the control sites) for concentration of carbon and ammonium in sediment, but not for phosphorous concentrations or for percent sand. The estimated abundance for the three invertebrate response variables—total abundance, total chironomid abundance, and total corophium abundance—was significantly lower at the impact site after dredged material placement, compared to the control sites. At Woodland Island, the estimated mean abundance for all invertebrates combined decreased 28% after dredged material placement. Estimated mean abundances of chironomid and corophium decreased by 8% and 88%, respectively. While invertebrate abundances were lower after dredged placement, the composition of benthic invertebrates was similar before and after placement suggesting that as the new habitat feature evolves recolonization will likely follow. These findings provide a foundation for understanding potential benefits and consequences of repurposing dredged material for habitat creation in the LCRE.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Evaluation of Howard A. Hanson Dam Juvenile Fish Passage and Survival Study: Downstream Passage and Survival (Acoustic Telemetry) (Task Final Report)

The Downstream Passage and Survival (Acoustic Telemetry) task was one of several tasks for the Evaluation of Howard A. Hanson Dam (HAHD) Juvenile Fish Passage and Survival study. For this task, a juvenile fish passage and survival study was conducted at HAHD from March 10, 2024 through June 27, 2024 for arrays in the HAHD Reservoir and Green River, and through July 9, 2024 for the arrays in the Duwamish River. Fish releases occurred over four times from March through May. Active tag (acoustic telemetry) technology was used to provide biological baseline information for the passage and survival of juvenile Puget Sound (PS) Chinook salmon (Oncorhynchus tshawytscha). Results will be used by biologists, engineers, resource managers, and regional decision-makers to inform the engineering design of the new fish passage facility (FPF) at HAHD. However, hatchery sub-yearling PS Chinook salmon of the appropriate size for tag implantation during the study period (> 95 mm in fork length, Geist et al. 2018) were unavailable. Therefore, yearling Coho salmon (O. kisutch) were used as a surrogate species for this acoustic telemetry study.

13 HYDRO ENERGY↗
DOE OSTI2020

In Search of a Cost-Effective Approach for Estimating Dam Passage Survival

Abstract Passage of downstream-migrating fishes through hydropower dams poses a management issue in rivers throughout the world. As such, regulations have been enacted at many locales to understand and limit fish losses by requiring dam passage survival estimation. However, limiting estimates of survival to the dam and immediate tailrace presents a challenge to researchers. In this study, two alternative release–recapture methods were used to estimate dam passage survival of juvenile salmonids through Lower Granite Dam on the Snake River, Washington, in 2018. One approach, the virtual/paired-release (ViPRe) model, was extensively used in the Columbia–Snake River basin at federally operated hydroelectric dams during 2010–2014. This existing approach uses three releases of tagged smolts to isolate dam passage survival, defined as survival from the upstream dam face to the tailrace mixing zone 1–2 km downstream of the dam. An alternative approach, the virtual release/dead-fish correction (ViRDCt) model, uses one live-release group paired with a release of dead tagged fish at the dam to estimate the same survival parameter. The alternative estimation approaches were tested on two spring out-migrating stocks, yearling Chinook Salmon Oncorhynchus tshawytscha and steelhead Oncorhynchus mykiss, and on a summer out-migrating stock of subyearling Chinook Salmon. The alternative estimates for these stocks were all within 1 SE. However, the ViRDCt model produced survival estimates with SEs that were 59% smaller than those of the existing ViPRe model and did so using 42% fewer tagged fish and one less downstream acoustic detection array. Because of the reduced sample size, nearly US$540,000 less in tag costs and 4,000 fewer labor-hours were required to implement the ViRDCt model compared to the ViPRe model. As such, the ViRDCt model represents a cost-effective and precise approach to characterizing dam passage survival.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Impacts of Alternative Operations and Renewable Energy Deployment on Columbia River Hydropower

The Columbia River Treaty Tribes in the Pacific Northwest - the Nez Perce, Umatilla, Warm Springs, and Yakama - hold treaty-reserved fishing rights for the Columbia River, one of the world's most productive salmon rivers and a critical resource for these tribes. However, the tribes have expressed that current operating regimes of hydropower dams throughout the Columbia River Basin (CRB) do not fully account for tribal fishing rights and have negatively impacted fish populations. Four tribes acting together through the Columbia River Inter-Tribal Fish Commission (CRITFC)'s 2022 Energy Vision stated that current power system models often do not fully account for the many constraints faced by hydropower facilities in the CRB. As the deployment of variable renewable energy (VRE) like solar and wind continues to increase, power system flexibility will become increasingly important. As a result, there is a growing need to better understand the true capabilities of the hydropower generation fleet while accurately accounting for ecological constraints (Northwest Power and Conservation Council 2022). Understanding hydropower's role in a future grid with a higher share of VRE can inform water resources planning to address ecological needs. The goal of this study is to examine the impacts of alternative hydropower operation rules and weather variability on hydropower generation and grid operations in VRE and transmission infrastructure deployment scenarios. The study evaluates how hydropower scheduling practices can reduce ecological impacts to the region's salmon populations. More specifically, the study examines the impact of today's dam water release rules (called "adjusted base water rules" in this study) and new, ecologically informed water release rules (called "ecosystem water rules" in this study) on two VRE scenarios (current renewable energy levels and higher renewable energy levels) using six weather years for each scenario (2008-2013). CRITFC developed the ecosystem water rules, which capture a portion of the changes they recommend for CRB hydropower operations. These analyses use a water resource planning model (OASIS) and a production cost model (PLEXOS) to simulate CRB reservoir cascade and Western Interconnection power grid operation.

13 HYDRO ENERGY↗
DOE OSTI2021

High-Head Bypass Fish Passage Investigations: Year One (Final Report)

The goal of this first year study is to investigate the effects of downstream passage on fish health by comparing two methods: downstream fish passage at a high head dam through a bypass system, and downstream fish passage at a collection facility with vehicle conveyance to understand which method best supports achieving biological performance metrics, and what structural design or operational changes can be implemented to reduce stress and mortality in juvenile Chinook salmon. This study will occur at Green Peter Dam (or Green Peter). To achieve this goal, we will evaluate stress, injury, and mortality rates of downstream migrating juveniles after passage through a bypass system compared to holding fish in a collection facility and vehicle conveyance (trap and haul). This study will be conducted by researchers from Pacific Northwest National Laboratory (PNNL) in collaboration with researchers from Oregon State University (OSU). Results from this study will be used to inform the U.S. Army Corps of Engineers (USACE) Product Delivery Teams (PDTs) charged with designing improvements for downstream juvenile fish passage at high head dams in the Willamette River basin. The broader intent is to support management decisions on long-term measures and operations to rebuild populations of Upper Willamette River spring Chinook salmon listed as threatened under the Endangered Species Act.

13 HYDRO ENERGY↗
DOE OSTI2022

Capabilities of an Acoustic Camera to Inform Fish Collision Risk with Current Energy Converter Turbines

A diversified energy portfolio may include marine energy in the form of current energy converters (CECs) such as tidal or in-river turbines. New technology development in the research stage typically requires monitoring for environmental effects. A significant environmental effect of concern for CECs is the risk of moving parts (e.g., turbine blades) colliding with animals such as fishes. CECs are installed in energetic locations in which it is difficult to operate sensors to fulfill monitoring requirements for informing collision risk. Collecting data (i.e., about blade strikes or near-misses) that inform interactions of fishes with CECs is usually attempted using active acoustic sensors or video cameras (VCs). Limitations of low-light conditions or water turbidity that preclude effective use of VCs are overcome by using high-resolution multibeam echosounders (or acoustic cameras (ACs)). We used an AC at two sites to test its ability to detect artificial and real fish targets and determine if strike, near-miss, and near-field behavior could be observed. Interactions with fish and artificial targets with turbines have been documented but strike confirmation with an AC is novel. The first site was in a tidal estuary with a 25 kW turbine and water clarity sufficient to allow VC data to be collected concurrently with AC data showing turbine blade strike on tethered artificial fish targets. The second site was a turbid, debris-laden river with a 5 kW turbine where only AC data were collected due to high water turbidity. Data collection at the second site coincided with downstream Pacific salmon (Oncorhynchus spp.) smolt migration. Physical fish capture downstream of the turbine was performed with an incline plane trap (IPT) to provide context for the AC observations, by comparing fish catches. Discrimination between debris and fishes in the AC data was not possible, because active movement of fishes was not discernable. Nineteen fishes were released upstream of the turbine to provide known times of possible fish/turbine interactions, but detection was difficult to confirm in the AC data. ACs have been used extensively in past studies to count large migratory fish such as Pacific salmon, but their application for small fish targets has been limited. The results from these two field campaigns demonstrate the ability of ACs to detect targets in turbid water and observe blade strikes, as well as their limitations such as the difficulty of distinguishing small fishes from debris in a high-energy turbid river. Recommendations are presented for future applications associated with CEC device testing.

16 TIDAL AND WAVE POWER↗
DOE OSTI2025

Assessing Heterogeneity of Surface Water Temperature Following Stream Restoration and a High-Intensity Fire from Thermal Imagery

Thermal heterogeneity of rivers is essential to support freshwater biodiversity. Salmon behaviorally thermoregulate by moving from patches of warm water to cold water. When implementing river restoration projects, it is essential to monitor changes in temperature and thermal heterogeneity through time to assess the impacts to a river’s thermal regime. Lightweight sensors that record both thermal infrared (TIR) and multispectral data carried via unoccupied aircraft systems (UASs) present an opportunity to monitor temperature variations at high spatial (<0.5 m) and temporal resolution, facilitating the detection of the small patches of varying temperatures salmon require. Here, we present methods to classify and filter visible wetted area, including a novel procedure to measure canopy cover, and extract and correct radiant surface water temperature to evaluate changes in the variability of stream temperature pre- and post-restoration followed by a high-intensity fire in a section of the river corridor of the South Fork McKenzie River, Oregon. We used a simple linear model to correct the TIR data by imaging a water bath where the temperature increased from 9.5 to 33.4 °C. The resulting model reduced the mean absolute error from 1.62 to 0.35 °C. We applied this correction to TIR-measured temperatures of wetted cells classified using NDWI imagery acquired in the field. We found warmer conditions (+2.6 °C) after restoration (p < 0.001) and median absolute deviation for pre-restoration (0.30) to be less than both that of post-restoration (0.85) and post-fire (0.79) orthomosaics. In addition, there was statistically significant evidence to support the hypothesis of shifts in temperature distributions pre- and post-restoration (KS test 2009 vs. 2019, p < 0.001, D = 0.99; KS test 2019 vs. 2021, p < 0.001, D = 0.10). Moreover, we used a Generalized Additive Model (GAM) that included spatial and environmental predictors (i.e., canopy cover calculated from multispectral NDVI and photogrammetrically derived digital elevation model) to model TIR temperature from a transect along the main river channel. This model explained 89% of the deviance, and the predictor variables showed statistical significance. Collectively, our study underscored the potential of a multispectral/TIR sensor to assess thermal heterogeneity in large and complex river systems.

Barker, Matthew I. (ORCID:0000000252864930)↗
DOE OSTI2025

Tidal–hydrological dynamics of water temperature across freshwater forested wetlands on the northeastern Pacific coast

Abstract Tidal freshwater forests were once extensive across temperate coastlines, but loss and fragmentation have made estimation of their ecosystem functions challenging. We measured water temperature for 2 years in three Sitka spruce tidal forests, a restoration site, and an adjacent emergent marsh on the Columbia River, Washington, United States. We assessed spatial variability of water temperature within sites including the effects of hydrology, differences among bay and tributary tidal forests, and differences between the tidal forests and the mainstem Columbia, the restoration site, and the emergent marsh. The tidal forests nearest to the bay had lower interior water temperatures than their channel confluences by up to 2.5°C (weekly median temperature) and 2.0°C (weekly maximum temperature), with most cooling occurring during the low‐flow months of July–September. Tributary sites had maximum temperatures up to 1.9°C cooler than bay sites and 4.2°C cooler than the mainstem. Temperatures in the two bay sites decreased by −0.16°C/100 m and −0.07°C/100 m, on average. The restoration site had the smallest within‐site temperature gradient. Differences in maximum temperatures were greatest when tidal range was low, while higher tidal ranges were associated with warmer and more variable site interiors relative to their confluences. These results suggest that water temperatures in these tidal forests can provide temperature refugia for cold water biota including salmon.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Adaptive management of large-scale ecosystem restoration: increasing certainty of habitat outcomes in the Columbia River Estuary, U.S.A.

Ecological restoration programs in dynamic coastal environments can benefit from adaptive management, including an iterative process for identifying and addressing critical uncertainties. We highlight key developments under the three pillars that have increased the rate of restoration by the Columbia Estuary Ecosystem Restoration Program (CEERP) over 20 years: science, coordination, and management. We show how such programs can be institutionalized to ensure that estuary ecosystems are better understood, conserved, and restored. The principal conservation effort under CEERP is to reconnect historical floodplain wetlands to the mainstem. The program also supports other restoration actions that demonstrate a high potential to benefit ecosystem function and endangered salmon populations, however, there is greater uncertainty regarding these less-utilized techniques. Through adaptive management, we address both technical uncertainty regarding benefits to the environmental resource and programmatic uncertainty pertaining to decision-making. Here, we examine three periods of CEERP growth to establish how complementary research and restoration actions have improved program outcomes over time. We highlight the tools and processes that were developed and integrated into the program to refine program strategy, improve project design, and maximize ecological benefits. CEERP supported 77 restoration projects and reconnected over 7,000 acres of floodplain habitat to the lower Columbia River between 2004 and 2021. Building on these successes, we outline current plans to better engage landowners and local communities, solicit new project types, and maintain enough flexibility within the program to adapt to new priorities.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

NGEE Arctic 2019 Alder Ground Truth Survey, Seward Peninsula AK

In July 2019 we made traveled the road system outside of Nome, AK and detailed the GPS coordinates of alder shrublands for the purpose of ground-truthing alder maps of the region. Both visual and ground-based observations were made for patches of alder shrublands greater 5x5m and larger, ideally 10x10m. Visual observations were made from the car and GPS coordinates are approximate, placed by dropping pins on georeferenced pdfs using the Avenza app. Visual observations included positive identified alder shrublands as well as thickets of non-alder shrubs. Ground Observations were made at a subset of locations where we were able to hike to alders shrubland areas. Ground observations include GPS points (made with Garmin InReach) as well as relevant features of a centrally located, representative alder shrub in the patch (max height, basal diameter of all ramets, soil depth). Aboveground biomass (weight dry mass) of the surveyed shrub was calculated based on alder-specific allometric equations in Berner et al 2015 which our team checked for accuracy for the Seward Peninsula as part of Salmon et al 2019. This dataset contains three data files, three data dictionaries, and one file-level metadata file all in*.csv format plus one *.txt README file. The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic), was a research effort to reduce uncertainty in Earth System Models by developing a predictive understanding of carbon-rich Arctic ecosystems and feedbacks to climate. NGEE Arctic was supported by the Department of Energy's Office of Biological and Environmental Research.The NGEE Arctic project had two field research sites: 1) located within the Arctic polygonal tundra coastal region on the Barrow Environmental Observatory (BEO) and the North Slope near Utqiagvik (Barrow), Alaska and 2) multiple areas on the discontinuous permafrost region of the Seward Peninsula north of Nome, Alaska.Through observations, experiments, and synthesis with existing datasets, NGEE Arctic provided an enhanced knowledge base for multi-scale modeling and contributed to improved process representation at global pan-Arctic scales within the Department of Energy's Earth system Model (the Energy Exascale Earth System Model, or E3SM), and specifically within the E3SM Land Model component (ELM).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Distribution of genetic variation underlying adult migration timing in steelhead of the Columbia River basin

Abstract Fish migrations are energetically costly, especially when moving between freshwater and saltwater, but are a viable strategy for Pacific salmon and trout ( Oncorhynchus spp.) due to the advantageous resources available at various life stages. Anadromous steelhead ( O. mykiss ) migrate vast distances and exhibit variation for adult migration phenotypes that have a genetic basis at candidate genes known as greb1L and rock1 . We examined the distribution of genetic variation at 13 candidate markers spanning greb1L , intergenic, and rock1 regions versus 226 neutral markers for 113 populations ( n = 9,471) of steelhead from inland and coastal lineages in the Columbia River. Patterns of population structure with neutral markers reflected genetic similarity by geographic region as demonstrated in previous studies, but candidate markers clustered populations by genetic variation associated with adult migration timing. Mature alleles for late migration had the highest frequency overall in steelhead populations throughout the Columbia River, with only 9 of 113 populations that had a higher frequency of premature alleles for early migration. While a single haplotype block was evident for the coastal lineage, we identified multiple haplotype blocks for the inland lineage. The inland lineage had one haplotype block that corresponded to candidate markers within the greb1L gene and immediately upstream in the intergenic region, and the second block only contained candidate markers from the intergenic region. Haplotype frequencies had similar patterns of geographic distribution as single markers, but there were distinct differences in frequency between the two haplotype blocks for the inland lineage. This may represent multiple recombination events that differed between lineages where phenotypic differences exist between freshwater entry versus arrival timing as indicated by Micheletti et al. (2018a). Redundancy analyses were used to model environmental effects on allelic frequencies of candidate markers, and significant variables were migration distance, temperature, isothermality, and annual precipitation. This study improves our understanding of the spatial distribution of genetic variation underlying adult migration timing in steelhead as well as associated environmental factors and has direct conservation and management implications.

Collins, Erin E.↗
DOE OSTI2023

Juvenile life history diversity is associated with lifetime individual heterogeneity in a migratory fish

Abstract Differences in the life history pathways (LHPs) of juvenile animals are often associated with differences in demographic rates in later life stages. For migratory animals, different LHPs often result in animals from the same population occupying distinct habitats subjected to different environmental drivers. Understanding how demographic rates differ among animals expressing different LHPs may reveal fitness trade‐offs that drive the expression of alternative LHPs and enable better prediction of population dynamics in a changing environment. To understand how demographic outcomes and their relationships with environmental variables differ among animals with different LHPs, we analyzed a long‐term (2006–2021) mark–recapture dataset for Chinook salmon ( Oncorhynchus tshawytscha ) from the Wenatchee River, Washington, USA. Distinct LHPs represented in this population include either remaining in the natal stream until emigrating to the ocean as a 1‐year‐old (natal‐reach rearing) or emigrating from the natal stream and rearing in downstream habitats for several months before completing the emigration to the ocean as a 1‐year‐old (downstream rearing). We found that downstream‐rearing fish emigrated to the ocean 19 days earlier on average and returned as adults from the ocean at higher rates. We detected a positive correlation between rate of return from the ocean by downstream‐rearing fish and coastal upwelling in their spring of outmigration, whereas for natal‐reach‐rearing fish we detected a positive correlation with sea surface temperature during their first marine summer. Different responses to environmental variability should lead to asynchrony in adult abundance among juvenile LHPs. A higher proportion of downstream‐rearing fish returned at younger ages compared with natal‐reach‐rearing fish, which contributed to variability in age at reproduction and greater mixing across generations. Our results demonstrate how diversity in juvenile LHPs is associated with heterogeneity in demographic rates during subsequent life stages, which can in turn affect variance in aggregate population abundance and response to environmental change. Our findings underscore the importance of considering life history diversity in demographic analyses and provide insights into the effects of life history diversity on population dynamics and trade‐offs that contribute to the maintenance of life history diversity.

Sorel, Mark H.↗
DOE OSTI2020

Elevation distributed micro-climatology data in a coastal glaciated watershed

Air temperature, ground temperature and relative humidity data were collected in a longitudinal transect of the Nooksack watershed at varying elevations from 500 to 1800 m above sea level. Data were collected by anchoring sensors from trees above winter snow levels and shaded from direct solar radiation. Paired sensors were also buried 3 cm under ground near each air temperature sensor to determine snow absence or presence. Select sites included relative humidity sensors to indicate whether precipitation was occurring. Data were collected every 3-4 h from December 2015 to Sept 2018 (with ongoing collection). Code for analysis of daily mean, minimum, maximum, and temperature change with elevation (lapse rates) are available on Github (https://doi.org/10.5281/zenodo.3239539). The sensor download and intermediate data products are available on HydroShare at (http://www.hydroshare.org/resource/222e832d3df24dea9bae9bbeb6f4219d) with publicly accessible visualization available from the Nooksack Observatory at data.cuahsi.org. Hydrologic models are generally structured with a single annual average lapse rate parameter which assumes a linear temperature gradient with elevation. The daily data (2016-2018) is used as part of ongoing studies on the non-linear dynamics and temporal variability of temperature with elevation to improve assessments of watershed function and salmon habitat.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Projecting spatiotemporally explicit effects of climate change on stream temperature: A model comparison and implications for coldwater fishes

Conservation planners and resource managers seek information about how the availability and locations of cold-water habitats will change in the future and how these predictions vary among models. In this work, we used a physical process-based model to demonstrate the implications of climate change for streamflow and water temperature in two watersheds with distinctive flow regimes: the Snoqualmie watershed (WA) and Siletz watershed (OR), USA. Our model incorporated a downscaled ensemble of global climate model outputs and was calibrated with in situ and remotely sensed water temperatures. Furthermore, we compared predictions from our processed-based model to those from a publicly available and widely used statistical model. The process-based model projected greater changes in summer maximum water temperatures for the mixed-rain-snow Snoqualmie watershed than for the rain-dominated Siletz watershed as a result of the near-complete loss of winter snowpack and significant reduction in summer flow in the Snoqualmie watershed expected by the 2080s. Both models projected generally similar future spatial patterns of maximum water temperature in the two rivers, with cool reaches distributed farther upstream and fewer in number. However, the process-based model projected higher spatial heterogeneity in water temperature due to our spatially explicit simulation of streamflow and because we calibrated the model with spatially continuous remotely sensed water temperature data. We used stream temperature projections to assess the vulnerability of Pacific salmon and trout to changes in the spatial distribution of cold-water habitats during August by the 2080s. Results suggest that salmonids may have fewer summertime cold-water habitats in both watersheds. Projected stream warming may further limit particular species and life stages, especially in the Snoqualmie watershed. Our comparison of models highlights the importance of considering what might be gained by using a process-based model for evaluating and prioritizing management actions that mitigate climate impacts on cold-water habitats for stream fishes.

54 ENVIRONMENTAL SCIENCES↗