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At least 487 records · Page 27Linked to original sources
USGS2003

An index of biological integrity (IBI) for Pacific Northwest rivers

The index of biotic integrity (IBI) is a commonly used measure of relative aquatic ecosystem condition; however, its application to coldwater rivers over large geographic areas has been limited. A seven-step process was used to construct and test an IBI applicable to fish assemblages in coldwater rivers throughout the U.S. portion of the Pacific Northwest. First, fish data from the region were compiled from previous studies and candidate metrics were selected. Second, reference conditions were estimated from historical reports and minimally disturbed reference sites in the region. Third, data from the upper Snake River basin were used to test metrics and develop the initial index. Fourth, candidate metrics were evaluated for their redundancy, variability, precision, and ability to reflect a wide range of conditions while distinguishing reference sites from disturbed sites. Fifth, the selected metrics were standardized by being scored continuously from 0 to 1 and then weighted as necessary to produce an IBI ranging from 0 to 100. The resulting index included 10 metrics: number of native coldwater species, number of age-classes of sculpins Cottus spp., percentage of sensitive native individuals, percentage of coldwater individuals, percentage of tolerant individuals, number of alien species, percentage of common carp Cyprinus carpio individuals, number of selected salmonid age-classes, catch per unit effort of coldwater individuals, and percentage of individuals with selected anomalies. Sixth, the IBI responses were tested with additional data sets from throughout the Pacific Northwest. Last, scores from two minimally disturbed reference rivers were evaluated for longitudinal gradients along the river continuum. The IBI responded to environmental disturbances and was spatially and temporally stable at over 150 sites in the Pacific Northwest. The results support its use across a large geographic area to describe the relative biological condition of coolwater and coldwater rivers with low species richness.

Transactions of the American Fisheries Society↗
USGS2018

Variation in DNA methylation is associated with migratory phenotypes of lake sturgeon (Acipenser fulvescens) in the St. Clair River

Lake sturgeon populations show a variety of movement patterns, but this variation is poorly understood. To compare two migratory phenotypes of lake sturgeon in the St. Clair River, multiple data types were analyzed. Individual fish were classified into migratory phenotypes based on acoustic telemetry data from 2012-2015. Lake sturgeon consistently showed movement from the St. Clair River upriver into Lake Huron or downriver into Lake St. Clair. The two migratory phenotypes were then compared for differences in morphometrics, genetics, and epigenetics. Morphological differences based on linear measurements were not detected between phenotypes. Microsatellite data from 11 loci suggested one population with no genetic differentiation between migratory phenotypes. Our epigenetic results indicated that the migratory phenotypes are differentially methylated (P=0.036), thus epigenetics may be associated with migratory differences in lake sturgeon. Only one restriction site was identified to be driving the differential methylation (P=0.012). While little evidence at neutral loci occurred for genetic differentiation of lake sturgeon, DNA methylation may play a role in the observed movement pattern variation. When combined with microsatellite and morphometric analyses, our results suggested that different migratory patterns may reflect phenotypic plasticity, allowing lake sturgeon to acclimate to short-term environmental variability. Without an integrated approach, the role of epigenetics in the migratory phenotype of lake sturgeon may have been overlooked. Further characterization of migratory phenotypes could be important for management to conserve behavioral variation across the distribution of lake sturgeon and for design of stocking guidelines.

Michigan↗
USGS1998

Water-quality assessment of the Central Arizona Basins, Arizona and northern Mexico – Environmental setting and overview of water quality

The Central Arizona Basins study area in central and southern Arizona and northern Mexico is one of 60 study units that are part of the U.S. Geological Survey's National Water-Quality Assessment program. The purpose of this report is to describe the physical, chemical, and environmental characteristics that may affect water quality in the Central Arizona Basins study area and present an overview of water quality. Covering 34,700 square miles, the study area is characterized by generally north to northwestward-trending mountain ranges separated by broad, gently sloping alluvial valleys. Most of the perennial rivers and streams are in the northern part of the study area. Rivers and streams in the south are predominantly intermittent or ephemeral and flow in response to precipitation such as summer thunderstorms. Effluent-dependent streams do provide perennial flow in some reaches. The major aquifers in the study area are in the basin-fill deposits that may be as much as 12,000 feet thick. The 1990 population in the study area was about 3.45 million, and about 61 percent of the total was in Maricopa County (Phoenix and surrounding cities). Extensive population growth over the past decade has resulted in a twofold increase in urban land areas and increased municipal water use; however, agriculture remains the major water use. Seventy-three percent of all water with drawn in the study area during 1990 was used for agricultural purposes. The largest rivers in the study area-the Gila, Salt, and Verde-are perennial near their headwaters but become intermittent downstream because of impoundments and artificial diversions. As a result, the Central Arizona Basins study area is unique compared to less arid basins because the mean surface-water outflow is only 528 cubic feet per second from a total drainage area of 49,650 square miles. Peak flows in the northern part of the study area are the result of snowmelt runoff; whereas, summer thunderstorms account for the peak flows in the southern part. Ground water is the primary water supply in most of Arizona and the only source of drinking water used by communities in the southern half of the study area. Years of overpumping have caused water tables in basin fill to drop below once-perennial streams leaving streambeds dry, water too deep to pump economically, pumping of poorer quality water with depth, and earth fissures resulting from subsidence after dewatering of sediments. Natural processes-such as leaching of trace elements and major ions from geologic formations-and human activities-such as mining, agriculture, and urban development-have major effects on the quality of surface-water and ground-water resources in the Central Arizona Basins study area. Surface-water quality standards in Arizona are based on the designated use of the water such as full or partial body contact, fish consumption, aquatic and wildlife uses, and agriculture. Maintaining the biological integrity (health) of surface waters in Arizona is an important part of ensuring that these waters are suitable for designated uses. Important water-quality issues for surface water that are somewhat unique to Arizona include: (1) streamflows and riparian environments sustained by effluent from municipal wastewater-treatment plants that contains high concentrations of nutrients, potentially toxic trace elements and organic compounds, and fecal bacteria; (2) industrial, mining, agricultural, and municipal sources of contamination from Mexico; and (3) unpredictable high flows from major summer thunder storms causing stream-channel changes; high suspended-sediment concentrations and loads; sewage overflows; and breaching, erosion, and washout of landfills and mining operations. The quality of water in aquifers that are protected for drinking- water use is subject to standards that are in most cases equal to or more stringent than the primary drinking-water regulations of the U.S. Environmental Protection Agency. The general che

Arizona↗
USGS2022

Effects of seasonal hypoxia on macroinvertebrate communities in a small reservoir

Localized hypoxia can reduce available habitat, restrict movement and limit the abundance of aquatic invertebrates. Cultural eutrophication coupled with the effects of climate change is likely to increase the frequency and extent of hypoxia in aquatic ecosystems, yet little is known about how oxygen gradients in small reservoirs influence spatial distribution and abundance of aquatic invertebrates. We evaluated the effects of environmental and biological attributes on seasonal and spatial variation of macroinvertebrates and explored how hypoxic conditions influenced littoral, benthic and pelagic macroinvertebrate communities in Lake Alvin, South Dakota. We collected data on reservoir conditions in conjunction with macroinvertebrate sampling from May to October, 2009-2011 and applied an information theoretic approach to evaluate factors affecting invertebrate abundance. Hypoxic conditions were present from May to September in the lacustrine zone impacting 10─39% of the water column. Benthic invertebrates were typically absent from the lacustrine zone during periods of severe hypoxia and were most abundant in the shallow, well-oxygenated riverine zone. Littoral invertebrates were negatively related to percent of the water column that was hypoxic suggesting that fish, confined to shallow water by hypoxia, may be consuming a larger portion of littoral invertebrates in their diets. Cladocera and Copepoda densities were influenced primarily by water depth and monthly precipitation. The larger size of Daphnia found in the hypoxic-prone transitional and lacustrine zones suggest that low oxygen concentration may provide a refuge from fish predation. This study demonstrated that spatial variation in near-bottom oxygen concentrations were important predictors of macroinvertebrate and zooplankton abundance and size structure in Lake Alvin and that macroinvertebrates, particularly benthic and littoral invertebrates, could benefit from measures taken to reduce summer hypoxia.

South Dakota↗
USGS2010

A river system to watch: documenting the effects of saltcedar ( Tamarix spp.) biocontrol in the Virgin River valley

Throughout riparian areas of the southwestern United States, non-native saltcedar (also known as tamarisk; Tamarix spp.) can form dense, monotypic stands and is often reported to have detrimental effects on native plants and habitat quality (Everitt 1980; Shafroth et al. 2005). Natural resource managers of these riparian areas spend considerable time and resources controlling saltcedar using a variety of techniques, including chemical (Duncan and McDaniel 1998), mechanical, and burning methods (Shafroth et al. 2005). Approximately one billion dollars are spent each year on river restoration projects nationally (Bernhardt et al. 2005), and a majority of these projects focus on invasive species control in the Southwest (Follstad Shah et al. 2007). A technique that has drawn much attention is the use of the saltcedar leaf beetle ( Diorhabda spp.), a specialist herbivore, as biological control of saltcedar (Lewis et al. 2003). Research testing was conducted with beetles housed in secure enclosures in six states in 1998 and 1999 (Dudley et al. 2001), followed by open release at some of those sites starting in 2001 (DeLoach et al. 2004). By 2005, full-scale saltcedar biocontrol was implemented in 13 states, led by the USDA Animal and Plant Health Inspection Service (APHIS), the agency that oversees biological control programs, and with the participation and support of the U.S. Fish and Wildlife Service (USFWS). Despite the widespread application of Diorhabda , however, only limited research has quantified the consequences (benefits and costs) on biotic communities and ecosystem services. Alterations to riparian areas caused by various non-native species control activities have the potential to affect a variety of habitat types used by wildlife (Bateman et al. 2008a); processes like water availability, fluvial deposition, and erosion; and the establishment of other non-native species (Carruthers and D'Antonio 2005, Shafroth et al. 2005, DeLoach et al. 2006). Similarly, biocontrol is expected to modify riparian ecosystems, and it is imperative to document and evaluate both the environmental benefits and the potential costs of this tamarisk management method.

Virgin River↗
USGS2020

Food and temperature stressors have opposing effects in determining flexible migration decisions in brown trout (Salmo trutta )

With rapid global change, organisms in natural systems are exposed to a multitude of stressors that likely co‐occur, with uncertain impacts. We explored individual and cumulative effects of co‐occurring environmental stressors on the striking, yet poorly understood, phenomenon of facultative migration. We reared offspring of a brown trout population that naturally demonstrates facultative anadromy (sea migration), under different environmental stressor treatments and measured life history responses in terms of migratory tactics and freshwater maturation rates. Juvenile fish were exposed to reduced food availability, temperatures elevated to 1.8°C above natural conditions or both treatments in combination over 18 months of experimental tank rearing. When considered in isolation, reduced food had negative effects on the size, mass and condition of fish across the experiment. We detected variable effects of warm temperatures (negative effects on size and mass, but positive effect on lipids). When combined with food restriction, temperature effects on these traits were less pronounced, implying antagonistic stressor effects on morphological traits. Stressors combined additively, but had opposing effects on life history tactics: migration increased and maturation rates decreased under low food conditions, whereas the opposite occurred in the warm temperature treatment. Not all fish had expressed maturation or migration tactics by the end of the study, and the frequency of these ‘unassigned’ fish was higher in food deprivation treatments, but lower in warm treatments. Fish showing migration tactics were smaller and in poorer condition than fish showing maturation tactics, but were similar in size to unassigned fish. We further detected effects of food restriction on hypo‐osmoregulatory function of migrants that may influence the fitness benefits of the migratory tactic at sea. We also highlight that responses to multiple stressors may vary depending on the response considered. Collectively, our results indicate contrasting effects of environmental stressors on life history trajectories in a facultatively migratory species.

Global Change Biology↗
USGS2018

Linking the agricultural landscape of the Midwest to stream health with structural equation modeling

Multiple physical and chemical stressors can simultaneously affect the biological condition of streams. To better understand the complex interactions of land-use practices, water quality, and ecological integrity of streams, the U.S. Geological Survey National Water Quality Assessment Project is conducting regional-scale assessments of stream condition across the United States. In the summer of 2013, weekly water samples were collected from 100 streams in the Midwestern United States. Employing watershed theory, we used structural equation modeling (SEM) to represent a general hypothesis for how 16 variables (previously identified to be important to stream condition) might be inter-related. Again, using SEM, we evaluated the ability of this “stressor network” to explain variations in multimetrics of algal, invertebrate, and fish community health, trimming away any environmental variables not contributing to an explanation of the ecological responses. Seven environmental variables—agricultural and urban land use, sand content of soils, basin area, percent riparian area as forest, channel erosion, and relative bed stability—were found to be important for all three-community metrics. The algal and invertebrate models included water-chemistry variables not included in the fish model. Results suggest that ecological integrity of Midwest streams are affected by both agricultural and urban land uses and by the natural geologic setting, as indicated by the sand content of soils. Chemicals related to crops (pesticides and nutrients) and residential uses (pyrethroids) were found to be more strongly related to ecological integrity than were natural factors (riparian forest, watershed soil character).

Environmental Science & Technology↗
USGS2024

A synthesis of the characteristics and drivers of introduced fishes in prairie streams: Can we manage introduced harmful fishes in these dynamic environments?

Prairie streams of North America support native fishes that are adapted to the dynamic environment that characterizes these ecologically and economically important ecosystems. However, prairie streams have been altered by landscape changes that may affect the proportions of native and introduced species in fish communities. Herein, we investigate drivers of introduced fish in prairie streams, detail common introduced species and their traits and effects, investigate how climate change may alter the balance between native and introduced species, and summarize management options. Commonly introduced fishes are those with the ability to tolerate extreme variations in temperature, hydrology, and salinity and, as a result, most of the introduced fishes were native to other prairie streams within the Great Plains ecoregion. This suggests environmental extremes may act as a filter for establishment or that short-distance translocations are more common than introductions from other ecoregions. The mechanisms or extent to which introduced species affect native fishes is often assumed or understudied. Climate change may amplify environmental disturbances in ways that may favor native or introduced fishes depending on species traits and biotic interactions. Actions such as habitat modifications or disturbances may favor introduced fishes over native fishes. Research to understand the relative roles of trait preadaptation and spatial proximity of source populations in introduced species establishment could benefit future management. Moreover, patterns observed in other ecosystems may not be transferrable to prairie streams, highlighting the need to understand the context dependency of effects of introduced species.

North American Great Plains↗
USGS2008

Environmental and Biological Data of the Nutrient Enrichment Effects on Stream Ecosystems Project of the National Water Quality Assessment Program, 2003-04

In 2000, the U.S. Environmental Protection Agency began the process of developing regional nutrient criteria for streams and rivers. In response to concerns about nutrients by the U.S. Environmental Protection Agency and others, the U.S. Geological Survey National Water Quality Assessment Program began studying the effects of nutrient enrichment on agricultural stream ecosystems to aid in the understanding of how nutrients affect the biota in agricultural streams. Streams within five study areas were sampled either in 2003 or 2004. These five study areas were located within six NAWQA study units: the combined Apalachicola-Chattahoochee-Flint River Basin (ACFB) and Georgia-Florida Coastal Plain Drainages (GAFL), Central Columbia Plateau?Yakima River Basin (CCYK), Central Nebraska Basins (CNBR), Potomac River?Delmarva Peninsula (PODL), and the White-Miami River Basin (WHMI). Data collected included nutrients (nitrogen and phosphorous) and other chemical parameters, biological samples (chlorophyll, algal assemblages, invertebrate assemblages, and some fish assemblages), stream habitat, and riparian and basin information. This report describes and presents the data collected from these study areas.

Data Series↗
USGS2025

A comprehensive assessment of membrane bioreactor contaminant removal efficacy through analytical chemistry, fish exposures, and microbiome characterization

Treated municipal wastewater effluent is an important pathway for Contaminants of Emerging Concern (CEC) to enter aquatic ecosystems. As the aging wastewater infrastructure in many industrialized countries requires upgrades or replacement, assessing new treatment technologies in the context of CEC effects may provide additional support for science-based resource management. Here, we used three lines of evidence, analytical chemistry, fish exposure experiments, and fish and water microbiome analysis, to assess the effectiveness of membrane bioreactor treatment (MBR) to replace traditional activated sludge treatment. To do this, we sampled a municipal wastewater treatment plant with a split wastewater stream, a portion of which was treated with an MBR and another via an oxidation ditch (OXI). The OXI and MBR treatments substantially reduced most measured CECs compared to the primary effluent (PRI). Only pesticides and some pharmaceuticals were recalcitrant to both secondary treatment methods. While ammonia toxicity of PRI prevented its inclusion in fish exposure experiments, exposure of fish with waters from the OXI or MBR treated wastewater produced only subtle biological differences with no adverse apical outcomes. These findings were consistent with low chemically derived exposure: activity ratios for OXI and MBR. Microbiome analysis of fish and wastewater highlighted the significant reduction of microbial abundance and diversity in the MBR treatment compared to all other treatments. The comparable removal efficacy of CECs in MBR makes it an attractive alternative to traditional OXI, especially when MBR may eliminate the need for tertiary treatment for wastewater disinfection.

Environmental Toxicology and Chemistry↗
USGS2012

Structure of marine predator and prey communities along environmental gradients in a glaciated fjord

Spatial patterns of marine predator communities are influenced to varying degrees by prey distribution and environmental gradients. We examined physical and biological attributes of an estuarine fjord with strong glacier influence to determine the factors that most influence the structure of predator and prey communities. Our results suggest that some species, such as walleye pollock ( Theragra chalcogramma ), black-legged kittiwake ( Rissa tridactyla ), and glaucous-winged gull ( Larus glaucescens ), were widely distributed across environmental gradients, indicating less specialization, whereas species such as capelin ( Mallotus villosus ), harbor seal ( Phoca vitulina ), and Kittlitz's murrelet ( Brachyramphus brevirostris ) appeared to have more specialized habitat requirements related to glacial influence. We found that upper trophic level communities were well correlated with their mid trophic level prey community, but strong physical gradients in photic depth, temperature, and nutrients played an important role in community structure as well. Mid-trophic level forage fish communities were correlated with the physical gradients more closely than upper trophic levels were, and they showed strong affinity to tidewater glaciers. Silica was closely correlated with the distribution of fish communities, the mechanisms of which deserve further study.

Alaska↗
USGS2024

Local environmental conditions structured discrete fish assemblages in Arctic lagoons

Rapid changes in sea ice extent and changes in freshwater inputs from land are rapidly changing the nature of Arctic estuarine ecosystems. In the Beaufort Sea, these nearshore habitats are known for their high productivity and mix of marine resident and diadromous fishes that have great subsistence value for Indigenous communities. There is, however, a lack of information on the spatial variation among Arctic nearshore fish communities as related to environmental drivers. In summers of 2017–2019, we sampled fishes in four estuarine ecosystems to assess community composition and relate fish abundance to temperature, salinity, and wind conditions. We found fish communities were heterogeneous over larger spatial extents with rivers forming fresh estuarine plumes that supported diadromous species (e.g., broad whitefish Coregonus nasus ), while lagoons with reduced freshwater input and higher salinities were associated with marine species (e.g., saffron cod Eleginus gracilis ). West–East directional winds accounted for up to 66% of the community variation, indicating importance of the wind-driven balance between fresh and marine water masses. Salinity and temperature accounted for up to 54% and 37% of the variation among lagoon communities, respectively. Recent sea ice declines provide more opportunity for wind to influence oceanographic conditions and biological communities. Current subsistence practices, future commercial fishing opportunities, and on-going oil and gas activities benefit from a better understanding of current fish community distributions. This work provides important data on fish spatial distributions and community composition, providing a basis for fish community response to changing climatic conditions and anthropogenic use.

Polar Biology↗
USGS2016

Ecoregions of California

Ecoregions denote areas of general similarity in ecosystems and in the type, quality, and quantity of environmental resources. They are designed to serve as a spatial framework for the research, assessment, management, and monitoring of ecosystems and ecosystem components. By recognizing the spatial differences in the capacities and potentials of ecosystems, ecoregions stratify the environment by its probable response to disturbance (Bryce and others, 1999). These general purpose regions are critical for structuring and implementing ecosystem management strategies across Federal agencies, State agencies, and nongovernment organizations that are responsible for different types of resources in the same geographical areas (Omernik and others, 2000). The approach used to compile this map is based on the premise that ecological regions are hierarchical and can be identified through the analysis of the spatial patterns and the composition of biotic and abiotic phenomena that affect or reflect differences in ecosystem quality and integrity (Wiken, 1986; Omernik, 1987, 1995). These phenomena include geology, physiography, vegetation, climate, soils, land use, wildlife, and hydrology. The relative importance of each characteristic varies from one ecological region to another regardless of the hierarchical level. A Roman numeral hierarchical scheme has been adopted for different levels of ecological regions. Level I is the coarsest level, dividing North America into 15 ecological regions. Level II divides the continent into 50 regions (Commission for Environmental Cooperation Working Group, 1997, map revised 2006). At level III, the continental United States contains 105 ecoregions and the conterminous United States has 85 ecoregions (U.S. Environmental Protection Agency, 2013). Level IV, depicted here for California, is a further refinement of level III ecoregions. Explanations of the methods used to define these ecoregions are given in Omernik (1995), Omernik and others (2000), and Omernik and Griffith (2014). California has great ecological and biological diversity. The State contains offshore islands and coastal lowlands, large alluvial valleys, forested mountain ranges, deserts, and various aquatic habitats. There are 13 level III ecoregions and 177 level IV ecoregions in California and most continue into ecologically similar parts of adjacent States of the United States or Mexico (Bryce and others, 2003; Thorson and others, 2003; Griffith and others, 2014). The California ecoregion map was compiled at a scale of 1:250,000. It revises and subdivides an earlier national ecoregion map that was originally compiled at a smaller scale (Omernik, 1987; U.S. Environmental Protection Agency, 2013). This poster is the result of a collaborative project primarily between U.S. Environmental Protection Agency (USEPA) Region IX, USEPA National Health and Environmental Effects Research Laboratory (Corvallis, Oregon), California Department of Fish and Wildlife (DFW), U.S. Department of Agriculture (USDA)–Natural Resources Conservation Service (NRCS), U.S. Department of the Interior–Geological Survey (USGS), and other State of California agencies and universities. The project is associated with interagency efforts to develop a common framework of ecological regions (McMahon and others, 2001). Reaching that objective requires recognition of the differences in the conceptual approaches and mapping methodologies applied to develop the most common ecoregion-type frameworks, including those developed by the USDA–Forest Service (Bailey and others, 1994; Miles and Goudy, 1997; Cleland and others, 2007), the USEPA (Omernik 1987, 1995), and the NRCS (U.S. Department of Agriculture–Soil Conservation Service, 1981; U.S. Department of Agriculture–Natural Resources Conservation Service, 2006). As each of these frameworks is further refined, their differences are becoming less discernible. Regional collaborative projects such as this one in California, where some agreement has been reached among multiple resource-management agencies, are a step toward attaining consensus and consistency in ecoregion frameworks for the entire nation.

California↗
USGS2022

Individual characteristics and abiotic factors influence out-migration dynamics of juvenile bull trout

Fragmentation of rivers through anthropogenic modifications poses an imminent threat to the persistence of migratory fish, necessitating direct actions such as trap-and-haul programs to restore and conserve the migratory life-history component in populations of partially migratory species such as bull trout Salvelinus confluentus. We used a PIT-tag system to assess how biological and abiotic factors influence the out-migration dynamics of juvenile bull trout in Graves Creek, Montana, USA. The largest fish within a cohort were more likely to out-migrate at age 1 when compared to smaller fish within the cohort, and this was particularly evident in a high-density year-class (2018), where large bull trout out-migrated an average of 115 days earlier than bull trout in the medium size category, and 181 days earlier than bull trout in the small size category. Relative changes in abiotic factors, including discharge, water temperature, and photoperiod, appeared to act as cues to out-migration, with the direction of change varying by season. These results highlight the complex interplay between individual characteristics, population dynamics, and environmental conditions, which influence out-migration dynamics and can be used to inform management actions to conserve the migratory component in bull trout populations.

Idaho, Montana↗
USGS2023

Ammonia and aquatic ecosystems – A review of global sources, biogeochemical cycling, and effects on fish

The purpose of this review is to better understand the full life cycle and influence of ammonia from an aquatic biology perspective. While ammonia has toxic properties in water and air, it also plays a central role in the biogeochemical nitrogen (N) cycle and regulates mechanisms of normal and abnormal fish physiology. Additionally, as the second most synthesized chemical on Earth, ammonia contributes economic value to many sectors, particularly fertilizers, energy storage, explosives, refrigerants, and plastics. But, with so many uses, industrial N 2 -fixation effectively doubles natural reactive N concentrations in the environment. The consequence is global, with excess fixed nitrogen driving degradation of soils, water, and air; intensifying eutrophication, biodiversity loss, and climate change; and creating health risks for humans, wildlife, and fisheries. Thus, the need for ammonia research in aquatic systems is growing. In response, we prepared this review to better understand the complexities and connectedness of environmental ammonia. Even the term “ammonia” has multiple meanings. So, we have clarified the nomenclature, identified units of measurement, and summarized methods to measure ammonia in water. We then discuss ammonia in the context of the N-cycle, review its role in fish physiology and mechanisms of toxicity, and integrate the effects of human N-fixation, which continuously expands ammonia's sources and uses. Ammonia is being developed as a carbon-free energy carrier with potential to increase reactive nitrogen in the environment. With this in mind, we review the global impacts of excess reactive nitrogen and consider the current monitoring and regulatory frameworks for ammonia. The presented synthesis illustrates the complex and interactive dynamics of ammonia as a plant nutrient, energy molecule, feedstock, waste product, contaminant, N-cycle participant, regulator of animal physiology, toxicant, and agent of environmental change. Few molecules are as influential as ammonia in the management and resilience of Earth's resources.

Science of the Total Environment↗
USGS2007

Factors affecting the reproduction, recruitment, habitat, and population dynamics of pallid sturgeon and shovelnose sturgeon in the Missouri River

For more than a hundred years, human activities have modified the natural forces that control the Missouri River and its native fish fauna. While the ecological effects of regulation and channel engineering are understood in general, the current understanding is not sufficient to guide river restoration and management. The U.S. Geological Survey (USGS) is in the third year of a multiagency research effort to determine the ecological requirements for reproduction and survival of the endangered pallid sturgeon (Scaphirhynchus albus) and shovelnose sturgeon (Scaphirhynchus platorhynchus) in the Missouri River. The multidisciplinary research strategy includes components of behavior, physiology, habitat use, habitat availability, and population modeling of all life stages. Shovelnose sturgeon are used to design the strategy because they are closely related to the pallid sturgeon and are often used as a surrogate species to develop new research tools or to examine the effects of management actions or environmental variables on sturgeon biology and habitat use. During fiscal years 2005 and 2006, the U.S. Army Corps of Engineers (USACE) provided funds to USGS for tasks associated with the Comprehensive Sturgeon Research Program (CSRP) and for tasks associated with evaluation of the Sturgeon Response to Flow Modifications (SRFM). Because work activities of CSRP and SRFM are so integrated, we are providing information on activities that have been consolidated at the task level. These task activities represent chapters in this report.

Open-File Report↗
USGS2007

Project overview: Chapter A in Factors affecting the reproduction, recruitment, habitat, and population dynamics of pallid sturgeon and shovelnose sturgeon in the Missouri River

For more than a hundred years, human activities have modified the natural forces that control the Missouri River and its native fish fauna. While the ecological effects of regulation and channel engineering are understood in general, the current understanding is not sufficient to guide river restoration and management. The U.S. Geological Survey (USGS) is in the third year of a multiagency research effort to determine the ecological requirements for reproduction and survival of the endangered pallid sturgeon ( Scaphirhynchus albus ) and shovelnose sturgeon ( Scaphirhynchus platorhynchus ) in the Missouri River. The multidisciplinary research strategy includes components of behavior, physiology, habitat use, habitat availability, and population modeling of all life stages. Shovelnose sturgeon are used to design the strategy because they are closely related to the pallid sturgeon and are often used as a surrogate species to develop new research tools or to examine the effects of management actions or environmental variables on sturgeon biology and habitat use. During fiscal years 2005 and 2006, the U.S. Army Corps of Engineers (USACE) provided funds to USGS for tasks associated with the Comprehensive Sturgeon Research Program (CSRP) and for tasks associated with evaluation of the Sturgeon Response to Flow Modifications (SRFM). Because work activities of CSRP and SRFM are so integrated, we are providing information on activities that have been consolidated at the task level. These task activities represent chapters in this report.

Missouri River↗
USGS2015

Design and methods of the Southeast Stream Quality Assessment (SESQA), 2014

During 2014, the U.S. Geological Survey (USGS) National Water-Quality Assessment Program (NAWQA) assessed stream quality across the Piedmont and southern Appalachian Mountain regions of the southeastern United States. This Southeast Stream Quality Assessment (SESQA) simultaneously characterized watershed and stream-reach water-quality stressors along with instream biological conditions, in order to better understand regional stressor-effects relations. The goal of SESQA is to provide communities and policymakers with information about those human and environmental factors that have the greatest impact on stream quality across the region. The SESQA design focused on hydrologic alteration and urbanization because of their importance as ecological stressors of particular concern to Southeast region resource managers. Streamflow and land-use data were used to identify and select sites representing gradients in urbanization and streamflow alteration across the region. One hundred fifteen sites were selected and sampled for as many as 10 weeks during April, May, and June 2014 for contaminants, nutrients, and sediment. This water-quality “index” period culminated with an ecological survey of habitat, periphyton, benthic macroinvertebrates, and fish at all sites. Sediment was collected during the ecological survey for analysis of sediment chemistry and toxicity testing. Of the 115 sites, 59 were on streams in watersheds with varying degrees of urban land use, 5 were on streams with multiple confined animal feeding operations, and 13 were reference sites with little or no development in their watersheds. The remaining 38 “hydro” sites were on streams in watersheds with relatively little agricultural or urban development but with hydrologic alteration, such as a dam or reservoir. This report provides a detailed description of the SESQA study components, including surveys of ecological conditions, routine water sampling, deployment of passive polar organic compound integrative samplers for pesticides and contaminants of emerging concern, and synoptic sediment sampling and toxicity testing at all urban, confined animal feeding operation, and reference sites. Continuous water-quality monitoring and daily pesticide sampling efforts conducted at a subset of urban sites are also described.

Alabama, Georgia, North Carolina, South Carolina, ↗