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USGS2015

Assessment of environmental DNA for detecting presence of imperiled aquatic amphibian species in isolated wetlands

Environmental DNA (eDNA) is an emerging tool that allows low-impact sampling for aquatic species by isolating DNA from water samples and screening for DNA sequences specific to species of interest. However, researchers have not tested this method in naturally acidic wetlands that provide breeding habitat for a number of imperiled species, including the frosted salamander ( Ambystoma cingulatum ), reticulated flatwoods salamanders ( Ambystoma bishopi ), striped newt ( Notophthalmus perstriatus ), and gopher frog ( Lithobates capito ). Our objectives for this study were to develop and optimize eDNA survey protocols and assays to complement and enhance capture-based survey methods for these amphibian species. We collected three or more water samples, dipnetted or trapped larval and adult amphibians, and conducted visual encounter surveys for egg masses for target species at 40 sites on 12 different longleaf pine ( Pinus palustris ) tracts. We used quantitative PCRs to screen eDNA from each site for target species presence. We detected flatwoods salamanders at three sites with eDNA but did not detect them during physical surveys. Based on the sample location we assumed these eDNA detections to indicate the presence of frosted flatwoods salamanders. We did not detect reticulated flatwoods salamanders. We detected striped newts with physical and eDNA surveys at two wetlands. We detected gopher frogs at 12 sites total, three with eDNA alone, two with physical surveys alone, and seven with physical and eDNA surveys. We detected our target species with eDNA at 9 of 11 sites where they were present as indicated from traditional surveys and at six sites where they were not detected with traditional surveys. It was, however, critical to use at least three water samples per site for eDNA. Our results demonstrate eDNA surveys can be a useful complement to traditional survey methods for detecting imperiled pond-breeding amphibians. Environmental DNA may be particularly useful in situations where detection probability using traditional survey methods is low or access by trained personnel is limited.

Alabama, Florida, Georgia, South Carolina↗

USGS2026

Wind River subbasin restoration: Annual report of U.S. Geological Survey activities January 2024 through December 2024

We sampled juvenile wild Oncorhynchus mykiss (Steelhead Trout) in headwater streams of the Wind River, Washington, to characterize population attributes and investigate life-history metrics, particularly migratory patterns, and early life-stage survival. Additionally, this sampling provides an index of abundance of non-native Brook Trout Salvelinus confluentus . We used passive integrated transponder (PIT) tagging and a series of instream PIT-tag interrogation systems (PTISs) to track juveniles and adults. The Wind River subbasin is considered a wild Steelhead refuge by Washington Department of Fish and Wildlife (WDFW). No hatchery Steelhead Trout have been released in the Wind River subbasin since 1997, and hatchery adults are estimated at less than one percent of spawners in most years. Over 25 years of Steelhead Trout status and trend monitoring and research in the subbasin is contributing to understanding of population response to numerous restoration actions in the subbasin, including removal of Hemlock Dam from Trout Creek in 2009, which had an inadequate adult ladder and contributed to increased water temperatures, to near lethal levels for salmonids. Data from our study, and companion work by WDFW, are contributing to the Columbia Basin Fish and Wildlife Program (2009) Research, Monitoring, and Evaluation (RM&E) Strategy of Fish Population Status Monitoring. Specifically, this work addresses the sub-strategies of 1) Assessing the Status and Trends of Diversity of Natural Origin Fish Populations and Uncertainties Research regarding differing life histories of a wild Steelhead Trout population, 2) Assessing the Status and Trend of Adult Natural Origin Fish Populations, and 3) Monitoring and Evaluating the Effectiveness of Tributary Habitat Actions Relative to Environmental, Physical, or Biological Performance Objectives. During summer and fall 2024, we PIT-tagged 2,075 Steelhead Trout parr (age-0 and age-1), in the Trout Creek and upper Wind River watersheds. Age-0 and age-1 parr were at high abundance due to strong spawner numbers in 2023 and 2024 (Estimate of 932 in 2023; and a moderate number of spawners in 2024 though an estimate is not available at this time; 24-year median = 619; Charlie Cochran, WDFW Fish Biologist, personal commun., 2025). An additional 100 parr (age-0 and age-2 or older) were tagged to provide fish for estimating detection efficiencies at PTISs. Steelhead Trout parr were recaptured and detected through repeat headwater sampling, smolt trapping, instream PTISs and Columbia River mainstem PIT-tag detection. We maintained and upgraded six instream PTISs to detect PIT-tagged Steelhead Trout parr, smolts, and adults, providing data for population assessments, and life-cycle research. Detection data from PIT-tagged adult Steelhead Trout at our four primary PTISs allow assessment of adult escapement to tributary watersheds within the Wind River subbasin. Most adult Steelhead detected were tagged by WDFW at an adult trap in the lower Wind River and some as smolts at screw traps. Adult Steelhead Trout detection efficiency estimates at our primary PTIS in Trout Creek have been greater than 99 percent during eight of the past ten years and have exceeded 97% at our primary PTIS in the Wind River during nine of the past ten years. Adult escapement estimates to tributary watersheds are helping evaluate the efficacy of the 2009 removal of Hemlock Dam from rkm 2.0 of Trout Creek. Detections at the instream PTISs have shown trends of age-0 and age-1 Steelhead Trout parr emigration from natal areas during summer and fall, in addition to the expected movement of parr and smolts in spring. Our data suggest that most fish from a cohort that migrate downstream will do so at age-1 for additional rearing in the subbasin. We have estimated that from 15% to 56% of parr tagged as age-0 fish in headwater areas make downstream migrations at age-1 for additional rearing (median = 29%). We have estimated that from 1% to 27% of Steelhead Trout parr, tagged as age-1 fish, make downstream migrations during fall (median = 3.5%): this is especially pronounced in the upper Wind River portion of the watershed (median 10%). These findings raise questions about parr rearing habitat and whether migrations are density- or habitat-quality driven, and answers to such questions are long-term goals of this study as active and passive habitat restoration occurs. Repeat sampling at sites in the subbasin within and between years has enabled assessment of juvenile Steelhead Trout growth patterns. Growth rates (relative change in weight) of age-0 PIT-tagged parr during summer have been similar across the subbasin, though slightly lower in the Trout Creek watershed (Trout Creek sites, 0.57 - 1.25%/day, Wind River sites = 0.94 – 2.48%/day). Summer growth rates have been lower for age-1 parr in the Trout Creek watershed than the upper Wind River watershed (Trout Creek sites, = 0.03 - 0.14%/day, Wind River sites = 0.05 – 0.19%/day). Yearly relative growth was similar across the subbasin for both age-0 and age-1 tagged parr. During 2024 range of mean daily relative change in weight from the previous year for age-0 tagged fish was: Trout Creek sites = 0.96 – 1.41%/day, Wind River sites = 0.80 – 1.30 %/day; and for age1 tagged fish was: Trout Creek sites = 0.37 - 0.50 %/day, Wind River sites = no age-1 tagged recaptures. Non-native Brook Trout are present in the subbasin, chiefly the Trout Creek watershed. Mean percent-of-catch that is Brook Trout, at four sample sites in Trout Creek, has declined from the period 1998 – 2003 to the period 2011 – 2024 (range of decrease = 19 - 82%). Percent-of-catch (of 64 samples, 52 < 10%; 3 > 20%) and number of Brook Trout at the Trout Creek sites from 2011 through 2024, though variable, have generally declined. Habitat restoration evaluation efforts are critical to ensure efficient use of money and resources but require long-term monitoring of population metrics. Detailed viable salmonid population and life-history data, such as that provided by PIT-tagging and instream PTIS networks inform fisheries policy and management and enable assessment of long-term effects of habitat restoration actions such as the removal of Hemlock Dam on Trout Creek and proposed major instream habitat restoration in the upper Wind River.

Washington↗

USGS2025

Wind River subbasin restoration: Annual report of U.S. Geological Survey activities January 2023 through December 2023

We sampled juvenile wild Oncorhynchus mykiss (Steelhead Trout) in headwater streams of the Wind River, WA, to characterize population attributes and investigate life-history metrics, particularly migratory patterns, and early life-stage survival. We used passive integrated transponder (PIT) tagging and a series of instream PIT-tag interrogation systems (PTISs) to track juveniles and adults. The Wind River subbasin is considered a wild Steelhead refuge by Washington Department of Fish and Wildlife (WDFW). No hatchery Steelhead Trout have been released in the Wind River subbasin since 1997, and hatchery adults are estimated at less than one percent of spawners in most years. Over twenty years of Steelhead Trout status and trend monitoring and research in the subbasin is contributing to understanding of population response to numerous restoration actions in the subbasin, including removal of Hemlock Dam from Trout Creek in 2009, which had an inadequate adult ladder and contributed to increased water temperatures. Data from our study, and companion work by Washington Department of Fish and Wildlife, are contributing to the Columbia Basin Fish and Wildlife Program (2008) Research, Monitoring, and Evaluation (RM&E) Strategy of Fish Population Status Monitoring. Specifically, this work addresses the sub-strategies of 1) Assessing the Status and Trends of Diversity of Natural Origin Fish Populations and Uncertainties Research regarding differing life histories of a wild Steelhead Trout population, 2) Assessing the Status and Trend of Adult Natural Origin Fish Populations, and 3) Monitoring and Evaluating the Effectiveness of Tributary Habitat Actions Relative to Environmental, Physical, or Biological Performance Objectives. During summer and fall 2023, we PIT-tagged 1,294 Steelhead Trout parr (age-0 and age-1), in the Trout Creek and upper Wind River watersheds. Age-0 parr were at high abundance due to a strong spawning run in 2023 (estimate of 814 adults from September snorkel survey compared to 22-year median of 450; Charlie Cochran, WDFW Fish Biologist, personal commun., 2022), but age-1 parr abundance was low following poor spawner numbers in 2022 (estimate of 159 adults from September snorkel survey). An additional 189 age-2 or older parr were tagged to provide fish for estimating detection efficiencies at PTISs. Steelhead Trout parr were recaptured and detected through repeat headwater sampling, smolt trapping, instream PTISs and Columbia River PIT-tag detection. We maintained and upgraded six instream PTISs to detect PIT-tagged Steelhead Trout parr, smolts, and adults, providing data for population assessments, and life-cycle research. Detection data from PIT-tagged adult Steelhead Trout at PTISs allow assessment of adult escapement to tributary watersheds within the Wind River subbasin. Adult Steelhead Trout detection efficiency estimates at our primary PTIS in Trout Creek have been greater than 99 percent during seven of the past nine years and have exceeded 97% at our primary PTIS in the Wind River during eight of the past nine years. Adult escapement estimates to tributary watersheds are helping evaluate the efficacy of the 2009 removal of Hemlock Dam from rkm 2.0 of Trout Creek, where it had potential negative effects on Steelhead Trout populations due to hydrologic impairment, increased temperatures, and adult passage issues because of an inadequate fish ladder. Detections at the instream PTISs have shown trends of age-0 and age-1 Steelhead Trout parr emigration from natal areas during summer and fall, in addition to the expected movement of parr and smolts in spring. Our data suggest that often most fish from a cohort that migrate downstream will do so at age-1 for additional rearing downstream of their natal areas. It is unknown if this is ingrained behavior or a result of lack of habitat capacity. We have estimated that from 15 to 56% of parr tagged as age-0 fish in headwater areas make downstream migrations at age-1 for additional rearing. We have estimated that up to 27% of Steelhead Trout parr, tagged as age-1 fish, make downstream migrations during fall: this is especially pronounced in the upper Wind River portion of the watershed. These findings raise questions about preferred parr rearing habitat and whether migrations are density- or habitat-quality driven, and answers to such questions are part of the long-term goals of this study as active and passive habitat restoration actions occur. Repeat sampling at sites in the subbasin within and between years has enabled assessment of juvenile Steelhead Trout growth patterns. Growth rates (relative change in weight) of age-0 PIT-tagged parr during summer have been similar across the subbasin, though slightly lower in the Trout Creek watershed. Summer growth rates have been lower for age-1 parr in the Trout Creek watershed than the upper Wind River watershed. Yearly relative growth was similar across the subbasin for both age-0 and age-1 tagged parr. Non-native Salvelinus fontinalis (Brook Trout) are present in the subbasin, chiefly the Trout Creek watershed, and repeat sampling provides an index of their prevalence. Mean percent-of-catch that is Brook Trout, at four sample sites in Trout Creek, has declined from the period 1998 – 2003 to the period 2011 – 2024. Percent-of-catch and number of Brook Trout at the Trout Creek sites from 2011 through 2022, though variable, have generally declined. Evaluation and planning of habitat restoration efforts are critical to ensure efficient use of money and resources. Assessing Steelhead Trout life history variation in the Wind River subbasin informs research and tracking of many populations and habitat restoration and water allocation planning. Movement of Steelhead Trout parr from natal areas to other rearing areas raises questions regarding juvenile abundance, origin, and habitat use within watersheds. Improved PTISs and focused PIT-tagging of age-0 and age-1 Steelhead Trout parr allow investigation of such questions. Detailed viable salmonid population and life-history data, such as that provided by PIT-tagging and instream PTIS networks inform fisheries policy and management and enable assessment of long-term effects of habitat restoration actions such as the removal of Hemlock Dam on Trout Creek and proposed major instream habitat restoration in the upper Wind River.

Washington↗

USGS2020

The response of streams to changes in atmospheric deposition of sulfur and nitrogen in the Adirondack Mountains

Acidic deposition is the result of upwind sulfur (S) and nitrogen (N) emissions into the atmosphere from human activities. Environmental impacts from acidic deposition across forested landscapes include acidification of soil and drainage water, depletion of available soil nutrient bases, and impacts to and changes in forest and aquatic species composition and biodiversity. Acidic deposition can mobilize aluminum (Al) from soil-to-soil solution and subsequently to drainage water in forms that can be toxic to aquatic life. When exposed to decreasing levels of acidic deposition, which has been occurring in New York since the late 1970s, some soils and drainage waters have become gradually less acidic. Remaining questions relate to effects on stream resources, anticipated resource recovery under increasingly lower levels of deposition, and the levels of deposition (target loads, TLs) needed to reach a range of stream ecosystem recovery targets. Environmental scientists commonly estimate thresholds of air pollutant emissions and resulting atmospheric deposition at which adverse ecological effects are manifested. This analysis is often done using critical loads (CL) and/or TLs, using approaches that account for the spatial and temporal aspects of acidification and recovery. Exceedance represents the extent to which current levels of acidic deposition exceed the level expected to cause ecological harm. The research reported here is intended to help address S and N deposition TLs and ecosystem recovery of Adirondack streams, a resource that has been less thoroughly investigated than lakes. The overarching goal of this work is to highlight key considerations that will help inform decision-makers and ecosystem managers who are responsible for environmental policy in New York State and beyond. Salient aspects of stream TL modeling are discussed with an aim of informing not only scientists, but also policymakers, ecosystem managers, and nonscientists who are required to make decisions related to the effects of acidic deposition on natural ecosystems. Analyses reported herein quantify relations among chemical indicators and metrics of fish community health and biodiversity in streams of the Adirondack Park. This information is used to indicate levels of atmospheric deposition necessary to alleviate harmful effects on fish populations. Results of this investigation provide a framework that can be applied to better understand how modeled stream acid neutralizing capacity (ANC) values that are developed to support TL investigations can be adjusted to reflect high-flow ANC values that may be associated with toxic conditions. Since process models are often calibrated to a low-flow or average flow condition, the magnitude and spatial extent of TL exceedances increase substantially when episodic acidification is considered.

New York↗

USGS2008

Retrospective Review of Watershed Characteristics and a Framework for Future Research in the Sarasota Bay Watershed, Florida

The U.S. Geological Survey, in cooperation with the Sarasota Bay Estuary Program conducted a retrospective review of characteristics of the Sarasota Bay watershed in west-central Florida. This report describes watershed characteristics, surface- and ground-water processes, and the environmental setting of the Sarasota Bay watershed. Population growth during the last 50 years is transforming the Sarasota Bay watershed from rural and agriculture to urban and suburban. The transition has resulted in land-use changes that influence surface- and ground-water processes in the watershed. Increased impervious cover decreases recharge to ground water and increases overland runoff and the pollutants carried in the runoff. Soil compaction resulting from agriculture, construction, and recreation activities also decreases recharge to ground water. Conventional approaches to stormwater runoff have involved conveyances and large storage areas. Low-impact development approaches, designed to provide recharge near the precipitation point-of-contact, are being used increasingly in the watershed. Simple pollutant loading models applied to the Sarasota Bay watershed have focused on large-scale processes and pollutant loads determined from empirical values and mean event concentrations. Complex watershed models and more intensive data-collection programs can provide the level of information needed to quantify (1) the effects of lot-scale land practices on runoff, storage, and ground-water recharge, (2) dry and wet season flux of nutrients through atmospheric deposition, (3) changes in partitioning of water and contaminants as urbanization alters predevelopment rainfall-runoff relations, and (4) linkages between watershed models and lot-scale models to evaluate the effect of small-scale changes over the entire Sarasota Bay watershed. As urbanization in the Sarasota Bay watershed continues, focused research on water-resources issues can provide information needed by water-resources managers to ensure the future health of the watershed.

Open-File Report↗

USGS2016

Changing times, changing stories: Generational differences in climate change perspectives from four remote indigenous communities in Subarctic Alaska

Indigenous Arctic and Subarctic communities currently are facing a myriad of social and environmental changes. In response to these changes, studies concerning indigenous knowledge (IK) and climate change vulnerability, resiliency, and adaptation have increased dramatically in recent years. Risks to lives and livelihoods are often the focus of adaptation research; however, the cultural dimensions of climate change are equally important because cultural dimensions inform perceptions of risk. Furthermore, many Arctic and Subarctic IK climate change studies document observations of change and knowledge of the elders and older generations in a community, but few include the perspectives of the younger population. These observations by elders and older generations form a historical baseline record of weather and climate observations in these regions. However, many indigenous Arctic and Subarctic communities are composed of primarily younger residents. We focused on the differences in the cultural dimensions of climate change found between young adults and elders. We outlined the findings from interviews conducted in four indigenous communities in Subarctic Alaska. The findings revealed that (1) intergenerational observations of change were common among interview participants in all four communities, (2) older generations observed more overall change than younger generations interviewed by us, and (3) how change was perceived varied between generations. We defined “observations” as the specific examples of environmental and weather change that were described, whereas “perceptions” referred to the manner in which these observations of change were understood and contextualized by the interview participants. Understanding the differences in generational observations and perceptions of change are key issues in the development of climate change adaptation strategies.

Alaska↗

USGS2011

Combined multibeam and LIDAR bathymetry data from eastern Long Island Sound and westernmost Block Island Sound-A regional perspective

Detailed bathymetric maps of the sea floor in Long Island Sound are of great interest to the Connecticut and New York research and management communities because of this estuary's ecological, recreational, and commercial importance. The completed, geologically interpreted digital terrain models (DTMs), ranging in area from 12 to 293 square kilometers, provide important benthic environmental information, yet many applications require a geographically broader perspective. For example, individual surveys are of limited use for the planning and construction of cross-sound infrastructure, such as cables and pipelines, or for the testing of regional circulation models. To address this need, we integrated 12 multibeam and 2 LIDAR (Light Detection and Ranging) contiguous bathymetric DTMs, produced by the National Oceanic and Atmospheric Administration during charting operations, into one dataset that covers much of eastern Long Island Sound and extends into westernmost Block Island Sound. The new dataset is adjusted to mean lower low water, is gridded to 4-meter resolution, and is provided in UTM Zone 18 NAD83 and geographic WGS84 projections. This resolution is adequate for sea floor-feature and process interpretation but is small enough to be queried and manipulated with standard Geographic Information System programs and to allow for future growth. Natural features visible in the grid include exposed bedrock outcrops, boulder lag deposits of submerged moraines, sand-wave fields, and scour depressions that reflect the strength of the oscillating and asymmetric tidal currents. Bedform asymmetry allows interpretations of net sediment transport. Anthropogenic artifacts visible in the bathymetric data include a dredged channel, shipwrecks, dredge spoils, mooring anchors, prop-scour depressions, buried cables, and bridge footings. Together the merged data reveal a larger, more continuous perspective of bathymetric topography than previously available, providing a fundamental framework for research and resource management activities in this major east-coast estuary.

Open-File Report↗

USGS2016

Nutrients in the nexus

Synthetic nitrogen (N) fertilizer has enabled modern agriculture to greatly improve human nutrition during the twentieth century, but it has also created unintended human health and environmental pollution challenges for the twenty-first century. Averaged globally, about half of the fertilizer-N applied to farms is removed with the crops, while the other half remains in the soil or is lost from farmers’ fields, resulting in water and air pollution. As human population continues to grow and food security improves in the developing world, the dual development goals of producing more nutritious food with low pollution will require both technological and socio-economic innovations in agriculture. Two case studies presented here, one in sub-Saharan Africa and the other in Midwestern United States, demonstrate how management of nutrients, water, and energy is inextricably linked in both small-scale and large-scale food production, and that science-based solutions to improve the efficiency of nutrient use can optimize food production while minimizing pollution. To achieve the needed large increases in nutrient use efficiency, however, technological developments must be accompanied by policies that recognize the complex economic and social factors affecting farmer decision-making and national policy priorities. Farmers need access to affordable nutrient supplies and support information, and the costs of improving efficiencies and avoiding pollution may need to be shared by society through innovative policies. Success will require interdisciplinary partnerships across public and private sectors, including farmers, private sector crop advisors, commodity supply chains, government agencies, university research and extension, and consumers.

Journal of Environmental Studies and Sciences↗

USGS1982

Anticholinesterase poisoning of birds: Field monitoring and diagnosis of acute poisoning

Organophosphorus and carbamate pesticides are cholinesterase (ChE) inhibiting chemicals that have been responsible for avian die-offs. Identification of chemicals implicated in these die-offs is difficult and sometimes conclusions are solely circumstantial. However, when marked depression (inhibition) of brain ChE activity accompanies organophosphorus or carbamate residues in body tissues or ingesta, cause-effect diagnosis is enhanced. To achieve this end, normal brain ChE activity is estimated for controls of the affected species and then die-off specimens are individually evaluated for evidence of ChE inhibition. This approach to evaluation of antiChE poisoning may also be used to monitor exposure of vertebrates to field application of organophosphorus or carbamate pesticides. Problems associated with this kind of evaluation, and the main topic of this report, include variability of brain ChE activity among species, postmortem influences of ambient conditions (storage or field) on ChE activity, and differential patterns of ChE activity when inhibited by organophosphorus or carbamate compounds. Other topics discussed are the ChE assay procedure, example case reports and interpretation, and research needed for improving the diagnostic utility of ChE activity in a field situation.

Environmental Toxicology and Chemistry↗

USGS2013

The influence of study species selection on estimates of pesticide exposure in free-ranging birds

Field studies of pesticide effects on birds often utilize indicator species with the purpose 16 of extrapolating to other avian taxa. Little guidance exists for choosing indicator species to 17 monitor the presence and/or effects of contaminants that are labile in the environment or body, 18 but are acutely toxic, such as anticholinesterase (anti-ChE) insecticides. Use of an indicator 19 species that does not represent maximum exposure and/or effects could lead to inaccurate risk 20 estimates. Our objective was to test the relevance of a priori selection of indicator species for a 21 study on pesticide exposure to birds inhabiting fruit orchards. We used total plasma 22 cholinesterase (ChE) activity and ChE reactivation to describe the variability in anti-ChE exposure among avian species in two conventionally managed fruit orchards. Of seven 24 species included in statistical analyses, the less common species, chipping sparrow (Spizella 25 passerina), showed the greatest percentage of exposed individuals and the greatest ChE 26 depression, whereas the two most common species, American robins (Turdus migratorius) and 27 grey catbirds (Dumatella carolinensis), did not show significant exposure. Due to their lower 28 abundance, chipping sparrows would have been an unlikely choice for study. Our results show 29 that selection of indicator species using traditionally accepted criteria such as abundance and 30 ease of collection may not identify species that are at greatest risk. Our efforts also demonstrate 31 the usefulness of conducting multiple-species pilot studies prior to initiating detailed studies on 32 pesticide effects. A study such as ours can help focus research and resources on study species 33 that are most appropriate.

Environmental Management↗

USGS2023

Assessment of three methods to evaluate the distribution of submersed aquatic vegetation in western Lake Erie

Submersed aquatic vegetation (SAV) plays an important role in ecosystems. Inventories of SAV spatial distribution and composition are important for monitoring changes in SAV. In this study, we compared three common SAV sampling methods to quantify SAV in western Lake Erie. Aerial imagery of near-shore areas in western Lake Erie was classified using object-based image analysis (OBIA) and evaluated against field-based surveys using single-beam sonar or rake samples. To assess variation among methods, data were assigned either vegetation ‘presence’ or ‘absence’ and compared for simple correspondence and agreement (Cohen’s Kappa, κ ). The two field-based methods had the highest correspondence at 78% ( n = 782) and the highest κ = 0.545. Correspondence between OBIA and rake surveys was 69% ( n = 245) and κ = 0.36. Correspondence between OBIA and hydroacoustics was the lowest of 54% ( n = 30,768) with an agreement of κ = 0.17. Environmental factors such as water turbidity may have played a role in reduced agreement between OBIA and field methods. Determining the optimal method or combination of methods will depend upon research goals, effort, and cost, but each method can provide reliable SAV information for resource management.

Michigan, Ohio↗

USGS2019

Statistical power of dynamic occupancy models to identify temporal change: Informing the North American Bat Monitoring Program

Dynamic occupancy models provide a flexible framework for estimating and mapping species occupancy patterns over space and time for large-scale monitoring programs (e.g., the North American Bat Monitoring Program (NABat), the Amphibian Research and Monitoring Initiative). Challenges for designing surveys using the dynamic occupancy modeling framework include defining appropriate derived trend parameters, and providing usable tools for researchers to conduct project-specific sample size investigations. We present a simulation-based power analysis framework for dynamic occupancy models that allows for the incorporation of the underlying environmental space (i.e., as covariates) within a specific study region to inform sample size estimation. We investigate two definitions of temporal trend: (1) a gradual, sustained (linear or nonlinear) change over a period of many years, and (2) an abrupt increase or decrease between two time periods. We draw upon pilot data collected following NABat protocols to inform assumed data generating values in a demonstration of our approach. Due to the complicated parameter structure of dynamic occupancy models, we emphasize the importance of visualizing simulated changes over time based on different parameter settings prior to conducting a power analysis. Our simulations revealed that the linearity of short-term trends (five years in our investigation) conferred higher power with lower sample size than longer trends where occupancy probabilities approached zero (ten years in our investigation). We provide an example of how to use our tools to conduct customized investigations using questions posed by NABat, and in doing so, we shed light on general guidelines that can be applied to programs monitoring species occupancy for other taxa. Importantly, we created an R package to execute our approach for informing program-, species-, and study-specific investigations aimed at identifying changes in species occupancy.

Ecological Indicators↗

USGS2016

Volcanic air pollution over the Island of Hawai'i: Emissions, dispersal, and composition. Association with respiratory symptoms and lung function in Hawai'i Island school children

Background Kilauea Volcano on the Island of Hawai'i has erupted continuously since 1983, releasing approximately 300–12000 metric tons per day of sulfur dioxide (SO 2 ). SO 2 interacts with water vapor to produce an acidic haze known locally as “vog”. The combination of wind speed and direction, inversion layer height, and local terrain lead to heterogeneous and variable distribution of vog over the island, allowing study of respiratory effects associated with chronic vog exposure. Objectives We characterized the distribution and composition of vog over the Island of Hawai'i, and tested the hypotheses that chronic vog exposure (SO 2 and acid) is associated with increased asthma prevalence, respiratory symptoms, and reduced pulmonary function in Hawai'i Island schoolchildren. Methods We compiled data of volcanic emissions, wind speed, and wind direction over Hawai'i Island since 1992. Community-based researchers then measured 2- to 4-week integrated concentrations of SO 2 and fine particulate mass and acidity in 4 exposure zones, from 2002 to 2005, when volcanic SO 2 emissions averaged 1600 metric tons per day. Concurrently, community researchers recruited schoolchildren in the 4th and 5th grades of 25 schools in the 4 vog exposure zones, to assess determinants of lung health, respiratory symptoms, and asthma prevalence. Results Environmental data suggested 4 different vog exposure zones with SO 2 , PM2.5, and particulate acid concentrations (mean ± s.d.) as follows: 1) Low (0.3 ± 0.2 ppb, 2.5 ± 1.2 μg/m 3 , 0.6 ± 1.1 nmol H +/m 3 ), 2) Intermittent (1.6 ± 1.8 ppb, 2.8 ± 1.5 μg/m 3 , 4.0 ± 6.6 nmol H +/m 3 ), 3) Frequent (10.1 ± 5.2 ppb, 4.8 ± 1.9 μg/m 3 , 4.3 ± 6.7 nmol H +/m 3 ), and 4) Acid (1.2 ± 0.4 ppb, 7.2 ± 2.3 μg/m 3 , 25.3 ± 17.9 nmol H +/m 3 ). Participants (1957) in the 4 zones differed in race, prematurity, maternal smoking during pregnancy, environmental tobacco smoke exposure, presence of mold in the home, and physician-diagnosed asthma. Multivariable analysis showed an association between Acid vog exposure and cough and strongly suggested an association with FEV1/FVC < 0.8, but not with diagnosis of asthma, or chronic persistent wheeze or bronchitis in the last 12 months. Conclusions: Hawai'i Island's volcanic air pollution can be very acidic, but contains few co-contaminants originating from anthropogenic sources of air pollution. Chronic exposure to acid vog is associated with increased cough and possibly with reduced FEV1/FVC, but not with asthma or bronchitis. Further study is needed to better understand how volcanic air pollution interacts with host and environmental factors to affect respiratory symptoms, lung function, and lung growth, and to determine acute effects of episodes of increased emissions.

Hawai'i↗

USGS1996

Linkages between chemical contaminants and tumors benthic Great Lakes fish

Cutaneous papilloma have been observed at high prevalences in populations of brown bullheads ( Ameiurus nebulosus ) and white suckers ( Catostomus commersoni ) distributed throughout the Great Lakes, with no clear-cut delineation between prevalences in fish populations from industrialized sites in comparison to more pristine sites. However, bullhead papilloma prevalences greater than 20% were never observed at pristine reference sites, while high prevalences of sucker papilloma (> 20%) were only observed in populations from the lower Great Lakes. It is probable that there is a viral etiology for papilloma affecting bullheads and suckers, although chemical contaminants may influence the development of these neoplasms through some mechanism. Hepatic neoplasms of both cholangiocytic and hepatocytic origin have been observed at relatively high prevalences in Great Lakes populations of brown bullheads and white suckers. Prevalences of total hepatic neoplasms of > 9% in bullheads and > 3% in suckers were usually only observed in populations from industrialized areas of the Great Lakes. However, relatively high prevalences of hepatic neoplasms were also observed in suckers and bullheads from pristine areas where there is a preponderance of older fish in the population. In the case of both bullheads and suckers, high prevalences of hepatic neoplasms appear to be associated with severe biliary disease (e.g. cholangiofibrosis, cholangiohepatitis). It is highly probable that the etiology of hepatic cancers in bullheads and suckers from the Great Lakes is associated with exposure to chemical contaminants, and in some areas, specifically with exposure to polynuclear aromatic hydrocarbons. However, other chemical contaminants may indirectly influence hepatic tumor rates by increasing the severity of biliary disease in fish from contaminated areas. Overall, cutaneous papilloma prevalences above approximately 25% and hepatic neoplasm prevalences above approximately 5% in these species should be interpreted as an indicator of environmental degradation in the area where fish were surveyed.

Journal of Great Lakes Research↗

USGS2014

Predation on native sculpin by exotic brown trout exceeds that by native cutthroat trout within a mountain watershed (Logan, UT, USA)

We explored potential negative effects of exotic brown trout ( Salmo trutta ) on native sculpin ( Cottus sp.) on the Logan River, Utah, USA by (i) examining factors most strongly correlated with sculpin abundance (e.g., abiotic conditions or piscivory?), (ii) contrasting the extent of brown trout predation on sculpin with that by native cutthroat trout ( Oncorhynchus clarkii utah ) and (iii) estimating the number of sculpin consumed by brown trout along an elevational gradient using bioenergetics. Abundance of sculpin across reaches showed a strong ( r ≥ 0.40) and significant ( P < 0.05) correlation with physical variables describing width (positive) and gradient (negative), but not with abundance of piscivorous brown trout or cutthroat trout. In mainstem reaches containing sculpin, we found fish in 0% of age‐1, 10% of age‐2 and 33% of age‐3 and older brown trout diets. Approximately 81% of fish consumed by brown trout were sculpin. Despite a similar length–gape relationship for native cutthroat trout, we found only two fish (one sculpin and one unknown) in the diets of native cutthroat trout similar in size to age‐3 brown trout. Based on bioenergetics, we estimate that an average large (> 260 mm) brown trout consumes as many as 34 sculpin per year. Nevertheless, results suggest that sculpin abundance in this system is controlled by abiotic factors and not brown trout predation. Additional research is needed to better understand how piscivory influences brown trout invasion success, including in‐stream experiments exploring trophic dynamics and interactions between brown trout and native prey under different environmental conditions.

Utah↗

USGS2016

Nuclear and mitochondrial DNA analyses of golden eagles (Aquila chrysaetos canadensis) from three areas in western North America; initial results and conservation implications

Understanding the genetics of a population is a critical component of developing conservation strategies. We used archived tissue samples from golden eagles ( Aquila chrysaetos canadensis ) in three geographic regions of western North America to conduct a preliminary study of the genetics of the North American subspecies, and to provide data for United States Fish and Wildlife Service (USFWS) decision-making for golden eagle management. We used a combination of mitochondrial DNA (mtDNA) D-loop sequences and 16 nuclear DNA (nDNA) microsatellite loci to investigate the extent of gene flow among our sampling areas in Idaho, California and Alaska and to determine if we could distinguish birds from the different geographic regions based on their genetic profiles. Our results indicate high genetic diversity, low genetic structure and high connectivity. Nuclear DNA Fst values between Idaho and California were low but significantly different from zero (0.026). Bayesian clustering methods indicated a single population, and we were unable to distinguish summer breeding residents from different regions. Results of the mtDNA AMOVA showed that most of the haplotype variation (97%) was within the geographic populations while 3% variation was partitioned among them. One haplotype was common to all three areas. One region-specific haplotype was detected in California and one in Idaho, but additional sampling is required to determine if these haplotypes are unique to those geographic areas or a sampling artifact. We discuss potential sources of the high gene flow for this species including natal and breeding dispersal, floaters, and changes in migratory behavior as a result of environmental factors such as climate change and habitat alteration. Our preliminary findings can help inform the USFWS in development of golden eagle management strategies and provide a basis for additional research into the complex dynamics of the North American subspecies.

Alaska, California, Idaho, Oregon↗

USGS1986

Review of the intensive culture of walleye fry

Efficient intensive culture of larval walleyes (Stizostedion vitreum) may soon be realized due to results of research on larval development, culture environment, preferred food organisms, and feeding techniques. Larval behavior and morphology (developmental state) can be used as indicators for appropriate handling and feeding techniques. Certain environmental conditions such as a rearing unit color that contrasts with food organisms, water temperatures of 18‐22°C, uniform lighting, and a stocking density of no more than 35,000 fish/m 3 reportedly contribute to increased growth and survival. Successful culture requires that suitable food such as cladocerans, copepods, and brine shrimp be continuously available at a high density (0.1 organism/mL). Cannibalism among walleye larvae has not been prevented but has been reduced through the use of suitable fish and food densities.

Progressive Fish-Culturist↗

USGS1996

Using geochemical and statistical tools to identify irrigated areas that might contain high selenium concentrations in surface water

Ir rigated agriculture has a long history in the Western United States, beginning with Native American Indians. After passage of the Reclamation Act of 1902, the United States Government began building and subsidizing irrigation projects to foster settlement and development of the arid and semi-arid areas of the Western United States (National Research Council, 1989). Precipitation in the mountainous areas of the West (fig. 1) is stored in reservoirs and used for irrigation of farmland. With the development of irrigated agriculture, unforeseen environmental problems have occurred.

Fact Sheet↗