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Characterization of water quality and biological communities, Fish Creek, Teton County, Wyoming, 2007-2011

Fish Creek, an approximately 25-kilometer-long tributary to Snake River, is located in Teton County in western Wyoming near the town of Wilson. Fish Creek is an important water body because it is used for irrigation, fishing, and recreation and adds scenic value to the Jackson Hole properties it runs through. Public concern about nuisance growths of aquatic plants in Fish Creek has been increasing since the early 2000s. To address these concerns, the U.S. Geological Survey conducted a study in cooperation with the Teton Conservation District to characterize the hydrology, water quality, and biologic communities of Fish Creek during 2007–11. The hydrology of Fish Creek is strongly affected by groundwater contributions from the area known as the Snake River west bank, which lies east of Fish Creek and west of Snake River. Because of this continuous groundwater discharge to the creek, land-use activities in the west bank area can affect the groundwater quality. Evaluation of nitrate isotopes and dissolved-nitrate concentrations in groundwater during the study indicated that nitrate was entering Fish Creek from groundwater, and that the source of nitrate was commonly a septic/sewage effluent or manure source, or multiple sources, potentially including artificial nitrogen fertilizers, natural soil organic matter, and mixtures of sources. Concentrations of dissolved nitrate and orthophosphate, which are key nutrients for growth of aquatic plants, generally were low in Fish Creek and occasionally were less than reporting levels (not detected). One potential reason for the low nutrient concentrations is that nutrients were being consumed by aquatic plant life that increases during the summer growing season, as a result of the seasonal increase in temperature and larger number of daylight hours. Several aspects of Fish Creek’s hydrology contribute to higher productivity and biovolume of aquatic plants in Fish Creek than typically observed in streams of its size in Wyoming. Especially in the winter, the proportionately large, continuous gain of groundwater into Fish Creek in the perennial section keeps most of the creek free of ice. Because sunlight can still reach the streambed in Fish Creek and the water is still flowing, aquatic plants continue to photosynthesize in the winter, albeit at a lower level of productivity. Additionally, the cobble and large gravel substrate in Fish Creek provides excellent attachment points for aquatic plants, and when combined with Fish Creek’s channel stability allows rapid growth of aquatic plants once conditions allow during the spring. The aquatic plant community of Fish Creek was different than most streams in Wyoming in that it contains many different macrophytes—including macroalgae such as long streamers of Cladophora , aquatic vascular plants, and moss; most other streams in the state contain predominantly algae. From the banks of Fish Creek, the bottom of the stream sometimes appeared to be a solid green carpet. A shift was observed from higher amounts of microalgae in April/May to higher amounts macrophytes in August and October, and differences in the relative abundance of microalgae and macrophytes were statistically significant between seasons. Differences in dissolved-nitrate concentrations and in the nitrogen-to-phosphorus ratio were significantly different between seasons, as concentrations of dissolved nitrate decreased from April/May to August and October. It is likely that dissolved-nitrate concentrations in Fish Creek were lower in August and October because macrophytes were quickly utilizing the nutrient, and a negative correlation between macro-phytes and nitrate was found. Macroinvertebrates also were sampled because of their role as indicators of water quality and their documented responses to perturbation such as degradation of water quality and habitat. Statistically significant seasonal differences were noted in the macroinvertebrate community. Taxa richness and relative abundance of Ephemeroptera, Plecoptera, and Trichoptera, which tend to be intolerant of water-quality degradation, decreased from April/May to August; the same time period saw a corresponding increase in Diptera and noninsects, particularly Oligochaeta (worms) that are more tolerant. Seasonal changes in macroinvertebrate functional feeding groups were significantly different. The relative abundance of gatherer-collector and scraper feeding groups decreased from April/May to August, accompanied by an increase in filterer-collector and shredders feeding groups. Seasonal changes in feeding groups might be due to the seasonal shift in aquatic plant communities, as indicated by comparison with other streams in the area that had fewer aquatic macrophytes than Fish Creek. Statistical tests of macroinvertebrate metrics indicated few differences between years or biological sampling sites on Fish Creek, although the site farthest upstream sometimes was different not only in terms of macroinvertebrates but also in streamflow, water quality, and aquatic plants. Potential effects of contributions of additional nutrients to the Fish Creek ecosystem beyond the conditions sampled during the study period are not known. However, because virtually all of the detectable dissolved nitrate commonly was consumed by aquatic plants in August (leaving dissolved nitrate less than the reporting level in water samples), it is possible that increased nutrient contributions could cause increased growth of aquatic plants. Additional long-term monitoring of the stream, with concurrent data analysis and interpretation would be needed to determine the effects of additional nutrients on the aquatic plant community and on higher levels of the food chain.

Wyoming

Water-quality, bed-sediment, and biological data (October 1992 through September 1993) and statistical summaries of water-quality data (March 1985 through September 1993) for streams in the upper Clark Fork basin, Montana

Water, bed sediment, and biota were sampled in streams from Butte to below Missoula as part of a program to characterize aquatic resources in the upper Clark Fork basin of western Montana. Water-quality data were obtained periodically at 16 stations during October 1992 through September 1993 (water year 1993); daily suspended-sediment data were obtained at six of these stations. Bed-sediment and biological data were obtained at 11 stations in August 1993. Sampling stations were located on the Clark Fork and major tributaries. The primary constituents analyzed were trace elements associated with mine tailings from historic mining and smelting activities. Water-quality data include concentra- tions of major ions, trace elements, and suspended sediment in samples collected periodically during water year 1993. A statistical summary of water- quality data is provided for the period of record at each station since 1985. Daily values of streamflow, suspended-sediment concentration, and suspended-sediment discharge are given for six stations. Bed-sediment data include trace- element concentrations in the fine and bulk fractions. Biological data include trace-element concentrations in whole-body tissue of aquatic benthic insects. Quality-assurance data are reported for analytical results of water, bed sediment, and biota.

Open-File Report

Use of mesocosm data to predict effects in aquatic ecosystems: Limits to interpretation: Chapter 16

Aquatic mesocosm studies are being used to refute a presumption of risk derived from laboratory toxicity tests conducted under the Federal Insecticide, Fungicide, and Rodenticide Act (FIFRA). Mesocosm studies incorporate many biological, chemical and physical characteristics of natural ecosystems. Hence, they serve as realistic surrogates of natural ecosystems and allow tests of pesticide effect at the population, community, and ecosystem level. We discuss two factors, ecosystem trophic status and organism life history, which influence the results derived from aquatic mesocosm studies. Trophic status influences the fat and effects of chemicals which strongly sorb or biologically degrade, yet may not be as important in the fate and effects of more water soluble chemicals. Life history traits of organisms and the intensity, frequency, and duration of the pesticide disturbance also determine the mesocosm response pattern.

Book chapter

Sediment oxygen demand in eastern Kansas streams, 2014 and 2015

Dissolved oxygen concentrations in streams are affected by physical, chemical, and biological factors in the water column and streambed, and are an important factor for the survival of aquatic organisms. Sediment oxygen demand (SOD) rates in Kansas streams are not well understood. During 2014 and 2015, the U.S. Geological Survey, in cooperation with the Kansas Department of Health and Environment, measured SOD at eight stream sites in eastern Kansas to quantify SOD rates and variability with respect to season, land use, and bottom-sediment characteristics. Sediment oxygen demand rates (SOD T ) ranged from 0.01 to 3.15 grams per square meter per day at the ambient temperature of the measurements. The summer mean SOD rate was 3.0-times larger than the late fall mean rate, likely because of increased biological activity at warm water temperatures. Given the substantial amount of variability in SOD rates possible within sites, heterogeneity of substrate type is an important consideration when designing SOD studies and interpreting the results. Sediment oxygen demand in eastern Kansas streams was correlated with land use and streambed-sediment characteristics, though the strength of relations varied seasonally. The small number of study sites precluded a more detailed analysis. The effect of basin land use and streambed sediment characteristics on SOD is currently (2016) not well understood, and there may be many contributing factors including basin influences on water quality that affect biogeochemical cycles and the biological communities supported by the stream.

Kansas

The Wetland and Aquatic Research Center strategic science plan

Introduction The U.S. Geological Survey (USGS) Wetland and Aquatic Research Center (WARC) has two primary locations (Gainesville, Florida, and Lafayette, Louisiana) and field stations throughout the southeastern United States and Caribbean. WARC’s roots are in U.S. Fish and Wildlife Service (USFWS) and National Park Service research units that were brought into the USGS as the Biological Research Division in 1996. Founded in 2015, WARC was created from the merger of two long-standing USGS biology science Centers—the Southeast Ecological Science Center and the National Wetlands Research Center—to bring together expertise in biology, ecology, landscape science, geospatial applications, and decision support in order to address issues nationally and internationally. WARC scientists apply their expertise to a variety of wetland and aquatic research and monitoring issues that require coordinated, integrated efforts to better understand natural environments. By increasing basic understanding of the biology of important species and broader ecological and physiological processes, this research provides information to policymakers and aids managers in their stewardship of natural resources and in regulatory functions. This strategic science plan (SSP) was developed to guide WARC research during the next 5–10 years in support of Department of the Interior (DOI) partnering bureaus such as the USFWS, the National Park Service, and the Bureau of Ocean Energy Management, as well as other Federal, State, and local natural resource management agencies. The SSP demonstrates the alignment of the WARC goals with the USGS mission areas, associated programs, and other DOI initiatives. The SSP is necessary for workforce planning and, as such, will be used as a guide for future needs for personnel. The SSP also will be instrumental in developing internal funding priorities and in promoting WARC’s capabilities to both external cooperators and other groups within the USGS.

Open-File Report

Literature review for candidate chemical control agents for nonnative crayfish

Nonnative crayfish are an immediate and pervasive threat to aquatic environments and their biodiversity. Crayfish control can be achieved by physical methods, water chemistry modification, biological methods, biocidal application, and application of crayfish physiology modifiers. The purpose of this report is to identify suitable candidates for potential control of nonnative crayfish through a comprehensive literature review. This review focuses on control methods, specifically on the available data to support registration of a crayfish pesticide. The literature search resulted in 28,058 documents, which were searched to determine if they contained information on physical, chemical, biological, and (or) biocidal approaches to control crayfish. Pesticides directly toxic to crayfish in this literature review include: pyrethroids (natural pyrethrins and synthetic), fipronil, mirex, antimycin-A, and rotenone. Some chemicals, such as diflubenzuron and emamectin benzoate, alter crayfish physiology resulting in a lower pesticide dose needed to control crayfish. Environmental damage, application rate, exposure duration, nontarget effects, environmental persistence, and registration data gaps were used as criteria to define which pesticides are potentially selective to crayfish, along with which have the greatest amount of data to support registration by the U.S. Environmental Protection Agency. Synthetic pyrethroids were identified as the most likely candidate to be developed into a crayfish pesticide. A type-2 synthetic pyrethroid, cyfluthrin, has the greatest potential for eradicating nonnative crayfish. Although other invertebrate species will be negatively affected at the concentrations required for crayfish control, compared with other pyrethroids and other potential control chemicals, cyfluthrin offers rapid ecosystem recovery due to being more selective, having fewer effects on native fish, and having a short aquatic persistence. Cyfluthrin also has few data gaps for U.S. Environmental Protection Agency registration purposes.

Open-File Report

Water-quality, bed-sediment, and biological data (October 2013 through September 2014) and statistical summaries of data for streams in the Clark Fork Basin, Montana

Water, bed sediment, and biota were sampled in streams from Butte to near Missoula, Montana, as part of a monitoring program in the upper Clark Fork Basin of western Montana. The sampling program was led by the U.S. Geological Survey, in cooperation with the U.S. Environmental Protection Agency, to characterize aquatic resources in the Clark Fork Basin, with emphasis on trace elements associated with historic mining and smelting activities. Sampling sites were located on the Clark Fork and selected tributaries. Water samples were collected periodically at 20 sites from October 2013 through September 2014. Bed-sediment and biota samples were collected once at 14 sites during August 2014. This report presents the analytical results and qualityassurance data for water-quality, bed-sediment, and biota samples collected at sites from October 2013 through September 2014. Water-quality data include concentrations of selected major ions, trace elements, and suspended sediment. At 12 sites, dissolved organic carbon and turbidity samples were collected. In addition, nitrogen (nitrate plus nitrite) samples were collected at two sites. Daily values of mean suspended-sediment concentration and suspended-sediment discharge were determined for four sites. Seasonal daily values of turbidity were determined for four sites. Bed-sediment data include trace-ele­ment concentrations in the fine-grained fraction. Biological data include trace-element concentrations in wholebody tissue of aquatic benthic insects. Statistical summaries of water-quality, bed-sediment, and biological data for sites in the upper Clark Fork Basin are provided for the period of record.

Montana

Water-quality, bed-sediment, and biological data (October 2006 through September 2007) and statistical summaries of long-term data for streams in the Clark Fork Basin, Montana

Water, bed sediment, and biota were sampled in streams from Butte to below Milltown Reservoir as part of a long-term monitoring program in the upper Clark Fork basin; additional water-quality samples were collected in the Clark Fork basin from sites near Milltown Reservoir downstream to near the confluence of the Clark Fork and Flathead River as part of a supplemental sampling program. The sampling programs were conducted in cooperation with the U.S. Environmental Protection Agency to characterize aquatic resources in the Clark Fork basin of western Montana, with emphasis on trace elements associated with historic mining and smelting activities. Sampling sites were located on the Clark Fork and selected tributaries. Water-quality samples were collected periodically at 22 sites from October 2006 through September 2007. Bed-sediment and biological samples were collected once at 12 sites during August 2007. This report presents the analytical results and quality-assurance data for water-quality, bed-sediment, and biota samples collected at all long-term and supplemental monitoring sites from October 2006 through September 2007. Water-quality data include concentrations of selected major ions, trace elements, and suspended sediment. Turbidity was analyzed for samples collected at sites where seasonal daily values of turbidity were being determined. Nutrients also were analyzed in the supplemental water-quality samples. Daily values of suspended-sediment concentration and suspended-sediment discharge were determined for four sites, and seasonal daily values of turbidity were determined for five sites. Bed-sediment data include trace-element concentrations in the fine-grained fraction. Biological data include trace-element concentrations in whole-body tissue of aquatic benthic insects. Statistical summaries of long-term water-quality, bed-sediment, and biological data for sites in the upper Clark Fork basin are provided for the period of record since 1985.

Montana

Biological and chemical recovery of acidified Catskill Mountain streams in response to the Clean Air Act Amendments of 1990

Decades of acidic deposition have adversely affected aquatic and terrestrial ecosystems in acid-sensitive watersheds in parts of the eastern United States. The national Acid Rain Program (Title IV of the 1990 Clean Air Act Amendments - CAAA) helped reduce emissions of sulfur dioxide (SO 2 ) and nitrogen oxides (NO x ) and resulted in sharp decreases in the acidity of atmospheric deposition. The decrease in acidic deposition produced a steady decline in the acidity of streams in many poorly buffered waters across the western Adirondacks and parts of the Catskill Mountains of New York. Until recently, however, there has been little evidence of biological recovery in most acid-sensitive streams in both regions. Long-term deposition and stream-chemistry records and fish-community data from quantitative surveys done during 1991–93 and again during 2012–19 at 13 sites in the upper Neversink River and its tributaries were evaluated to determine if chemical and biological recovery were evident in this Catskill Mountain watershed and if they could be linked to regional declines in acidic deposition. Between 1991 and 2019, large decreases in sulfate and nitrate deposition in the basin mirrored declines in total nationwide SO 2 and NO x emissions. There were corresponding decreases in sulfate and nitrate concentrations in deposition at a National Trends Network station at Frost Valley (NY68) and coincident declines in sulfate concentrations at four long-term monitoring sites in the Neversink River watershed. Mean acid neutralizing capacity and pH increased and inorganic aluminum (Al i ) concentrations from routine summertime samples decreased significantly at most moderately to severely acidified sites between the two study periods. Richness, density, and biomass of fish communities increased at most sites, while the density and biomass of brook trout Salvelinus fontinalis populations increased at fewer sites that were undergoing chemical recovery. Although recovery is far from complete, trends in deposition chemistry, water quality, and fish assemblages in streams of the upper Neversink watershed indicate that the 1990 CAAA is having positive impacts on aquatic ecosystems in the Catskill Mountain region, New York.

New York

Molecular approaches to fish vaccines

For more than 50 years, researchers have tested a variety of killed, attenuated, and subunit preparations for control offish diseases. The earliest fish vaccines used killed preparations containing whole bacteria, viruses, or parasites and today, several bacterins have become commercially successful with more expected as improved delivery systems and adjuvants are realized. Live, attenuated vaccines have been developed by serial passage of a pathogen in culture or by using naturally occurring mutants and cross-reacting strains. These generally offer excellent protection and are cost-effective, but concerns about residual virulence or their effects on other aquatic species make them difficult candidates for licensing. In recent years, the tools of molecular biology have been applied to construction of a variety of recombinant, engineered, or subunit vaccines for fish. Among the approaches to be discussed are: attenuated strains of viruses and bacteria created by deletion of specific genes associated with virulence, in vitro synthesis of protective antigens from genes cloned into E. coli or baculovirus expression systems, chemical synthesis of peptides that represent protective epitopes, and direct immunization with DNA coding for protective antigens. Preparations representing each of these approaches have been tested in laboratory or field trials with various results and such vaccines promise to be safe and relatively inexpensive if they are able to provide protection when delivered by immersion. A significant advantage of genetically engineered vaccines is the ability to construct multivalent preparations that can protect fish against several pathogens or different strains of the same pathogen. While many of these novel vaccine strategies have been effective at stimulating specific immunity in the laboratory, more work is needed to develop better delivery systems and to overcome potential regulatory concerns.

Journal of Applied Ichthyology

Seventy-five years of science—The U.S. Geological Survey’s Western Fisheries Research Center

As of January 2010, 75 years have elapsed since Dr. Frederic Fish initiated the pioneering research program that would evolve into today’s Western Fisheries Research Center (WFRC). Fish began his research working alone in the basement of the recently opened Fisheries Biological Laboratory on Lake Union in Seattle, Washington. WFRC’s research began under the aegis of the U.S. Fish and Wildlife Service and ends its first 75 years as part of the U.S. Geological Survey with a staff of more than 150 biologists and support personnel and a heritage of fundamental research that has made important contributions to our understanding of the biology and ecology of the economically important fish and fish populations of the Nation. Although the current staff may rarely stop to think about it, WFRC’s antecedents extend many years into the past and are intimately involved with the history of fisheries conservation in the Western United States. Thus, WFRC Director Lyman Thorsteinson asked me to write the story of this laboratory “while there are still a few of you around who were here for some of the earlier years” to document the rich history and culture of WFRC by recognizing its many famous scientists and their achievements. This historyalso would help document WFRC’s research ‘footprint’ in the Western United States and its strategic directions. Center Director Thorsteinson concluded that WFRC’s heritage told by an emeritus scientist also would add a texture of legitimacy based on personal knowledge that will all-to-soon be lost to the WFRC and to the USGS. The WFRC story is important for the future as well as for historical reasons. It describes how we got to the place we are today by documenting the origin, original mission, and our evolving role in response to the constantly changing technical information requirements of new environmental legislation and organizational decision-making. The WFRC research program owes its existence to the policy requirements of Federal conservation legislation originating with the construction of Grand Coulee Dam in 1933. The research program was shaped by laws enacted in subsequent years such as the Federal Water Pollution Control Act (1972), National Environmental Policy Act (1973), Endangered Species Act (1974), and Northwest Power Planning Act (1980), to name only a few. The WFRC has not been constrained by direct management or regulatory responsibility for a particular fishery (such as providing sustainable catch limits data to a resource management structure). Thus, WFRC has been able to concentrate on scientific pursuits and information needs required by contemporary environmental legislation. Over the years, we have pioneered in several important areas of fisheries research including the diagnoses and control of diseases in economically important fish, effects of environmental alterations on the physiological quality and survival of Pacific salmon released from federal mitigation hatcheries, applications in biotelemetry, and the bioenergetics of predator-prey interactions in the Columbia River. The WFRC of today is a widely distributed organization in the Western United States. Knowledge of the historical connections and accomplishments of our predecessors is important beyond the sense of pride and unity it instills in the WFRC family of today. For example, a discerning reader will note the evolution of WFRC’s research from a single disciplinary focus (early era—hatchery disease problems), to multiple disciplines (middle to late era—species, populations, habitats; threatened and endangered species), to the present era (multidisciplinary and with increasing process focus). For the benefit of the current WFRC staff, more emphasis has been placed on the early years rather than on the present day because people are quite naturally more familiar with the recent past than with the research done during the first decades of WFRC’s existence. By every rational measure, the WFRC has evolved into a fisheries research organization well positioned to provide the biological information needed to support the continued conservation and management of our Nation’s living aquatic natural resources. The high standard of excellence that connects WFRC’s past to our present research program provides a firm foundation on which to base the work yet to be done. In another 75 years, WFRC will undoubtedly be a very different place than it is today, but its evolution will be forever rooted in the story of the research and of the people related here. More about the diverse fisheries research projects WFRC scientists are conducting today is available at WFRC’s website: http://wfrc.usgs.gov/.

Washington

Assessment of potential effects of water produced from coalbed natural gas development on macroinvertebrate and algal communities in the Powder River and Tongue River, Wyoming and Montana, 2010

Ongoing development of coalbed natural gas in the Powder River structural basin in Wyoming and Montana led to formation of an interagency aquatic task group to address concerns about the effects of the resulting production water on biological communities in streams of the area. Ecological assessments, made from 2005–08 under the direction of the task group, indicated biological condition of the macroinvertebrate and algal communities in the middle reaches of the Powder was lower than in the upper or lower reaches. On the basis of the 2005–08 results, sampling of the macroinvertebrate and algae communities was conducted at 18 sites on the mainstem Powder River and 6 sites on the mainstem Tongue River in 2010. Sampling-site locations were selected on a paired approach, with sites located upstream and downstream of discharge points and tributaries associated with coalbed natural gas development. Differences in biological condition among site pairs were evaluated graphically and statistically using multiple lines of evidence that included macroinvertebrate and algal community metrics (such as taxa richness, relative abundance, functional feeding groups, and tolerance) and output from observed/expected (O/E) macroinvertebrate models from Wyoming and Montana. Multiple lines of evidence indicated a decline in biological condition in the middle reaches of the Powder River, potentially indicating cumulative effects from coalbed natural gas discharges within one or more reaches between Flying E Creek and Wild Horse Creek in Wyoming. The maximum concentrations of alkalinity in the Powder River also occurred in the middle reaches. Biological condition in the upper and lower reaches of the Powder River was variable, with declines between some site pairs, such as upstream and downstream of Dry Fork and Willow Creek, and increases at others, such as upstream and downstream of Beaver Creek. Biological condition at site pairs on the Tongue River showed an increase in one case, near the Wyoming-Montana border, and a decrease in another case, upstream of Tongue River Reservoir. Few significant differences were noted from upstream to downstream of Prairie Dog Creek, a major tributary to the Tongue River. Further study would be needed to confirm the observed patterns and choose areas to examine in greater detail.

Wyoming;Montana

Periphyton biomass and community compositions as indicators of water quality in the Lower Grand River hydrologic unit, Missouri and Iowa, 2011–18

Biological communities, including periphyton, are continuously affected by chemical, physical, and other biological factors, and the health of these communities can reflect the overall health of the aquatic system. A diverse community is more robust, and communities with lower richness and evenness often indicate a degraded community dominated by few taxa tolerant to the degraded conditions, which makes the community more susceptible to ecological changes. Water-quality nutrient samples were collected at sites in the Lower Grand River during 2010 through 2018 and periphyton sample collections began in 2011 to describe the periphyton community and overall ecological health. Nutrient sample concentrations were generally elevated at these sites, which can lead to eutrophication, excessive plant and algae growth, drinking-water taste and odor problems, low dissolved-oxygen concentrations, and harmful algal blooms. Concentrations of total nitrogen were greater than acceptable as described by the U.S. Environmental Protection Agency, and total phosphorus concentrations were greater than reference concentrations. Periphyton communities were dominated by taxa that are tolerant to or indicative of elevated nutrient concentrations; and nuisance algae, or harmful algal bloom producers, were identified at all sites, except one. The presence of these producers indicates that harmful algal blooms may have high potential during optimal conditions at these sites. Chlorophyll concentrations that exceed 100 milligrams per square meter are considered nuisance and were determined in 11 percent of the samples and at every site during September 2012. Samples were collected during low-flow conditions when nutrient concentrations are generally lower than during high-flow and runoff conditions. Elevated nutrient concentrations during low-flow conditions indicate nutrient concentrations are likely elevated throughout most of the year. Agriculture is the primary land use within the Lower Grand River and is likely a primary source of nutrients and sediments. Conservation practices intended to reduce nutrient loss from agriculture fields have increased because of the Mississippi River Basin Healthy Watersheds Initiative and will potentially increase the ecological, chemical, and physical health of these waterways.

Iowa, Missouri

Water-quality, bed-sediment, and biological data (October 2009 through September 2010) and statistical summaries of data for streams in the Clark Fork basin, Montana

Water, bed sediment, and biota were sampled in streams from Butte to near Missoula, Montana, as part of a monitoring program in the upper Clark Fork basin. The sampling program was conducted by the U.S. Geological Survey in cooperation with the U.S. Environmental Protection Agency to characterize aquatic resources in the Clark Fork basin of western Montana, with emphasis on trace elements associated with historic mining and smelting activities. Sampling sites were located on the Clark Fork and selected tributaries. Water samples were collected periodically at 20 sites from October 2009 through September 2010. Bed-sediment and biota samples were collected once at 13 sites during August 2010. This report presents the analytical results and quality-assurance data for water-quality, bed-sediment, and biota samples collected at sites from October 2009 through September 2010. Water-quality data include concentrations of selected major ions, trace elements, and suspended sediment. Turbidity was analyzed for water samples collected at the four sites where seasonal daily values of turbidity were being determined. Daily values of suspended-sediment concentration and suspended-sediment discharge were determined for four sites. Bed-sediment data include trace-element concentrations in the fine-grained fraction. Biological data include trace-element concentrations in whole-body tissue of aquatic benthic insects. Statistical summaries of water-quality, bed-sediment, and biological data for sites in the upper Clark Fork basin are provided for the period of record since 1985.

Montana

Water-quality, bed-sediment, and biological data (October 2016 through September 2017) and statistical summaries of data for streams in the Clark Fork Basin, Montana

Water, bed sediment, and biota were sampled in selected streams from Butte to near Missoula, Montana, as part of a monitoring program in the Clark Fork Basin of western Montana. The sampling program was led 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 emphasize trace elements associated with historic mining and smelting activities. Sampling sites were on the Clark Fork and selected tributaries. Water samples were collected periodically at 20 sites from October 2016 through September 2017. Bed-sediment and biota samples were collected once at 13 sites during August 2017. This report presents the analytical results and quality-assurance data for water-quality, bed-sediment, and biota samples collected at sites from October 2016 through September 2017. Water-quality data include concentrations of selected major ions, dissolved organic carbon, turbidity, nitrogen (nitrate plus nitrite), trace elements, and suspended sediment. Seasonal daily values of turbidity were determined at four sites. Bed-sediment data include trace-element concentrations in the fine-grained (less than 0.063 millimeter) fraction. Biological data include trace-element concentrations in whole-body tissue of aquatic benthic insects. Statistical summaries of water-quality, bed-sediment, and biological data for sites in the Clark Fork Basin are provided for the period of record.

Montana

A spatial classification and database for management, research, and policy making: The Great Lakes aquatic habitat framework

Managing the world's largest and most complex freshwater ecosystem, the Laurentian Great Lakes, requires a spatially hierarchical basin-wide database of ecological and socioeconomic information that is comparable across the region. To meet such a need, we developed a spatial classification framework and database — Great Lakes Aquatic Habitat Framework (GLAHF). GLAHF consists of catchments, coastal terrestrial, coastal margin, nearshore, and offshore zones that encompass the entire Great Lakes Basin. The catchments captured in the database as river pour points or coastline segments are attributed with data known to influence physicochemical and biological characteristics of the lakes from the catchments. The coastal terrestrial zone consists of 30-m grid cells attributed with data from the terrestrial region that has direct connection with the lakes. The coastal margin and nearshore zones consist of 30-m grid cells attributed with data describing the coastline conditions, coastal human disturbances, and moderately to highly variable physicochemical and biological characteristics. The offshore zone consists of 1.8-km grid cells attributed with data that are spatially less variable compared with the other aquatic zones. These spatial classification zones and their associated data are nested within lake sub-basins and political boundaries and allow the synthesis of information from grid cells to classification zones, within and among political boundaries, lake sub-basins, Great Lakes, or within the entire Great Lakes Basin. This spatially structured database could help the development of basin-wide management plans, prioritize locations for funding and specific management actions, track protection and restoration progress, and conduct research for science-based decision making.

Great Lakes

Seasonal/yearly salinity variations in San Francisco Bay

The ability of resource agencies to manage fish, wildlife and freshwater supplies of San Francisco Bay estuary requires an integrated knowledge of the relations between the biota and their physical environment. A key factor in these relations is the role of salinity in determining both the physical and the biological character of the estuary. The saltiness of the water, and particularly its seasonal and interannual patterns of variability, affects which aquatic species live where within the estuary. Salinity also determines where water can and cannot be diverted for human consumption and irrigated agriculture, and plays a role in determining the capacity of the estuary to cleanse itself of wastes. In short, salinity is a fundamental property of estuarine physics and chemistry that, in turn, determines the biological characteristics of each estuary. Freshwater is a major control on estuarine salinity. Most freshwater supplied to the Bay is from river flow through the Delta, which is primarily runoff from the Sierra Nevada. Most contaminants in San Francisco Bay are from the Sacramento/San Joaquin Valley and the local watershed around the Bay rather than the sea or atmosphere. Land is the primary source of freshwater and freshwater serves as a tracer of land-derived substances such as the trace metals (copper, lead and selenium), pesticides and plant nutrients (nitrate and phosphate). The U.S. Geological Survey is collaborating with other agencies and institutions in studying San Francisco Bay salinity using field observations and numerical simulations to define the physical processes that control salinity. The issues that arise from salinity fluctuations, however, differ in the northern and southern parts of the bay. In North Bay we need to know how salinity responds to freshwater flow through the Sacramento/San Joaquin Delta; this knowledge will benefit water managers who determine how much delta flow is needed a) to protect freshwater supplies for municipal water use and b) modulate salinity for a healthy estuary. In South Bay we need to know where the freshwater comes from (the distant Delta or local streams) to sort out the sources of a) contamination or b) dilution.

California

Prioritizing chemicals of emerging concern in the Great Lakes Basin using covariance of chemical concentrations and diverse biological responses from a variety of species

The Great Lakes Restoration Initiative aims to protect and restore the nation’s largest freshwater resource, in part, by furthering our understanding of the effects of contaminants of emerging concern (CECs) and chemical mixtures on aquatic and terrestrial organisms. To address this goal, an interagency team conducted field studies at sites along the Maumee River in Ohio, USA, in 2016–2017, monitoring CEC levels along with diverse in vitro and in vivo biological effects in ecologically relevant species (fathead minnows, tree swallows, and golden clams). The objective of the present work was to prioritize the CECs in these studies for further monitoring and assessment by determining if there are patterns in chemical–bioeffect relations across data sets, species, and response types that indicate relatively high or low hazard to aquatic life from CEC exposure. Of the 748 monitored chemicals, 425 were detected and were analyzed for covariance with bioeffects. All 748 chemicals were placed into 10 bins based on their frequencies of monitoring, detection, and covariance with bioeffects across studies and species. We describe how chemicals can be prioritized across bins to aid monitoring and assessment efforts. Our approach using effects-based monitoring data is especially useful for prioritizing chemicals with little or no traditional toxicity testing data. Similar evidence-based prioritizations will allow agencies to more efficiently allocate limited resources to improve the ability to protect aquatic and terrestrial organisms from adverse impacts due to contaminant exposure.

Ohio