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At least 397 records · Page 22Linked to original sources
USGS2024

Encounter rates and catch-and-release mortality of steelhead in the Snake River basin

Objective The potential influence (i.e., impact rate) of catch-and-release fisheries on wild steelhead Oncorhynchus mykiss is poorly understood and is a function of the abundance of wild fish, how many fish are encountered by anglers (i.e., encounter rate), and the mortality of fish that are caught and released. In Idaho, estimates of wild steelhead encounter rates have been derived using the number of wild and hatchery steelhead passing Lower Granite Dam, the number of hatchery steelhead harvested, and the number of hatchery steelhead caught and released. The method includes assumptions that hatchery and wild steelhead have equal encounter rates and catch-and-release mortality is 5% for wild steelhead. Here, we investigated wild and hatchery steelhead encounter rates by anglers, estimated catch-and-release mortality, and concatenated both aspects to examine how existing recreational steelhead fisheries influence wild steelhead mortality. Methods We sampled, tagged, and released 1,251 spawn-year 2020 (SY2020) and 1,956 spawn-year 2021 (SY2021) adult steelhead at Lower Granite Dam with T-bar anchor tags and passive integrated transponder (PIT) tags to estimate steelhead encounter rates and catch-and-release mortality. Differences in survival of caught steelhead and those not reported as caught were evaluated using detections at various locations (e.g., PIT arrays, weirs). Result Estimated encounter rates were 43.7% (95% credible interval; 28.2%, 100.0%) for wild fish and 46.7% (29.6%, 100.0%) for adipose-clipped fish in SY2020. In SY2021, encounter rates were 47.2% (32.4%, 100.0%) for wild fish and 52.3% (37.1%, 100.0%) for adipose-clipped fish. Based on detections of caught fish and those not reported as caught, catch-and-release mortality of wild steelhead was estimated to be 1.6% (0.0%, 5.2%). Wild steelhead impact rates were 0.7% (0.0%, 2.7%) in SY2020 and 0.7% (0.0%, 2.8%) in SY2021. Conclusion Estimated rates of impact on wild steelhead were consistent and low across years despite major differences in the structure of the fisheries. Our results suggest assuming that encounter rates are equal between hatchery and wild steelhead, and that steelhead catch-and-release mortality is 5%, will likely lead to a conservative estimate of the wild steelhead impact occurring from catch-and-release fisheries.

Idaho, Oregon, Washington↗
USGS2008

Effect of soil disturbance on recharging fluxes: Case study on the Snake River Plain, Idaho National Laboratory, USA

Soil structural disturbance influences the downward flow of water that percolates deep enough to become aquifer recharge. Data from identical experiments in an undisturbed silt-loam soil and in an adjacent simulated waste trench composed of the same soil material, but disturbed, included (1) laboratory- and field-measured unsaturated hydraulic properties and (2) field-measured transient water content profiles through 24 h of ponded infiltration and 75 d of redistribution. In undisturbed soil, wetting fronts were highly diffuse above 2 m depth, and did not go much deeper than 2 m. Darcian analysis suggests an average recharge rate less than 2 mm/year. In disturbed soil, wetting fronts were sharp and initial infiltration slower; water moved slowly below 2 m without obvious impediment. Richards' equation simulations with realistic conditions predicted sharp wetting fronts, as observed for disturbed soil. Such simulations were adequate for undisturbed soil only if started from a post-initial moisture distribution that included about 3 h of infiltration. These late-started simulations remained good, however, through the 76 d of data. Overall results suggest the net effect of soil disturbance, although it reduces preferential flow, may be to increase recharge by disrupting layer contrasts. ?? Springer-Verlag 2007.

Hydrogeology Journal↗
USGS2015

Defining population structure and genetic signatures of decline in the giant garter snake ( Thamnophis gigas ): implications for conserving threatened species within highly altered landscapes

Anthropogenic habitat fragmentation can disrupt the ability of species to disperse across landscapes, which can alter the levels and distribution of genetic diversity within populations and negatively impact long-term viability. The giant gartersnake ( Thamnophis gigas ) is a state and federally threatened species that historically occurred in the wetland habitats of California’s Great Central Valley. Despite the loss of 93 % of historic wetlands throughout the Central Valley, giant gartersnakes continue to persist in relatively small, isolated patches of highly modified agricultural wetlands. Gathering information regarding genetic diversity and effective population size represents an essential component for conservation management programs aimed at this species. Previous mitochondrial sequence studies have revealed historical patterns of differentiation, yet little is known about contemporary population structure and diversity. On the basis of 15 microsatellite loci, we estimate population structure and compare indices of genetic diversity among populations spanning seven drainage basins within the Central Valley. We sought to understand how habitat loss may have affected genetic differentiation, genetic diversity and effective population size, and what these patterns suggest in terms of management and restoration actions. We recovered five genetic clusters that were consistent with regional drainage basins, although three northern basins within the Sacramento Valley formed a single genetic cluster. Our results show that northern drainage basin populations have higher connectivity than among central and southern basins populations, and that greater differentiation exists among the more geographically isolated populations in the central and southern portion of the species’ range. Genetic diversity measures among basins were significantly different, and were generally lower in southern basin populations. Levels of inbreeding and evidence of population bottlenecks were detected in about half the populations we sampled, and effective population size estimates were well below recommended minimum thresholds to avoid inbreeding. Efforts focused on maintaining and enhancing existing wetlands to facilitate dispersal between basins and increase local effective population sizes may be critical for these otherwise isolated populations.

Conservation Genetics↗
USGS2018

Effects of urbanization, and habitat composition on site occupancy of two snake species using regional monitoring data from southern California

Detection data from a regional, reptile-monitoring program conducted by the U.S. Geological Survey were analyzed to understand the effects of urbanization and habitat composition on site occupancy of the coachwhip ( Masticophis flagellum ) and striped racer ( M. lateralis ) in coastal southern California. Likelihood-based occupancy models indicated striped racers responded to habitat composition, favoring scrub-dominated sites. Coachwhips also responded to habitat composition, favoring open habitats. However, unlike racers, coachwhip spatial population dynamics were strongly associated with the fragmentation and isolation of natural areas caused by urbanization. The odds of coachwhips occupying a site were 64 times greater in large connected areas than the most urbanized and fragmented sites. For coachwhips within urbanized and fragmented sites, the odds of extinction were 10 times greater and odds of colonization were five times lower than in large connected sites. Observed differences between both species in habitat use and specificity are supported by telemetry studies and corroborate existing knowledge of historical patterns of occurrence within the region. Movement data on the coachwhip and striped racer indicate the coachwhip is a wider-ranging species with a greater propensity to encounter roads and other edge environments. Collectively, the results suggest there is widespread loss of the coachwhip from the region, and that long-term persistence of remaining populations is dependent on metapopulation dynamics. The substantially different response of the two species to land-use change serves as a caution against the casual use of closely related species as surrogates in the development of species-specific conservation plans.

California↗
USGS2020

Conservation reliance of a threatened snake on rice agriculture

Conservation-reliant species require perpetual management by humans to persist. But do species that persist largely in human-dominated landscapes actually require conditions maintained by humans? Because most extant populations of giant gartersnakes (Thamnophis gigas) inhabit the highly modified rice agricultural regions of the Sacramento Valley, we sought to evaluate whether giant gartersnakes are indeed a conservation-reliant species dependent on maintenance of rice agriculture and its infrastructure for their continued existence. Specifically, we examined the extent to which giant gartersnakes use rice fields themselves, and whether survival of adult giant gartersnakes was influenced by the amount of rice grown near their home ranges and daily movements. We found that although giant gartersnakes only use rice fields minimally and then only between mid-June and early September, their survival was lower when less rice agriculture was available near the areas they inhabited. Survival was particularly low in early spring, when giant gartersnakes emerge from brumation but rice fields are not yet flooded. The incongruity between the phenology of rice growing and giant gartersnake foraging requirements suggests that although giant gartersnakes are reliant on the rice agroecosystem, rice agriculture is likely suboptimal habitat for giant gartersnakes. Giant gartersnakes’ reliance on the rice agroecosystem challenges the notion of preservation-based conservation, but provides opportunities for win-win scenarios benefitting both rice farmers and giant gartersnakes. Our study highlights that in addition to land use, the timing of land management might be crucial for conservation-reliant species.

Global Ecology and Conservation↗
USGS2000

Use of chlorine-36 to determine regional-scale aquifer dispersivity, eastern Snake River Plain aquifer, Idaho/USA

Chlorine-36 (36Cl) derived from processed nuclear waste that was disposed at the US Department of Energy's Idaho National Engineering and Environmental Laboratory (INEEL) through a deep injection well in 1958, was detected 24-28 yr later in groundwater monitoring wells approximately 26 km downgradient from the source. Groundwater samples covering the period 1966-1995 were selected from the US Geological Survey's archived-sample library at the INEEL and analyzed for 36Cl by accelerator mass spectrometry (AMS). The smaller 36Cl peak concentrations in water from the far-field monitoring wells relative to the input suggest that aquifer dispersivity may be large. However, the sharpness of the 1958 disposal peak of 36Cl is matched by the measured 36Cl concentrations in water from these wells. This implies that a small aquifer dispersivity may be attributed to preferential groundwater flowpaths. Assuming that tracer arrival times at monitoring wells are controlled by preferential flow, a 1-D system-response model was used to estimate dispersivity by comparing the shape of predicted 36Cl-concentration curves to the shape of 36Cl-concentration curves measured in water from these observation wells. The comparisons suggest that a 1-D dispersivity of 5 m provides the best fit to the tracer data. Previous work using a 2-D equivalent porous-media model concluded that longitudinal dispersivity (equivalent to 1-D dispersivity in our model) was 90 m (Ackerman, 1991). A 90 m dispersivity value eliminates the 1958 disposal peak in our model output curves. The implications of the arrival of 36Cl at downgradient monitoring wells are important for three reasons: (1) the arrival times and associated 36Cl concentrations provide quantitative constraints on residence times, velocities, and dispersivities in the aquifer; (2) they help to refine our working hypotheses of groundwater flow in this aquifer and (3) they may suggest a means of estimating the distribution of preferential flowpaths in the aquifer. ?? 2000 Elsevier Science B.V. All rights reserved.

Nuclear Instruments and Methods in Physics Researc↗
USGS2026

Biological, environmental, and geomorphological factors influencing reach-specific survival of spring Chinook Salmon smolts upstream of the Columbia–Snake River hydrosystem

Objective Pacific salmon Oncorhynchus spp. are exhibiting catastrophic declines throughout much of the Pacific Northwest, and juvenile mortality contributions are disproportionately high. Many Pacific salmon smolt populations are exhibiting high natal stream mortality; however, detailed natal stream reach-specific survival knowledge is lacking. Our objectives were to estimate natal stream reach-specific survival and identify influential covariates for spring Chinook Salmon O. tshawytscha smolts. An additional objective was to evaluate (i.e., estimate postrestoration cumulative survival) a novel and strategic large-scale river restoration approach (i.e., stream confluence restoration) in two Pacific Northwest spring Chinook Salmon natal streams. Methods Using radiotelemetry techniques during March–June (2011–2017), we estimated natal stream reach-specific survival for spring Chinook Salmon smolts in Catherine Creek and the Grande Ronde River, northeast Oregon. We examined the interrelated influences of temporal, biological, environmental, and geomorphological covariates on the behavior, travel time, and reach-specific survival of spring Chinook Salmon smolts that were emigrating through two hydrologically altered natal streams in the interior Columbia River basin. For each natal stream smolt tag-group, Cormack–Jolly–Seber reach-specific survival estimates that were adjusted for premature tag failure (i.e., bias-corrected) were generated. Subsequently, smolt effects were estimated using reach-specific travel times and survival estimates coupled with individual time-varying covariates from radio-tagged smolts and occupied reaches using an existing predator–prey model (i.e., mean free-path length [ XT ] model). Complementary population-specific principal coordinate analyses (PCoAs) were conducted to facilitate visualization of multicovariate resemblances in ordination space. Last, we employed our best-fitting XT model to model cumulative changes in smolt survival that were associated with a large-scale stream channel restoration scenario (i.e., restoration of the historical Catherine Creek and Grande Ronde River confluence). Results In aggregate, Catherine Creek smolts exhibited high mortality throughout Catherine Creek but near-100% survival upon entering the Grande Ronde River. In contrast, Grande Ronde River smolts generally exhibited low mortality upstream from the Grande Ronde Valley and high mortality throughout the Grande Ronde Valley. Our best-fitting XT model indicated that smolt survival was positively correlated with discharge, body size, and current velocity but negatively correlated with avian predation. Natural-origin smolts from Catherine Creek displayed higher λ-values (i.e., distance between predator–prey encounters) than their significantly larger and faster emigrating hatchery conspecifics, indicating that hatchery smolts may be more susceptible to predation. Our population-specific PCoAs further revealed that novel water (i.e., unique water chemistry) and emigration rate were the strongest predictors of reach occupancy in multivariate ordination space. Under a stream restoration scenario of restoring the historical hydrological template (i.e., restored channel configuration), our best-fitting XT model predicted changes in population-specific cumulative survivals to the lower Grande Ronde Valley (Imbler, Oregon) ranging from −38.4% to 69.0% for Grande Ronde River and Catherine Creek spring Chinook Salmon smolts, respectively. Conclusions Our best-fitting XT model and PCoAs identified the relative importance of biological, environmental, and geomorphological factors to both natural- and hatchery-origin Chinook Salmon smolt survival in two neighboring interior natal streams in the Columbia River basin. Our research indicates that concurrent habitat restoration and fish management strategies, including focused attention on smolt-rearing nursery habitat restoration, piscivorous avian control plans, adaptive management strategies for hatchery smolt releases, and discharge and novel water regime restoration projects, may yield survival benefits to “in-basin” Chinook Salmon smolts. Our research can inform origin-type-specific Chinook Salmon smolt management, habitat restoration, and future research decisions throughout the upper Grande Ronde River subbasin and potentially the Pacific Northwest.

Oregon, Washington↗
USGS2006

Measurements of bed load transport on Pacific Creek, Buffalo Fork and The Snake River in Grand Teton National Park, Wyoming

Dams disrupt the flow of both of water and sediment through a watershed. Channel morphology is a function of discharge and sediment load, and perturbations caused by dams often alter channel form, causing significant geomorphic and, potentially, ecological changes (e.g. Petts and Gurnell, 2005). At the first order, dams often produce a flow regime that is profoundly altered in the timing, magnitude, and frequency of flows (Magilligan and Nislow, 2005). Yet, the nature of channel adjustments will be specific to both the physical setting, size of the river, dam characteristics, and nature and severity of the flow regulation (Church 1995; Knighton, 1998).

Wyoming↗
USGS1989

Sensitivity of endemic Snake River cutthroat trout to acidity and elevated aluminum

Acidic episodes in waters of the western USA, do not last as long and are not as intense as those in the eastern USA, but we found that the native western cutthroat trout Oncorhynchus clarki is sensitive to even brief reductions in pH. In laboratory studies, fish were exposed to acidity (pH 4.5–6.5) alone or in the presence of aluminum during the first 7 d of the freshly fertilized egg, eyed embryo, alevin, or swim-up larva stages of development. Following exposure to acidity and aluminum, eggs and fish were held under control water quality conditions to 40 d posthatch to assess effects of the exposure on subsequent development. Reductions in pH from 6.5 to 6.0 in low-calcium water (1.4 mg/L) did not affect survival, but reduced growth offish in the early life stages. The presence of as little as 50 μg A1/L at low pH further decreased growth and reduced survival. The most sensitive indicators of stress were loss of ions (determined from whole-body sampling) and reduced swimming in alevins, reduction in the ratio of RNA:DNA, feeding inhibition, and pathology of gill tissue in swim-up larvae. A pH of 6.0 and 50 μg Al/L reduced whole-body sodium by 72% and potassium by 50% in alevins. Reductions in the RNA: DNA ratio, correlated with lower growth rates, were observed in swim-up larvae exposed to pH 5.5 and 50 μg Al/L. Exposure to 50 μg Al/L at pH 6.0 reduced swimming activity of alevins by 68% and feeding rates of swim-up larvae by 67%. In the presence of 50 μg A1/L, pathological changes in gill tissue were observed in swim-up larvae exposed to pH 6.0 or less. Although acidification is not widespread in the western USA, cutthroat trout have a narrow margin of safety between conditions that currently exist and those at which pH and aluminum reduce survival and growth.

Transactions of the American Fisheries Society↗
USGS1992

Rediscovery of the Central American Colubrid snake, Sibon argus, with comments on related species from the region

Sibon argus Cope, 1875, long known only from the holotype, is redescribed based on material from Costa Rica and Panama. It differs from the only other member of the genus having an ocellate dorsal pattern (S. longifrenis) in its attenuate habitus, enlarged blunt head, protuberant eyes, and high segmental counts (ventrals 181-201, subcaudals 112-121, total segmental counts 294-312). Sibon longifrenis of Atlantic slope Costa Rica and western Panama (ventrals 151-173, subcaudals 82-103, total segmental counts 231-275) is also redescribed. These species differ from all other Sibon in having an ocellate pattern and an enlarged penultimate supralabial bordering the orbit. The allied species, S. annulatus (Costa Rica and Panama) and S. dimidiatus (Mexico to southwestern Costa Rica), are shown to be distinct from S. argus and S. longifenis in scalation and coloration. Although allopatric, S. annulatus and S. dimidiatus differ from one another most strikingly in adult coloration, postmental character states, and ventral counts (x = 175.8 in annulatus and 193.6 in dimidiatus), and are regarded as valid species. Sibon annulatus occurs sympatrically with S. argus in Panama and with S. longifrenis in Costa Rica. Although S. argus and S. longifrenis occur in the same general area on the Atlantic slope of Costa Rica, they have not yet been taken at the same locality.

Copeia↗