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USGS2019

Coelomic disorders of fishes

Dropsy is a commonly applied term for coelomic distention due to ascites, or the effusion and collection of fluid freely throughout the coelomic cavity. Dropsy, or ascites, is generally a sign of another ongoing disease process, oftentimes one that is multisystemic and impacting coelomic organs and tissues. Dropsy may be caused by a variety of potential etiological agents, both infectious and noninfectious. Stressors such as rapid change in water temperature may predispose fish to bacterial diseases associated with dropsy. Clinically affected fish display coelomic distension of varying degrees of severity. Generally considered a disease syndrome similar to dropsy, affecting specifically Malawi cichlids, a popular group of ornamental fish among aquarium hobbyists. Water belly occurs among salt water pen-reared salmonid fish, including Atlantic salmon, Chinook salmon and rainbow trout. Dietary changes such as reduction of the feeding rate have been reported to improve the condition among affected fish.

Book chapter↗

USGS2016

Bed texture mapping in large rivers using recreational-grade sidescan sonar

The size-distribution and spatial organization of bed sediment, or bed ‘texture’, is a fundamental attribute of natural channels and is one important component of the physical habitat of aquatic ecosystems. ‘Recreational-grade’ sidescan sonar systems now offer the possibility of imaging, and subsequently quantifying bed texture at high resolution with minimal cost, or logistical effort. We are investigating the possibility of using sidescan sonar sensors on commercially available ‘fishfinders’ for within-channel bed-sediment characterization of mixed sand-gravel riverbeds in a debris-fan dominated canyon river. We analyzed repeat substrate mapping of data collected before and after the November 2014 High Flow Experiment on the Colorado River in lower Marble Canyon, Arizona. The mapping analysis resulted in sufficient spatial coverage (e.g. reach) and resolutions (e.g. centrimetric) to inform studies of the effects of changing bed substrates on salmonid spawning on large rivers. From this preliminary study, we argue that the approach could become a tractable and cost-effective tool for aquatic scientists to rapidly obtain bed texture maps without specialized knowledge of hydroacoustics. Bed texture maps can be used as a physical input for models relating ecosystem responses to hydrologic management.

Conference Paper↗

USGS2009

One Northwest community - People, salmon, rivers, and the sea: Towards sustainable salmon fisheries

Pacific salmon management is in crisis. Throughout their range, salmon and steelhead populations are being adversely affected by human activities. Without coordinated, effective, and timely action, the future of the Pacific salmon resource is most certainly in doubt. To address the challenges that are currently facing salmon management, concerned citizens representing a diverse array of government agencies and non-governmental organizations have agreed to cooperate in the development of a Sustainable Fisheries Strategy for west coast salmon and steelhead populations. The Strategy builds on the contents of this book, resulting from the Sustainable Fisheries Conference and subsequent community- and watershed-based citizen forums. This chapter presents the key elements of the Strategy including a common vision for the future, a series of guiding principles, and specific strategies for supporting sustainable fisheries. As such, the Strategy embraces an ecosystem-based approach to managing human activities, rather than the traditional egocentric approach to managing salmonid populations and associated habitats. A system of community-based, watershed-oriented councils, including all stakeholders and agency representatives, is proposed for effective transition to ecosystem-based salmon and steelhead management. It is our hope that everyone involved in Pacific salmon management will embrace both the spirit and the specific elements of the Sustainable Fisheries Strategy as we face the difficult challenges ahead.

Book chapter↗

USGS2013

Spatial ecological processes and local factors predict the distribution and abundance of spawning by steelhead ( Oncorhynchus mykiss ) across a complex riverscape

Processes that influence habitat selection in landscapes involve the interaction of habitat composition and configuration and are particularly important for species with complex life cycles. We assessed the relative influence of landscape spatial processes and local habitat characteristics on patterns in the distribution and abundance of spawning steelhead (Oncorhynchus mykiss), a threatened salmonid fish, across ~15,000 stream km in the John Day River basin, Oregon, USA. We used hurdle regression and a multi-model information theoretic approach to identify the relative importance of covariates representing key aspects of the steelhead life cycle (e.g., site access, spawning habitat quality, juvenile survival) at two spatial scales: within 2-km long survey reaches (local sites) and ecological neighborhoods (5 km) surrounding the local sites. Based on Akaike’s Information Criterion, models that included covariates describing ecological neighborhoods provided the best description of the distribution and abundance of steelhead spawning given the data. Among these covariates, our representation of offspring survival (growing-season-degree-days, °C) had the strongest effect size (7x) relative to other predictors. Predictive performances of model-averaged composite and neighborhood-only models were better than a site-only model based on both occurrence (percentage of sites correctly classified = 0.80±0.03 SD, 0.78±0.02 vs. 0.62±0.05, respectively) and counts (root mean square error = 3.37, 3.93 vs. 5.57, respectively). The importance of both temperature and stream flow for steelhead spawning suggest this species may be highly sensitive to impacts of land and water uses, and to projected climate impacts in the region and that landscape context, complementation, and connectivity will drive how this species responds to future environments.

Oregon↗

USGS2014

Survival and reproduction of myxobolus cerebralis-resistant Rainbow Trout introduced to the colorado river and increased resistance of age-0 progeny

Myxobolus cerebralis caused severe declines in rainbow trout populations across Colorado following its introduction in the 1980s. One promising approach for the recovery of Colorado’s rainbow trout populations has been the production of rainbow trout that are genetically resistant to the parasite. We introduced one of these resistant crosses, known as the GR×CRR (cross between the German Rainbow [GR] and Colorado River Rainbow [CRR] trout strains), to the upper Colorado River. The abundance, survival, and growth of the stocked GR×CRR population was examined to determine if GR×CRRs had contributed offspring to the age-0 population, and determine whether these offspring displayed increased resistance and survival characteristics compared to their wild CRR counterparts. Apparent survival of the introduced GR×CRR over the entire study period was estimated to be 0.007 (±0.001). Despite low survival of the GR×CRRs, age-0 progeny of the GR×CRR were encountered in years 2008 through 2011. Genetic assignments revealed a shift in the genetic composition of the rainbow trout fry population over time, with CRR fish comprising the entirety of the fry population in 2007, and GR-cross fish comprising nearly 80% of the fry population in 2011. A decrease in average infection severity (myxospores fish −1 ) was observed concurrent with the shift in the genetic composition of the rainbow trout fry population, decreasing from an average of 47,708 (±8,950) myxospores fish −1 in 2009 to 2,672 (±4,379) myxospores fish −1 in 2011. Results from this experiment suggest that the GR×CRR can survive and reproduce in rivers with a high prevalence of M. cerebralis . In addition, reduced myxospore burdens in age-0 fish indicated that stocking this cross may ultimately lead to an overall reduction in infection prevalence and severity in the salmonid populations of the upper Colorado River.

Arizona, California, Colorado, New Mexico, Utah, W↗

USGS2015

Designing a monitoring program to estimate estuarine survival of anadromous salmon smolts: simulating the effect of sample design on inference

A number of researchers have attempted to estimate salmonid smolt survival during outmigration through an estuary. However, it is currently unclear how the design of such studies influences the accuracy and precision of survival estimates. In this simulation study we consider four patterns of smolt survival probability in the estuary, and test the performance of several different sampling strategies for estimating estuarine survival assuming perfect detection. The four survival probability patterns each incorporate a systematic component (constant, linearly increasing, increasing and then decreasing, and two pulses) and a random component to reflect daily fluctuations in survival probability. Generally, spreading sampling effort (tagging) across the season resulted in more accurate estimates of survival. All sampling designs in this simulation tended to under-estimate the variation in the survival estimates because seasonal and daily variation in survival probability are not incorporated in the estimation procedure. This under-estimation results in poorer performance of estimates from larger samples. Thus, tagging more fish may not result in better estimates of survival if important components of variation are not accounted for. The results of our simulation incorporate survival probabilities and run distribution data from previous studies to help illustrate the tradeoffs among sampling strategies in terms of the number of tags needed and distribution of tagging effort. This information will assist researchers in developing improved monitoring programs and encourage discussion regarding issues that should be addressed prior to implementation of any telemetry-based monitoring plan. We believe implementation of an effective estuary survival monitoring program will strengthen the robustness of life cycle models used in recovery plans by providing missing data on where and how much mortality occurs in the riverine and estuarine portions of smolt migration. These data could result in better informed management decisions and assist in guidance for more effective estuarine restoration projects.

PLoS ONE↗

USGS2020

Shifting food web structure during dam removal—Disturbance and recovery during a major restoration action

We measured food availability and diet composition of juvenile salmonids over multiple years and seasons before and during the world’s largest dam removal on the Elwha River, Washington State. We conducted these measurements over three sediment-impacted sections (the estuary and two sections of the river downstream of each dam) and compared these to data collected from mainstem tributaries not directly affected by the massive amount of sediment released from the reservoirs. We found that sediment impacts from dam removal significantly reduced invertebrate prey availability, but juvenile salmon adjusted their foraging so that the amount of energy in diets was similar before and during dam removal. This general pattern was seen in both river and estuary habitats, although the mechanisms driving the change and the response differed between habitats. In the estuary, the dietary shifts were related to changes in invertebrate assemblages following a hydrological transition from brackish to freshwater caused by sediment deposition at the river’s mouth. The loss of brackish invertebrate species caused fish to increase piscivory and rely on new prey sources such as plankton. In the river, energy provided to fish by Ephemeroptera, Plecoptera, and Trichoptera taxa before dam removal was replaced first by terrestrial invertebrates, and then by sediment-tolerant taxa such as Chironomidae. The results of our study are consistent with many others that have shown sharp declines in invertebrate density during dam removal. Our study further shows how those changes can move through the food web and affect fish diet composition, selectivity, and energy availability. As we move further along the dam removal response trajectory, we hypothesize that food web complexity will continue to increase as annual sediment load now approaches natural background levels, anadromous fish have recolonized the majority of the watershed between and above the former dams, and revegetation and microhabitats continue to develop in the estuary.

Washington↗

USGS2024

Individual-based ecological particle tracking model (ECO-PTM) for simulating juvenile chinook salmon migration and survival through the Sacramento – San Joaquin Delta

Recovery of endangered salmon species in the Central Valley of California amidst prolonged drought and climate change necessitates innovative water management actions that balance species recovery and California's water demands. We describe an individual-based ecological particle tracking model (ECO-PTM) that can be used to assess the efficacy of proposed actions. Based on a random walk theory, the model tracks individual particles’ travel time, routing and survival in a flow field simulated by the Delta Simulation Model 2 hydrodynamic module (DSM2 HYDRO). The random walk particles are parameterized to have fish-like swimming behaviors, including upstream/downstream swimming, probabilistic holding behaviors, and stochastic swimming velocities. Particle routing at key junctions is based on well-established statistical models, and route-specific survival is calculated using the XT mean free-path length model. Behavioral parameters were estimated by fitting several competing models to a multiyear dataset of travel times from acoustic tagged juvenile salmon. The model’s baseline simulations under historical flow conditions from 1991 to 2016 successfully replicated essential relationships between salmon outmigration survival and hydrodynamic conditions, consistent with previous studies and the STARS (Survival Travel Time and Routing Simulation) statistical simulation model. Simulation results for management scenarios revealed multifaceted influences on fish survival, including Delta flow, flow at key junctions, route alterations, seasons, and water year characteristics. Importantly, these results highlight ECO-PTM’s potential to predict fish survival outcomes of proposed actions, serving as a foundation for informed future research, decision-making, and effective management strategies to enhance the survival prospects of out-migrating salmonids within the Sacramento-San Joaquin Delta ecosystem.

California↗

USGS1990

Use of a fish health condition profile in assessing the health and condition of juvenile Chinook salmon

The fish health condition profile, a simplified system for assessing fish health and condition, was originally developed for fish hatcheries and feral trout populations in Utah. We evaluated the method during routine health assessments of juvenile fall chinook salmon ( Oncorhynchus tshawytscha ) reared in net pens in the Columbia River in 1986 and 1987. The procedure yielded a thorough assessment of the condition offish held under various rearing conditions. This assessment was generally consistent with results of regular diagnostic examinations completed by certified fish health pathologists. The simplicity and availability of the system to most field biologists make it useful for monitoring fish in culture facilities as well as fish from wild stocks. This system may provide the framework for developing a more comprehensive smolt condition index that could be used to evaluate the general condition of juvenile anadromous salmonids before release or during out-migration.

Progressive Fish-Culturist↗

USGS1935

A western type of bacterial gill disease

The first reference to a pathological condition of the gill tissues of salmonid fishes was made by Osburn in 1910. This author in describing a progressive infolding of the opercula of trout, commonly known to hatcherymen as "short gill covers," mentioned a marked proliferation on the gill epithelium as accompanying this condition. Osburn assumed that the club-like appearance of the gill filaments due to the proliferated epithelium was the result of continual irritation of the delicate gill tissue in the absence of the usual protection offered by the normal opercula. Although such a conclusion seems quite logical, it is also possible that Osburn was dealing with "short gill covers" complicated by the unknown bacterial gill disease which was subsequently described by Davis.

Transactions of the American Fisheries Society↗

USGS1962

Studies of transmission of mycobacterial infections in Chinook salmon

THE INCLUSION OF VISCERA AND CARCASSES OF TUBERCULOUS ADULT SALMON IN THE DIET OF JUVENILE SALMONIDS is considered to be the major source of mycobacterial infections in hatchery-reared fish (Wood and Ordal, 1958; Ross, Earp, and Wood, 1959). In considering additional modes of infection, we speculated about transovarian transmission or a mechanical process arising from contamination of the ova at the egg-taking stage with subsequent entry of the bacteria into the egg at the time of fertilization. This paper is a report on observations made during an experiment designed to test the latter theories.

Progressive Fish-Culturist↗

USGS1982

Alewives and rainbow smelt in Lake Huron: midwater and bottom aggregations and estimates of standing stocks

The continued availability of adequate amounts of forage fish, primarily alewives Alosa pseudoharengus and rainbow smelt Osmerus mordax , is critical to the success of ongoing programs aimed at rebuilding lake trout Salvelinus namaycush populations and maintaining other salmonid stocks in Lake Huron. These forage species are distributed at middepths as well as on or near the bottom. Acoustic methods were integrated with midwater and bottom trawling to characterize the population and estimate the biomass of the forage stocks. The average sizes of alewives and rainbow smelt caught at middepths were smaller than those caught in bottom trawls; however, most size ranges in the bottom trawl catches were also present in the midwater catches. Subadult and adult fish (both species) were rarely caught concurrently in midwater and when they were caught together the fish were invariably large subadults and small adults. Biomass estimates for the pelagic component were determined from trawl catches and echogram counts. The regression of echogram counts ( X ) on trawl catches ( Y ) was Y = -2.69 + 0.983 X (r 2 = 0.766) at the fish densities investigated. The pelagic biomasses of alewives and rainbow smelt in United States waters of Lake Huron were estimated at 17,200 t in July 1974, 22,000 t in July 1975, and 19,000 t in August 1976. Biomass estimates of the stocks in midwater were usually larger in spring than in fall, probably due to seasonal differences in distribution rather than in abundance. Estimates for the demersal component of the combined alewife-rainbow smelt forage stock, calculated from stratified random sampling of the spring bottom trawl catches for 1973 through 1980 went from 35,000 t in 1973, to a high of 83,000 t in 1975, and to 72,000 t in 1980; the estimates in fall went from 31,000 t in 1973, to a high of 56,000 t in 1977, and to 43,000 t in 1980. Biomass estimates calculated from spring catch data were usually larger than those calculated from fall data. Estimates of the midwater stocks, coinciding with the spring and fall bottom trawl surveys, indicated that between 20 and 30% of the total biomass was in midwater.

Lake Huron↗

USGS1983

Dietary requirements for essential branched-chain amino acids by lake trout

In a 12‐week growth study of the dietary requirements of young lake trout Salvelinus namaycush for essential branched‐chain amino acids, the leucine requirement was between 2.74 and 3.66%, and the isoleucine requirement between 1.54 and 2.06%, of dietary protein (as‐fed basis). These ranges are substantially lower than those published and widely used in formulation of salmonid feeds. On the basis of both growth criteria and concentration of free amino acids in blood plasma, the valine requirement was within the range of 1.77 to 2.23% of dietary protein. The upper value of this range is substantially lower than the requirement reported for chinook salmon Oncorhynchus tshawytscha. Plasma valine concentrations in lake trout responded to dietary supplements of valine above the requirement level; the concentrations increased sharply once the requirement was exceeded. This finding is similar to observations recorded in other animals.

Transactions of the American Fisheries Society↗

USGS1988

Summer production of coho salmon stocked in Mount St. Helens streams 3-6 years after the 1980 eruption

We monitored habitat use and summer production of stocked underyearling coho salmon Oncorhynchus kisutch from 1983 to 1986 in three streams affected by the 1980 eruption of Mount St. Helens, Washington. Two streams were in the blast area and one was on a volcanic mudflow terrace, Midsummer water temperatures frequently exceeded presumed stressful thresholds and occasionally surpassed the incipient lethal limit. Temperatures at the study sites (up to 29.5°C) may have been the highest ever recorded in small streams in western Washington. In addition, there was relatively little submerged cover and limited pool habitat. Despite the severe conditions created by the eruption, production rates of stocked coho salmon at all sites ranged from 15.1 to 143.8 mg/m 2 ·d (2.3–21.6 g/m 2 over an average 150‐d summer period) and were equal to or greater than those measured in other streams of comparable size in the region. Coho salmon production in the streams was more strongly influenced by population biomass and density than by average individual growth rate. Production was also influenced by timing and average weight at stocking; larger fish stocked later in the summer had higher survival than smaller fish stocked earlier. Apparent summer mortality (true mortality plus emigration) may have been influenced by the presence of other salmonids. Coho salmon density at the end of summer was consistently lowest in the mudflow stream, the only site to have a large population of steelhead (anadromous rainbow trout Oncorhynchus mykiss , formerly Salmo gairdneri ). We suspected that an abundance of both terrestrial and aquatic food was partly responsible for the high summer production of stocked coho salmon in what was an otherwise hostile environment.

Washington↗

USGS1993

Gamete ripening and hormonal correlates in three strains of lake trout

In our 2-year laboratory study of hatchery-reared adult lake trout Salvelinus namaycush of the Seneca Lake, Marquette (Lake Superior Lean), and Jenny Lake strains, we compared gamete ripening times and changes in plasma concentrations of seven hormones. If interstrain differences in these traits were found, such differences might help explain the apparent failure of stocked fish of these strains to develop large, naturally reproducing populations in the Great Lakes. The complex temporal changes in plasma hormone levels that occur during sexual maturation in lake trout have not been previously described. We detected little evidence of temporal isolation that would prevent interbreeding among the three strains. Strain had no effect on ovulation date (OD) in either year. Strain did not affect spermiation onset date (SOD) in year 1 but did in year 2, when the mean SOD of Jenny Lake males was earlier than that of Seneca Lake males but not different from that of Marquette males. Hormonal data were normalized around ODs for individual females and SODs for individual males. In females, estradiol-17β (E2) was highest 8 weeks before the OD; the highest testosterone (T) level occurred 6 weeks before the OD, and the next highest level occurred simultaneously with the highest level of 11-ketotestosterone (11-KT) 2 weeks before the OD. Plasma levels of 17&prop;-hydroxy-20β-dihydroprogesterone (DHP) peaked 1 week before the OD, then abruptly declined immediately after. Cortisol (F), triiodothyronine (T 3 ), and thyroxine (T 4 ) were highly variable, but F was the only hormone that showed no trend with week in either year. In males, plasma E2 levels were highest 3 weeks before the SOD, highest levels of T and of 11-KT occurred simultaneously 2 weeks after the SOD, and DHP peaked 5 weeks after the SOD and 3 weeks after the highest levels of T and 11-KT. As in females, plasma levels of F, T 3 , and T 4 were highly variable, and F was the only hormone that showed no trend with week in either year. Strain had no effect on any hormones in females and only on T and F in males. The lack of pronounced interstrain differences in gamete ripening dates and reproductive endocrinology and the similarity of the temporal patterns and relative concentrations of hormones to those reported for other salmonids suggest nothing unusual or dysfunctional about these reproductive traits that would impede lake trout rehabilitation in the Great Lakes.

Transactions of the American Fisheries Society↗

USGS1993

Applications of bioenergetics models to fish ecology and management: where do we go from here?

Papers and panel discussions given during a 1992 symposium on bioenergetics models are summarized. Bioenergetics models have been applied to a variety of research and management questions related to fish stocks, populations, food webs, and ecosystems. Applications include estimates of the intensity and dynamics of predator-prey interactions, nutrient cycling within aquatic food webs of varying trophic structure, and food requirements of single animals, whole populations, and communities of fishes. As tools in food web and ecosystem applications, bioenergetics models have been used to compare forage consumption by salmonid predators across the Laurentian Great Lakes for single populations and whole communities, and to estimate the growth potential of pelagic predators in Chesapeake Bay and Lake Ontario. Some critics say that bioenergetics models lack sufficient detail to produce reliable results in such field applications, whereas others say that the models are too complex to be useful tools for fishery managers. Nevertheless, bioenergetics models have achieved notable predictive successes. Improved estimates are needed for model parameters such as metabolic costs of activity, and more complete studies are needed of the bioenergetics of larval and juvenile fishes. Future research on bioenergetics should include laboratory and field measurements of key model parameters such as weight-dependent maximum consumption, respiration and activity, and thermal habitats actually occupied by fish. Future applications of bioenergetics models to fish populations also depend on accurate estimates of population sizes and survival rates.

Transactions of the American Fisheries Society↗

USGS1994

A microassay for gill sodium, potassium-activated ATPase in juvenile Pacific salmon

A microassay well-plate method is described for determining Na + ,K + -ATPase activities of small gill sections from juvenile Pacific salmon Oncorhynchus spp. The method differs from the established macromethod by detecting inorganic phosphate in nanomole rather than micromole concentrations. This permits the use of much smaller tissue samples, which makes it possible to release fish after sampling. Use of sonication during enzyme extraction and elimination of the need to deproteinize samples before ATPase analysis further simplify the assay. Application of the microwell-plate technique for both Na + ,K + -ATPase activity and protein analysis permits rapid processing of many samples. It also produces results equivalent to those of the macroassay; no significant differences occurred between sample duplicates run by the two methods with the same enzyme extract ( P > 0.05). The coefficient of variation (100·SD/mean) for microassay samples containing enzyme activities of at least 10 umol inorganic phosphate per milligram protein per hour was 12% or less for between-plate comparisons and 5% or less for same-plate comparisons. Monitoring of gill-clipped fish during migration indicated that small gill clips did not cause mortality or alter migration behavior of juvenile salmonids tagged with passive integrated transponders. These are important considerations in programs for monitoring species listed under the U.S. Endangered Species Act.

Transactions of the American Fisheries Society↗

USGS1995

Ebb and flow of encroachment by nonnative rainbow trout in a small stream in the southern Appalachian Mountains

Brook trout Salvelinus fontinalis is the native salmonid species of streams in the southern Appalachian Mountains. The present distribution of this species, once widespread from headwaters to lower reaches of large streams, is restricted to mostly headwater areas. Changes in the distribution of native brook trout in the presence ofˈ nonnative rainbow trout Oncorhynchus mykiss have been documented in Great Smoky Mountains National Park. When rainbow trout were first found in a tributary (Rock Creek) in the park in 1979, a study was begun to assess changes through time in distribution and abundance of rainbow trout in Rock Creek and to compare the brook trout and rainbow trout associations in Rock Creek with associations found in other park streams. Abundance of brook trout was low in the downstream sections of Rock Creek in 1979–1993. Brook trout abundance was highest in the steep‐gradient, pool‐dominated headwater section which was only 2 km from the confluence of Rock Creek and Cosby Creek. Rainbow trout were present in low densities in Rock Creek during the same period. Although rainbow trout were most abundant in the lower stream sections and never found in the headwater section, adult and age‐0 rainbow trout were found in the middle section in 1988. Rainbow trout were absent in the middle section in 1991, but one large adult rainbow trout was present in the section in 1992 and 1993. Floods, freshets, and periods of low stream discharge appeared to play an important role in the distribution and population structure of rainbow trout in Rock Creek. The lower portion of Rock Creek was poor trout habitat because the sections were dominated by cobble–rubble substrate and shallow riffle areas. Stream habitat appeared to be better suited for brook trout than for rainbow trout in the steep‐gradient upstream sections which were dominated by boulder‐cobble substrate and deep pools. The results of this study suggest that encroachment by rainbow trout can exhibit considerable ebb and flow in steep‐gradient tributaries in the park, and they suggest substantial evolutionary adaptation by brook trout to the hydrological conditions in the Rock Creek drainage.

North Carolina, Tennessee↗