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At least 343 records · Page 19Linked to original sources
USGS2021

Water-quality, bed-sediment, and invertebrate tissue trace-element concentrations for tributaries in the Clark Fork Basin, Montana, October 2018–September 2019

Water, bed sediment, and invertebrate tissue were sampled in streams from Butte to near Missoula, Montana, as part of a monitoring program in the Clark Fork Basin. The sampling program was completed by the U.S. Geological Survey, in cooperation with the U.S. Environmental Protection Agency, to characterize aquatic resources in the Clark Fork Basin and monitor trace elements associated with historical mining and smelting activities. Sampling sites were on the river and tributaries of the Clark Fork. Water samples were collected periodically at 20 sites from October 2018 through September 2019. Bed-sediment and tissue samples were collected once at 13 sites during July 2019. Water-quality data included concentrations of major ions, dissolved organic carbon, nitrogen (nitrate plus nitrite), trace elements, and suspended sediment. Daily values of turbidity were determined at four sites. Bed-sediment data included trace-element concentrations in the fine-grained (less than 0.063 millimeter) fraction. Biological data included trace-element concentrations in whole-body tissue of aquatic benthic invertebrates. Statistical summaries of water-quality, bed-sediment, and invertebrate tissue trace-element data for sites in the Clark Fork Basin were provided for the period of record: March 1985–September 2019.

Montana↗
USGS2020

Fisheries research and monitoring activities of the Lake Erie Biological Station, 2019

A comprehensive understanding of fish populations and their interactions is the cornerstone of modern fishery management and the basis for Fish Community Goals and Objectives for Lake Erie (Ryan et al. 2003). This report is responsive to U.S. Geological Survey (USGS) obligations via Memorandum of Understanding (MOU) with the Great Lakes Council of Lake Committees (CLC) to provide scientific information in support of fishery management. Goals for the USGS Great Lakes Deepwater Fish Assessment and Ecological Studies in 2019 were to monitor long-term changes in the fish community and population dynamics of key fishes of interest to management agencies. Specific to Lake Erie, expectations of this agreement were sustained investigations of native percids, forage (prey) fish populations, and Lake Trout. Our 2019 deepwater program operations began in April and concluded in December, and utilized trawl, gillnet, hydroacoustic, lower trophic sampling, and telemetry methods. This work resulted in 88 bottom trawls covering 65 ha of lake-bottom and catching 24,140 fish totaling 3,622 kg during three separate trawl surveys in the West and Central basins of Lake Erie. Overnight gillnet sets (n=44) for cold water species were performed at 42 unique locations in the West and East basins of Lake Erie. A total of 8.0 km of gillnet was deployed during these surveys, which caught 286 fish, 114 of which were native coldwater species: Lake Trout, Burbot, and Lake Whitefish. USGS hydroacoustic surveys in 2019 produced 240 km of transects, and lower trophic sampling provided data from zooplankton samples (n=21) and water quality profiles (n=21) to populate a database maintained by the Ontario Ministry of Natural Resources and Forestry (OMNRF), Ohio Division of Natural Resources (ODNR), Michigan Division of Natural Resources (MDNR), Pennsylvania Fish and Boat Commission (PFBC), and New York State Department of Environmental Conservation (NYSDEC). USGS also assisted CLC member agencies with deployment and maintenance of the Great Lakes Acoustic Telemetry Observation System (GLATOS) throughout all three Lake Erie sub-basins, supporting multiple coordinated telemetry investigations. In 2019, Lake Trout investigations included annual gill net surveys and acoustic telemetry of spawning migration and habitat use in coordination with OMNRF, NYSDEC, and PFBC. Results from Lake Trout investigations were reported in the Coldwater Task Group annual report to the Great Lakes Fishery Commission (GLFC) and the CLC (Coldwater Task Group 2020). Likewise, interagency forage fish assessments conducted with hydroacoustics were summarized and reported in the Forage Task Group annual report (Forage Task Group 2020). This report presents biomass-based summaries of fish communities in western Lake Erie derived from USGS bottom trawl surveys conducted from 2013 to 2019 during June and September. The survey design provided temporal and spatial coverage that did not exist in the historic interagency trawl database, and thus complemented the August ODNR-OMNRF effort to reinforce stock assessments with more robust data. Analyses herein evaluated trends in: total biomass, abundance of dominant predator and forage species, non-native species composition, biodiversity and community structure. Data from this effort can be explored interactively online (https://lebs.shinyapps.io/western-basin/), and are accessible for download (https://doi.org/10.5066/P9LL6YOR, Keretz et al. 2020). Annual survey data are added to these sources as the data become available.

Lake Erie↗
USGS2022

Water-quality, bed-sediment, and invertebrate tissue trace-element concentrations for tributaries in the Clark Fork Basin, Montana, October 2019–September 2020

Water, bed sediment, and invertebrate tissue were sampled in streams from Butte to near Missoula, Montana, as part of a monitoring program in the Clark Fork Basin. The sampling program was completed by the U.S. Geological Survey, in cooperation with the U.S. Environmental Protection Agency, to characterize aquatic resources in the Clark Fork Basin and monitor trace elements associated with historical mining and smelting activities. Sampling sites were on the Clark Fork River and a subset of its tributaries. Water samples were collected periodically at 22 sites from October 2019 through September 2020. Bed-sediment and tissue samples were collected once at 12 sites during July 2020. Water-quality data included concentrations of major ions, dissolved organic carbon, nitrogen (nitrate plus nitrite), trace elements, and suspended sediment. Daily values of turbidity were determined at four sites. Bed-sediment data included trace-element concentrations in the fine-grained (less than 0.063 millimeter) fraction. Biological data included trace-element concentrations in whole-body tissue of selected aquatic benthic invertebrates. Statistical summaries of water-quality, bed-sediment, and invertebrate tissue trace-element data for sites in the Clark Fork Basin were provided for the period of record: March 1985–September 2020.

Montana↗
USGS2017

Implications of rapid environmental change for polar bear behavior and sociality

Historically, the Arctic sea ice has functioned as a structural barrier that has limited the nature and extent of interactions between humans and polar bears ( Ursus maritimus ). However, declining sea ice extent, brought about by global climate change, is increasing the potential for human-polar bear interactions. Loss of sea ice habitat is driving changes to both human and polar bear behavior—it is facilitating increases in human activities (e.g., offshore oil and gas exploration and extraction, trans-Arctic shipping, recreation), while also causing the displacement of bears from preferred foraging habitat (i.e., sea ice over biologically productive shallow) to land in some portions of their range. The end result of these changes is that polar bears are spending greater amounts of time in close proximity to people. Coexistence between humans and polar bears will require imposing mechanisms to manage further development, as well as mitigation strategies that reduce the burden to local communities.

Book chapter↗
USGS2023

Increased whitebark pine (Pinus albicaulis) growth and defense under a warmer and regionally drier climate

Introduction: Tree defense characteristics play a crucial role in modulating conifer bark beetle interactions, and there is a growing body of literature investigating factors mediating tree growth and resin-based defenses in conifers. A subset of studies have looked at relationships between tree growth, resin duct morphology and climate; however, these studies are almost exclusively from lower-elevation, moisture-limited systems. The relationship between resin ducts and climate in higher-elevation, energy-limited ecosystems is currently poorly understood. Methods: In this study, we: (1) evaluated the relationship between biological trends in tree growth, resin duct anatomy, and climatic variability and (2) determined if tree growth and resin duct morphology of whitebark pine, a high-elevation conifer of management concern, is constrained by climate and/or regional drought conditions. Results: We found that high-elevation whitebark pine trees growing in an energy-limited system experienced increased growth and defense under warmer and regionally drier conditions, with climate variables explaining a substantive proportion of variation (∼20–31%) in tree diameter growth and resin duct anatomy. Discussion: Our results suggest that whitebark pine growth and defense was historically limited by short growing seasons in high-elevation environments; however, this relationship may change in the future with prolonged warming conditions.

Montana↗
USGS2013

Backcasting the decline of a vulnerable Great Plains reproductive ecotype: identifying threats and conservation priorities

Conservation efforts for threatened or endangered species are challenging because the multi-scale factors that relate to their decline or inhibit their recovery are often unknown. To further exacerbate matters, the perceptions associated with the mechanisms of species decline are often viewed myopically rather than across the entire species range. We used over 80 years of fish presence data collected from the Great Plains and associated ecoregions of the United States, to investigate the relative influence of changing environmental factors on the historic and current truncated distributions of the Arkansas River shiner Notropis girardi . Arkansas River shiner represent a threatened reproductive ecotype considered especially well adapted to the harsh environmental extremes of the Great Plains. Historic ( n = 163 records) and current ( n = 47 records) species distribution models were constructed using a vector-based approach in MaxEnt by splitting the available data at a time when Arkansas River shiner dramatically declined. Discharge and stream order were significant predictors in both models; however, the shape of the relationship between the predictors and species presence varied between time periods. Drift distance (river fragment length available for ichthyoplankton downstream drift before meeting a barrier) was a more important predictor in the current model and indicated river segments 375–780 km had the highest probability of species presence. Performance for the historic and current models was high (area under the curve; AUC > 0.95); however, forecasting and backcasting to alternative time periods suggested less predictive power. Our results identify fragments that could be considered refuges for endemic plains fish species and we highlight significant environmental factors (e.g., discharge) that could be manipulated to aid recovery.

Great Plains↗
USGS2008

Development of a Monitoring Protocol to Detect Ecological Change in the Intertidal Zone of Sitka National Historical Park, Alaska

A pilot study to develop and test a probability-based intertidal monitoring protocol for Sitka National Historical Park was conducted from 1999 to 2003. In 1999, the basic design, with a focus on sampling the whole of the designated intertidal was created, and sampling was conducted for sessile species and large mobile invertebrates by point-intercept sampling of vertical transects and band surveys along transects, respectively. In 2002 and 2003, the same types of sampling were conducted, but quadrat sampling for small mobile invertebrates was added and then modified. This project has produced basic data on the presence, abundance, and spatial distribution of substrates and intertidal biota. Additionally, statistical power analyses conducted on the biological data have allowed assessment of the ability of the sampling to detect trends in the abundance of the predominant species. Current sampling has an 80 percent probability to detect +10 percent annual changes in abundance of all targeted species with an a = 0.05; the ability to detect -10 percent trends is not as uniformly high. Various options are discussed for decreasing the spatial variance of the data. The information presented provides a basis for discussion of the major questions being asked, how the sampling design might be reconfigured to be consistent in approach, and how the intertidal monitoring should interface with other potential intertidal monitoring.

Scientific Investigations Report↗
USGS2005

Resource inventory of marine and estuarine fishes of the West Coast and Alaska: A checklist of North Pacific and Arctic Ocean species from Baja California to the Alaska - Yukon border

This is a comprehensive inventory of the fish species recorded in marine and estuarine waters between the Alaska–Yukon Territory border in the Beaufort Sea and Cabo San Lucas at the southern end of Baja California and out about 300 miles from shore. Our westernmost range includes the eastern Bering Sea and Aleutian Islands. In addition, we have also included our best impressions of the species that might reasonably be expected to be members of the West Coast ichthyofauna but have not yet been captured or reported within our study area. These species are marked with an asterisk (*) and have been reported (1) in the western Bering Sea; (2) off Canada’s Yukon Territory and adjacent portions of the Northwest Territories; (3) along the southern-eastern tip (non-Pacific side) of Baja California; and (4) in waters somewhat beyond 300 miles from shore. Although the term West Coast usually refers to the coast of the continuous western states, our usage herein means the entire study area. The West Coast inventory within this range encompasses fish fauna from 44 orders, 232 families, and a minimum of 1,450 species. Please note that introduced and invasive fish species are marked by double asterisks (**) and that their scientific names are highlighted in gray. We have compiled this document because the most geographically inclusive previous inventories (Jordan and Evermann 1896a, Jordan et al. 1930) are largely of historical interest and are out of date. More recent lists and compilations have either focused on relatively narrow taxonomic groups (e. g., Kramer et al. 1995, Love et al. 2002), are regional in scope (e. g., Hart 1973, Hubbs et al. 1979, Mecklenburg et al. 2002), or focus on commonly observed species (e. g., Miller and Lea 1972, Eschmeyer and Herald 1983). With the explosion of coastal research and environmental assessments, beginning in the 1970s, and more recently, renewed scientific interest in biodiversity (e.g., effects of global climate change), our own studies on related subjects regarding fish populations, assemblages, and biological habitats, suggested this was the appropriate time to update and summarize our knowledge.

Report↗
USGS2014

Population declines lead to replicate patterns of internal range structure at the tips of the distribution of the California red-legged frog ( Rana draytonii )

Demographic declines and increased isolation of peripheral populations of the threatened California red-legged frog ( Rana draytonii ) have led to the formation of internal range boundaries at opposite ends of the species’ distribution. While the population genetics of the southern internal boundary has been studied in some detail, similar information is lacking for the northern part of the range. In this study, we used microsatellite and mtDNA data to examine the genetic structuring and diversity of some of the last remaining R. draytonii populations in the northern Sierra Nevada, which collectively form the northern external range boundary. We compared these data to coastal populations in the San Francisco Bay Area, where the species is notably more abundant and still exists throughout much of its historic range. We show that ‘external’ Sierra Nevada populations have lower genetic diversity and are more differentiated from one another than their ‘internal’ Bay Area counterparts. This same pattern was mirrored across the distribution in California, where Sierra Nevada and Bay Area populations had lower allelic variability compared to those previously studied in coastal southern California. This genetic signature of northward range expansion was mirrored in the phylogeography of mtDNA haplotypes; northern Sierra Nevada haplotypes showed greater similarity to haplotypes from the south Coast Ranges than to the more geographically proximate populations in the Bay Area. These data cast new light on the geographic origins of Sierra Nevada R. draytonii populations and highlight the importance of distinguishing the genetic effects of contemporary demographic declines from underlying signatures of historic range expansion when addressing the most immediate threats to population persistence. Because there is no evidence of contemporary gene flow between any of the Sierra Nevada R. draytonii populations, we suggest that management activities should focus on maintaining and creating additional ponds to support breeding within typical dispersal distances of occupied habitat.

Biological Conservation↗
USGS2012

Variations of transcript profiles between sea otters Enhydra lutris from Prince William Sound, Alaska, and clinically normal reference otters

Development of blood leukocyte gene transcript profiles has the potential to expand condition assessments beyond those currently available to evaluate wildlife health, including sea otters Enhydra lutris , both individually and as populations. The 10 genes targeted in our study represent multiple physiological systems that play a role in immuno-modulation, inflammation, cell protection, tumor suppression, cellular stress-response, xenobiotic metabolizing enzymes, and antioxidant enzymes. These genes can be modified by biological, physical, or anthropogenic impacts and consequently provide information on the general type of stressors present in a given environment. We compared gene transcript profiles of sea otters sampled in 2008 among areas within Prince William Sound impacted to varying degrees by the 1989 ‘Exxon Valdez’ oil spill with those of captive and wild reference sea otters. Profiles of sea otters from Prince William Sound showed elevated transcription in genes associated with tumor formation, cell death, organic exposure, inflammation, and viral exposure when compared to the reference sea otter group, indicating possible recent and chronic exposure to organic contaminants. Sea otters from historically designated oiled areas within Prince William Sound 19 yr after the oil spill had higher transcription of genes associated with tumor formation, cell death, heat shock, and inflammation than those from areas designated as less impacted by the spill.

Alaska↗
USGS2000

A Synopsis of Technical Issues of Concern for Monitoring Trace Elements in Highway and Urban Runoff

Trace elements, which are regulated for aquatic life protection, are a primary concern in highway- and urban-runoff studies because stormwater runoff may transport these constituents from the land surface to receiving waters. Many of these trace elements are essential for biological activity and become detrimental only when geologic or anthropogenic sources exceed concentrations beyond ranges typical of the natural environment. The Federal Highway Administration and State Transportation Agencies are concerned about the potential effects of highway runoff on the watershed scale and for the management and protection of watersheds. Transportation agencies need information that is documented as valid, current, and scientifically defensible to support planning and management decisions. There are many technical issues of concern for monitoring trace elements; therefore, trace-element data commonly are considered suspect, and the responsibility to provide data-quality information to support the validity of reported results rests with the data-collection agency. Paved surfaces are fundamentally different physically, hydraulically, and chemically from the natural surfaces typical of most freshwater systems that have been the focus of many traceelement- monitoring studies. Existing scientific conceptions of the behavior of trace elements in the environment are based largely upon research on natural systems, rather than on systems typical of pavement runoff. Additionally, the logistics of stormwater sampling are difficult because of the great uncertainty in the occurrence and magnitude of storm events. Therefore, trace-element monitoring programs may be enhanced if monitoring and sampling programs are automated. Automation would standardize the process and provide a continuous record of the variations in flow and water-quality characteristics. Great care is required to collect and process samples in a manner that will minimize potential contamination or attenuation of trace elements and other sources of bias and variability in the sampling process. Trace elements have both natural and anthropogenic sources that may affect the sampling process, including the sample-collection and handling materials used in many trace-element monitoring studies. Trace elements also react with these materials within the timescales typical for collection, processing and analysis of runoff samples. To study the characteristics and potential effects of trace elements in highway and urban runoff, investigators typically sample one or more operationally defined matrixes including: whole water, dissolved (filtered water), suspended sediment, bottom sediment, biological tissue, and contaminant sources. The sampling and analysis of each of these sample matrixes can provide specific information about the occurrence and distribution of trace elements in runoff and receiving waters. There are, however, technical concerns specific to each matrix that must be understood and addressed through use of proper collection and processing protocols. Valid protocols are designed to minimize inherent problems and to maximize the accuracy, precision, comparability, and representativeness of data collected. Documentation, including information about monitoring protocols, quality assurance and quality control efforts, and ancillary data also is necessary to establish data quality. This documentation is especially important for evaluation of historical traceelement monitoring data, because trace-element monitoring protocols and analysis methods have been constantly changing over the past 30 years.

Open-File Report↗
USGS2013

Data management challenges in species distribution modeling

An important component in the fields of ecology and conservation biology is understanding the environmental conditions and geographic areas that are suitable for a given species to inhabit. A common tool in determining such areas is species distribution modeling which uses computer algorithms to determine the spatial distribution of organisms. Most commonly the correlative relationships between the organism and environmental variables are the primary consideration. The data requirements for this type of modeling consist of known presence and possibly absence locations of the species as well as the values of environmental or climatic covariates thought to define the species habitat suitability at these locations. These covariate data are generally extracted from remotely sensed imagery, interpolated/gridded historical climate data, or downscaled climate model output. Traditionally, ecologists and biologists have constructed species distribution models using workflows and data that reside primarily on their local workstations or networks. This workflow is becoming challenging as scientists increasingly try to use these modeling techniques to inform management decisions under different climate change scenarios. This challenge stems from the fact that remote sensing products, gridded historical climate, and downscaled climate models are not only increasing in spatial and temporal resolution but proliferating as well. Any rigorous assessment of uncertainty requires a computationally intensive sensitivity analysis accounting for various sources of uncertainty. The scientists fitting these models generally do not have the background in computer science required to take advantage of recent advances in web-service based data acquisition, remote high-powered data processing, or scientific workflow systems. Ecologists in the field of modeling are in need of a tractable platform that abstracts the inherent computational complexity required to incorporate the burgeoning field of coupled climate and ecological response modeling. In this paper we describe the computational challenges in species distribution modeling and solutions using scientific workflow systems. We focus on the Software for Assisted Species Modeling (SAHM) a package within VisTrails, an open-source scientific workflow system.

Bulletin of the Technical Committee on Data Engine↗
USGS2011

Estimating temporal trend in the presence of spatial complexity: A Bayesian hierarchical model for a wetland plant population undergoing restoration

Monitoring programs that evaluate restoration and inform adaptive management are important for addressing environmental degradation. These efforts may be well served by spatially explicit hierarchical approaches to modeling because of unavoidable spatial structure inherited from past land use patterns and other factors. We developed Bayesian hierarchical models to estimate trends from annual density counts observed in a spatially structured wetland forb (Camassia quamash [camas]) population following the cessation of grazing and mowing on the study area, and in a separate reference population of camas. The restoration site was bisected by roads and drainage ditches, resulting in distinct subpopulations ("zones") with different land use histories. We modeled this spatial structure by fitting zone-specific intercepts and slopes. We allowed spatial covariance parameters in the model to vary by zone, as in stratified kriging, accommodating anisotropy and improving computation and biological interpretation. Trend estimates provided evidence of a positive effect of passive restoration, and the strength of evidence was influenced by the amount of spatial structure in the model. Allowing trends to vary among zones and accounting for topographic heterogeneity increased precision of trend estimates. Accounting for spatial autocorrelation shifted parameter coefficients in ways that varied among zones depending on strength of statistical shrinkage, autocorrelation and topographic heterogeneity-a phenomenon not widely described. Spatially explicit estimates of trend from hierarchical models will generally be more useful to land managers than pooled regional estimates and provide more realistic assessments of uncertainty. The ability to grapple with historical contingency is an appealing benefit of this approach.

PLoS ONE↗
USGS2005

Instream flow characterization of upper Salmon River basin streams, central Idaho, 2004

Anadromous fish populations in the Columbia River Basin have plummeted in the last 100 years. This severe decline led to Federal listing of Chinook salmon (Oncorhynchus tshawytscha) and steelhead trout (Oncorhynchus mykiss) stocks as endangered or threatened under the Endangered Species Act (ESA) in the 1990s. Historically, the upper Salmon River Basin (upstream of the confluence with the Pahsimeroi River) in Idaho provided migration corridors and significant habitat for these ESA-listed species, in addition to the ESA-listed bull trout (Salvelinus confluentus). Human development has modified the original streamflow conditions in many streams in the upper Salmon River Basin. Summer streamflow modifications resulting from irrigation practices, have directly affected quantity and quality of fish habitat and also have affected migration and (or) access to suitable spawning and rearing habitat for these fish. As a result of these ESA listings and Action 149 of the Federal Columbia River Power System Biological Opinion of 2000, the Bureau of Reclamation was tasked to conduct streamflow characterization studies in the upper Salmon River Basin to clearly define habitat requirements for effective species management and habitat restoration. These studies include collection of habitat and streamflow information for the Physical Habitat Simulation System model, a widely applied method to determine relations between habitat and discharge requirements for various fish species and life stages. Model results can be used by resource managers to guide habitat restoration efforts by evaluating potential fish habitat and passage improvements by increasing streamflow. In 2004, instream flow characterization studies were completed on Salmon River and Beaver, Pole, Champion, Iron, Thompson, and Squaw Creeks. Continuous streamflow data were recorded upstream of all diversions on Salmon River and Pole, Iron, Thompson, and Squaw Creeks. In addition, natural summer streamflows were estimated for each study site using regional regression equations. This report describes Physical Habitat Simulation System modeling results for bull trout, Chinook salmon, and steelhead trout during summer streamflows. Habitat/discharge relations were summarized for adult and spawning life stages at each study site. Adult fish passage and discharge relations were evaluated at specific transects identified as a potential low-streamflow passage barrier at each study site. Continuous summer water temperature data for selected study sites were summarized and compared with Idaho Water Quality Standards and various water temperature requirements of targeted fish species. Continuous summer water temperature data recorded in 2003 and streamflow relations were evaluated for Fourth of July Creek using the Stream Segment Temperature model that simulates mean and maximum daily water temperatures with changes in streamflow. Results of these habitat studies can be used to prioritize and direct cost-effective actions to improve fish habitat for ESA-listed anadromous and native fish species in the basin. These actions may include acquiring water during critical low-flow periods by leasing or modifying irrigation delivery systems to minimize out-of-stream diversions.

Idaho↗
USGS2006

Instream flow characterization of Upper Salmon River basin streams, central Idaho, 2005

Anadromous fish populations in the Columbia River Basin have plummeted in the last 100 years. This severe decline led to Federal listing of Chinook salmon (Oncorhynchus tshawytscha) and steelhead trout (Oncorhynchus mykiss) stocks as endangered or threatened under the Endangered Species Act (ESA) in the 1990s. Historically, the upper Salmon River Basin (upstream of the confluence with the Pahsimeroi River) in Idaho provided migration corridors and significant habitat for these ESA-listed species, in addition to the ESA-listed bull trout (Salvelinus confluentus). Human development has modified the original streamflow conditions in many streams in the upper Salmon River Basin. Summer streamflow modifications resulting from irrigation practices, have directly affected quantity and quality of fish habitat and also have affected migration and (or) access to suitable spawning and rearing habitat for these fish. As a result of these ESA listings and Action 149 of the Federal Columbia River Power System Biological Opinion of 2000, the Bureau of Reclamation was tasked to conduct streamflow characterization studies in the upper Salmon River Basin to clearly define habitat requirements for effective species management and habitat restoration. These studies include collection of habitat and streamflow information for the Physical Habitat Simulation System (PHABSIM) model, a widely applied method to determine relations between habitat and discharge requirements for various fish species and life stages. Model simulation results can be used by resource managers to guide habitat restoration efforts by evaluating potential fish habitat and passage improvements by increasing or decreasing streamflow. In 2005, instream flow characterization studies were completed on Big Boulder, Challis, Bear, Mill, and Morgan Creeks. Continuous streamflow data were recorded upstream of all diversions on Big Boulder. Instantaneous measurements of discharge were also made at selected sites. In addition, natural summer streamflows were estimated for each study site using regional regression equations. This report describes PHABSIM modeling results for bull trout, Chinook salmon, and steelhead trout during summer streamflows. Habitat/discharge relations were summarized for adult and spawning life stages at each study site. In addition, streamflow needs for riffle dwelling invertebrate taxa (Ephemeroptera, Plecoptera, and Trichoptera) are presented. Adult fish passage and discharge relations were evaluated at specific transects that were identified as potential low-streamflow passage barriers at each study site. Continuous summer water temperature data for selected study sites were summarized and compared with Idaho Water Quality Standards and various water temperature requirements of targeted fish species. Results of these habitat studies can be used to prioritize and direct cost-effective actions to improve fish habitat for ESA-listed anadromous and native fish species in the basin. These actions may include acquiring water during critical low-flow periods by leasing or modifying irrigation delivery systems to minimize out-of-stream diversions.

Idaho↗
USGS2010

Distribution, behavior, and transport of inorganic and methylmercury in a high gradient stream

Concentrations of Hg remain elevated in physical and biological media of the South River (Virginia, USA), despite the cessation of the industrial use of Hg in its watershed nearly six decades ago, and physical characteristics that would not seem to favor Hg(II)-methylation. A 3-a study of inorganic Hg (IHg) and methylmercury (MeHg) was conducted in physical media (soil, sediment, surface water, porewater and soil/sediment extracts) to identify non-point sources, transport mechanisms, and potential controls on Hg(II)-methylation. Data collected from surface water and sediment indicate that the majority of the non-point sources of IHg to the South River are within the first 14. km downstream from the historic point source. Partitioning data indicate that particle bound IHg is introduced in this reach, releasing dissolved and colloidal bound IHg, which is transported downstream. Extraction experiments revealed that floodplain soils released a higher fraction of their IHg content in aqueous extractions than fine-grained sediment (FGS). Based on ultrafiltration [<5000 nominal molecular weight cutoff (NMWC)] the majority of soil IHg released was colloidal in nature, providing evidence for the continued evolution of IHg for Hg(II)-methylation from soil. Strong seasonal patterns in MeHg concentrations were observed in surface water and sediment. The highest concentrations of MeHg in surface water were observed at moderate temperatures, suggesting that other factors limit net Hg(II)-methylation. Seasonal changes in sediment organic content and the fraction of 1. N KOH-extractable THg were also observed and may be important factors in controlling net Hg(II)-methylation rates. Sulfate concentrations in surface water are low and the evidence suggests that Fe reduction may be an important Hg(II)-methylation process. The highest sediment MeHg concentrations were observed in habitats with large amounts of FGS, which are more prevalent in the upper half of the study area due to the lower hydrologic gradient and agricultural impacts. Past and present land use practices and other geomorphologic controls contribute to the erosion of banks and accumulation of fine-grained sediment in this section of the river, acting as sources of IHg. ?? 2010 Elsevier Ltd.

Applied Geochemistry↗
USGS2019

Quantifying hydrologic alteration in an area lacking current reference conditions—The Mississippi Alluvial Plain of the South-Central U.S.

To better understand the effects of hydrologic alteration as they relate to human and biological needs within the Mississippi Alluvial Plain of the south-central United States, the quantification of hydrologic alteration is required. Quantifying hydrologic alteration in the Mississippi Alluvial Plain is particularly difficult because of the lack of current reference, or even relatively undisturbed, U.S. Geological Survey (USGS) streamflow-gaging stations. Water withdrawals for agriculture in the form of weirs, dams, channelization and other forms of regulation within the Mississippi Alluvial Plain increased substantially beginning around 1960 suggesting that streamflow is substantially altered after this time period. To overcome the lack of stations that exist in the present that are unaffected by anthropogenic activities (or current reference stations), historical streamflow data were used to estimate what streamflow would be in the present without anthropogenic influence (or current reference conditions). These data, when combined with current streamflow information collected by the USGS in south and eastern Arkansas, southwest corner Kentucky, Louisiana, western Mississippi, southeastern corner Missouri, extreme western Tennessee, and extreme southeastern Texas were used to assess the level of hydrologic alteration within the study area.

Arkansas, Kentucky, Louisiana, Mississippi, Missou↗
USGS2004

Instream flow characterization of upper Salmon River Basin streams, Central Idaho, 2003

Anadromous fish populations in the Columbia River Basin have plummeted in the last 100 years. This severe decline led to Federal listing of chinook salmon ( Oncorhynchus tshawytscha ) and steelhead trout ( Oncorhynchus mykiss ) stocks as endangered or threatened under the Endangered Species Act (ESA) in the 1990s. Historically, the upper Salmon River Basin (upstream from the confluence with the Pahsimeroi River) in Idaho provided migration corridors and significant habitat for these ESA-listed species, in addition to the federally listed bull trout ( Salvelinus confluentus ). Human development has modified the original streamflow conditions in many streams in the upper Salmon River Basin. Summer streamflow modifications, as a result of irrigation practices, have directly affected the quantity and quality of fish habitat and also have affected migration and (or) access to suitable spawning and rearing habitat for these fish. As a result of these ESA listings and Action 149 of the Federal Columbia River Power System Biological Opinion of 2000, the Bureau of Reclamation was tasked to conduct streamflow characterization studies in the upper Salmon River Basin to clearly define habitat requirements for effective species management and habitat restoration. These studies include the collection of habitat and streamflow information for the Physical Habitat Simulation (PHABSIM) model, a widely applied method to determine relations between habitat and discharge requirements for various fish species and life stages. Model results can be used by resource managers to guide habitat restoration efforts in the evaluation of potential fish habitat and passage improvements by increasing streamflow. Instream flow characterization studies were completed on Pole, Fourth of July, Elk, and Valley Creeks during 2003. Continuous streamflow data were collected upstream from all diversions on each stream. In addition, natural summer streamflows were estimated for each study site using regression equations. PHABSIM results are presented for bull trout, chinook salmon, and steelhead trout over a range of summer streamflows. Habitat/discharge relations are summarized for juvenile, adult, and spawning life stages at each study site. Adult fish passage and discharge relations are evaluated at specific transects identified as a potential low-streamflow passage barrier at each study site. Continuous summer water temperature data for selected study sites also are summarized and compared with Idaho Water Quality Standards and various temperature requirements of targeted fish species. Results of these habitat studies can be used to prioritize and direct cost-effective actions to improve fish habitat for ESA-listed anadromous and native fish species in the basin. These actions may include acquiring water during critical low-flow periods by leasing or modifying irrigation delivery systems to minimize out-of-stream diversions.

Idaho↗