Michael A. Jepson

Hydrosystem, Dam, and Reservoir Passage Rates of Adult Chinook Salmon and Steelhead in the Columbia and Snake Rivers

Abstract We assessed upstream migration rates of more than 12,000 radio-tagged adult Chinook salmon Oncorhynchus tshawytscha and steelhead O. mykiss past a series of dams and reservoirs on the Columbia and Snake rivers. Most fish passed each dam in less than 2 d. Migration behavior in reservoirs and through multiple dam–reservoir reaches varied within and between years and between species. Within years, spring–summer Chinook salmon migrated more rapidly as water temperature and date of migration increased; between years, spring–summer Chinook salmon migrated fastest in low-discharge years. Steelhead migrations slowed dramatically when summer water temperatures peaked within each year, then increased as rivers cooled in fall. Mean summer temperatures explained more between-year variation in steelhead passage rates than did differences in discharge. Fall Chinook salmon migration rates also slowed during periods of warm water. Protracted passage times within the hydrosystem were most likely for fish from all...

Stock-Specific Migration Timing of Adult Spring–Summer Chinook Salmon in the Columbia River Basin

Abstract An understanding of the migration timing patterns of Pacific salmon Oncorhynchus spp. and steelhead O. mykiss is important for managing complex mixed-stock fisheries and preserving genetic and life history diversity. We examined adult return timing for 3,317 radio-tagged fish from 38 stocks of Columbia River basin spring–summer Chinook salmon O. tshawytscha over 5 years. Stock composition varied widely within and between years depending on the strength of influential populations. Most individual stocks migrated at similar times each year relative to overall runs, supporting the hypotheses that run timing is predictable, is at least partially due to genetic adaptation, and can be used to differentiate between some conspecific populations. Arrival timing of both aggregated radio-tagged stocks and annual runs was strongly correlated with river discharge; stocks arrived earlier at Bonneville Dam and at upstream dams in years with low discharge. Migration timing analyses identified many between-stock ...

Movement of Radio-Tagged Adult Pacific Lampreys during a Large-Scale Fishway Velocity Experiment

Abstract Optimization of fishways to pass multiple species is challenging because life history, swimming ability, and behavior often differ among species. For example, high fishway water velocities designed to attract adult Pacific salmon Oncorhynchus spp. at Columbia River dams inhibit fishway entrance and passage success of adult Pacific lampreys Lampetra tridentata, a species of conservation concern. We tested whether reduced water velocities (∼1.2 m/s, 0.15 m of head) at Bonneville Dam fishway openings improved entrance efficiency and other passage metrics for radio-tagged Pacific lampreys compared with control velocities (>1.98 m/s, 0.46 m of head) and near-zero (“standby”) velocities. Lamprey entrance efficiencies were significantly higher in the reduced-velocity treatment (26–29%) than in the control (13–20%) or standby (5–9%) treatment. In some years, significantly more Pacific lampreys passed through fishway collection channels and transition pools and reached the fish ladder during reduced-veloc...

Performance of Passive Integrated Transponder Tags and Radio Tags in Determining Dam Passage Behavior of Adult Chinook Salmon and Steelhead

Abstract Passage of adult Pacific salmon Oncorhynchus spp. and steelhead O. mykiss at dams in the Columbia River basin has historically been determined by visual fish counts and radiotelemetry. Increasingly, however, passive integrated transponder (PIT) tags are being used for adult salmonid research and monitoring. Although both radiotelemetry and PIT tag technology provide accurate and cost-effective data under certain circumstances, neither alone meets all needs, and managers need to understand the strengths, weaknesses, and biases of each method. To evaluate the two tagging methods, we tagged over 3,200 adult Chinook salmon O. tshawytscha and steelhead during 2002 and 2003 with both a radio transmitter and a PIT tag as the fish migrated upstream past Bonneville Dam. We compared their performance in measuring upstream passage and fallback (i.e., downstream passage) behavior at each of four main-stem hydropower dams. Counts of fish passage at dams based on data from double-tagged fish were similar betwe...

Thermal exposure of adult Chinook salmon in the Willamette River basin.

Radiotelemetry and archival temperature loggers were used to reconstruct the thermal experience of adult spring Chinook salmon (Oncorhynchus tshawytscha) in the highly regulated Willamette River system in Oregon. The study population is threatened and recovery efforts have been hampered by episodically high prespawn mortality that is likely temperature mediated. Over three years, 310 salmon were released with thermal loggers and 68 were recovered in spawning tributaries, primarily at hatchery trapping facilities downstream from high-head dams. More than 190,000 internal body temperature records were collected (mean ~2800 per fish) and associated with 14 main stem and tributary reaches. Most salmon experienced a wide temperature range (minima ~8-10 °C; maxima ~13-22 °C) and 65% encountered potentially stressful conditions (≥18 °C). The warmest salmon temperatures were in lower Willamette River reaches, where some fish exhibited short-duration behavioral thermoregulation. Cumulative temperature exposure, measured by degree days (DD) above 0 °C, varied more than seven-fold among individuals (range=208-1498 DDs) and more than two-fold among sub-basin populations, on average. Overall, ~72% of DDs accrued in tributaries and ~28% were in the Willamette River main stem. DD differences among individuals and populations were related to migration distance, migration duration, and salmon trapping protocols (i.e., extended pre-collection holding in tributaries versus hatchery collection shortly after tributary entry). The combined data provide spatially- and temporally-referenced information on both short-duration stressful temperature exposure and the biologically important total exposure. Thermal exposure in this population complex proximately influences adult salmon physiology, maturation, and disease processes and ultimately affects prespawn mortality and fitness. The results should help managers develop more effective salmon recovery plans in basins with marginal thermal conditions.

Population Composition, Migration Timing, and Harvest of Columbia River Chinook Salmon in Late Summer and Fall

Abstract We used radiotelemetry to evaluate population composition, run timing, and reservoir harvest patterns for adult Columbia River fall-run Chinook salmon Oncorhynchus tshawytscha. Chinook salmon (n = 5,886) were collected at Bonneville Dam during August–October over 7 years. We selected for upriver bright (URB) populations en route to interior basin spawning sites because these groups are priority populations for both fisheries and conservation efforts. Run composition varied within and among years, but in all years a relatively large percentage of the earliest migrants returned to upper Columbia River sites and the majority of late-run fish returned to the Columbia River Hanford Reach. Deschutes, Yakima, and Snake River populations typically constituted small (≤17%) but relatively constant proportions of the run throughout each migration season. Population-specific migration timing distributions indicated modest but persistent timing differences among populations, particularly for Hanford Reach and...

Effects of Temporary Tributary Use on Escapement Estimates of Adult Fall Chinook Salmon in the Deschutes River, Oregon

Abstract International managers use escapement estimates of the Deschutes River, Oregon, population of fall Chinook salmon Oncorhynchus tshawytscha to forecast abundance and assess population health. Fish are externally marked in the Deschutes River, and a subsample of the marked fish is recovered on the spawning grounds to provide data for estimating escapement. Escapement would be overestimated if some of the marked fish exited the Deschutes River prior to spawning (i.e., used this tributary temporarily). We used mark–recapture and radiotelemetry techniques to calculate (1) the proportion of adult fall Chinook salmon that entered the Deschutes River and subsequently exited the river prior to spawning and (2) the effect of such temporary entrances on spawning ground escapement estimates. We used separate criteria to calculate maximum and minimum temporary tributary use rates, which were then used to adjust the escapement estimates made with external-tag data alone. Over the 3 years of study, the adjusted...

A Field Test of Eugenol-Based Anesthesia versus Fish Restraint in Migrating Adult Chinook Salmon and Steelhead

AbstractMany studies require the collection and handling of fish, which may have short- and long-term effects on their behavior and survival. We evaluated the effects of AQUI-S 20E, a eugenol-based anesthetic, on adult spring Chinook Salmon Oncorhynchus tshawytscha and winter steelhead O. mykiss in the Willamette River, Oregon. We experimentally compared the postrelease behaviors and movement into spawning tributaries of fish radio-tagged under anesthesia with those of fish radio-tagged while being manually held in a restraint device. Anesthetized Chinook Salmon were less likely than restrained Chinook Salmon to swim downstream (20% versus 47%), more likely to reascend the fishway at which they were collected (89% versus 60%), and more likely to escape to tributaries (82% versus 47%). The treatment effect persisted after statistically controlling for tag date, release time, and fish size. In contrast to Chinook Salmon, the percentages of anesthetized and restrained steelhead that moved downstream (17%), p...

Condition-Dependent En Route Migration Mortality of Adult Chinook Salmon in the Willamette River Main Stem

AbstractEpisodically high adult mortality during migration and near spawning sites has hindered the recovery of threatened spring-run Chinook Salmon Oncorhynchus tshawytscha in Oregon’s Willamette River basin. In 2011–2014, we assessed migration mortality for 762 radio-tagged adults along a ~260-km reach of the main stem of the Willamette River. Annual survival of salmon to spawning tributaries ranged from 0.791 (95% CI = 0.741–0.833) to 0.896 (0.856–0.926), confirming concerns about mortality in the migration corridor. In a series of general linear models, descaling, marine mammal injuries, and head injuries to adult Chinook Salmon were linked to reduced survival during migration to tributaries. Many injuries were minor (i.e., epidermal abrasions), which we hypothesize were unlikely to have caused direct mortality but may have increased salmon vulnerability to pathogens or other disease processes. Mortality in the main stem was not significantly associated with salmon body size, energetic status, sex, or...

Thermal exposure of adult Chinook salmon and steelhead: Diverse behavioral strategies in a large and warming river system

Rising river temperatures in western North America have increased the energetic costs of migration and the risk of premature mortality in many Pacific salmon (Oncorhynchus spp.) populations. Predicting and managing risks for these populations requires data on acute and cumulative thermal exposure, the spatio-temporal distribution of adverse conditions, and the potentially mitigating effects of cool-water refuges. In this study, we paired radiotelemetry with archival temperature loggers to construct continuous, spatially-explicit thermal histories for 212 adult Chinook salmon (O. tshawytscha) and 200 adult steelhead (O. mykiss). The fish amassed ~500,000 temperature records (30-min intervals) while migrating through 470 kilometers of the Columbia and Snake rivers en route to spawning sites in Idaho, Oregon, and Washington. Spring- and most summer-run Chinook salmon migrated before river temperatures reached annual highs; their body temperatures closely matched ambient temperatures and most had thermal maxima in the lower Snake River. In contrast, many individual fall-run Chinook salmon and most steelhead had maxima near thermal tolerance limits (20–22 °C) in the lower Columbia River. High temperatures elicited extensive use of thermal refuges near tributary confluences, where body temperatures were ~2–10 °C cooler than the adjacent migration corridor. Many steelhead used refuges for weeks or more whereas salmon use was typically hours to days, reflecting differences in spawn timing. Almost no refuge use was detected in a ~260-km reach where a thermal migration barrier may more frequently develop in future warmer years. Within population, cumulative thermal exposure was strongly positively correlated (0.88 ≤ r ≤ 0.98) with migration duration and inconsistently associated (-0.28 ≤ r ≤ 0.09) with migration date. All four populations have likely experienced historically high mean and maximum temperatures in recent years. Expected responses include population-specific shifts in migration phenology, increased reliance on patchily-distributed thermal refuges, and natural selection favoring temperature-tolerant phenotypes.