Geology topics

Samuel J. Brenkman

Publications and source records attributed to Samuel J. Brenkman.

9 recordsLinked to original sources

USGS2026

Unveiling a legacy of fish introductions to mountain lakes using historical records and eDNA surveys in a National Park

Across the western United States, introductions of non-native fish into historically fishless mountain lakes have impacted native biota. Understanding the impacts of fish introductions is essential for conservation in Olympic National Park, a Biosphere Reserve. We reconstructed fish plantings using records dating back to 1930, followed by environmental DNA (eDNA) surveys to estimate the current distribution of fish and amphibians in 117 remote mountain lakes. We used Bayesian multiscale occupancy models to determine how lake attributes and planting history related to fish and amphibian occupancy. The most frequently detected species were Brook Trout, Rainbow Trout, Cascades Frog, and Northwestern Salamander. eDNA sampling revealed 52 lakes with amphibians only, 45 with fish and amphibians, 14 with fish only, and 6 unoccupied. Of the 53 lakes with planting records, 38 had fish eDNA detected. Fish eDNA was also detected in 21 lakes lacking planting records, which could reflect incomplete records, unauthorized plantings, and false positive detections. Of the three species planted, Cutthroat Trout had the highest failure rate and did not become established in 23 of 28 historically planted lakes. In a subset of 9 lakes sampled for up to 7 years, those with known fish and amphibian presence showed consistent eDNA detections over time. The number of times a lake was stocked was the best predictor of occupancy for Brook and Rainbow trout, while higher occupancy for Brook Trout was also associated with lower elevations, lower solar radiation, and larger lake area. We did not observe widespread negative associations between amphibian occupancy and fish presence, although there was a negative relationship between fish presence and Rough-skinned Newt and Long-toed Salamander occupancy. Cascades Frog occupancy showed no relationship to fish presence or lake traits. Our results suggest mechanisms of fish persistence over time and highlight areas where native amphibians are impacted by introduced fish. These results can guide management options like targeted fish removals that benefit native fauna while still supporting recreational fishing. More broadly, our work demonstrates the value of combining historical records with contemporary surveys and the utility of eDNA for broad-scale surveys of species distribution in remote wilderness areas.

Washington↗

USGS2024

Challenges of implementing a multi-agency monitoring and adaptive management strategy for federally threatened Chinook salmon and steelhead trout during and after dam removal in the Elwha River

Adaptive management, a process of planning, implementing, and evaluating management strategies, is often recommended for monitoring ecological systems. However, few examples of successful implementation and retrospective case studies exist. We provide a case study of adaptively managing hatchery-assisted protection and recovery for Chinook salmon ( Oncorhynchus tshawytscha ) and winter steelhead trout ( O. mykiss ) during and after the removal of two large mainstem dams in the Elwha River, WA. We summarize key aspects of the monitoring and adaptive management plan over the last decade and highlight successes, challenges, and complications during the plan’s implementation. The Elwha Monitoring and Adaptive Management Guidelines included a trigger-based system for moving through four phases of recovery that included preservation, recolonization, local adaptation, and viable natural population, each with differing levels of hatchery production as the management actions. The monitoring component of the plan has been very successful, providing critical data to guide management actions that otherwise may not have occurred and, opportunistically, provided data for other native species in the Elwha River. Implementing adaptive management provided mixed results and was at times hindered by divergent management goals among project partners, the inflexibility of the Endangered Species Act regulatory requirements as implemented for this project, and conflicting information among guidance documents. We learned that some metrics and triggers in the plan were ill-defined or too difficult to measure in the field. In some cases, the performance indicators and/or triggers were successfully modified to incorporate what was learned; however, in other cases, we were unable to revise the values due to differing opinions among partners. The ability to reach consensus on revised triggers appeared to be influenced by the recovery trajectory of the species involved. The implemented adaptive management strategy resulted in substantial collaboration and learning, which resulted in revised management strategies, but was imperfect. Sufficient long-term funding is necessary to implement a well-designed monitoring program and could benefit from including a defined leadership position to shepherd and facilitate a multi-stakeholder adaptive management program. Additionally, incorporating adaptive management into legally binding conditions under the Endangered Species Act is feasible, but requires substantial pre-planning in close coordination with regulatory agencies.

Washington↗

USGS2021

Reconnecting the Elwha River: Spatial patterns of fish response to dam removal

The removal of two large dams on the Elwha River was completed in 2014 with a goal of restoring anadromous salmonid populations. Using observations from ongoing field studies, we compiled a timeline of migratory fish passage upstream of each dam. We also used spatially continuous snorkeling surveys in consecutive years before (2007, 2008) and after (2018, 2019) dam removal during summer baseflow to assess changes in fish distribution and density over 65 km of the mainstem Elwha River. Before dam removal, anadromous fishes were limited to the 7.9 km section of river downstream of Elwha Dam, potamodromous species could not migrate throughout the river system, and resident trout were the most abundant species. After dam removal, there was rapid passage into areas upstream of Elwha Dam, with 8 anadromous species (Chinook, Coho, Sockeye, Pink, Chum, Winter Steelhead, Summer Steelhead, Pacific Lamprey, and Bull Trout) observed within 2.5 years. All of these runs except Chum Salmon were also observed in upper Elwha upstream of Glines Canyon Dam within 5 years. The spatial extent of fish passage by adult Chinook Salmon and Summer Steelhead increased by 50 km and 60 km, respectively, after dam removal. Adult Chinook Salmon densities in some previously inaccessible reaches in the middle section of the river exceeded the highest densities observed in the lower section of the river prior to dam removal. The large number (>100) of adult Summer Steelhead in the upper river after dam removal was notable because it was among the rarest anadromous species in the Elwha River prior to dam removal. The spatial extent of trout and Bull Trout remained unchanged after dam removal, but their total abundance increased and their highest densities shifted from the lower 25 km of the river to the upper 40 km. Our results show that reconnecting the Elwha River through dam removal provided fish access to portions of the watershed that had been blocked for nearly a century.

Washington↗

USGS2020

Environmental DNA is an effective tool to track recolonizing migratory fish following large‐scale dam removal

Environmental DNA (eDNA) has emerged as a potentially powerful tool for use in conservation and resource management, including for tracking the recolonization dynamics of fish populations. We used eDNA to assess the effectiveness of dam removal to restore fish passage on the Elwha River in Washington State (USA). Using a suite of 11 species‐specific eDNA polymerase chain reaction (PCR) assays, we showed that most targeted anadromous species (five Pacific Salmon species and Pacific Lamprey) were able to pass upstream of both former dam sites. Multiscale occupancy modeling showed that the timing and spatial extent of recolonization differed among species during the four years of post‐dam removal monitoring. More abundant species like Chinook Salmon and Coho Salmon migrated farther into the upper portions of the watershed than less abundant species like Pink Salmon and Chum Salmon. Sampling also allowed assessment of potamodromous fish species. Bull Trout and Rainbow Trout, ubiquitous species in the watershed, were detected at all sampling locations. Environmental DNA from Brook Trout, a non‐native species isolated between the dams prior to dam removal, was detected downstream of Elwha dam but rarely upstream of the Glines Canyon Dam suggested that the species has not expanded its range appreciably in the watershed following dam removal. We found that eDNA was an effective tool to assess the response of fish populations to large‐scale dam removal on the Elwha River.

Environmental DNA↗

USGS2015

Multiscale analysis of river networks using the R package linbin

Analytical tools are needed in riverine science and management to bridge the gap between GIS and statistical packages that were not designed for the directional and dendritic structure of streams. We introduce linbin, an R package developed for the analysis of riverscapes at multiple scales. With this software, riverine data on aquatic habitat and species distribution can be scaled and plotted automatically with respect to their position in the stream network or—in the case of temporal data—their position in time. The linbin package aggregates data into bins of different sizes as specified by the user. We provide case studies illustrating the use of the software for (1) exploring patterns at different scales by aggregating variables at a range of bin sizes, (2) comparing repeat observations by aggregating surveys into bins of common coverage, and (3) tailoring analysis to data with custom bin designs. Furthermore, we demonstrate the utility of linbin for summarizing patterns throughout an entire stream network, and we analyze the diel and seasonal movements of tagged fish past a stationary receiver to illustrate how linbin can be used with temporal data. In short, linbin enables more rapid analysis of complex data sets by fisheries managers and stream ecologists and can reveal underlying spatial and temporal patterns of fish distribution and habitat throughout a riverscape.

North American Journal of Fisheries Management↗

USGS2014

A legacy of divergent fishery management regimes and the resilience of rainbow and cutthroat trout populations in Lake Crescent, Olympic National Park, Washington

As a means to increase visitation, early fisheries management in the National Park Service (NPS) promoted sport harvest and hatchery supplementation. Today, NPS management objectives focus on the preservation of native fish. We summarized management regimes of Olympic National Park's Lake Crescent, which included decades of liberal sport harvest and hatchery releases of 14.3 million salmonids. Notably, nonnative species failed to persist in the lake. Complementary analyses of annual redd counts (1989–2012) and genetics data delineated three sympatric trout (one rainbow; two cutthroat) populations that exhibited distinct spatial and temporal spawning patterns, variable emergence timings, and genetic distinctiveness. Allacustrine rainbow trout spawned in the lake outlet from January to May. Cutthroat trout spawned in the major inlet tributary (Barnes Creek) from February to June and in the outlet river (Lyre) from September to March, an unusual timing for coastal cutthroat trout. Redd counts for each species were initially low (rainbow = mean 89; range 37–159; cutthroat = mean 93; range 18–180), and significantly increased for rainbow trout (mean 306; range 254–352) after implementation of catch-and-release regulations. Rainbow and cutthroat trout reached maximum sizes of 10.4 kg and 5.4 kg, respectively, and are among the largest throughout their native ranges. Morphometric analyses revealed interspecific differences but no intraspecific differences between the two cutthroat populations. Genetic analyses identified three distinct populations and low levels (9–17%) of interspecific hybridization. Lake Crescent rainbow trout were genetically divergent from 24 nearby Oncorhynchus mykiss populations, and represented a unique evolutionary legacy worthy of protection. The indigenous and geographically isolated Lake Crescent trout populations were resilient to overharvest and potential interactions with introduced fish species.

Washington↗

USGS2010

Elwha River dam removal: A major opportunity for salmon and steelhead recolonization

In this in-depth paper, authors George R. Pess, Gary A. Winans and Timothy J. Beechie of the NOAA Fisheries, Northwest Fisheries Science Center in Seattle, Samuel J. Brenkman of the National Park Service, Olympic National Park, Michael L. McHenry of the Lower Elwha Klallam Tribe and Jeffrey J. Duda of the U.S. Geological Survey, Western Fisheries Research Center in Seattle, provide an historical overview of the Elwha River system, and its native anadromous fish runs and the prospect of their recolonization after the Elwha and Glines Canyon dams are removed.

Washington↗

USGS2008

Protocol for Monitoring Fish Assemblages in Pacific Northwest National Parks

Rivers and streams that drain from Olympic, Mount Rainier, and North Cascades National Parks are among the most protected corridors in the lower 48 States, and represent some of the largest tracts of contiguous, undisturbed habitat throughout the range of several key fish species of the Pacific Northwest. These watersheds are of high regional importance as freshwater habitat sanctuaries for native fish, where habitat conditions are characterized as having little to no disturbance from development, channelization, impervious surfaces, roads, diversions, or hydroelectric projects. Fishery resources are of high ecological and cultural importance in Pacific Northwest National Parks, and significantly contribute to economically important recreational, commercial, and tribal fisheries. This protocol describes procedures to monitor trends in fish assemblages, fish abundance, and water temperature in eight rivers and five wadeable streams in Olympic National Park during summer months, and is based on 4 years of field testing. Fish assemblages link freshwater, marine, and terrestrial ecosystems. They also serve as focal resources of national parks and are excellent indicators of ecological conditions of rivers and streams. Despite the vital importance of native anadromous and resident fish populations, there is no existing monitoring program for fish assemblages in the North Coast and Cascades Network. Specific monitoring objectives of this protocol are to determine seasonal and annual trends in: (1) fish species composition, (2) timing of migration of adult fish, (3) relative abundance, (4) age and size structure, (5) extent of non-native and hatchery fish, and (6) water temperature. To detect seasonal and annual trends in fish assemblages in reference sites, we rely on repeated and consistent annual sampling at each monitoring site. The general rationale for the repeated sampling of reference sites is to ensure that we account for the high interannual variability in fish movements and abundances in rivers. One underlying assumption is that the monitoring program is designed in perpetuity, and consequently our capability to detect trends substantially increases with time. The protocol describes sampling designs, methods, training procedures, safety considerations, data management, data analysis, and reporting. The allocation of sampling effort represents a balance between ecological considerations, a sound monitoring approach, and practical limitations caused by logistical constraints and a limited annual budget of $55,000. The widespread declines of native fish species in western North America highlights the importance and urgency of understanding trends in fish assemblages from undisturbed habitats. Seasonal and annual trends in fish assemblages will provide insights at the individual, population, and assemblage level. This protocol will allow managers to detect increases and decreases in abundance of priority management species, and occurrence of non-native, hatchery, and federally listed fish. The detection of trends in fish assemblages will allow for specific management actions that may include: implementation of more appropriate fishing regulations, evaluation of existing hatchery releases, control of non-native fish species, and prioritization of habitat restoration projects. Dissemination and communication of scientific findings on North Coast and Cascades Network fish assemblages will be a core product of this protocol, which will have much relevance to decision makers, park visitors, researchers, and educators.

Techniques and Methods↗

USGS2001

Spawning migration of lacustrine-adfluvial bull trout in a natural area

We investigated the spawning migration of lacustrine-adfluvial bull trout Salvelinus confluentus in the North Fork Skokomish River in Olympic National Park (Washington State) during 1996. Day-snorkeling and electrofishing were conducted to determine timing and duration of the migration and the distribution and abundance of bull trout. The primary spawning migration began in early October and was waning by December. Bull trout migrated 6 km or less up the river from Lake Cushman. Increased river discharge and decreased water temperature appeared to be the primary environmental variables corresponding to the initiation of the migration. Mean length of migratory bull trout increased from June to December. Comparisons with other lacustrine-adfluvial bull trout populations in Oregon, Montana, Idaho, and British Columbia suggested that these populations exhibit specific migratory strategies related to local environmental conditions.

Washington↗