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USGS1999

Fire and aquatic ecosystems in forested biomes of North America

Synthesis of the literature suggests that physical, chemical, and biological elements of a watershed interact with long‐term climate to influence fire regime, and that these factors, in concordance with the postfire vegetation mosaic, combine with local‐scale weather to govern the trajectory and magnitude of change following a fire event. Perturbation associated with hydrological processes is probably the primary factor influencing postfire persistence of fishes, benthic macroinvertebrates, and diatoms in fluvial systems. It is apparent that salmonids have evolved strategies to survive perturbations occurring at the frequency of wildland fires (10°–10 2 years), but local populations of a species may be more ephemeral. Habitat alteration probably has the greatest impact on individual organisms and local populations that are the least mobile, and reinvasion will be most rapid by aquatic organisms with high mobility. It is becoming increasingly apparent that during the past century fire suppression has altered fire regimes in some vegetation types, and consequently, the probability of large stand‐replacing fires has increased in those areas. Current evidence suggests, however, that even in the case of extensive high‐severity fires, local extirpation of fishes is patchy, and recolonization is rapid. Lasting detrimental effects on fish populations have been limited to areas where native populations have declined and become increasingly isolated because of anthropogenic activities. A strategy of protecting robust aquatic communities and restoring aquatic habitat structure and life history complexity in degraded areas may be the most effective means for insuring the persistence of native biota where the probability of large‐scale fires has increased.

Transactions of the American Fisheries Society↗

USGS2000

Conserving inland cutthroat trout in small streams: how much stream is enough?

We examined the prognosis for long-term persistence of isolated populations of cutthroat trout Oncorhynchus clarki and the feasibility of using barriers to protect them from nonnative salmonids. In so doing, we estimated minimum stream lengths (MSL) required by cutthroat trout populations of varying abundances and rates of population loss to emigration and mortality. Using 2,500 individuals (>75 mm) as the target population size—corresponding to an effective population size, N e , of 500—we estimated that more than 8 km of stream were required to maintain a population with high fish abundances (0.3 fish/m), and 25 km of stream were required to maintain a population of low abundance (0.1 fish/m). Incorporating a population loss rate of 10% increased MSL to 9.3 km for the high and 27.8 km for the low abundances. Our results suggest that many isolated populations may not persist over the long term because insufficient space exists to maintain the required N e . Barrier construction to protect cutthroat trout from nonnative salmonids may be a necessary short-term solution, but it involves a long-term risk for maintaining viable cutthroat trout populations. We propose a watershed-based framework for cutthroat trout conservation in the central and southern Rocky Mountains that emphasizes protection of strong core populations.

North American Journal of Fisheries Management↗

USGS2005

Development of thiamine deficiencies and early mortality syndrome in lake trout by feeding experimental and feral fish diets containing thiaminase

We conducted a laboratory investigation on the consequences of feeding predatory salmonids either experimental diets low in thiamine or diets containing alewife Alosa pseudoharengus . In experiment 1, adult lake trout Salvelinus namaycush were fed experimental diets containing bacterial thiaminase. In experiment 2, adult lake trout were fed natural prey species, alewives, and bloaters Coregonus hoyi . The diets consisted of four combinations of alewives and bloaters from Lake Michigan (100% alewives, 65% alewives–35% bloaters, 35% alewives–65% bloaters, and 100% bloaters), alewives from Cayuga Lake, a casein bacterial thiaminase, and a commercial trout diet. We assessed the effects of each diet on egg thiamine concentration and incidence of an embryonic early mortality syndrome (EMS). In experiment 1, incidence of EMS ranged from 0% to 100%. Significant relationships were found between the incidence of EMS and thiamine. In experiment 2, adult lake trout fed 100% alewives from either Lake Michigan or Cayuga Lake or fish fed the casein bacterial thiaminase diet produced eggs with low thiamine and swim-up fry with EMS. At either 35% or 65% alewives in the diet, egg thiamine was significantly lowered. The number of females that produced offspring that died from EMS were low but demonstrated the negative potential if feral lake trout foraged on either 35% or 65% alewives. Depleted egg thiamine and the onset of EMS required diets containing thiaminase for a minimum of 2 years in lake trout initially fully thiamine replete. We conclude that EMS can be caused by extensive feeding on 100% alewives and dietary levels of 35% or greater may prove detrimental to sustainable reproduction of salmonids in the Great Lakes. The data are consistent with that observed in feral lake trout, and it is concluded that EMS is the result of a thiamine deficiency.

Journal of Aquatic Animal Health↗

USGS2004

Distribution of Tubifex tubifex lineages and Myxobolus cerebralis infection in the tailwater of the San Juan River, New Mexico

We chose a hypolimnetic-release tailwater of the San Juan River, New Mexico, to characterize the etiology of whirling disease, a parasitic infection of salmonids. We sampled a 2-km reach of the tailwater in August and December 2001 and June 2002 to characterize environmental factors influencing the distribution and density of Tubifex tubifex lineages and Myxobolus cerebralis infection rates. Shortly after the scouring flow, organic matter in sediments and T. tubifex densities increased within deep habitats. In contrast, no differences were observed in T. tubifex densities and organic matter collected from shallow habitats throughout the three sampling dates. Within this study area, we found three sympatric lineages of T. tubifex (lineages I, III, and VI). Lineage VI dominated riffle reaches, whereas lineages I, III, and VI were observed in pool habitats. Myxobolus cerebralis infection rates were higher in T. tubifex collected in pool habitats (3.01%) than in those collected in riffle habitats (0.51%). Only lineage III exhibited infection with M. cerebralis. We suggest that the habitat and genotype of T. tubifex are important in characterizing prevalence of disease within the San Juan River tailwater. Scouring flow may have a beneficial effect on disease severity in salmonid hosts by reducing organic loading and hence T. tubifex abundance in deep habitats.

Journal of Aquatic Animal Health↗

USGS2006

An isolate of Piscirickettsia salmonis from white seabass is fully virulent for coho salmon

The virulence of the WSB-98 isolate of Piscirickettsia salmonis from white seabass Atractoscion nobilis was compared with that of the American Type Culture Collection type strain LF-89, which was originally isolated from coho salmon Oncorhynchus kisutch in Chile. In controlled laboratory challenges of juvenile coho salmon, the isolate from white seabass exhibited virulence that was equal to or greater than that of LF-89. The cumulative percent mortality (CPM) was similar between groups of coho salmon receiving an intraperitoneal injection of WSB-98 at 104.5 tissue culture infectious dose with 50% endpoint (TCID50)/fish (CPM = 98%) or an injection of LF-89 at 104.8 TCID50/fish (CPM = 95%). The mean day to death of 9.3 d for WSB-98 and 18.6 d for LF-89, however, differed significantly (P < 0.0001) between the two isolates. The virulence of an isolate of P. salmonis from white seabass for a salmonid species is consistent with the hypothesis that nonsalmonids can serve as natural marine hosts for the bacterium and potential sources for infection of salmonids. ?? Copyright by the American Fisheries Society 2006.

Journal of Aquatic Animal Health↗

USGS2003

Impacts of the Columbia River hydroelectric system on main-stem habitats of fall chinook salmon

Salmonid habitats in main-stem reaches of the Columbia and Snake rivers have changed dramatically during the past 60 years because of hydroelectric development and operation. Only about 13% and 58% of riverine habitats in the Columbia and Snake rivers, respectively, remain. Most riverine habitat is found in the upper Snake River; however, it is upstream of Hells Canyon Dam and not accessible to anadromous salmonids. We determined that approximately 661 and 805 km of the Columbia and Snake rivers, respectively, were once used by fall chinook salmon Oncorhynchus tshawytscha for spawning. Fall chinook salmon currently use only about 85 km of the main-stem Columbia River and 163 km of the main-stem Snake River for spawning. We used a geomorphic model to identify three river reaches downstream of present migration barriers with high potential for restoration of riverine processes: the Columbia River upstream of John Day Dam, the Columbia-Snake-Yakima River confluence, and the lower Snake River upstream of Little Goose Dam. Our analysis substantiated the assertion that historic spawning areas for fall chinook salmon occurred primarily within wide alluvial floodplains, which were once common in the mainstem Columbia and Snake rivers. These areas possessed more unconsolidated sediment and more bars and islands and had lower water surface slopes than did less extensively used areas. Because flows in the main stem are now highly regulated, the predevelopment alluvial river ecosystem is not expected to be restored simply by operational modification of one or more dams. Establishing more normative flow regimes - specifically, sustained peak flows for scouring - is essential to restoring the functional characteristics of existing, altered habitats. Restoring production of fall chinook salmon to any of these reaches also requires that population genetics and viability of potential seed populations (i.e., from tributaries, tailrace spawning areas, and hatcheries) be considered.

North American Journal of Fisheries Management↗

USGS2006

Survival and growth of age-0 steelhead after surgical implantation of 23-mm passive integrated transponders

Little information is available on the effects of implanting 23-mm passive integrated transponder (PIT) tags in salmonids less than 90 mm fork length (FL). Using juvenile steelhead Oncorhynchus mykiss (range, 73–97 mm FL), we compared instantaneous growth rates and survival among three experimental groups: control, surgery with no tag, and surgery with tag. Survival rate was lower for tagged fish (86%) than for control and surgery−no tag fish (virtually 100% in each group). Approximately 90% of the mortalities occurred during days 1–3. Growth rate for the tagged group was lower for the first two 10-d measurement intervals; however, during the third 10-d interval, growth rates for tagged fish equaled or exceeded values for the other groups. These results suggest that tagged fish recovered by day 20. Growth rates for the control and surgery−no tag groups did not differ from one another during any measurement interval. Tag retention rate was 97% over the 30-d period of the study. It appears that the combination of fish length and tag size in this study resulted in short-term negative effects on growth rate and survival; however, 23-mm PIT tags may still be useful for studies of salmonids 80–90 mm FL when survival is not the parameter of interest.

North American Journal of Fisheries Management↗

USGS2008

Response of fish populations to natural channel design restoration in streams of the Catskill Mountains, New York

Many streams and rivers throughout North America have been extensively straightened, widened, and hardened since the middle 1800s, but related effects on aquatic ecosystems have seldom been monitored, described, or published. Beginning in the early 1990s, reach-level restoration efforts began to base projects on natural channel design (NCD) techniques and Rosgen's (1994b, 1996) river classification system in an effort to duplicate or mimic stable reference reach geomorphology. Four reaches in three streams of the Catskill Mountains, New York, were restored from 2000 to 2002 using NCD techniques to decrease bed and bank erosion rates, decrease sediment loads, and improve water quality. The effects of restoration on the health of fish assemblages were assessed through a before-after, control-impact (BACI) study design to quantify the net changes in population and community indices at treatment reaches relative to index changes at unaltered reference reaches from 1999 to 2004. After restoration, community richness and biomass at treatment reaches increased by more than one-third. Changes in fish communities were caused mainly by shifts in dominant species populations; fish community biomass and total fish abundance were generally dominated by daces or daces and sculpins before restoration and by one or more salmonid species after restoration. Density and biomass of eastern blacknose dace Rhinichthys atratulus, longnose dace R. cataractae, and slimy sculpin Cottus cognatus did not change appreciably, whereas net salmonid density and biomass increased substantially after restoration. These changes were driven primarily by large increases in populations of brown trout Salmo trutta. The findings demonstrate that the structure, function, and ultimately the health of resident fish populations and communities can be improved, at least over the short term, through NCD restoration in perturbed streams of the Catskill Mountains. ?? Copyright by the American Fisheries Society 2008.

North American Journal of Fisheries Management↗

USGS2010

Population viability of Arctic grayling in the Gibbon River, Yellowstone National Park

The fluvial Arctic grayling Thymallus arcticus is restricted to less than 5% of its native range in the contiguous United States and was relisted as a category 3 candidate species under the U.S. Endangered Species Act in 2010. Although fluvial Arctic grayling of the lower Gibbon River, Yellowstone National Park, Wyoming, were considered to have been extirpated by 1935, anglers and biologists have continued to report catching low numbers of Arctic grayling in the river. Our goal was to determine whether a viable population of fluvial Arctic grayling persisted in the Gibbon River or whether the fish caught in the river were downstream emigrants from lacustrine populations in headwater lakes. We addressed this goal by determining relative abundances, sources, and evidence for successful spawning of Arctic grayling in the Gibbon River. During 2005 and 2006, Arctic grayling comprised between 0% and 3% of the salmonid catch in riverwide electrofishing (mean < 1%; SE < 1%) and snorkeling (mean = 1%; SE = 1%) surveys; Arctic grayling constituted 0–14% of the salmonid catch obtained by targeted angling (3 of 22 fish; mean = 4%; SE = 5%). Low values of the genetic differentiation index ( F ST = 0.0021 ± 0.002 [mean ± 95% confidence interval]) between headwater lake and river Arctic grayling indicated that fish from throughout the Gibbon River system probably belonged to the same population. Back-calculated lengths at most ages were similar among all fish, and successful spawning within the Gibbon River below the headwater lakes was not documented. Few Arctic grayling adults and no fry were detected in the Gibbon River, implying that a reproducing fluvial population does not exist there. These findings have implications for future Endangered Species Act considerations and management of fluvial Arctic grayling within and outside of Yellowstone National Park. Our comprehensive approach is broadly applicable to the management of sparsely detected aquatic species worldwide.

Wyoming↗

USGS2011

A model for estimating passive integrated transponder (PIT) tag antenna efficiencies for interval-specific emigration rates

Our goal was to understand movement and its interaction with survival for populations of stream salmonids at long-term study sites in the northeastern United States by employing passive integrated transponder (PIT) tags and associated technology. Although our PIT tag antenna arrays spanned the stream channel (at most flows) and were continuously operated, we are aware that aspects of fish behavior, environmental characteristics, and electronic limitations influenced our ability to detect 100% of the emigration from our stream site. Therefore, we required antenna efficiency estimates to adjust observed emigration rates. We obtained such estimates by testing a full-scale physical model of our PIT tag antenna array in a laboratory setting. From the physical model, we developed a statistical model that we used to predict efficiency in the field. The factors most important for predicting efficiency were external radio frequency signal and tag type. For most sampling intervals, there was concordance between the predicted and observed efficiencies, which allowed us to estimate the true emigration rate for our field populations of tagged salmonids. One caveat is that the model's utility may depend on its ability to characterize external radio frequency signals accurately. Another important consideration is the trade-off between the volume of data necessary to model efficiency accurately and the difficulty of storing and manipulating large amounts of data.

Transactions of the American Fisheries Society↗

USGS2004

Differential propagation of the metazoan parasite Myxobolus cerebralis by Limnodrilus hoffmeisteri, Ilyodrilus templetoni, and genetically distinct strains of Tubifex tubifex

Whirling disease, caused by the parasite Myxobolus cerebralis, has infected rainbow trout (Oncorhynchus mykiss) and other salmonid fish in the western United States, often with devastating results to native populations but without a discernible spatial pattern. The parasite develops in a complex 2-host system in which the aquatic oligochaete Tubifex tubifex is an obligate host. Because substantial differences in whirling disease severity in different areas of North America did not seem explainable by environmental factors or features of the parasite or its fish host, we sought to determine whether ecological or genetic variation within oligochaete host populations may be responsible. We found large differences in compatibility between the parasite and various laboratory strains of T. tubifex that were established from geographic regions with different whirling disease histories. Moreover, 2 closely related species of tubificids, Limnodrilus hqffmeisteri and Ilyodrilus templetoni, which occur naturally in mixed species assemblages with T. tubifex, were incompatible with M. cerebralis. Virulence of the parasite was directly correlated with the numbers of triactinomyxon spores that developed within each strain of T. tubifex. Thus, the level of virulence was directly related to the compatibility between the host strain and the parasite. Genetic analyses revealed relationships that were in agreement with the level of parasite production. Differences in compatibilities between oligochaetes and M. cerebralis may contribute to the spatial variance in the severity of the disease among salmonid populations. ?? American Society of Parasitologists 2004.

Journal of Parasitology↗

USGS2005

Foraging ecology of Caspian Terns in the Columbia River Estuary, USA

Comparisons were made of the foraging ecology of Caspian Terns ( Sterna caspia ) nesting on two islands in the Columbia River estuary using radio telemetry and observations of prey fed to chicks and mates at each colony. Early in the chick-rearing period, radio-tagged terns nesting at Rice Island (river km 34) foraged mostly in the freshwater zone of the estuary close to the colony, while terns nesting on East Sand Island (river km 8) foraged in the marine or estuarine mixing zones close to that colony. Late in the chick-rearing period, Rice Island terns moved more of their foraging to the two zones lower in the estuary, while East Sand Island terns continued to forage in these areas. Tern diets at each colony corresponded to the primary foraging zone (freshwater vs. marine/mixing) of radio-tagged individuals: Early in chick-rearing, Rice Island terns relied heavily on juvenile salmonids ( Oncorhynchus spp., 71% of identified prey), but this declined late in chick-rearing (46%). East Sand Island terns relied less on salmonids (42% and 16%, early and late in chick-rearing), and instead utilized marine fishes such as Anchovy ( Engraulis mordax ) and Herring ( Clupea pallasi ). Throughout chick-rearing, Rice Island terns foraged farther from their colony (median distance: 12.3 km during early chick-rearing and 16.9 km during late chick-rearing) than did East Sand Island terns (9.6 and 7.7 km, respectively). The study leads to the conclusion that Caspian Terns are generalist foragers and make use of the most proximate available forage fish resources when raising young.

Oregon, Washington↗

USGS2006

Risk of Myxobolus cerebralis infection to rainbow trout in the Madison River, Montana, USA

Myxobolus cerebralis, the parasite that causes salmonid whirling disease, has had detrimental effects on several salmonid populations in the Intermountain West, including the rainbow trout in the Madison River, Montana, USA. The goal of this study was to examine relationships among characteristics of the environment, Tubifex tubifex (the alternate host) populations, and rainbow trout whirling disease risk in the Madison River. Environmental characteristics were measured in side channels of the Madison River, and differences were described with a principal components analysis. The density of T. tubifex, the prevalence of infection in T. tubifex, and the density of infected T. tubifex were determined for the side channels using benthic core samples and examination of live tubificids for infection. The site-specific contribution to whirling disease risk in the side channels was determined using in situ exposures of sentinel rainbow trout. Regression analyses were used to determine correlations among these characteristics. Side channels differed in site-specific contribution to rainbow trout whirling disease risk, which was positively correlated to the density of infected T. tubifex. Side channels with fine sediments and lower water temperatures made greater site-specific contribution to whirling disease risk and had higher densities of infected T. tubifex than side channels with coarser sediments and higher temperatures. The ability to characterize areas of high whirling disease risk is essential for improving our understanding of the dynamics of M. cerebralis such that appropriate management strategies can be implemented. In addition, this study provides a model of how the disease ecology of complex aquatic parasites can be examined when the influential processes operate on different spatial scales. ?? 2006 by the Ecological Society of America.

Montana↗

USGS2014

Combining demographic and genetic factors to assess population vulnerability in stream species

Accelerating climate change and other cumulative stressors create an urgent need to understand the influence of environmental variation and landscape features on the connectivity and vulnerability of freshwater species. Here, we introduce a novel modeling framework for aquatic systems that integrates spatially explicit, individual‐based, demographic and genetic (demogenetic) assessments with environmental variables. To show its potential utility, we simulated a hypothetical network of 19 migratory riverine populations (e.g., salmonids) using a riverscape connectivity and demogenetic model (CDFISH). We assessed how stream resistance to movement (a function of water temperature, fluvial distance, and physical barriers) might influence demogenetic connectivity, and hence, population vulnerability. We present demographic metrics (abundance, immigration, and change in abundance) and genetic metrics (diversity, differentiation, and change in differentiation), and combine them into a single vulnerability index for identifying populations at risk of extirpation. We considered four realistic scenarios that illustrate the relative sensitivity of these metrics for early detection of reduced connectivity: (1) maximum resistance due to high water temperatures throughout the network, (2) minimum resistance due to low water temperatures throughout the network, (3) increased resistance at a tributary junction caused by a partial barrier, and (4) complete isolation of a tributary, leaving resident individuals only. We then applied this demogenetic framework using empirical data for a bull trout ( Salvelinus confluentus ) metapopulation in the upper Flathead River system, Canada and USA, to assess how current and predicted future stream warming may influence population vulnerability. Results suggest that warmer water temperatures and associated barriers to movement (e.g., low flows, dewatering) are predicted to fragment suitable habitat for migratory salmonids, resulting in the loss of genetic diversity and reduced numbers in certain vulnerable populations. This demogenetic simulation framework, which is illustrated in a web‐based interactive mapping prototype, should be useful for evaluating population vulnerability in a wide variety of dendritic and fragmented riverscapes, helping to guide conservation and management efforts for freshwater species.

Montana↗

USGS2011

Thermal profiles for selected river reaches in the Stillaguamish River basin, Washington, August 2011

Datums Horizontal coordinate information is referenced to the North American Datum of 1983 (NAD 83). Abstract Longitudinal profiles of near-streambed temperature were collected for eight river reaches in the Stillaguamish River basin, Washington, during August 2011, to provide information about areas of groundwater discharge to streams. During summer, groundwater discharge can be a source of cold water to streams that regulates warm stream temperatures creating cold-water thermal refugia for native stream biota including salmon and trout. To assess areas of groundwater discharge to streams, temperature was measured using a probe with an internal datalogger towed behind a watercraft moving downstream at ambient stream velocity. The data were referenced to location, concurrently surveyed with a Global Positioning System, during collection of the water temperature data. Data are presented as Microsoft Excel® files consisting of date and time, near-streambed water temperature, and latitude and longitude. Introduction Longitudinal profiles of near-streambed temperatures surveyed at ambient river velocity in a Lagrangian framework provide information about potential areas of groundwater discharge as well as salmonid habitat and thermal refugia (Vaccaro and Maloy, 2006). Longitudinal thermal profiles have previously been surveyed in several rivers in Washington, including the Yakima River and tributaries (Vaccaro and others, 2008) and the Nooksack River (Cox and others, 2005). This report presents eight thermal profiles within the Stillaguamish River basin including parts of the North Fork Stillaguamish River, South Fork Stillaguamish River, Jim Creek, and Pilchuck Creek (fig. 1). This data augments previous investigations of longitudinal temperature variations within the Stillaguamish River and tributaries by thermal infrared radar by the Washington State Department of Ecology (Watershed Sciences, 2002), and may be used as a tool to develop a better understanding of groundwater/surface-water interactions within the Stillaguamish River basin. Purpose and Scope The purpose of this report is to present longitudinal thermal profiles of stream temperature of streams within the Stillaguamish River basin including the North Fork Stillaguamish River, the South Fork Stillaguamish River, Pilchuck Creek, and Jim Creek. This data may be used to determine zones of groundwater discharge and improve understanding of the relation between the groundwater and surface water systems of the Stillaguamish River basin. Description of Study Area The Stillaguamish River basin is in northwestern Washington and is bounded to the east by the Cascade Mountains, to the west by Puget Sound, to the north by the Skagit River basin, and to the south by the Snohomish River basin (fig. 1). The Stillaguamish River basin is characterized by cool, wet winters and warm, dry summers. Mean annual discharge of the North Fork Stillaguamish River (North Fork Stillaguamish River near Arlington, Washington, USGS gaging station 12167000) for water years 1929-2010 is 1,898 ft 3 /s and mean annual discharge of the South Fork Stillaguamish River (South Fork Stillaguamish River near Granite Falls, Washington gaging station 12161000) for water years 1929-1980 is 1,071 ft 3 /s. Jim Creek is a tributary of the South Fork Stillaguamish River and Pilchuck Creek is a tributary of the mainstem Stillaguamish River. Thermal Profile Survey Continuous water temperature and Global Positioning System (GPS) data were collected at 3-second intervals while drifting downstream at ambient stream velocity in a Lagrangian framework following the method of Vaccaro and Maloy (2006) for Pilchuck Creek between river mile (RM) 0.0 and 3.7 (table 1); the North Fork Stillaguamish River between RM 0.0 and 34.2 (tables 2-5); South Fork Stillaguamish River between RM 17.7 and 33.4 (tables 6-7); and Jim Creek between RM 0.0 and 7.0 (table 8). Profiling at ambient stream velocity in a Lagrangian framework tracks a parcel of water as it moves downstream during the day; departures from the diurnal heating cycle may be due to groundwater input, surface-water inflows, or riparian shading. Continuous temperature was measured using a Solinst® Levelogger LT temperature probe verified by a National Institute of Standards and Technology (NIST) certified thermistor and position data was measured using a Garmin® GPSmap® 60Csx for the eight surveys during August 15-26, 2011. The temperature probe was towed behind a watercraft following the stream thalweg and dragged along the streambed except when in-stream obstacles prevented probe movement downstream. The location of each temperature measurement was determined by relating the time stamp of the GPS data to the temperature data. If a GPS location was not recorded at the same time as a temperature measurement, the location of the temperature measurement was determined by linear interpolation of the two GPS known locations that bracket the time of the temperature measurement. A 0.5-mi gap exists between the beginning of the North Fork Stillaguamish datasets collected on August 18 (table 4) and August 22 (table 5) because of inadequate equilibration of the temperature probe to ambient stream temperature during the initial 0.5 mi of the August 22 survey. Distribution of Information An Excel file of tables 1-8 that include the thermal-profile data for each longitudinal thermal profile is available at http://pubs.usgs.gov/ds/654/ds654_tables.xls. Table 1. Temperature and Global Positioning System location data for the Pilchuck Creek (RM 0.0-3.7), August 15, 2011. Table 2. Temperature and Global Positioning System location data for the North Fork Stillaguamish River (RM 30.0-34.2), August 16, 2011. Table 3. Temperature and Global Positioning System location data for the North Fork Stillaguamish River (RM 17.6-30.0), August 17, 2011. Table 4. Temperature and Global Positioning System location data for the North Fork Stillaguamish River (RM 9.5-17.6), August 18, 2011. Table 5. Temperature and Global Positioning System location data for the North Fork Stillaguamish River (RM 0.0-9.0), August 22, 2011. Table 6. Temperature and Global Positioning System location data for the South Fork Stillaguamish River (RM 25.9-33.4), August 24, 2011. Table 7. Temperature and Global Positioning System location data for the South Fork Stillaguamish River (RM 17.7-25.9), August 26, 2011. Table 8. Temperature and Global Positioning System location data for Jim Creek (RM 0.0-7.0), August 25, 2011. References Cited Cox, S.E., Simonds, F.W., Doremus, L., Huffman, R.L., and Defawe, R.M., 2005, Ground water/surface water interactions and quality of discharging ground water in streams of the lower Nooksack River Basin, Whatcom County, Washington: U.S. Geological Survey Scientific Investigations Report 2005-5255, 46 p Vaccaro, J.J., Keys, M.E., Julich, R.J., and Welch, W.B., 2008, Thermal profiles for selected river reaches in the Yakima River basin, Washington: U.S. Geological Survey Data Series 342 (Available at http://pubs.usgs.gov/ds/342/). Vaccaro, J.J., and Maloy, K.J., 2006, A thermal profile method to identify potential ground-water discharge areas and preferred salmonid habitats for long river reaches: U.S. Geological Survey Scientific Investigations Report 2006-5136, 16 p. Watershed Sciences, LLC, 2002, Aerial surveys in the Stillaguamish and Skagit River Basins-Thermal infrared and color videography: Corvallis, Oreg., Water Sciences, for Washington Department of Ecology, 28 p.

Data Series↗

USGS2000

Mercury bioaccumulation in fish in a region affected by historic gold mining: The South Yuba River, Deer Creek, and Bear River watersheds, California, 1999

Mercury that was used historically for gold recovery in mining areas of the Sierra Nevada continues to enter local and downstream water bodies, including the Sacramento Delta and the San Francisco Bay of northern California. Methylmercury is of particular concern because it is the most prevalent form of mercury in fish and is a potent neurotoxin that bioaccumulates at successive trophic levels within food webs. In April 1999, the U.S. Geological Survey, in cooperation with several other agencies the Forest Service (U.S. Department of Agriculture), the Bureau of Land Management, the U.S. Environmental Protection Agency, the California State Water Resources Control Board, and the Nevada County Resource Conservation District began a pilot investigation to characterize the occurrence and distribution of mercury in water, sediment, and biota in the South Yuba River, Deer Creek, and Bear River watersheds of California. Biological samples consisted of semi-aquatic and aquatic insects, amphibians, bird eggs, and fish. Fish were collected from 5 reservoirs and 14 stream sites during August through October 1999 to assess the distribution of mercury in these watersheds. Fish that were collected from reservoirs included top trophic level predators (black basses, Micropterus spp.) intermediate trophic level predators [sunfish (blue gill, Lepomis macrochirus; green sunfish, Lepomis cyanellus; and black crappie, Poxomis nigromaculatus)] and benthic omnivores (channel catfish, Ictularus punctatus). At stream sites, the species collected were upper trophic level salmonids (brown trout, Salmo trutta) and upper-to-intermediate trophic level salmonids (rainbow trout, Oncorhynchus mykiss). Boneless and skinless fillet portions from 161 fish were analyzed for total mercury; 131 samples were individual fish, and the remaining 30 fish were combined into 10 composite samples of three fish each of the same species and size class. Mercury concentrations in samples of black basses (Micropterus spp.), including largemouth, smallmouth, and spotted bass, ranged from 0.20 to 1.5 parts per million (ppm), wet basis. Mercury concentrations in sunfish ranged from less than 0.10 to 0.41 ppm (wet). Channel catfish had mercury concentrations from 0.16 to 0.75 ppm (wet). The range of mercury concentrations observed in rainbow trout was from 0.06 to 0.38 ppm (wet), and in brown trout was from 0.02 to 0.43 ppm (wet). Mercury concentrations in trout were greater than 0.3 ppm in samples from three of 14 stream sites. Mercury at elevated concentrations may pose a health risk to piscivorous wildlife and to humans who eat fish on a regular basis. Data presented in this report may be useful to local, state, and federal agencies responsible for assessing the potential risks associated with elevated levels of mercury in fish in the South Yuba River, Deer Creek, and Bear River watersheds.

California↗

USGS2012

Assessing native and introduced fish predation on migrating juvenile salmon in Priest Rapids and Wanapum Reservoirs, Columbia River, Washington, 2009--11

Hydroelectric development on the mainstem Columbia River has created a series of impoundments that promote the production of native and non-native piscivores. Reducing the effects of fish predation on migrating juvenile salmonids has been a major component of mitigating the effects of hydroelectric development in the Columbia River basin. Extensive research examining juvenile salmon predation has been conducted in the lower Columbia River. Fewer studies of predation have been done in the Columbia River upstream of its confluence with the Snake River; the most comprehensive predation study being from the early 1990s. The Public Utility District No. 2 of Grant County, Washington initiated a northern pikeminnow removal program in 1995 in an attempt to reduce predation on juvenile salmonids. However, there has been no assessment of the relative predation within the Priest Rapids Project since the removal program began. Further, there is concern about the effects of piscivores other than northern pikeminnow ( Ptychocheilus oregonensis ), such as channel catfish ( Ictalurus punctatus ), smallmouth bass ( Micropterus dolomieu ), and walleye ( Sander vitreus , formerly Stizostedion vitreum ). The Public Utility District No. 2 of Grant County, Washington and the Priest Rapids Coordinating Committee requested that the U.S. Geological Survey, in collaboration with the Washington Department of Fish and Wildlife, assist them in evaluating the effects of native and introduced predatory fish on migrating juvenile salmon. From 2009 to 2010, we conducted sampling in the 103 kilometers (64 river miles) of the Columbia River from the tailrace of Rock Island Dam downstream to the tailrace of Priest Rapids Dam. To assess predation, we used electrofishing to collect northern pikeminnow, smallmouth bass, and walleye to analyze their diets during 2009 and 2010. In 2009, we used methods to allow comparisons to a previous study conducted in 1993. During 2009, we also used an alternate sampling strategy using habitat data and geographic information system software to select sites and allocate samples. In 2010, we used the data collected during 2009 to further refine our sampling design, with the intent of using the data collected during 2010 to formulate a design strategy for implementation during 2011. Based on the results of 2011, we would then propose a strategy for future studies. However, during 2011, our efforts were redirected to specifically address factors that may be affecting steelhead trout survival in the Priest Rapids Reservoir, Columbia River. We used the catch and diet data collected in 2009 and 2010 to estimate relative abundance, consumption, and predation indices for northern pikeminnow and smallmouth bass. Despite extensive sampling in the study area in 2009 and 2010, very few channel catfish and walleye were captured. The mean total lengths of northern pikeminnow were much lower than those observed in 1993; suggesting that efforts to remove northern pikeminnow in the study area may be shifting the population towards smaller fish. The northern pikeminnow predation index values were lower in 2009 than in the 1993 study. The reduced predation levels observed may be due to the prevalence of smaller pikeminnow in our catches than in catches reported in 1993. Predation by smallmouth bass was lower in 2009 than in 2010, and generally was greater than predation for northern pikeminnow. Predation for northern pikeminnow was concentrated in the tailrace areas of Priest Rapids, Wanapum, and Rock Island Dams; predation for smallmouth bass was concentrated in the forebay and mid-reservoir sections of the study area. Our results indicate areas where control measures for smallmouth bass could be concentrated to reduce predation in the Priest Rapids Project.

Washington↗

USGS2013

Review of a model to assess stranding of juvenile salmon by ship wakes along the Lower Columbia River, Oregon and Washington

Long period wake waves from deep draft vessels have been shown to strand small fish, particularly juvenile Chinook salmon Oncorhynchus tschawytcha, in the lower Columbia River (LCR). The U.S. Army Corps of Engineers is responsible for maintaining the shipping channel in the LCR and recently conducted dredging operations to deepen the shipping channel from an authorized depth of 40 feet(ft) to an authorized depth of 43 ft (in areas where rapid shoaling was expected, dredging operations were used to increase the channel depth to 48 ft). A model was developed to estimate stranding probabilities for juvenile salmon under the 40- and 43-ft channel scenarios, to determine if channel deepening was going to affect wake stranding (Assessment of potential stranding of juvenile salmon by ship wakes along the Lower Columbia River under scenarios of ship traffic and channel depth: Report prepared for the Portland District U.S. Army Corps of Engineers, Portland, Oregon). The U.S. Army Corps of Engineers funded the U.S. Geological Survey to review this model. A total of 30 review questions were provided to guide the review process, and these questions are addressed in this report. In general, we determined that the analyses by Pearson (2011) were appropriate given the data available. We did identify two areas where additional information could have been provided: (1) a more thorough description of model diagnostics and model selection would have been useful for the reader to better understand the model framework; and (2) model uncertainty should have been explicitly described and reported in the document. Stranding probability estimates between the 40- and 43-ft channel depths were minimally different under most of the scenarios that were examined by Pearson (2011), and a discussion of the effects of uncertainty given these minimal differences would have been useful. Ultimately, however, a stochastic (or simulation) model would provide the best opportunity to illustrate uncertainty within a given set of model predictions, but such an approach would require a substantial amount of additional data collection. Several review questions focused on the accuracy and precision of the model estimates, but we were unable to address these questions because of the limited data that currently exists regarding wake stranding in the LCR. Additional field studies will be required to validate findings from Pearson (2011), if concerns regarding accuracy and precision remain a priority. Although the Pearson (2011) model provided a useful examination of stranding under pre-construction and post-construction conditions, future research will be required to better understand the effects of wake stranding on juvenile salmonids throughout the entire LCR. If additional information on wake stranding is desired in the future, the following topics may be of interest: (1) spatial examination of wake stranding throughout the entire LCR; (2) additional evaluation of juvenile salmonid behavior and population dynamics; (3) assessing and integrating predicted changes in ship development; and (4) assessing and integrating predicted changes in climate on environmental factors known to cause stranding.

Oregon;Washington↗