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Sharing FAIR monitoring program data improves discoverability and reuse

Data resulting from environmental monitoring programs are valuable assets for natural resource managers, decision-makers, and researchers. These data are often collected to inform specific reporting needs or decisions with a specific timeframe. While program-oriented data and related publications are effective for meeting program goals, sharing well-documented data and metadata allows users to research aspects outside initial program intentions. As part of an effort to integrate data from four long-term large-scale US aquatic monitoring programs, we evaluated the original datasets against the FAIR (Findable, Accessible, Interoperable, Reusable) data principles and offer recommendations and lessons learned. Differences in data governance across these programs resulted in considerable effort to access and reuse the original datasets. Requirements, guidance, and resources available to support data publishing and documentation are inconsistent across agencies and monitoring programs, resulting in various data formats and storage locations that are not easily found, accessed, or reused. Making monitoring data FAIR will reduce barriers to data discovery and reuse. Programs are continuously striving to improve data management, data products, and metadata; however, provision of related tools, consistent guidelines and standards, and more resources to do this work is needed. Given the value of these data and the significant effort required to access and reuse them, actions and steps intended on improving data documentation and accessibility are described.

Enviornmental Monitoring and Assessment↗

Participatory engagement to reduce communication gaps

Underserved communities, especially those in coastal areas in Puerto Rico, face significant threats from natural hazards such as hurricanes and rising sea levels. Limited funding hinders the investment in costly mitigation measures, increasing exposure to natural disasters. Providing coastal resources and data products through effective communication mechanisms is fundamental to improving the well-being of these underserved coastal communities. The overall objectives of the pilot effort to engage and connect with underserved coastal communities in Puerto Rico were the following: (1) compile a comprehensive database of the projects and resources relevant to natural hazards in Puerto Rico; (2) foster connections with Puerto Rican interested parties to better understand their priorities regarding coastal hazards and provide them with pertinent U.S. Geological Survey (USGS) resources; and (3) identify knowledge gaps to guide future USGS projects in Puerto Rico. Here we outline our participatory engagement framework and process, along with two specific resources developed with the information collected from this effort. These resources are available in English and Spanish and consist of user-friendly, non-technical information products. Among them are: (1) a website where users can learn about USGS research on landslides, hurricanes, earthquakes, water resources, coastal hazards, tsunamis, and ecosystem hazards and environmental contaminants, and (2) a geonarrative highlighting shoreline changes in Puerto Rico with sections on historical shoreline trends, hurricane impacts, and potential solutions that could help protect communities and mitigate coastal hazards. Continuing participatory engagement in future projects could enhance the accessibility and usability of natural hazards resources within the community.

San Juan↗

Detecting the spatial and temporal variability of chlorophyll-a concentration and total suspended solids in Apalachicola Bay, Florida using MODIS imagery

Apalachicola Bay, Florida, accounts for 90% of Florida's and 10% of the nation's eastern oyster ( Crassostrea virginica ) harvesting. Chlorophyll- a concentration and total suspended solids (TSS) are two important water quality variables, among other environmental factors such as salinity, for eastern oyster production in Apalachicola Bay. In this research, we developed regression models of the relationships between the reflectance of the Moderate-Resolution Imaging Spectroradiometer (MODIS) Terra 250 m data and the two water quality variables based on the Bay-wide field data collected during 14–17 October 2002, a relatively dry period, and 3–5 April 2006, a relatively wet period, respectively. Then we selected the best regression models (highest coefficient of determination, R 2 ) to derive Bay-wide maps of chlorophyll- a concentration and TSS for the two periods. The MODIS-derived maps revealed large spatial and temporal variations in chlorophyll- a concentration and TSS across the entire Apalachicola Bay.

Florida↗

SNP discovery in candidate adaptive genes using exon capture in a free-ranging alpine ungulate

Identification of genes underlying genomic signatures of natural selection is key to understanding adaptation to local conditions. We used targeted resequencing to identify SNP markers in 5321 candidate adaptive genes associated with known immunological, metabolic and growth functions in ovids and other ungulates. We selectively targeted 8161 exons in protein-coding and nearby 5′ and 3′ untranslated regions of chosen candidate genes. Targeted sequences were taken from bighorn sheep ( Ovis canadensis ) exon capture data and directly from the domestic sheep genome ( Ovis aries v. 3; oviAri3). The bighorn sheep sequences used in the Dall's sheep ( Ovis dalli dalli ) exon capture aligned to 2350 genes on the oviAri3 genome with an average of 2 exons each. We developed a microfluidic qPCR-based SNP chip to genotype 476 Dall's sheep from locations across their range and test for patterns of selection. Using multiple corroborating approaches ( lositan and bayescan ), we detected 28 SNP loci potentially under selection. We additionally identified candidate loci significantly associated with latitude, longitude, precipitation and temperature, suggesting local environmental adaptation. The three methods demonstrated consistent support for natural selection on nine genes with immune and disease-regulating functions (e.g. Ovar-DRA, APC, BATF2, MAGEB18), cell regulation signalling pathways (e.g. KRIT1, PI3K, ORRC3), and respiratory health (CYSLTR1). Characterizing adaptive allele distributions from novel genetic techniques will facilitate investigation of the influence of environmental variation on local adaptation of a northern alpine ungulate throughout its range. This research demonstrated the utility of exon capture for gene-targeted SNP discovery and subsequent SNP chip genotyping using low-quality samples in a nonmodel species.

Molecular Ecology Resources↗

Historical Ground-Water Development in the Salinas Alluvial Fan Area, Salinas, Puerto Rico, 1900-2005

The Salinas alluvial fan area has historically been one of the most intensively used agricultural areas in the South Coastal Plain of Puerto Rico. Changes in agricultural practices and land use in the Salinas alluvial fan have also caused changes in the geographic distribution of ground-water withdrawals from the alluvial aquifer. As a result, the ground-water balance and ground-water flow pattern have changed throughout the years and may explain the presence of saline ground water along parts of the coast at present. By providing a reconstruction of historical ground-water development in the Salinas alluvial fan area, from the initial years of aquifer development at about 1900 to the most recent conditions existing in 2005, water resources managers and planners can use the results of the analysis for a more complete understanding of aquifer conditions especially pertaining to water quality. This study effort was conducted by the U.S. Geological Survey in cooperation with the Puerto Rico Department of Natural and Environmental Resources as a contribution in the management of the Jobos Bay National Estuarine Research Reserve. The study area encompasses about 20 mi2 (square miles) of the extensive South Coastal Plain alluvial aquifer system (fig. 1). The study area is bounded to the north by foothills of the Cordillera Central mountain chain, to the south by the Caribbean Sea, and to the east and west by the Rio Nigua de Salinas and the Quebrada Aguas Verdes, respectively. Fan-delta and alluvial deposits contain the principal aquifers in the study area.

Scientific Investigations Map↗

Endocrine active chemicals and endocrine disruption in Minnesota streams and lakes: Implications for aquatic resources, 1994-2008

The U.S. Geological Survey, in cooperation with St. Cloud State University, Minnesota Department of Health, Minnesota Pollution Control Agency, Minnesota Department of Natural Resources, Metropolitan Council Environmental Services, and the University of Minnesota, has conducted field monitoring studies and laboratory research to determine the presence of endocrine active chemicals and the incidence of endocrine disruption in Minnesota streams and lakes during 1994–2008. Endocrine active chemicals are chemicals that interfere with the natural regulation of endocrine systems, and may mimic or block the function of natural hormones in fish or other organisms. This interference commonly is referred to as endocrine disruption. Indicators of endocrine disruption in fish include vitellogenin (female egg yolk protein normally expressed in female fish) in male fish, oocytes present in male fish testes, reduced reproductive success, and changes in reproductive behavior. The results from a series of studies during 1994–2008 demonstrate that endocrine active chemicals are present in Minnesota surface waters, indicating that aquatic organism exposure is likely. Endocrine active chemicals have been identified in wastewater-treatment plant effluent and surface waters downstream from discharge of wastewater-treatment plant effluent throughout Minnesota at low concentrations. Biological indicators of endocrine disruption have been detected in wild fish throughout Minnesota at sites directly downstream from wastewater-treatment plant effluent, indicating that endocrine active chemicals in effluent contribute to endocrine disruption in fish. This finding was confirmed in a controlled study exposing fathead minnows to wastewater-treatment plant effluent at an onsite fish exposure laboratory. During this controlled study, changes in biological responses coincided with changes in wastewater-treatment plant effluent composition demonstrating that effluent effects on fish endocrine systems are temporally variable. Although chemicals contributing to endocrine disruption in fish are complex, several laboratory studies have further confirmed that certain classes of chemicals, such as hormones and alkylphenols, which are components of wastewater-treatment plant effluent, affect the endocrine systems of fish through biochemical, structural, and behavioral disruption. Although these studies indicate that wastewater-treatment plant effluent is a conduit for endocrine active chemicals to surface waters, endocrine active chemicals also were present in surface waters with no obvious wastewater-treatment plant effluent sources. Endocrine active chemicals were detected and indicators of endocrine disruption in fish were measured at numerous sites upstream from discharge of wastewater-treatment plant effluent. These observations indicate that other unidentified sources of endocrine active chemicals exist, such as runoff from land surfaces, atmospheric deposition, inputs from onsite septic systems, or other groundwater sources. Alternatively, some endocrine active chemicals may not yet have been identified or measured. The presence of biological indicators of endocrine disruption in male fish indicates that the fish are exposed to endocrine active chemicals. However indicators of endocrine disruption in male fish does not indicate an effect on fish reproduction or changes in fish populations.

Minnesota↗

Assessment of streamflow trends in the eastern Dakotas, water years 1960–2019

Hydrologic extremes, whether periods of drought or flooding, are occurring more frequently with greater severity and can have substantial economic impacts. Along with flooding, the timing and volume of streamflow also is changing across the United States. The focus of this report is to characterize a unique trend in mean annual streamflow occurring in eastern North and South Dakota, hereafter referred to as the eastern Dakotas, that is not being observed anywhere else in the conterminous United States. Streamflow records for 1,853 U.S. Geological Survey streamgages obtained from the U.S. Geological Survey National Water Information System database with a continuous record of mean annual streamflow during water years 1960–2019 were included in this study. Using a Kendall tau statistical test ( p -value less than or equal to 0.10), 573 streamgages had a statistically significant upward trend in mean annual streamflow and are primarily located in the Midwest and northeastern United States. Of the streamgages, 182 had a statistically significant downward trend and are located primarily in the western and southeastern States. Several sites had increases in streamflow between 100 and 500 percent. Most of the streamgages with the highest increases in mean annual streamflow are along the same rivers in the eastern Dakotas, regardless of basin size. A comparison of mean annual streamflow of the last decade (2010–19) to the first decade (1960–69) of the study period shows that the largest increases in annual streamflow volumes in the United States also are in the eastern Dakotas. Among all 1,853 streamgages in the United States, the Sheyenne River near Warwick, North Dakota (U.S. Geological Survey station 05056000), has the greatest percent change, with an increase of 486 percent. Several factors may be contributing to increasing trends in streamflow in the eastern Dakotas and may include, in part, precipitation changes owing to climatic variation within the region, geologic makeup of the subsurface, and land-use changes. A better understanding of these research areas will help producers, resource managers, and infrastructure engineers to make more informed environmental and economic decisions.

North Dakota, South Dakota↗

Evaluation of dissolved carbon dioxide to stimulate emergence of red swamp crayfish Procambarus clarkii (Decapoda: Cambaridae) from infested ponds

Invasive crayfish have adverse effects on habitats and native species. Control of invasive crayfish populations is a major challenge facing natural resource managers. This study evaluated the effectiveness and optimal conditions for the control agent carbon dioxide (CO2) which can be diffused into water to facilitate capture of red swamp crayfish (Procambarus clarkii; RSC). The efficacy of CO2 shows promise in its use for a variety of invasive aquatic species. Here, we evaluate CO2’s ability to stimulate movements towards the shoreline and/or induce complete terrestrial emergence from outdoor ponds. Twelve pond trials were conducted using three, 0.02-ha experimental ponds at Auburn University, Alabama, USA. Silt fencing was installed on dry land around the perimeter of each pond with the lower 0.3 m of fencing accordion-folded to provide shelter and a collection point for emerging crayfish. Each pond was stocked with 100 RSC before testing. Experimental treatment ponds were then injected with gaseous CO2 using porous air diffusers, whereas control ponds (C ponds) received no CO2. Multiple water quality parameters were monitored hourly. Three independent treatment scenarios with CO2 diffusion were: crayfish captured at the end of trial only (F: final), crayfish captured hourly (H: hourly), and incorporation of continuous inflow of fresh water at a flow rate of 0.2 L/s into the central catch basin to serve as a refuge with crayfish captured hourly (R: refuge). In control ponds, crayfish were captured at the end of trial only. In F ponds, CO2 diffusion for approximately five hours caused an average of 12% of total crayfish to emerge from the water. However, capture efficiency was increased to an average of 45% of total crayfish by increasing collection frequency to every hour and netting submerged crayfish near the water edge in addition to capturing terrestrially emerged crayfish. Presence of a freshwater inflow reduced capture efficiency in R ponds relative to H ponds. Odds of capturing crayfish improved with increased water temperature, increased CO2 concentration and increased crayfish mass. Based on results, we provide a set of predictive equations as well as interactive calculators to help natural resource managers explore several environmental and treatment-related scenarios that predict changes in capture probability in small research ponds. Carbon dioxide shows promises as a tool to increase capture rate of RSC. It is not likely to be 100% effective by itself, but could be a useful component of an integrated management strategy.

Management of Biological Invasions↗

Planar PCB Hazards to Fish, Wildlife, and Invertebrates: A Synoptic Review

Ecological and toxicological aspects of polychlorinated biphenyls (PCBs) in the environment are reviewed with emphasis on biologically active congeners and fish and wildlife. Subtopics include sources and uses, chemical and biochemical properties, concentrations in field collections, lethal and sublethal effects, and recommendations for the protection of sensitive resources. All production of PCBs in the United States ceased in 1977. Of the 1.2 million tons of PCBs manufactured to date, about 65% are still in use in electrical equipment and 31% in various environmental compartments, and 4% were degraded or incinerated. The 209 PCB congeners and their metabolites show wide differences in biological effects. A significant part of the toxicity associated with commercial PCB mixtures is related to the presence of about 20 planar congeners, i.e., congeners without chlorine substitution in the ortho position. Toxic planar congeners, like other PCB congeners, have been detected in virtually all analyzed samples, regardless of collection locale. Planar PCB concentrations were usually highest in samples from near urban areas and in fat and liver tissues, filter-feeding bivalve mollusks, fish-eating birds, and carnivorous marine mammals. Adverse effects of planar PCBs on growth, survival, and reproduction are highly variable because of numerous biotic and abiotic modifiers, including interaction with other chemicals. In general, embryos and juveniles were the most sensitive stages tested to planar PCBs, and the chinook salmon, domestic chicken, mink, rhesus macaque, and laboratory white rat were among the most sensitive species. for protection of natural resources, most authorities now recommend (1) analyzation of environmental samples for planar and other potentially hazardous congeners; (2) exposure studies with representative species and specific congeners, alone and in combination with other environmental contaminants; (3) clarification of existing structure-induction-metabolism relations; and (4) more research on physiological and biochemical indicators of PCB-stress.

Contaminant Hazard Reviews↗

USGS: Science to understand and forecast change in coastal ecosystems

The multidisciplinary approach of the US Geological Survey (USGS), a principal science agency of the US Department of the Interior (DOI), to address the complex and cumulative impacts of human activities and natural events on the US coastal ecosystems has been considered remarkable for understanding and forecasting the changes. The USGS helps explain geologic, hydrologic, and biologic systems and their connectivity across landscapes and seascapes along the coastline. The USGS coastal science programs effectively address science and information to other scientists, managers, policy makers, and the public. The USGS provides scientific expertise, capabilities, and services to collaborative federal, regional, and state-led efforts, which are in line with the goals of Ocean Action Plan (OAP) and Ocean Research Priorities Plan (ORPP). The organization is a leader in understanding terrestrial and marine environmental hazards such as earthquakes, tsunamis, floods, and landslides and assessing and forecasting coastal impacts using various specialized visualization techniques.

Sea Technology↗

Test-trench studies in the Amargosa Desert, southern Nevada: Results and application of information to landfill covers in arid environments

As arid sites in the western United States are increasingly sought for disposal of the Nation's hazardous wastes and as volumes of locally generated wastes increase, concern about the potential effect of contaminants on environmental quality is being raised. Studies at the U.S. Geological Survey's Amargosa Desert research site near Beatty, Nevada are being done to evaluate mechanisms that can affect waste isolation in an arid environment. Precipitation at the site averages about 108 mm yr -1 . Results have shown that, under undisturbed conditions, the naturally stratified soils in combination with native plants are effective in limiting the potential for percolation of precipitation. Under nonvegetated waste-site conditions, data indicated the accumulation and shallow, but continued, penetration of infiltrated water, However, water potentials below the test trenches and below the 2-m depth for nonvegetated soil indicated the persistence of an upward driving force for water flow during the 5-yr test period. General trends in trench-cover subsidence suggested a positive relation with cumulative precipitation, but subsidence did not appear to have a measurable effect on the water balance. Erosion rates were inversely related to near-surface rock-fragment content. Results suggest that the ultimate fate of contaminants buried at properly managed solid-waste sites may be determined largely by the interactions among climate and the surface-cover features of the disposal facility, and how these factors change with time.

Nevada↗

Impacts of tidal road-stream crossings on aquatic organism passage

ivers and streams are highly vulnerable to fragmentation from roads due to their prevalence in the landscape. Road-stream crossings are far more numerous than other anthropogenic barriers such as dams; these crossing structures (culverts, bridges, fords, and tide gates) have been demonstrated to impede the passage of aquatic organisms. However, road-stream crossings vary widely in the extent to which they serve as a barrier. It is important to identify barrier severity to facilitate prioritization of restoration activities, since proactively addressing all structures is not feasible. In 2015 the North Atlantic Landscape Conservation Collaborative (LCC) funded a project managed by the North Atlantic Aquatic Connectivity Cooperative (NAACC) to develop a unified protocol for assessing aquatic road-stream crossings focusing on aquatic connectivity. The NAACC relied on rapid field-based assessments, which have been shown to be a useful tool for gathering information necessary for prioritization. However, the rapid assessment protocol developed from the NAACC initiative is not applicable to tidal crossings as it does not address two-directional flow, daily water depth fluctuations, or many of the species likely present in coastal habitats. The goal of this report is to provide the background necessary to create guidelines and rapid assessment tools for assessing risk posed to aquatic organism passage at tidal crossings. To accomplish these goals, this report identifies species present in tidally influenced coastal wetlands, the unique traits they may display that puts them at risk for detrimental impact from impeded passage, and passage threats unique to tidal crossings that are not addressed by protocols designed for non-tidal systems. Species lists were compiled through literature reviews and discussions with regional researchers and managers familiar with coastal ecosystems or fish passage concerns. Life history traits, environmental sensitivities, and movement patterns for each species were compiled to build a database that can be queried to identify species that are highly vulnerable to impeded passage at tidal crossings (Available at: https://umass.box.com/s/w5mhokxjxshyxmr7si2v0gzcypcitu9d ). These risk factors for species, combined with passage threats associated with specific crossing characteristics are discussed in this report. The species list is thorough enough to provide a baseline summary of the types of threats experienced by aquatic organisms at tidal road-stream crossings, but it is not exhaustive. Unique ecosystems, species assemblages, management goals, and prioritization models may require different approaches and solutions. Thus, care must be taken to ensure that assessment tools are appropriate to a project’s target species, habitats, and scale.

Cooperator Science Series↗

Time-series monitoring in fractured-rock aquifers

Time-lapse monitoring of subsurface processes is an emerging and promising area of hydrogeophysics. The combined use of non-invasive or minimally invasive geophysical methods with hydraulic and geochemical sampling is a cost-effective approach for aquifer characterization, long-term aquifer monitoring, and remediation monitoring. Time-lapse geophysical surveys can indirectly measure time-varying hydrologic parameters such as fluid saturation or solute concentration. Monitoring of time-varying hydrologic processes provides insight into aquifer properties and structure and aquifer responses to natural or induced stresses, such as seasonal fluctuations or fluid injection experiments for active remediation. The U.S. Geological Survey (USGS) Office of Ground Water, Branch of Geophysics, in cooperation with USGS Toxic Substances Hydrology Program, Environmental Protection Agency (USEPA), Department of Defense, the University of Connecticut, and Stanford University researchers, has applied time-lapse geophysics for site characterization and remediation monitoring in a number of studies. Recent and ongoing examples of time-lapse monitoring in fractured-rock aquifers include: 1) application of attenuation-difference, boreholeradar tomography used to monitor a series of sodium chloride tracer injection tests in fractured crystalline rock; 2) application of attenuation- and velocity-difference tomography and radar-reflection data to monitor steam injection in a fractured limestone aquifer; 3) design of an electrical resistivity tomography investigation to monitor the injection of resistive water into brackish water in a fractured limestone aquifer for aquifer storage and recovery (ASR); and 4) combined application of borehole-geophysical logging with long-term discreteinterval monitoring of hydraulic head and water-chemistry in a fractured crystalline-rock aquifer. These investigations demonstrate the application of geophysical methods to provide quantitative information about the subsurface critical for characterizing aquifer structure, flow dynamics, and hydraulic processes.

New Hampshire↗

Chemicals of emerging concern in water and bottom sediment in Great Lakes areas of concern, 2010 to 2011-Collection methods, analyses methods, quality assurance, and data

The U.S. Geological Survey (USGS) cooperated with the U.S. Environmental Protection Agency and the U.S. Fish and Wildlife Service on a study to identify the occurrence of chemicals of emerging concern (CECs) in water and bottom-sediment samples collected during 2010–11 at sites in seven areas of concern (AOCs) throughout the Great Lakes. Study sites include tributaries to the Great Lakes in AOCs located near Duluth, Minn.; Green Bay, Wis.; Roches­ter, N.Y.; Detroit, Mich.; Toledo, Ohio; Milwaukee, Wis.; and Ashtabula, Ohio. This report documents the collection meth­ods, analyses methods, quality-assurance data and analyses, and provides the data for this study. Water and bottom-sediment samples were analyzed at the USGS National Water Quality Laboratory in Denver, Colo., for a broad suite of CECs. During this study, 135 environmental and 23 field dupli­cate samples of surface water and wastewater effluent, 10 field blank water samples, and 11 field spike water samples were collected and analyzed. Sixty-one of the 69 wastewater indicator chemicals (laboratory method 4433) analyzed were detected at concentrations ranging from 0.002 to 11.2 micrograms per liter. Twenty-eight of the 48 pharmaceuticals (research method 8244) analyzed were detected at concentrations ranging from 0.0029 to 22.0 micro­grams per liter. Ten of the 20 steroid hormones and sterols analyzed (research method 4434) were detected at concentrations ranging from 0.16 to 10,000 nanograms per liter. During this study, 75 environmental, 13 field duplicate samples, and 9 field spike samples of bottom sediment were collected and analyzed for a wide variety of CECs. Forty-seven of the 57 wastewater indicator chemicals (laboratory method 5433) analyzed were detected at concentrations ranging from 0.921 to 25,800 nanograms per gram. Seventeen of the 20 steroid hormones and sterols (research method 6434) analyzed were detected at concentrations ranging from 0.006 to 8,921 nanograms per gram. Twelve of the 20 pharmaceuticals (research method 8244) analyzed were detected at concentrations ranging from 2.35 to 453.5 nanograms per gram. Six of the 11 antidepressants (research method 9008) analyzed were detected at concentrations ranging from 2.79 to 91.6 nanograms per gram.

Great Lakes↗

A standard operating procedure for the surgical implantation of transmitters in juvenile salmonids

Biotelemetry is a useful tool to monitor the movements of animals and is widely applied in fisheries research. Radio or acoustic technology can be used, depending on the study design and the environmental conditions in the study area. A broad definition of telemetry also includes the use of Passive Integrated Transponder (PIT) tags, either separately or with a radio or acoustic transmitter. To use telemetry, fish must be equipped with a transmitter. Although there are several attachment procedures available, surgical implantation of transmitters in the abdominal cavity is recognized as the best technique for long-term telemetry studies in general (Stasko and Pincock, 1977; Winter, 1996; Jepsen, 2003), and specifically for juvenile salmonids, Oncorhynchus spp. (Adams and others, 1998a, 1998b; Martinelli and others, 1998; Hall and others, 2009). Studies that use telemetry assume that the processes by which the animals are captured, handled, and tagged, as well as the act of carrying the transmitter, will have minimal effect on their behavior and performance. This assumption, commonly stated as a lack of transmitter effects, must be valid if telemetry studies are to describe accurately the movements and behavior of an entire population of interest, rather than the subset of that population that carries transmitters. This document describes a standard operating procedure (SOP) for surgical implantation of radio or acoustic transmitters in juvenile salmonids. The procedures were developed from a broad base of published information, laboratory experiments, and practical experience in tagging thousands of fish for numerous studies of juvenile salmon movements near Columbia River and Snake River hydroelectric dams. Staff from the Western Fisheries Research Center's Columbia River Research Laboratory (CRRL) frequently have used telemetry studies to evaluate new structures or operations at hydroelectric dams in the Columbia River Basin, and these evaluations typically require large numbers of tagged fish. For example, a study conducted at the dams on the Columbia River and funded by the U.S. Army Corps of Engineers required tagging and monitoring of 40,000 juvenile salmon during a 3-month migration period (Counihan and others, 2006a, 2006b; Perry and others, 2006). To meet the demands of such a large study, the authors and CRRL staff refined the SOP to increase efficiency in the tagging process while maintaining high standards of fish care. The SOP has been used in laboratory and field settings for more than 15 years, and consistently has produced low mortality rates (<1 percent) and transmitter loss rates (<0.01 percent) in the 24-36 hours after tagging. In addition to describing the detailed surgical procedures required for transmitter implantation, this document provides guidance on fish collection, handling and holding, and the release of tagged fish. Although often overlooked, or at least underemphasized, these processes can have a large impact on the outcome of the tagging procedure. Stress associated with the individual steps in handling and tagging can be cumulative and lethal (Maule and others, 1988; Wedemeyer and others, 1990; Portz and others, 2006), so the goal is to provide the best possible fish care at every step in order to manage the overall effect on study fish.

Open-File Report↗

6PPD-quinone in water from the San Francisco-San Joaquin Delta, California, 2018-2024

The Sacramento-San Joaquin Delta (Delta) is an expansive river delta supplying a large portion of California’s fresh water for agriculture and residential use, and it is also an area of critical habitat for numerous state and federally listed species of concern. In many locations, urban stormwater flows directly into the Delta. 6PPD-quinone (6PPD-Q), an ozonation byproduct of a tire antiozonant 6PPD, has been shown to enter surface water via these pathways and can cause various toxicological effects, including acute urban mortality syndrome to coho salmon ( Oncorhynchus kisutch ) at low levels (LC 50 = 41 and 95 ng/L for juveniles and adults, respectively). Here, we quantified 6PPD-Q in 61 archived Delta water extracts collected between 2018 and 2024 and found concentrations up to 21 ng/L. Currently, no 6PPD-Q presence and/or quantitative data is available for this complex and diverse ecosystem. Little is known regarding long-term storage of 6PPD-quinone in solvent extracts, so 6PPD-Q observations document its presence in the study area and provide evidence that further sampling may be warranted to better quantify environmental concentrations. Consistent with the general understanding of 6PPD-Q transport, all detections observed were in samples collected during or immediately after a precipitation event. This work provides environmentally relevant concentration data to complement ongoing toxicological investigations of 6PPD-Q in Delta organisms and suggests there are research opportunities for a more robust survey of 6PPD-Q inputs into the Delta.

California↗

Water quality data for national-scale aquatic research: The Water Quality Portal

Aquatic systems are critical to food, security, and society. But, water data are collected by hundreds of research groups and organizations, many of which use nonstandard or inconsistent data descriptions and dissemination, and disparities across different types of water observation systems represent a major challenge for freshwater research. To address this issue, the Water Quality Portal (WQP) was developed by the U.S. Environmental Protection Agency, the U.S. Geological Survey, and the National Water Quality Monitoring Council to be a single point of access for water quality data dating back more than a century. The WQP is the largest standardized water quality data set available at the time of this writing, with more than 290 million records from more than 2.7 million sites in groundwater, inland, and coastal waters. The number of data contributors, data consumers, and third-party application developers making use of the WQP is growing rapidly. Here we introduce the WQP, including an overview of data, the standardized data model, and data access and services; and we describe challenges and opportunities associated with using WQP data. We also demonstrate through an example the value of the WQP data by characterizing seasonal variation in lake water clarity for regions of the continental U.S. The code used to access, download, analyze, and display these WQP data as shown in the figures is included as supporting information.

Water Resources Research↗

Quantifying and addressing the prevalence and bias of study designs in the environmental and social sciences

Building trust in science and evidence-based decision-making depends heavily on the credibility of studies and their findings. Researchers employ many different study designs that vary in their risk of bias to evaluate the true effect of interventions or impacts. Here, we empirically quantify, on a large scale, the prevalence of different study designs and the magnitude of bias in their estimates. Randomised designs and controlled observational designs with pre-intervention sampling were used by just 23% of intervention studies in biodiversity conservation, and 36% of intervention studies in social science. We demonstrate, through pairwise within-study comparisons across 49 environmental datasets, that these types of designs usually give less biased estimates than simpler observational designs. We propose a model-based approach to combine study estimates that may suffer from different levels of study design bias, discuss the implications for evidence synthesis, and how to facilitate the use of more credible study designs.

Nature Communications↗