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USGS2012

Ecological impacts of non-native species

Non-native species are considered one of the greatest threats to freshwater biodiversity worldwide (Drake et al. 1989; Allen and Flecker 1993; Dudgeon et al. 2005). Some of the first hypotheses proposed to explain global patterns of amphibian declines included the effects of non-native species (Barinaga 1990; Blaustein and Wake 1990; Wake and Morowitz 1991). Evidence for the impact of non-native species on amphibians stems (1) from correlative research that relates the distribution or abundance of a species to that of a putative non-native species, and (2) from experimental tests of the effects of a non-native species on survival, growth, development or behaviour of a target species (Kats and Ferrer 2003). Over the past two decades, research on the effects of non-native species on amphibians has mostly focused on introduced aquatic predators, particularly fish. Recent research has shifted to more complex ecological relationships such as influences of sub-lethal stressors (e.g. contaminants) on the effects of non-native species (Linder et al. 2003; Sih et al. 2004), non-native species as vectors of disease (Daszak et al. 2004; Garner et al. 2006), hybridization between non-natives and native congeners (Riley et al. 2003; Storfer et al. 2004), and the alteration of food-webs by non-native species (Nystrom et al. 2001). Other research has examined the interaction of non-native species in terms of facilitation (i.e. one non-native enabling another to become established or spread) or the synergistic effects of multiple non-native species on native amphibians, the so-called invasional meltdown hypothesis (Simerloff and Von Holle 1999). Although there is evidence that some non-native species may interact (Ricciardi 2001), there has yet to be convincing evidence that such interactions have led to an accelerated increase in the number of non-native species and cumulative impacts are still uncertain (Simberloff 2006). Applied research on the control, eradication, and management of non-native species has only just begun but some promising results have already emerged (see below), giving hope to a very difficult conservation issue. This chapter provides an overview of the role of non-native species in amphibian declines and summarizes the current state of knowledge of non-native species that are known, or considered to be, a threat to amphibian species and populations. The biological and socio-economic issues of non-native species control are examined and brief case studies of successful eradication programmes are provided.

Book chapter↗

USGS2012

Ecological impacts of non-native species

Book chapter↗

USGS2013

2011 floods of the central United States

The Central United States experienced record-setting flooding during 2011, with floods that extended from headwater streams in the Rocky Mountains, to transboundary rivers in the upper Midwest and Northern Plains, to the deep and wide sand-bedded lower Mississippi River. The U.S. Geological Survey (USGS), as part of its mission, collected extensive information during and in the aftermath of the 2011 floods to support scientific analysis of the origins and consequences of extreme floods. The information collected for the 2011 floods, combined with decades of past data, enables scientists and engineers from the USGS to provide syntheses and scientific analyses to inform emergency managers, planners, and policy makers about life-safety, economic, and environmental-health issues surrounding flood hazards for the 2011 floods and future floods like it. USGS data, information, and scientific analyses provide context and understanding of the effect of floods on complex societal issues such as ecosystem and human health, flood-plain management, climate-change adaptation, economic security, and the associated policies enacted for mitigation. Among the largest societal questions is "How do we balance agricultural, economic, life-safety, and environmental needs in and along our rivers?" To address this issue, many scientific questions have to be answered including the following: * How do the 2011 weather and flood conditions compare to the past weather and flood conditions and what can we reasonably expect in the future for flood magnitudes? * What is the “natural” hydrology of these watersheds and how have they been changed? * How do rivers change during floods and what effects do they have on the natural and built environment: conversely, what effects do the natural and built environments have on rivers and floods? * Do floods contribute to the transport and fate of contaminants that affect human and ecosystem health? In an effort to help address these and other questions, USGS Professional Paper 1798 consists of independent but complementary chapters dealing with various scientific aspects of the 2011 floods in the Central United States.

Professional Paper↗

USGS1950

Ground-water resources of Gregg County, Texas, with a section on Stream runoff

Field work in the island of St. Croix, V. I., was carried on from December 1938 to April 1939 in connection with a test-drilling program for water sup- plies. The island is 21 miles long and has a maximum width of 6 miles. Its western part consists of a range of mountains flanked on the south by a rolling plain; its narrower eastern part is entirely mountainous. There are only a few small streams. The rolling and fiat lands are cultivated or are in grass, and the mountainous areas are either wooded or in grass. The average rain- fall of the island is 46.34 inches, but severe droughts and periods of excess precipitation are not uncommon. The island is made up of rocks of Upper Cretaceous age, mostly volcanic tufts and limestones known as the Mount Eagle volcanics; diorite intruded into the cretaceous rocks; and Oligocene to Miocene blue clays and yellow marls (the Jealousy formation and Kingshill marl, respectively). Alluvium is widely distributed. The Mount Eagle rocks were strongly folded in early Tertiary time and the Kingshill strata gently folded in post Lower-Miocene time along an east-northeast axis. Three early Tertiary cycles of erosion are recognized. After the folding of the Kingshill marl, streams followed the strike of the folded rocks in a westerly direction, but they gradually assumed southward courses across the marl plain and as a result a western area of old-age topography, a central area of late-mature topography, and an eastern area of early-mature topography have been created. Submerged reefs and emergent reefs and beaches indicate several fairly recent stands of the sea. Water for human consumption is obtained by collecting rain water in cis- terns, but water for other purposes is almost entirely supplied by wells which are generally less than 100 feet deep. Many dug wells are used, but in recent years drilled wells have been constructed. Most of them are discharged by wind-powered pumps of small capacity. Wells are developed in all the rocks mentioned (except coral reef), but the best yields are obtained from the alluvium. A maximum yield of 80 gallons a minute was obtained from a gravel-packed well in the alluvial valley at Fair Plain. Further exploration of the alluvium is recommended. The weathered diorite also appears to be a fairly good water-bearing formation. Test drilling showed that deep water- bearing formations should probably not be expected beneath the Tertiary rocks. Most of the ground waters of St. Croix contain a moderately high mineral content owing to the solution of rock-forming minerals and the deposition of alkali and salt spray in the soil. Only a few wells are contaminated by sea water. The low hardness of some highly mineralized waters is believe due to base exchange. The most highly mineralized waters are found in the alluvium in areas with alkali soil and in some places in the Tertiary limestones where presumably soluble salts were deposited in those strata. The least mineralized waters are found in shallow wells in the alluvial near the foot of the mountains and in the areas of dioritic rock. Many well waters in Croix, if properly protected from contamination might be entirely suited to human consumption. Although many waters are hard, they are used for domestic purposes. Most waters, even those high in chloride, are reported to be excellent for cattle consumption. Most ground waters in St. Croix cannot be used for boiler feed without treatment but are used for o*her purposes in the manufacture of sugar and rum. A brief discussion of the results of test drilling by the National Park Service in 1940-41 is also given.

Water Supply Paper↗

USGS2024

Societal benefits of cyanobacteria harmful algal bloom management in Lake Okeechobee in Florida—Potential damages avoided during the 2018 event under U.S. Army Corps of Engineers Harmful Algal Bloom Interception, Treatment, and Transformation System scenarios

Freshwater harmful algal blooms (HABs) formed by blue-green algae, or cyanobacteria, have emerged as a global environmental problem. Their negative impacts on aquatic ecosystems can affect the benefits nature provides to human society by reducing water quality; inhibiting aquatic recreation; killing fish, wildlife, and pets; and posing a risk to human health. To manage harmful algal blooms, the Engineer Research and Development Center of the U.S. Army Corps of Engineers is developing an advanced technology called the Harmful Algal Bloom Interception, Treatment, and Transformation System (HABITATS), which has been tested in pilot demonstrations upstream of spillways at HAB-affected waterbodies in Florida. The U.S. Geological Survey and cooperators from the U.S. Department of the Interior Office of Policy Analysis investigated the societal benefits of HABITATS technology by using data from an actual 2018 harmful algal bloom in Lake Okeechobee to characterize the observed societal impacts and then comparing observed effects to hypothetical scenarios of HABITATS deployment. This study estimated an economic value of $5.5 million in foregone recreation as a result of closed boating ramp facilities and other restrictions on aquatic recreation such as fishing and swimming during the 2018 cyanobacteria harmful algal bloom outbreak. The change in housing sales prices that could have resulted from murky water or bad odor during that outbreak was estimated as $2.3 million. The team also investigated drinking water contamination and human illness but did not find significant societal impacts in this case. If HABITATS had been deployed, the avoided losses less the cost of management could have provided net societal benefits that ranged between negative $2.1 million and positive $0.8 million, depending on the vertical distribution of algae in the water column and the HABITATS version used. The study’s estimated societal benefit is undoubtedly a lower bound estimate because current scientific knowledge is inadequate to characterize, or monetize, all the impacts.

Florida↗

USGS2026

The future for reptiles: Advances and challenges in the Anthropocene

The future for the Reptilia will be one of continued discovery of the extant diversity of species in every group and continued challenges for their conservation. Most species will persist, albeit in smaller and increasingly fragmented geographic ranges, and active conservation measures can help to ensure survival of highly vulnerable species. There are more than 12,440 documented species of reptiles, up from 10,500 only seven years ago. Transfer of laboratory techniques, computational resources, and access to literature to herpetologists throughout the world is fueling the increase in systematic studies of reptiles. The bulk of reptiles are the squamates, lizards and snakes, with impressive diversity on most continents. Habitat loss, landscape fragmentation, exploitation, invasive species, environmental contamination, and global warming are persistent challenges to all biodiversity, including reptiles. Endemism, ecological specialization, and restricted ranges generally make species more vulnerable to anthropogenic disturbances. Moreover, the natural history information that is so important for informing conservation aims is lacking for most newly described forms, whether they represent completely novel discoveries or result from taxonomic revisions. The major lineages of reptiles exhibit enormous variation in life history traits, ranging from extremely long-lived species with low fecundity to those with short generation times and high fecundity. Reptiles vary in their degree of ecological specialization, and many live in difficult-to-sample habitats. It is implausible, if not impossible, to gather detailed information on thousands of species of reptiles, many of which are secretive and difficult to study. However, evaluating where species are likely to fit along life history gradients of time to maturity, brood size, and frequency of reproduction reveals much about their abilities to persist in the face of anthropogenic disturbance. Combined with information on geographic distribution and the severity of anthropogenic pressures, consideration of life history strategies reveals important implications for conservation of reptile species. Modern approaches to conservation of reptiles, including conservation translocations, regulation of the international trade in reptiles, management of imperiled species in the context of landscapes, progress in confronting emerging diseases, and resolving human-wildlife conflict in all its forms can help ensure the persistence of the great diversity of the Reptilia in the Anthropocene.

Book chapter↗

USGS2020

Evaluation of legacy and emerging organic chemicals using passive sampling devices on the North Branch Au Sable River near Lovells, Michigan, June 2018

The North Branch Au Sable River, located in the northern lower peninsula of Michigan near Lovells, Michigan, has historically been known for its brook trout ( Salvelinus fontinalis ) and its status as a blue ribbon trout stream; however, within the past few decades, there has been a decline in fish population. The objectives of this study were to assess if concentrations of organic chemicals were present in quantities in the North Branch Au Sable River that may potentially harm aquatic species and to establish current baseline concentrations of organic chemicals against which future data can be compared. Passive sampling technology was used to collect information on the concentration, occurrence, transport, and fate of organic chemicals; these samplers absorb dissolved organic chemicals in the river over several weeks, as the timing and intensity of pesticide applications and the frequency of storm events and irrigation can cause fluctuations in organic chemical loading to surface waters. The chemical classes investigated as part of this study included pesticides (both legacy [organochlorine] and current use), polychlorinated biphenyls, polybrominated diphenyl ethers (PBDEs), and polycyclic aromatic hydrocarbons (PAHs). Passive samplers, including semipermeable membrane devices and polar organic chemical integrative samplers, were deployed at four locations along the North Branch Au Sable River, near Lovells, Mich., in June 2018 for a total of 28 days. Several organic chemicals were detected in the North Branch Au Sable River at low concentrations. Organic chemicals were detected at every sampling location on the North Branch Au Sable River; however, not all chemicals were detected at every location. The highest number of organic chemicals were detected at the most downstream sampling site (North Branch Au Sable River at Kellogg's Bridge), and the lowest number of organic chemicals were detected at the next site upstream (North Branch Au Sable River at Twin Bridge Road). The organic contaminants most frequently detected at all sampling locations include the legacy pesticides pentachloroanisole, trans -chlordane, p,p'-dichlorodiphenyldichloroethylene, and p,p'-dichlorodiphenyltrichloroethane; the PBDE PBDE-28; and the PAHs 2-methylphenanthrene and perylene. Organic chemical concentrations detected on the North Branch Au Sable River were below almost all water-quality benchmarks included in this report. However, low concentrations of organic chemicals may still pose a risk to aquatic organisms and throughout the trophic hierarchy because of low-dose additive and synergistic mixture effects, transgenerational effects, and a lack of established water-quality benchmarks for many organic chemicals. This report provides data on the current (2018) state of the North Branch Au Sable River and provided a baseline of organic contaminant data against which future data on the North Branch Au Sable River can be evaluated.

Michigan↗

USGS2009

Brine migration from a flooded salt mine in the Genesee Valley, Livingston County, New York: Geochemical modeling and simulation of variable-density flow

The Retsof salt mine in upstate New York was flooded from 1994 to 1996 after two roof collapses created rubble chimneys in overlying bedrock that intersected a confined aquifer in glacial sediments. The mine now contains about 60 billion liters of saturated halite brine that is slowly being displaced as the weight of overlying sediments causes the mine cavity to close, a process that could last several hundred years. Saline water was detected in the confined aquifer in 2002, and a brine-mitigation project that includes pumping followed by onsite desalination was implemented in 2006 to prevent further migration of saline water from the collapse area. A study was conducted by the U.S. Geological Survey using geochemical and variable-density flow modeling to determine sources of salinity in the confined aquifer and to assess (1) processes that control movement and mixing of waters in the collapse area, (2) the effect of pumping on salinity, and (3) the potential for anhydrite dissolution and subsequent land subsidence resulting from mixing of waters induced by pumping. The primary source of salinity in the collapse area is halite brine that was displaced from the flooded mine and transported upward by advection and dispersion through the rubble chimneys and surrounding deformation zone. Geochemical and variable-density modeling indicate that salinity in the upper part of the collapse area is partly derived from inflow of saline water from bedrock fracture zones during water-level recovery (January 1996 through August 2006). The lateral diversion of brine into bedrock fracture zones promoted the upward migration of mine water through mixing with lower density waters. The relative contributions of mine water, bedrock water, and aquifer water to the observed salinity profile within the collapse area are controlled by the rates of flow to and from bedrock fracture zones. Variable-density simulations of water-level recovery indicate that saline water has probably not migrated beyond the collapse area, while simulations of pumping indicate that further upward migration of brine and saline water is now prevented by groundwater withdrawals under the brine-mitigation project. Geochemical modeling indicates that additional land subsidence as a result of anhydrite dissolution in the collapse area is not a concern, as long as the rate of brine pumping is less than the rate of upward flow of brine from the flooded mine. The collapse area above the flooded salt mine is within a glacially scoured bedrock valley that is filled with more than 150 meters of glacial drift. A confined aquifer at the bottom of the glacial sediments (referred to as the lower confined aquifer, or LCA) was the source of most of the water that flooded the mine. Two rubble chimneys that formed above the roof collapses in 1994 hydraulically connect the flooded mine to the LCA through 180 meters of sedimentary rock. From 1996 through 2006, water levels in the aquifer system recovered and the brine-displacement rate ranged from 4.4 to 1.6 liters per second, as estimated from land-surface subsidence above the mine. A zone of fracturing within the bedrock (the deformation zone) formed around the rubble chimneys as rock layers sagged toward the mine cavity after the roof collapses. Borehole geophysical surveys have identified three saline-water-bearing fracture zones in the bedrock: at stratigraphic contacts between the Onondaga and Bertie Limestones (O/B-FZ) and the Bertie Limestone and the Camillus Shale (B/C-FZ), and in the Syracuse Formation (Syr-FZ). The only outlets for brine displaced from the mine are through the rubble chimneys, but some of the brine could be diverted laterally into fracture zones in the rocks that lie between the mine and the LCA. Inverse geochemical models developed using PHREEQC indicate that halite brine in the flooded mine is derived from a mixture of freshwater from the LCA (81 percent), saline water from bedrock fracture zones (16 percent), and an hypothesized bromide-rich brine (3 percent) assumed to originate from salt-bearing rocks above the flooded mine. Geochemical modeling results also indicate that halite brine entering the rubble chimneys is diluted by both bedrock water and aquifer water, and that water from the mine has not reached the bedrock surface. Forward geochemical models indicate that additional land subsidence could occur if pumping from the brine-mitigation project were to introduce either freshwater or bedrock water that is undersaturated with respect to anhydrite into the lower part of the rubble chimneys. In this unlikely scenario, the maximum subsidence rates are predicted to range from 0.6 to 1.1 centimeters per year—subsidence rates would be lower (0.1 to 0.6 centimeters per year) if ion-exchange reactions affect the water chemistry. Variable-density, transient groundwater-flow models were constructed using SEAWAT to simulate the movement of saline water, aquifer water, bedrock water, and brine within the rubble chimneys and surrounding deformation zone during the 10.7-year period following flooding of the salt mine. Two three-dimensional models reproduced the profile of halite saturation with depth measured in September 2006 reasonably well, and neither model indicated that saline water had migrated beyond the collapse area. The models differed in the number of fracture zones represented: one zone in model A (O/B-FZ) and three zones in model B (O/B-FZ, B/C-FZ, and Syr-FZ). It is unknown whether model A or model B better represents current conditions because the lateral extents of the B/C-FZ and Syr-FZ have not been delineated beyond the collapse area. In model A, the salinity of water in the upper part of the rubble chimneys is derived mainly from the inflow of bedrock water from the O/B-FZ, as indicated by geochemical models. Bedrock water that was pushed upward by brine during the 10.7-year simulation period formed a diffuse front above a nearly horizontal brine level in both chimneys. In model B, some of the salinity in the upper part of the rubble chimneys is derived from mine water. The rate of bedrock-water inflow from the O/B-FZ was lower in model B than in model A, and mixing with waters from the Syr-FZ and B/C-FZ transported mine water higher in the water column than in model A. Simulated brine levels in both chimneys sloped northward, reflecting lateral diversion of brine into the B/C-FZ, and less aquifer water was displaced from the collapse area than in model A. Models A and B were used to simulate changes in water levels and salinity produced by pumping for the brine-mitigation project from September 2006 through February 2008. Both simulations indicated that current pumping rates are sufficient to offset upward migration of brine and saline water through the collapse area and, therefore, to further prevent contamination of the LCA. A greater decrease in salinity was simulated in model B, however, because the porosity of the rubble chimneys was lower (6 percent compared to 10 percent in model A), and some brine and saline waters were diverted through the B/C-FZ. Model B better simulates the influent saturation to the desalination plant, the amount of halite produced, and the observed declines in saturations than model A, which is more consistent with results of geochemical modeling. Sensitivity analyses indicate that the actual brine-displacement rate could be lower than estimated because simulated declines in saturations underpredict the observed decline from September 2006 through February 2008. Although halite saturations within the upper part of the collapse area are predicted to decrease with continued pumping, brine displacement from the flooded mine is expected to continue for hundreds of years. Simulations of a shutdown of the brine-mitigation project indicate southward migration of saline water through the LCA, extending 700 meters to the model boundary within 10 years. Continued migration of saline water would eventually form a pool in the LCA in a bedrock depression 8 kilometers south of the collapse area near Sonyea, but the large relative density of the saline water would likely prevent it from reaching overlying aquifers. Simulations also indicate that brine will migrate through bedrock fracture zones—some brine could possibly emerge updip to the north where the subcrop area of the Bertie Limestone intersects the bedrock surface near Avon, but the projected time of travel is unknown.

New York↗

USGS2009

Anthropogenic organic compounds in source water of selected community water systems that use groundwater, 2002-05

Source water, defined as groundwater collected from a community water system well prior to water treatment, was sampled from 221 wells during October 2002 to July 2005 and analyzed for 258 anthropogenic organic compounds. Most of these compounds are unregulated in drinking water and include pesticides and pesticide degradates, gasoline hydrocarbons, personal-care and domestic-use products, and solvents. The laboratory analytical methods used in the study have detection levels that commonly are 100 to 1,000 times lower than State and Federal standards and guidelines for protecting water quality. Detections of anthropogenic organic compounds do not necessarily indicate a concern to human health but rather help to identify emerging issues and track changes in occurrence and concentrations over time. Less than one-half (120) of the 258 compounds were detected in at least one source-water sample. Chloroform, in 36 percent of samples, was the most commonly detected of the 12 compounds that were in about 10 percent or more of source-water samples. The herbicides atrazine, metolachlor, prometon, and simazine also were among the commonly detected compounds. The commonly detected degradates of atrazine - deethylatrazine and deisopropylatrazine - as well as degradates of acetochlor and alachlor, generally were detected at concentrations similar to or greater than concentrations of the parent herbicide. The compounds perchloroethene, trichloroethene, 1,1,1-trichloroethane, methyl tert-butyl ether, and cis-1,2-dichloroethene also were detected commonly. The most commonly detected compounds in source-water samples generally were among those detected commonly across the country and reported in previous studies by the U.S. Geological Survey's National Water-Quality Assessment Program. Relatively few compounds were detected at concentrations greater than human-health benchmarks, and 84 percent of the concentrations were two or more orders of magnitude less than benchmarks. Five compounds (perchloroethene, trichloroethene, 1,2-dibromoethane, acrylonitrile, and dieldrin) were detected at concentrations greater than their human-health benchmark. The human-health benchmarks used for comparison were U.S. Environmental Protection Agency Maximum Contaminant Levels (MCLs) for regulated compounds and Health-Based Screening Levels developed by the U.S. Geological Survey in collaboration with the U.S. Environmental Protection Agency and other agencies for unregulated compounds. About one-half of all detected compounds do not have human-health benchmarks or adequate toxicity information to evaluate results in a human-health context. Ninety-four source-water and finished-water (water that has passed through all the treatment processes but prior to distribution) sites were sampled at selected community water systems during June 2004 to September 2005. Most of the samples were analyzed for compounds that were detected commonly or at relatively high concentrations during the initial source-water sampling. The majority of the finished-water samples represented water blended with water from one or more other wells. Thirty-four samples were from water systems that did not blend water from sampled wells with water from other wells prior to distribution. The comparison of source- and finished-water samples represents an initial assessment of whether compounds present in source water also are present in finished water and is not intended as an evaluation of water-treatment efficacy. The treatment used at the majority of the community water systems sampled is disinfection, which, in general, is not designed to remove the compounds monitored in this study. Concentrations of all compounds detected in finished water were less than their human-health benchmarks. Two detections of perchloroethene and one detection of trichloroethene in finished water had concentrations within an order of magnitude of the MCL. Concentrations of disinfection by-products were

Scientific Investigations Report↗

USGS2011

Effects of wetland vs. landscape variables on parasite communities of Rana pipiens: Links to anthropogenic factors

The emergence of several diseases affecting amphibian populations worldwide has prompted investigations into determinants of the occurrence and abundance of parasites in frogs. To understand the spatial scales and identify specific environmental factors that determine risks of parasitism in frogs, helminth communities in metamorphic frogs of the northern leopard frog ( Rana pipiens ) were examined in relation to wetland and landscape factors at local (1 km) and regional (10 km) spatial extents in an agricultural region of Minnesota (USA) using regression analyses, ordination, and variance partitioning techniques. Greater amounts of forested and woody wetland habitats, shorter distances between woody wetlands, and smaller-sized open water patches in surrounding landscapes were the most consistently positive correlates with the abundances, richness, and diversity of helminths found in the frogs. Wetland and local landscape variables were suggested as most important for larval trematode abundances, whereas local and regional landscape variables appeared most important for adult helminths. As previously reported, the sum concentration of atrazine and its metabolite desethylatrazine, was the strongest predictor of larval trematode communities. In this report, we highlight the additional influences of landscape factors. In particular, our data suggest that anthropogenic activities that have resulted in the loss of the availability and connectivity of suitable habitats in the surrounding landscapes of wetlands are associated with declines in helminth richness and abundance, but that alteration of wetland water quality through eutrophication or pesticide contamination may facilitate the transmission of certain parasite taxa when they are present at wetlands. Although additional research is needed to quantify the negative effects of parasitism on frog populations, efforts to reduce inputs of agrochemicals into wetlands to limit larval trematode infections may be warranted, given the current high rates of amphibian declines and extinction events.

Minnesota↗

USGS2025

Fomites could determine severity of SARS-CoV-2 outbreaks in low-density white-tailed deer (Odocoileus virginianus) populations

The establishment of a reservoir species for zoonotic diseases is concerning for both animal and human health. Severe acute respiratory syndrome coronavirus (SARS-CoV)-2, the coronavirus responsible for the COVID-19 pandemic, has been detected in white-tailed deer ( Odocoileus virginianus ) in the United States. Since its initial detection, various studies have documented circulation and evolution of SARS-CoV-2 in deer, with human cases suspected of spill-back from infectious deer. A priority for mitigating SARS-CoV-2 outbreaks in deer populations is determining the contribution of direct (via aerosols and physical contact) and indirect (via contaminated objects and media) transmission pathways. We expanded existing epidemiological models founded on direct transmission pathways to include three indirect transmission pathways of infection for simulated deer populations, including contaminated water, food waste, and feed piles. Despite lower infection probabilities and transmission hazards (measured by force-of-infection (FOI)) posed solely by these indirect pathways compared to direct transmission pathways, the addition of indirect transmission pathways increased FOI, which had ramifications for the severity of SARS-CoV-2 outbreaks in simulated deer populations, particularly in populations with low degrees of spread between deer (measured by basic reproductive number; R 0 ). We used contact rate models to estimate SARS-CoV-2 spread across deer range in the United States and identified widespread potential for indirect transmission to increase the severity of outbreaks in low-density deer populations. These results indicate that indirect transmission pathways need to be considered in the management of white-tailed deer as a reservoir species for SARS-CoV-2.

Transboundary and Emerging Diseases↗

USGS2008

Anthropogenic organic compounds in source water of nine community water systems that withdraw from streams, 2002-05

Source water, herein defined as stream water collected at a water-system intake prior to water treatment, was sampled at nine community water systems, ranging in size from a system serving about 3,000 people to one that serves about 2 million people. As many as 17 source-water samples were collected at each site over about a 12-month period between 2002 and 2004 for analysis of 258 anthropogenic organic compounds. Most of these compounds are unregulated in drinking water, and the compounds analyzed include pesticides and selected pesticide degradates, gasoline hydrocarbons, personal-care and domestic-use compounds, and solvents. The laboratory analytical methods used in this study have relatively low detection levels - commonly 100 to 1,000 times lower than State and Federal standards and guidelines for protecting water quality. Detections, therefore, do not necessarily indicate a concern to human health but rather help to identify emerging issues and to track changes in occurrence and concentrations over time. About one-half (134) of the compounds were detected at least once in source-water samples. Forty-seven compounds were detected commonly (in 10 percent or more of the samples), and six compounds (chloroform, atrazine, simazine, metolachlor, deethylatrazine, and hexahydrohexamethylcyclopentabenzopyran (HHCB) were detected in more than one-half of the samples. Chloroform was the most commonly detected compound - in every sample (year round) at five sites. Findings for chloroform and the fragrances HHCB and acetyl hexamethyl tetrahydronaphthalene (AHTN) indicate an association between occurrence and the presence of large upstream wastewater discharges in the watersheds. The herbicides atrazine, simazine, and metolachlor also were among the most commonly detected compounds. Degradates of these herbicides, as well as those of a few other commonly occurring herbicides, generally were detected at concentrations similar to or greater than concentrations of the parent compound. Samples typically contained mixtures of two or more compounds. The total number of compounds and their total concentration in samples generally increased with the amount of urban and agricultural land use in a watershed. Annual mean concentrations of all compounds were less than human-health benchmarks. Single-sample concentrations of anthropogenic organic compounds in source water generally were less than 0.1 microgram per liter and less than established human-health benchmarks. Human-health benchmarks used for comparison were U.S. Environmental Protection Agency (USEPA) Maximum Contaminant Levels (MCLs) for regulated compounds and U.S. Geological Survey Health-Based Screening Levels for unregulated compounds. About one-half of all detected compounds do not have human-health benchmarks or adequate toxicity information for evaluating results in a human-health context. During a second sampling phase (2004-05), source water and finished water (water that has passed through all the treatment processes but prior to distribution) were sampled at eight of the nine community water systems. Water-treatment processes differ among the systems. Specifically, treatment at five of the systems is conventional, typically including steps of coagulation, flocculation, sedimentation, filtration, and disinfection. One water system uses slow sand filtration and disinfection, a second system uses ozone as a preliminary treatment step to conventional treatment, and a third system is a direct filtration treatment plant that uses many of the steps employed in conventional treatment. Most of these treatment steps are not designed specifically to remove the compounds monitored in this study. About two-thirds of the compounds detected commonly in source water were detected at similar frequencies in finished water. Although the water-treatment steps differ somewhat among the eight water systems, the amount of change in concentration of the compounds from source- to finish

Scientific Investigations Report↗

USGS2021

Variation in metal concentrations across a large contamination gradient is reflected in stream but not linked riparian food webs

Aquatic insects link food web dynamics across freshwater-terrestrial boundaries and subsidize terrestrial consumer populations. Contaminants that accumulate in larval aquatic insects and are retained across metamorphosis can increase dietary exposure for riparian insectivores. To better understand potential exposure of terrestrial insectivores to aquatically-derived trace metals, metal concentrations in water and tissues were analyzed from different components of streams and riparian food webs across a large (2–3 orders of magnitude) metal gradient (e.g., Zn, Cu, Cd, Pb) in the Rocky Mountains (USA). Our research indicates that the trace metal concentration gradient present among streams was lost during metamorphosis of aquatic larval insects into terrestrially flying adults, decoupling terrestrial exposures from aquatic concentrations. This pattern was caused by declines in 1) among-stream variation in trace metal concentrations, 2) relationships between metal concentrations in paired water and food web components, and 3) mean metal concentrations within aquatic food webs and across the aquatic-terrestrial boundary. Specifically, among-stream variation in trace metal concentrations was highest for water and aquatic vegetation, intermediate for aquatic insect larvae (~30% lower than water) and lowest for adult aquatic insects and riparian spiders (~65% lower). Metal concentrations in paired water and food web components ranged from highly related across the stream-metal gradient (slopes ~1) for water and aquatic vegetation, to less related (slopes closer to 0) for aquatic vegetation and aquatic insect larvae, to unrelated (slopes ~0) for aquatic larval and adult insects. Finally, mean metal concentrations were highest in aquatic vegetation and lowest in adult aquatic insects emerging from streams (~50% lower than aquatic vegetation). Our results indicate less efficient trophic transfer and higher metamorphic loss of trace metals from high metal streams (i.e., exposure-dependent transfer). For many trace metals, aquatic-terrestrial dietary transfer is unlikely to be an important source of exposure for terrestrial insectivores of adult aquatic insects.

Science of the Total Environment↗

USGS2025

Per- and polyfluoroalkyl substances in surface water and sediment in Great Lakes tributaries and relations with watershed attributes

Per- and polyfluoroalkyl substances (PFAS) are chemicals of emerging concern that potentially pose risks to human and environmental health. In May–Oct 2018, sediment and passively collected surface water samples were collected from 62 tributary sites of the Laurentian Great Lakes with site catchments spanning various land cover types. Discrete samples of sediment collected manually and time-integrated surface water samples collected with polar organic chemical integrative samplers (POCIS) were analyzed for 23 and 34 PFAS, respectively. Concentrations of individual PFAS in sediment and surface water varied immensely among sites from below detection to 20,800 ng kg −1 and 247 ng L −1 , respectively. Of all target compounds, PFOS was the most frequently detected in sediment (56 of 62 sites) and had the highest median concentration (132 ng kg −1 ). PFOA, PFHxS, PFOS, PFHpA, and PFNA (full chemical names are listed in online supplementary material Table S2) were detected in all 60 surface water sites, with median estimated concentrations of 5.9, 5.2, 4.6, 3.7, and 1.3 ng L −1 , respectively. Compounds with 8–13 fluorinated carbons comprised a larger proportion of sediment PFAS than compounds with 4–7 fluorinated carbons, whereas compounds with 4–7 fluorinated carbons comprised a greater proportion of PFAS in surface waters. Watershed attributes, including urban land cover, airports per catchment area, and wastewater treatment plants flow percentage were significantly ( p < 0.05) and positively related with PFAS sum concentrations in sediment and (or) surface water. Collectively, these results, albeit with some uncertainty in the estimated concentrations, highlight the relation PFAS occurrence has with human activities and documents widespread low-level PFAS contamination across the Great Lakes basin.

Great Lakes↗

USGS2005

The effect of creosote on vitellogenin production in rainbow trout (Oncorhynchus mykiss)

As part of a broader investigation into the effects of creosote treatments on the aquatic biota in pond microcosms, we examined the possible implications for vitellogenin (Vtg) production in Oncorhynchus mykiss [rainbow trout (RT)]. Vtg is the precursor of egg yolk protein and has emerged as a useful biomarker of exposure to estrogenic substances. Our a priori intent was to assess the ability of the creosote treatments (nominal cresoste concentrations were 0, 3, and 10 ??l/L immediately after the last subsurface addition) to induce estrogenic responses in RT. The data showed no evidence of an estrogenic response in the treated fish. During the course of the experiment, however, the fish matured and began to produce Vtg, probably in response to endogenous estrogen. A posteriori analysis of the Vtg data from the maturing fish showed that after 28 days, the plasma Vtg concentrations were about 15-fold lower in fish from the creosote-treated microcosms compared with fish from the reference microcosm. Although the experiment design does not permit mechanistic insights, our observation suggests that exposure of female fish to PAH mixtures such as creosote can impair the production of Vtg with possible health implications for embryos and larvae. ?? 2006 Springer Science+Business Media, Inc.

Archives of Environmental Contamination and Toxico↗

USGS2025

Insights and strategic opportunities from the USGS 2024 Per- and Polyfluoroalkyl Substances (PFAS) Interagency Workshop

Introduction In 2021, the U.S. Geological Survey (USGS) published Circular 1490 titled, “Integrated Science for the Study of Perfluoroalkyl and Polyfluoroalkyl Substances (PFAS) in the Environment: A Strategic Science Vision for the U.S. Geological Survey” (Tokranov and others, 2021). Circular 1490 was created to be a resource for USGS scientists prioritizing and planning research related to per- and polyfluoroalkyl substances (PFAS) and to be a guide for developing partnerships with other scientists, State and Federal agencies, and stakeholders engaged in PFAS research and management and mitigation of the environmental and human-health effects of PFAS. This USGS PFAS Strategic Science Vision document was intended to be the foundation for a “living strategic vision,” periodically providing updates on the state of USGS PFAS research, emerging PFAS data gaps and needs, and progress on interagency and stakeholder PFAS partnerships and priorities. To meet this objective, the USGS planned to host an Interagency and Stakeholder PFAS Workshop every 2–3 years. During September 10–12, 2024, the USGS hosted the first Interagency and Stakeholder PFAS Workshop in Reston, Virginia. The Workshop brought together experts from other Federal agencies (U.S. Environmental Protection Agency, National Institute of Environmental Health Sciences, Food and Drug Administration, Department of Defense [Air Force, Army]), State agencies (Washington Fish and Wildlife, Virginia Department of Transportation), and academia (Harvard University, University of Maryland) to address key challenges relating to the measurement and modeling of PFAS and the implications for environmental health. Participants engaged in in-depth discussions centered around six pivotal topics related to PFAS: (1) sampling protocols, methods and interpretation; (2) environmental sources, source apportionment, and occurrence; (3) environmental fate and transport; (4) human and wildlife exposure routes and risk; (5) bioconcentration, bioaccumulation, and biomagnification; and (6) ecotoxicology and effects. Each topic had three breakout sessions. A recurrent theme of workshop discussions was how data on a nationwide scale for PFAS occurrence in various environmental matrices, including air, water, food crops, biota, soil, and streambed sediment could help to advance scientific understanding. Participants noted significant geospatial data gaps, particularly in the midwestern and southern United States and the Pacific Northwest. PFAS data collection tends to be more robust along the eastern seaboard and in California. Participants stressed how enhancing the integration of large and small datasets across various agencies could help to support national scale understanding of PFAS. To address these gaps, attendees suggested leveraging datasets from Federal entities like the USGS and the U.S. Department of Defense, State agencies, and municipal utility services to develop predictive contaminant detection and transport models. Improved coordination between water quality programs and USGS research could help to facilitate access to valuable data, leading to comprehensive databases that inform PFAS point (wastewater treatment plants and landfills) and nonpoint (runoff from land, atmospheric deposition, food packaging) sources, environmental transport mechanisms, environmental detection and concentrations, potential exposure routes, and health effects on different biota, including humans. A specific request was made to develop a map demarking the depth of modern (1953 or later) groundwater, which is susceptible to surface-derived anthropogenic (that is, human-made) contamination, based on tritium-age dating. Emphasis was placed on incorporation of hydrology, groundwater flow paths, groundwater–surface water interactions, and landscape factors in predictive statistical models as a step to improve contaminant source identification and tracking. Molecular fingerprinting approaches garnered attention as techniques to link specific PFAS mixtures detected in a sample to environmental sources and levels in biota (Dávila-Santiago and others, 2022). Integrating data from abiotic (that is, water, soil, and air) and biotic (that is, living organisms) systems identified as a research opportunity. For example, understanding the composition of soils and sediments, which include a mixture of mineral, plant, and animal components, could advance understanding of exposure pathways. The discussions highlighted opportunities to explore and understand the potential redistribution and biotic exposures of PFAS from biosolid and wastewater treatment plant effluent land application practices, in addition to atmospheric releases and discharges from landfill and wastewater treatment plants. Participants identified research gaps surrounding how these sources may contribute to contamination and may affect surrounding ecosystems, including a better definition of anthropogenic background concentrations. Moving forward, the collection of co-occurrence data was noted as a means to improve understanding of complex mixtures and to leverage companion modeling efforts focused on areas with high and low contamination levels to identify areas of concern and unaffected resources. Participants emphasized how centralized USGS databases and the establishment of sample-metadata archives can help to ensure that samples are preserved and accessible for future research. In conclusion, the workshop participants identified opportunities to bridge data gaps and improve measurement techniques, modeling frameworks, databases, and communication, to enhance the understanding of PFAS and their effects on environmental and human health. Upon completion of the workshop, participants indicated an interest in developing strategic data collection, modeling, and analytical approaches to address these challenges.

Open-File Report↗

USGS1965

Preliminary report on investigation of salt springs and seeps in a portion of the Permian Basin in Texas

The Permian Basin (fig. 1) comprises a large area in the southern midcontinent region and includes major portions of Texas, New Mexico, Oklahoma, and Kansas. Within this basin brine springs and seeps discharge more than 20,000 tons per day of sodium chloride (common table salt). This brine contaminates many streams greatly impairing the utility of their waters. The water in some streams is of such poor quality it cannot be used for municipal and industrial purposes and for irrigation. Nor is the problem limited to the Permian Basin. The contaminated streams leaving the Permian Basin bring salty water to downstream areas of Arkansas and Louisiana, as well as to other parts of Texas, New Mexico, Oklahoma, and Kansas. In no comparable area of the interior United States are natural sources of salt water so widespread or deleterious to the fresh water supply of so large a segment of the nation's population and industry. The Brazos River traverses the eastern part of the Permian Basin, and is potentially one of the principal sources of water in Texas. It carries an average daily load of 1,650 tons of sodium chloride (common table salt) into Possum Kingdom Reservoir, about 110 miles west of Dallas. More than 85 percent of this salt is contributed by the Salt Fork Brazos River, and more than one-half originates from Springs and seeps in Croton and Salt Croton Creeks, tributaries to the Salt Fork Brazos River. The undesirably high chloride content of the water impounded in Possum Kingdom Reservoir limits the utility of this water, although it is used for irrigation and by some industries. Understanding of the origin and hydrology of the natural brine is fundamental to consideration of engineering measures to control the flow of salt water to streams, or to general plans to alleviate the situation in any way that includes altering the brine-discharge system. Previous investigations of natural brine features have been directed toward describing the local details of individual problem areas. Thus the occurrence of brine features has been described strictly in terms of the local environment. The origin and discharge of brine have been ascribed invariably to local sources and to local hydraulic controls. The case for local origin of the brine has been stated by Ward and Leonard (1961). According to their hypothesis brines evolve in the circulation of ground water in local hydraulic systems which feature the following conditions: (a) halite deposits or halite-bearing rocks at relatively shallow depth; (b) ground water that circulates to the halite-bearing zones; and (c) a local topographically low area where the water can emerge as a mineral spring. An alternate hypothesis (Greenman and Stevens, 1963) is that the salt springs originate as outcrops of a regional body of brine and that the primary factors determining their distribution are regional hydrologic controls, such as physiography, geology, and climate. The precise location of springs, the nature and amount of discharge, as well as their salinity, depend on secondary hydrologic factors, such as local geologic conditions, local topography that governs the movement of the overlying fresh water, and the hydrologic environment in the vicinity of the springs, which determines the amount of mixing of the brine and the fresh water at each locality. In general, the brine is a water body separate and distinct from the overlying fresh water. The salinity of individual springs is determined by the amount of mixing of the brine with the fresh water not by solution of salt-bearing materials in local hydraulic systems. The geographic zone in which all of the brine springs and seeps occur is determined by regional topographic and perhaps climatic conditions. If the regional hypothesis is true, remedial measures must take into account a set of hydraulic and hydrologic circumstances that is fundamentally different from that postulated previously.

Texas↗

USGS2014

Evaluation of toxicity to the amphipod, Hyalella azteca , and to the midge, Chironomus dilutus ; and bioaccumulation by the oligochaete, Lumbriculus variegatus , with exposure to PCB-contaminated sediments from Anniston, Alabama

The U.S. Environmental Protection Agency (USEPA) requested that as part of the remedial investigation for the Anniston, Alabama Polychlorinated Biphenyl (PCB) Site (Anniston PCB Site), that Pharmacia Corporation and Solutia Inc. (P/S) perform long-term reproduction toxicity tests with the amphipod, Hyalella azteca , and the midge, Chironomus dilutus , and bioaccumulation tests with the oligochaete, Lumbriculus variegatus , using sediment samples collected from reference locations and from Operable Unit 4 of the Anniston PCB Site. The sediment toxicity testing and sediment bioaccumulation results will be used by ARCADIS U.S., Inc. (ARCADIS) as part of a weight-of-evidence assessment to evaluate risks and establish sediment remediation goals for contaminants to sediment-dwelling organisms inhabiting the Anniston PCB Site. The goal of this study was to characterize relations between sediment chemistry and sediment toxicity and relations between sediment chemistry and sediment bioaccumulation in samples of sediments collected from the Anniston PCB Site. A total of 32 samples were evaluated from six test sites and one reference site to provide a wide range in concentrations of chemicals of potential concern (COPCs) including PCBs in samples of whole sediment. The goal of this study was not to determine the extent of sediment contamination across the Anniston PCB Site. Hence, the test sites or samples collected from within a test site were not selected to represent the spatial extent of sediment contamination across the Anniston PCB Site. Sediment chemistry, pore-water chemistry, and sediment toxicity data were generated for 26 sediment samples from the Anniston PCB Site. All of the samples were evaluated to determine if they qualified as reference sediment samples. Those samples that met the chemical selection criteria and biological selection criteria were identified as reference samples and used to develop the reference envelope for each toxicity test endpoint. Physical characterization of samples of whole sediment included analyses of grain size, TOC, and nutrients. Organic chemical characterization of samples of whole sediment included PCB homologs and select (13) PCB congeners, parent and alkylated polycyclic aromatic hydrocarbons (PAHs), organochlorine pesticides, and polychlorinated dibenzo-p-dioxins; and dibenzofurans. The PCB aroclors analyzed included 1016, 1221, 1232, 1242, 1248, 1254, 1260, 1262 and 1268. Analyses of whole sediment also included total metals, simultaneously extracted metals, and acid volatile sulfide. Chemical characterization of samples of pore water isolated from samples of whole sediment at the start of the sediment toxicity exposures or at the start of the sediment bioaccumulation exposures included metals, major cations, major anions, dissolved organic carbon, and additional water-quality characteristics. Concentrations of metals or PCBs in pore water during the sediment toxicity exposures or during sediment bioaccumulation exposures also were determined using peeper samples (for metals) or solid-phase microextraction (SPME) samplers (for PCBs). The bioavailability and bioaccumulation of PCBs in 14 sediment samples were investigated using SPME passive samplers and the 28-d L. variegatus whole-sediment bioaccumulation exposures In general the accumulation of PCBs consistently was predicted through the use of organic carbon normalization and equilibrium partitioning. In these sediments, PCB homologs were accumulated differently based on bioavailability and potential to accumulate in oligochaetes. As part of this assessment homolog specific biota sediment accumulation factor values were developed that could be applied across the larger site to predict tissue levels of PCBs. The whole-sediment toxicity tests done with H. azteca and C. dilutus met the established ASTM and USEPA test acceptability criteria. The most responsive H. azteca endpoints were day 42 survival normalized young per female and day 28 biomass and that the most responsive C. dilutus endpoints were adult biomass and percent adult emergence. Overall, between the two species, the most responsive endpoint assessed for these two species was H. azteca survival-normalized young per female (67 percent of the samples classified as toxic). Concentration-response models (CRMs) and site-specific sediment toxicity thresholds (TTs) were generated with matching sediment chemistry and sediment toxicity data. Sediment chemistry, pore-water chemistry, and sediment toxicity data were evaluated for as many as 26 sediment samples from the Anniston PCB Site. The reference-envelope approach was used to identify the sediment samples that were toxic to benthic invertebrates. This procedure involved identification of reference sediment samples, normalizing the toxicity data to reflect control responses, developing a reference envelope for each toxicity test endpoint, and designating each sediment sample as toxic or not toxic for each toxicity test endpoint, for each species, and for all species combined. These results demonstrated percent emergence of adult C. dilutus , biomass of adult C. dilutus , and reproduction of H. azteca normalized to percent survival were among the most responsive endpoints that were evaluated. Therefore, these endpoints were selected for CRM development. The site-specific TTs for whole sediment provide a reliable basis for identifying toxic and not toxic sediment samples in the Anniston PCB Site (that is, for correctly classifying the sediment samples used to derive the TTs as toxic or not toxic, for the endpoint used to derive the TTs). Among the 69 TTs for sediment, the TT LRs for total PCB homologs [499 to 1,870 micrograms per kilogram dry weight (μg/kg DW)] and for lead [(9.48 to 10.3 milligrams per kilogram (mg/kg) DW] based on reproduction of H. azteca or based on emergence or biomass of adult C. dilutus , were the most reliable. Such TTs had low rates of false negative errors (that is, only 0 to 11 percent of the samples below the TT were toxic to benthic invertebrates), low rates of false positive errors (only 0 to 6 percent of the samples greater than the TT were not toxic to benthic invertebrates), and high rates of correct classification (that is, 92 to 96 percent). The site-specific TTs for PCBs and other COPCs derived in this study also were compared to empirically based sediment quality guidelines (SQGs), to equilibrium-partitioning based SQGs, and to the results of spiked-sediment toxicity tests. The results of this evaluation indicated that the site-specific sediment TTs for PCBs were comparable to the consensus-based SQGs that were derived for PCBs. In addition, the site-specific sediment TTs for PCBs are well within the range of SQGs derived using the equilibrium partitioning approach. The site-specific sediment TTs for PCBs also are consistent with the results of chronic TTs that have been estimated for benthic invertebrates using the results of spiked-sediment toxicity tests. As the site-specific sediment TTs for PCBs are consistent with empirically based SQGs, equilibrium-partitioning based SQGs, and results of sediment-spiking studies, these site- specific sediment TTs likely represent the concentrations of PCBs that are sufficient to cause toxicity to benthic invertebrates (as opposed to simply being correlated with adverse effects on the survival, weight, or reproduction of benthic invertebrates). Importantly, such site-specific sediment TTs have been demonstrated to accurately classify sediment samples as toxic or not toxic to benthic invertebrates at the Anniston PCB Site. In contrast, the TTs for metals, PAHs, and organochlorine pesticides were generally lower than consensus-based SQGs (that is, probable effect concentrations), and LC 50s (median lethal effect concentrations) generated in spiked-sediment toxicity tests, indicating that these COPCs are likely not the main contributors to the observed toxicity of the site sediments evaluated in this study. The reproduction endpoint for H. azteca provided lower TTs compared to the day 28 biomass endpoint for H. azteca and the emergence or biomass endpoints for adult C. dilutus provided lower TTs compared to the day 13 biomass endpoint for C. dilutus .

Alabama↗