Lower Columbia River Research Articles

Effects of river infrastructure, dredged material placement, and altered hydrogeomorphic processes: The stress ecology of floodplain wetlands and associated fish communities

Recognition of the habitat values of coastal and floodplain wetlands has inspired research and engineering to restore biological functions after widespread species declines. However, the restoration and management of tidal river floodplains requires a more complete understanding of anthropogenic stressors on hydrogeomorphology and ecological processes. River floodplains near the ocean are affected by localized diking and dredging as well as basin-wide stressors such as dams. We evaluated the effects of stressors versus spatial position, both longitudinal and lateral to the mainstem, using physical and biological response variables in river floodplain wetlands. We categorized historical and modern stressors on the hydrogeomorphic regime of the lower Columbia River and estuary, northeast Pacific coast, including basin-scale management and local impacts. Using this categorization, we analyzed 44 attributes using field-collected data from 50 floodplain wetlands. Attributes represent channels, floods, plant communities, and fish communities. Here we show that plant and fish communities are stratified by position along the estuarine–riverine gradient, in contrast to physical habitat characteristics, which are stratified by stressors on hydrogeomorphic regimes and in some cases the lateral distance from the mainstem river on tributaries. Spatial position relative to water-level dynamics and salinity more strongly affect the biota than does stressor history. Stressor effects were greatest on the geomorphology observed in formerly diked, now reconnected wetlands and in wetlands with a history of dredged material placement; historically diked sites had anomalously deep channels with larger cross-sectional areas while sites with dredged material had shallow channels and lower levels of organic carbon in sediment. In wetlands subject only to landscape-scale stressors such as flow alterations by dams, organic carbon levels were higher. These findings provide natural resource managers with opportunities to enhance similarity to natural conditions and better understand future wetland evolution from different baselines of stressor history and river position.

Implementing Superresolution of Nonstationary Tides with Wavelets: An Introduction to CWT_Multi

Abstract Tides are often nonstationary due to nonastronomical influences. Investigating variable tidal properties implies a trade-off between separating adjacent frequencies (using long analysis windows) and resolving their time variations (short analysis windows). Previous continuous wavelet transform (CWT) tidal methods resolved tidal species. Here, we present CWT_Multi, a MATLAB code that 1) uses CWT linearity (via the “response coefficient method”) to implement superresolution, i.e., resolving tidal constituents beyond the Rayleigh criterion; 2) provides a Munk–Hasselmann constituent selection criterion appropriate for superresolution; and 3) introduces an objective, time-variable form of inference (“dynamic inference”) based on time-varying data properties. CWT_Multi resolves tidal species on time scales of days, and multiple constituents per species with fortnightly filters. It outputs astronomical phase lags and admittances, analyzes multiple records, and provides power spectra of the signal(s), residual(s), and reconstruction(s); confidence limits; and signal-to-noise ratios. Artificial data and water levels from the Lower Columbia River Estuary (LCRE) and San Francisco Bay Delta (SFBD) are used to test CWT_Multi and compare it to harmonic analysis programs NS_Tide and UTide. CWT_Multi provides superior reconstruction, detiding, dynamic analysis utility, and time resolution of constituents (but with broader confidence limits). Dynamic inference resolves closely spaced constituents (like K1, S1, and P1) on fortnightly time scales, quantifying impacts of diel power peaking (with a 24-h period, like S1) on water levels in the LCRE. CWT_Multi also helps quantify the impacts of high flows and a salt barrier closing on tidal properties in the SFBD. On the other hand, CWT_Multi does not excel at prediction, and results depend on analysis details, as for any method applied to nonstationary data. Significance Statement Ocean tides, especially in coastal and estuarine systems, are often nonstationary, in the sense that the mean and standard deviation of tidal properties vary over time, usually in response to some nontidal process. We introduce here a MATLAB code, CWT_Multi, that uses wavelet transforms to resolve both tidal species and constituents on time scales from a few days to months. Our code accommodates multiple scalar time series and has typical tidal analysis features like constituent selection and inference, plus two forms of uncertainty analyses. It is flexible, allowing the user to adapt analysis properties to diverse datasets. CWT_Multi is applicable to many problems involving time-variable tides, including sea level rise, compound flooding, sediment transport, and wetland habitat analyses. Application to vector data is a straightforward extension, but further development of our uncertainty analysis is merited. Because nonstationary tidal analysis is rapidly advancing, we also define the features of a “well-formed” analysis code.

Weirs: An effective tool to reduce hatchery–wild interactions on the spawning grounds?

AbstractObjectiveHatchery‐produced salmon and steelhead Oncorhynchus mykiss mitigate for habitat loss and support valuable commercial, recreational, and tribal fisheries. However, excessive interactions between hatchery and wild fish can also cause harm to wild populations. Weirs have been implemented as a management tool to remove returning hatchery‐origin Chinook Salmon O. tshawytcha adults to reduce the proportion of hatchery‐origin spawners (pHOS) in spawning areas used by their wild counterparts. Using a decade of data since new weirs were implemented, our objective was to evaluate the efficacy of this management approach.MethodsWeirs were installed in six tributaries of the lower Columbia River, Washington. Using data from both weir operations and spawning ground surveys, we quantified weir efficiency (the proportion of upstream migrants captured by the weir) and resultant pHOS in wild spawning areas and evaluated evidence for unintended effects of weirs on naturally spawning salmon in years with (2011–2017) and without weirs (2002–2010) in one population by evaluating weir effects on spawner apparent residence time, distribution, and recruitment to the juvenile stage.ResultWeir efficiencies were highly variable across years and locations (7.3–100.0%). Estimates of pHOS were variable among populations and years (interannual population mean range: 11.9% to 75.2%) but were higher in all but 2 of the 43 population‐year combinations than needed to maintain recovery‐plan‐targeted levels of population viability using quantitative genetic model‐based standards identified by the Hatchery Scientific Review Group. Several factors contributed to the proportion of hatchery spawners exceeding pHOS standards at the population level, including fish passing weirs during freshets, spawning below weir sites and in tributaries without weirs, and imperfect marking of hatchery‐released juveniles. In the sole watershed with sufficient pre‐weir data to evaluate before–after changes, we documented a downstream shift in the spatial distribution of redds, lower apparent residence time of spawners, and lower production of parr in years following weir installation.ConclusionOur results indicate that using weirs as a tool to reduce hatchery–wild interactions on the spawning grounds is challenging. Weir implementation reduced pHOS; however, in most cases, resulting pHOS was not low enough to facilitate fit and viable wild populations. Weirs also were associated with unintended negative impacts to the single population where we had adequate before and after weir implementation data to evaluate effects. These impacts may be harmful to recovery efforts and offset the intended benefits of weirs to wild populations. Our study highlights the need for adaptive management to realize the goals intended for weirs, underscores the need for experimental design approaches, and identifies opportunities for future work.

Utility of parentage-based tagging for monitoring Coho salmon (Oncorhynchus kisutch) in the interior Columbia River basin.

By the 1980s, after decades of declining numbers in the mid-1900s, Coho salmon (Oncorhynchus kisutch) were considered extirpated from the interior Columbia River. In the mid-1990s, the Confederated Tribes of the Umatilla Indian Reservation, the Confederated Tribes and Bands of the Yakama Nation, and the Nez Perce Tribe began successful reintroduction programs of Coho salmon upstream of Bonneville Dam, but which were initially sourced from lower Columbia River hatcheries. Here we present the first Coho salmon parentage-based tagging (PBT) baseline from seven hatchery programs located in the interior Columbia River basin, and two sites at or downstream of Bonneville Dam, composed of over 32,000 broodstock samples. Analyses of baseline collections revealed that genetic structure followed a temporal pattern based on 3-year broodlines rather than geographic location or stocking history. Across hatchery programs, similar levels of genetic diversity was present. The PBT baseline provided multiple direct applications such as identification of origin for Coho salmon collected in a mixed stock at Priest Rapids Dam and the detection of the proportion and distribution of hatchery-origin fish on the spawning grounds in the Methow River basin. The PBT baseline for Coho salmon is freely available for use and can be downloaded from FishGen.net.

Shallow-Water Habitat in the Lower Columbia River Estuary: A Highly Altered System

Decreases in shallow-water habitat area (SWHA) in the Lower Columbia River and Estuary (LCRE) have adversely affected salmonid populations. We investigate the causes by hindcasting SWHA from 1928 to 2004, system-wide, based on daily higher high water (HHW) and system hypsometry. Physics-based regression models are used to represent HHW along the system as a function of river inflow, tides, and coastal processes, and hypsometry is used to estimate the associated SWHA. Scenario modeling is employed to attribute SWHA losses to levees, flow regulation, diversion, navigational development, and climate-induced hydrologic change, for subsidence scenarios of up to 2 m, and for 0.5 m fill. For zero subsidence, the system-wide annual-average loss of SWHA is 55 ± 5%, or 51 × 105 ha/year; levees have caused the largest decrease (54-14+5\\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$${54}_{-14}^{+5}$$\\end{document}%, or ~ 50 × 105 ha/year). The loss in SWHA due to operation of the hydropower system is small, but spatially and seasonally variable. During the spring freshet critical to juvenile salmonids, the total SWHA loss was 63-3+2\\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$${63}_{-3}^{+2}$$\\end{document}%, with the hydropower system causing losses of 5–16% (depending on subsidence). Climate change and navigation have caused SWHA losses of 5-5+16\\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$${5}_{-5}^{+16}$$\\end{document}% and 4-6+14\\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$${4}_{-6}^{+14}$$\\end{document}%, respectively, but with high spatial variability; irrigation impacts have been small. Uncertain subsidence causes most of the uncertainty in estimates; the sum of the individual factors exceeds the total loss, because factors interact. Any factor that reduces mean or peak flows (reservoirs, diversion, and climate change) or alters tides and along-channel slope (navigation) becomes more impactful as assumed historical elevations are increased to account for subsidence, while levees matter less.

“Once the Fire Starts Then There Is No Stopping It”: The Revitalization of Chinookan Art in the 21st Century, Conversations with Greg A. Robinson

Chinookan art centered on the Lower Columbia River and was created by Chinookan-speaking people living along the river and its tributaries. The style is unique, focusing on geometric forms, numerical patterns, and anatomical representation. It is embedded in Chinookan mythology and differs considerably from the more widely recognized Formline of Indigenous artists from the northern Pacific Northwest. It also receives less attention, both publicly and scholarly. Due to high rates of death along the Columbia from introduced diseases during colonial invasion, and high levels of looting that followed, Chinookan art nearly disappeared from the landscape. In the 21st century Chinookan art has had a resurgence, led by Chinookan practitioners. The resurgence occurs not only within individual households but also in public settings. This resurgence also includes an emphasis on teaching the style to youth, who learn that this is not just about making art but is integrally attached to culture more broadly, including connection to language, stories, protocols, and Indigenous identity itself. It is ultimately a source of pride, resilience, and resistance. As a result, where there were once generations who never saw a landscape with Chinookan art, there are now generations who will never know a landscape without it.

Warming of the lower Columbia River, 1853 to 2018

AbstractWater temperature is a critical ecological indicator; however, few studies have statistically modeled century‐scale trends in riverine or estuarine water temperature, or their cause. Here, we recover, digitize, and analyze archival temperature measurements from the 1850s onward to investigate how and why water temperatures in the lower Columbia River are changing. To infill data gaps and explore changes, we develop regression models of daily historical Columbia River water temperature using time‐lagged river flow and air temperature as the independent variables. Models were developed for three time periods (mid‐19th, mid‐20th, and early 21st century), using archival and modern measurements (1854–1876; 1938–present). Daily and monthly averaged root‐mean‐square errors overall are 0.89°C and 0.77°C, respectively for the 1938–2018 period. Results suggest that annual averaged water temperature increased by 2.2°C ± 0.2°C since the 1850s, a rate of 1.3°C ± 0.1°C/century. Increased water temperatures are seasonally dependent. An increase of approximately 2.0°C ± 0.2°C/century occurs in the July–Dec time‐frame, while springtime trends are statistically insignificant. Rising temperatures change the probability of exceeding ecologically important thresholds; since the 1850s, the number of days with water temperatures over 20°C increased from ~5 to 60 per year, while the number below 2°C decreased from ~10 to 0 days/per year. Overall, the modern system is warmer, but exhibits less temperature variability. The reservoir system reduces sensitivity to short‐term atmospheric forcing. Statistical experiments within our modeling framework suggest that increased water temperature is driven by warming air temperatures (~29%), altered river flow (~14%), and water resources management (~57%).

Impacts of a Cascadia Subduction Zone Earthquake on Water Levels and Wetlands of the Lower Columbia River and Estuary

AbstractSubsidence after a subduction zone earthquake can cause major changes in estuarine bathymetry. Here, we quantify the impacts of earthquake‐induced subsidence on hydrodynamics and habitat distributions in a major system, the lower Columbia River Estuary, using a hydrodynamic and habitat model. Model results indicate that coseismic subsidence increases tidal range, with the smallest changes at the coast and a maximum increase of ∼10% in a region of topographic convergence. All modeled scenarios reduce intertidal habitat by 24%–25% and shifts ∼93% of estuarine wetlands to lower‐elevation habitat bands. Incorporating dynamic effects of tidal change from subsidence yields higher estimates of remaining habitat by multiples of 0–3.7, dependent on the habitat type. The persistent tidal change and chronic habitat disturbance after an earthquake poses strong challenges for estuarine management and wetland restoration planning, particularly when coupled with future sea‐level rise effects.

Ecological effects of reed canarygrass in the lower Columbia River

Ecological effects of reed canarygrass in the lower Columbia River

Coproduction and modeling spatial contact networks prevent bias about infectious hematopoietic necrosis virus transmission for Snake River Basin salmonids

Much remains unknown about variation in pathogen transmission across the geographic range of a free-ranging fish or animal species and about the influence of movement (associated with husbandry practices or animal behavior) on pathogen transmission. Salmonid hatcheries are an ideal system in which to study these processes. Salmonid hatcheries are managed for endangered species recovery, supplementation of threatened or at-risk fish stocks, support of fisheries, and ecosystem stability. Infectious hematopoietic necrosis virus (IHNV) is a rhabdovirus of significant concern to salmon aquaculture. Landscape IHNV transmission dynamics previously had been estimated only for salmonid hatcheries in the Lower Columbia River Basin (LCRB). The objectives of this study were to estimate IHNV transmission dynamics in a unique geographic region, the Snake River Basin (SRB), and to quantitatively estimate the effect of model coproduction on inference because previous assessments of coproduction have been qualitative. In contrast to the LCRB, the SRB has hatchery complexes consisting of a main hatchery and ≥1 satellite facility. Knowledge about hatchery complexes was held by a subset of project researchers but would not have been available to project modelers without coproduction. Project modelers generated and tested multiple versions of Bayesian susceptible-exposedinfected models to realistically represent the SRB and estimate the effect of coproduction. Models estimated the frequency of transmission routes, route-specific infection probabilities, and infection probabilities for combinations of salmonid hosts and IHNV lineages. Model results indicated that in the SRB, avoiding exposure to IHNV-positive adult salmonids is the most important action to prevent juvenile infections. Migrating adult salmonids exposed juvenile cohort-sites most frequently, and the infection probability was greatest following exposure to migrating adults. Without coproduction, the frequency of exposure by migrating adults would have been overestimated by 70 cohort-sites, and the infection probability following exposure to migrating adults would have been underestimated by∼0.09. The coproduced model had less uncertainty in the infection probability if no transmission route could be identified (Bayesian credible interval (BCI) width = 0.12) compared to the model without coproduction (BCI width = 0.34). Evidence for virus lineage MD specialization on steelhead and rainbow trout (both Oncorhynchus mykiss) was apparent without model coproduction. In the SRB, we found a greater probability of virus lineage UC infection in Chinook salmon (Oncorhynchus tshawytscha) compared to in O. mykiss, whereas in the LCRB, UC more clearly exhibited a generalist approach. Coproduction influenced estimates that depended on transmission routes, which operated differently at main hatcheries and satellite sites within hatchery complexes. Hatchery complexes are found outside of the SRB and are not specific to salmonid hatcheries alone. There is great potential for coproduction and modeling spatial contact networks to advance understanding about infectious disease transmission in complex production systems and surrounding free-ranging animal populations.

Validation of age estimates for Chum and Sockeye salmon derived from otolith and scale analysis

Accurate age estimates are essential for developing robust stock assessment models and sustainable harvest, conservation, and management strategies. Here we use thermally marked hatchery-origin fish of known age to validate scale and whole otolith age estimation techniques for two stocks of Chum and one stock of Sockeye salmon from Washington state. Scale ages of Hood Canal summer-run Chum salmon were 95.7 % accurate (average percent error [APE] = 1.29 %) across 8 run years (RYs) and scale ages of Lower Columbia River fall-run Chum salmon were 93.0 % accurate (APE = 2.23 %) across 9 RYs. Cedar River Sockeye salmon were sampled in two locations: at the Ballard Locks during their spawning migration (scales and otoliths) or posthumously during spawning ground surveys (otoliths only). Scale and otolith ages of Ballard Locks Sockeye salmon demonstrated high and similar accuracy across 6 RYs (scales: 96.9% accurate, 0.86 % APE; otoliths: 95.3% accurate, 1.14 % APE). Otolith ages of spawning ground sampled Sockeye salmon were slightly less accurate (8 RYs: 92.9 % agreement, 1.65 % APE), largely due to a single outlying year. For both species we observed a trend of over-ageing individuals from the youngest age class and under-ageing individuals from the oldest age class. However, these age classes represented an exceedingly small proportion of sampled individuals for all stocks (always <2.6 %) and symmetry tests indicated bias was not significant in most years. To our knowledge this is the first age validation study using known age individuals for Chum and Sockeye salmon.

River Discharge Mediates Extent of Phytoplankton and Harmful Algal Bloom Habitat in the Columbia River Estuary (USA) During North Pacific Marine Heat Waves

Marine heat waves (MHWs) have been associated with extensive harmful algal blooms (HABs) in the northeast Pacific Ocean, but the degree to which these large-scale oceanographic events are mirrored in nearshore environments has not been well established. We compared phytoplankton assemblages in the Lower Columbia River Estuary (LCRE) during two Pacific MHWs that took place in 2015 and 2019, with observations from 2017, a year with no MHW. These data were paired with environmental data from the summers of 2015–2019 to characterize differences in estuarine conditions during MHWs that promote phytoplankton assemblage transitions and identify HAB-conducive conditions. Bloom densities of HAB taxa, Pseudo-nitzschia spp. (4.16 × 106 cells L−1) and Gymnodinium catenatum (5.66 × 106 cells L−1), were noted in the estuary during 2015 and 2019, respectively, 2 years where Pacific MHWs occurred during the summer months. These blooms coincided with estuary temperatures that were 1–2 ℃ above and river discharge volumes 46–48% lower than decadal daily averages. We identified patterns in the densities of several algal taxa associated with MHW-mediated low discharge in the LCRE, such as declines in tychopelagic diatoms and increasing abundance of pelagic marine taxa. We conclude that low river discharge, through extension of saline habitat area and longer residence times, likely contributed to the development of the observed marine HABs in the estuary. MHWs and associated declines in discharge are projected to become more common in the Pacific Northwest with climate change, which may alter late summer phytoplankton assemblages in the LCRE.

Broadscale distribution, abundance, and habitat associations of the invasive Asian clam (Corbicula fluminea) in the lower Columbia River, USA

AbstractThe Asian clam, Corbicula fluminea, is an invasive freshwater bivalve that has established populations across the globe and is known to have deleterious effects on natural and human systems. Yet, despite being present in the Columbia River (CR) for nearly a century, little is known about this invader's basic biology and ecology in this large river system. Thus, we undertook a field study to assess its (i) broadscale distribution and abundance, and (ii) associations with habitat characteristics in the lower CR. During 2019–2020, C. fluminea were collected from 27 shore‐based stations spanning 481 river kilometers of the lower CR, along with several habitat characteristics (bank slope, temperature, dissolved oxygen, pH, salinity, conductivity, chlorophyll‐a concentration, and sediment composition and % organic matter [OM]). C. fluminea abundance ranged from 0 to 430 ind. m−2. Most sites with abundances &gt;100 ind. m−2 were located downstream of Bonneville Dam, whereas most sites with abundances &lt;100 ind. m−2 were located upstream. Generalized linear models predicting the abundance of C. fluminea indicated significantly positive correlations with water temperature and % sand, and negative correlations with bank slope and sedimentary % OM. We also reviewed the global literature on abundance and habitat associations of C. fluminea and compared this with our own results. Our investigation represents the greatest spatial extent at which C. fluminea has been studied in the CR and our results provide a better understanding of the basic biology and ecology of this global invader, as well as provide natural resource managers with information on habitat conditions favorable for this invasive bivalve within temperate river ecosystems.

Maximizing salmonid bycatch survival with passively operated commercial fish traps

Commercial fish traps were recently implemented at a limited scale in the lower Columbia River in efforts to selectively harvest hatchery-origin fishes with minimal mortality of wild-origin salmonids listed under the U.S. Endangered Species Act. Prior studies of a modified passive trapping technique demonstrated nearly 100 % survival among adult salmonids released as bycatch. Building upon this research, additional survival studies for adult coho salmon, spring-run Chinook salmon, and summer-run Chinook salmon were conducted between 2019 and 2021 at two separate fish trap sites in the lower Columbia River. Over three years of study, we used mark-recapture and net pen holding methodologies to estimate post-release survival of Chinook salmon and coho salmon, respectively. Evaluating detections of Chinook salmon tagged and released from a passively operated fish trap in 2019, detection at Bonneville Dam over a mean 6.5 d upriver migration (167 km) was 1.000 (95 % CI: S ≥ 0.970) for the sample genetically assigned to populations originating upriver of Bonneville Dam. Through two separate net pen holding studies, post-release survival of coho salmon was estimated at 1.000 (95 % CI: S ≥ 0.975) over 4 d in 2020 and 0.965 (95 % CI: 0.948 ≤ S ≤ 0.969) over 6 d in 2021. Given that these analyses lacked control groups to adjust survival estimates for confounding mortality effects, study results are inherently conservative. Ultimately, the findings of our research support the conclusions of prior studies and further suggest that passively operated fish traps may allow for selective harvesting of targeted fish stocks with little to no mortality of adult salmonid bycatch.

Spatiotemporal distribution of Ceratonova shasta in the lower Columbia River Basin and effects of exposure on survival of juvenile chum salmon Oncorhynchus keta.

In the Columbia River Basin (CRB), USA, anthropogenic factors ranging from dam construction to land use changes have modified riverine flow and temperature regimes and degraded salmon habitat. These factors are directly implicated in native salmon and steelhead (Oncorhynchus species) population declines and also indirectly cause mortality by altering outcomes of ecological interactions. For example, attenuated flows and warmer water temperatures drive increased parasite densities and in turn, overwhelm salmonid resistance thresholds, resulting in high disease and mortality. Outcomes of interactions between the freshwater myxozoan parasite, Ceratonova shasta, and its salmonid hosts (e.g., coho O. kisutch and Chinook salmon O. tshawytscha) are well-described, but less is known about effects on chum salmon O. keta, which have a comparatively brief freshwater residency. The goal of this study was to describe the distribution of C. shasta relative to chum salmon habitat in the CRB and assess its potential to cause mortality in juvenile chum salmon (listed as threatened in the CRB under the U.S. Endangered Species Act). We measured C. shasta densities in water samples collected from chum salmon habitat throughout the lower CRB during the period of juvenile chum salmon outmigration, 2018–2020. In 2019, we exposed caged chum salmon fry from two hatchery stocks at three C. shasta-positive sites to assess infection prevalence and survival. Results demonstrated: (1) C. shasta was detected in spawning streams from which chum salmon have been extirpated but was not detected in contemporary spawning habitat while juvenile chum salmon were present, (2) spatiotemporal overlap occurs between C. shasta and juvenile chum salmon in the Columbia River mainstem, and (3) low densities of C. shasta caused lethal infection in chum salmon fry from both hatchery stocks. Collectively, our results suggest C. shasta may limit recovery of chum salmon now and in the future.

Nutrient Control of Phytoplankton Abundance and Biomass, and Microplankton Assemblage Structure in the Lower Columbia River (Vancouver, Washington, USA)

Nutrient limitation of phytoplankton is common but by no means universal in large temperate rivers. Previous field studies in the Columbia River, USA, are suggestive of nutrient limitations of phytoplankton, especially during summer, but this has never been tested experimentally. We therefore undertook monthly 5-day nutrient amendment incubation experiments from May–September 2018 using Columbia River water collected at Vancouver, Washington, USA. We compared replicate treatment bottles containing natural microplankton assemblages and amended nutrients (NO3, PO4 and SiO4 in combination) with replicate control bottles containing natural microplankton assemblages and ambient nutrients. Phytoplankton abundance and biomass were compared between treatments and controls on each day of each experiment, and microplankton assemblage structure was evaluated using Permutational Multivariate Analysis of Variance and Non-Metric Multi-Dimensional Scaling ordination on Day 0 (ambient) and Day 5 of each experiment. Nutrient amendment significantly affected phytoplankton abundance and biomass, particularly in June–August, although this varied between taxa (e.g., cyanobacteria, dinoflagellates, flagellates and ciliates showed more frequent positive responses than chlorophytes and diatoms did). Abundance-based microplankton assemblage structure was significantly correlated with PO4, SiO4 and NO3 concentrations, and BIOENV procedure in R revealed that the best subset of explanatory variables included SiO4 and NO3 concentrations. Biomass-based assemblage structure was significantly correlated with SiO4 and NO3, although BIOENV explanatory variables included only SiO4. These results are suggestive of summertime nutrient control of phytoplankton abundance and biomass, as well as microplankton composition, in the lower Columbia River, at least during some months. Since eutrophication is increasing in the watershed, this could have important implications for higher level consumers (e.g., zooplankton and out-migrating juvenile salmon).

The morphology of fluvial‐tidal dunes: Lower Columbia River, Oregon/Washington, USA

AbstractThis article quantifies changes in primary dune morphology of the mesotidal Lower Columbia River (LCR), USA, through ~90 river kilometres of its fluvial‐tidal transition at low‐river stage. Measurements were derived from a multibeam echo sounder dataset that captured bedform dimensions within the thalweg (≥ 9 m depth; ≥ 0.7) of the LCR main channel. Measurements revealed two categories of dunes: (i) fine to medium sand ‘fluvial‐tidal to tidal’ (upstream‐oriented, simple, and two‐dimensional) low‐angle dunes (heights ≈ 0.3–0.8 m; wavelengths ≈ 10–25 m; mean lee‐angles ≈ 7°–11°), and (ii) medium to coarse sand ‘fluvial’ (downstream‐oriented, compound, and 2.5‐dimensional to three‐dimensional) low‐angle dunes (heights ≈ 1.5–3 m; wavelengths ≈ 60–110 m; mean lee‐angles ≈ 11°–18°). At low‐river stage, where ≥ 0.7, approximately 86% of the fluvial‐tidal transition is populated by ‘fluvial’ dunes, whilst ~ 14% possesses ‘fluvial‐tidal to tidal’ dunes that form in the downstream‐most reaches. Thus, throughout the majority of the deepest channel segments of the fluvial‐tidal transition, seaward‐oriented river and ebb‐tidal currents govern dune morphology, whilst strong bidirectional tidal‐current influence is restricted to the downstream most reaches of the transition zone. Two mechanisms are reasoned to explain dune low‐angle character: (1) high‐suspended sediment transport near peak tidal‐currents that lowers the leeside‐angles of ‘fluvial‐tidal to tidal’ dunes, and (2) superimposed bedforms that erode the crests, leesides, and stoss‐sides, of ‘fluvial’ dunes, which results in the reduction of leeside‐angles. Fluctuations in river discharge create a ‘dynamic morphology reach’ at depths where ≥ 0.7, which spans river kilometres 12–40 and displays the greatest variation in dune morphology. Similar channel reaches likely exist in fluvial‐tidal transitions with analogous physical characteristics as the LCR and may provide a distinct signature for the fluvial‐tidal transition zone.

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 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.

Freshwater growth can provide a survival advantage to Interior Columbia River spring Chinook salmon after ocean entry

ABSTRACT: A prerequisite to effectively managing fish populations is to understand what factors and processes, including predation and changing environments, affect the survival of individuals. In anadromous fishes, the transition from freshwater to marine habitats is considered a critical period regulating population abundance due to high and variable mortality rates. During this period, conditions experienced in freshwater may influence size- and growth-selective mortality in the ocean. To determine if size- or growth-selective mortality occurred in juvenile Interior Columbia River spring Chinook salmon Oncorhynchus tshawytscha as they migrated through the Lower Columbia River and Estuary (LCRE) and during early marine residence, we examined 2 cohorts in years with differing survival (2016 and 2017). We reconstructed the size and growth of individual Chinook salmon from otoliths and compared these attributes in fish caught at 4 sites in the LCRE to those caught in the ocean off Oregon and Washington. We observed evidence of growth-selective mortality in 2017 but not 2016. Specifically, in 2017, when overall survival was lower, individuals caught in the ocean grew significantly faster in freshwater than individuals caught in the estuary. Given that the fish had resided in the ocean for an average of 30 d, these results indicate growth-selective mortality in 2017 occurred soon after ocean entry. The finding that growth in freshwater may impact marine survival adds to the growing body of evidence that processes occurring both prior to and after ocean entry impact the marine survival of this species.

Abundance and growth of the invasive Asian clam, Corbicula fluminea, in the lower Columbia River, USA

Abundance and growth of the invasive Asian clam, Corbicula fluminea, in the lower Columbia River, USA