USGS ScienceSearch

SEARCH · USGS Science

Results for “Advances in Environmental Research”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

306 records · Page 17Linked to original sources

Linking biophysical models and public preferences for ecosystem service assessments: a case study for the Southern Rocky Mountains

Through extensive research, ecosystem services have been mapped using both survey-based and biophysical approaches, but comparative mapping of public values and those quantified using models has been lacking. In this paper, we mapped hot and cold spots for perceived and modeled ecosystem services by synthesizing results from a social-values mapping study of residents living near the Pike–San Isabel National Forest (PSI), located in the Southern Rocky Mountains, with corresponding biophysically modeled ecosystem services. Social-value maps for the PSI were developed using the Social Values for Ecosystem Services tool, providing statistically modeled continuous value surfaces for 12 value types, including aesthetic, biodiversity, and life-sustaining values. Biophysically modeled maps of carbon sequestration and storage, scenic viewsheds, sediment regulation, and water yield were generated using the Artificial Intelligence for Ecosystem Services tool. Hotspots for both perceived and modeled services were disproportionately located within the PSI’s wilderness areas. Additionally, we used regression analysis to evaluate spatial relationships between perceived biodiversity and cultural ecosystem services and corresponding biophysical model outputs. Our goal was to determine whether publicly valued locations for aesthetic, biodiversity, and life-sustaining values relate meaningfully to results from corresponding biophysical ecosystem service models. We found weak relationships between perceived and biophysically modeled services, indicating that public perception of ecosystem service provisioning regions is limited. We believe that biophysical and social approaches to ecosystem service mapping can serve as methodological complements that can advance ecosystem services-based resource management, benefitting resource managers by showing potential locations of synergy or conflict between areas supplying ecosystem services and those valued by the public.

Regional Environmental Change

Shifting sands: The influence of coral reefs on shoreline erosion from short-term storm protection to long-term disequilibrium

Climate change is exacerbating shoreline erosion and flooding, posing significant risks to coastal communities. Although traditional coastal defenses such as seawalls, dykes, and breakwaters offer protection from these hazards, their high environmental and economic costs are driving interest in cost-competitive nature-based solutions. Coral reef restoration is a nature-based solution that may be particularly apt to mitigate tropical coastal flooding and shoreline erosion while providing benefits to local tourism, fisheries, and nature. However, the novelty of this field requires studies demonstrating the benefits of reefs for coastal protection. While the flood protection benefits of reefs have been well-documented, their effects on shoreline erosion are comparatively less understood. Here, we investigate the effects of coral reefs on shoreline erosion by comparing tropical beach responses at short and long timescales, as well as identifying important reef structural features influencing coastal erosion rates. Our analyses leveraged two key datasets created in this study: the first derived from a literature review on short-term shoreline erosion due to storm events, and another compiling >80 years of long-term erosion rates, bathymetry, habitat, and wave energy for the Hawaiian Islands of Kauaʻi, Oʻahu, and Maui. Our analyses reveal three key findings regarding the effects of reefs on shoreline erosion. Firstly, we find evidence for the role of reefs in mitigating shoreline erosion during storm events, with coral reef-protected beaches experiencing 97 % less beach volume loss than unprotected beaches. Secondly, a linear regression analysis demonstrates that coral reef structure and wave energy are important predictors of long-term shoreline erosion rates, explaining 34 % of the variation across the Hawaiian Islands. Consistent with prior research, we find beaches protected by coral reefs with shallow reef crests, wide reef flats, calmer offshore conditions, and positioned farther from the shore exhibit lower erosion rates than others. Finally, when comparing historical erosion rates of protected and unprotected beaches in Hawai'i, we find a seemingly incongruous pattern where coral reef-protected beaches eroded up to 2x faster than beaches without reefs. While the cause of the enhanced erosion is yet to be fully understood, a combination of coral reef structural degradation and sea-level rise is likely shifting the equilibrium profiles of reef-protected beaches inshore. These results emphasize the role of coral reefs in reducing coastal erosion during storm events while revealing contrasting erosion patterns over long timescales. Future studies would ideally broaden the scope to include various regions, utilize advanced sediment transport models, and undertake field experiments to deepen our understanding of coral reef-coupled shoreline dynamics.

Nature-Based Solutions

Perspectives on equitable co-production workshop report

The co-production of knowledge is increasingly recognized as an approach to conducting research intended to achieve a societal impact. In this study, we used a broad definition of co-production, defining it as “a process that brings together diverse groups to iteratively create new knowledge and practices (1).” However, co-production has been defined and conceptualized in a variety of ways (2,3), across multiple domains, including public administration, conservation, health, education, and climate change. Theoretical definitions have been introduced by scholars like Jasanoff (4) and Ostrom (5), but definitions can also be grounded in practice (6). For example, unique definitions of co-production have been advanced for work with Arctic Indigenous Peoples (7), in the context of resource management (8), and for a specific program (9). Other similar processes of engagement, such as community-based participatory research (10), action research (11), civic science (12), community science (13), and post-normal science (14) may have overlap with the concept of co-production and have been used to describe similar processes of collaboration. These distinctions and varying definitions have been discussed extensively elsewhere (see Mach et al. 2020, Wyborn et al. 2019). In the context of co-production, power plays a crucial role in shaping interactions and outcomes. Some scholars and practitioners explicitly consider power dynamics as a central element in their definitions of co-production, recognizing how power imbalances can affect participation, decision-making, and the distribution of benefits. Others, however, might not emphasize power as prominently, focusing more on the collaborative aspects without explicitly addressing the underlying power structures. This leads to divergent objectives and priorities among projects claiming to be co-produced (2,3, 6). Chambers and colleagues (2) discussed how co-production projects in the context of sustainability usually emphasize one or more of six different goals, including: researching solutions, empowering voices, brokering power, reframing power, navigating differences, and reframing agency. Because power dynamics are inherent in co-production (15), equity dimensions should be considered in these definitions and conceptualizations. Yet, in the context of government or academically led climate change research and programs, equity is a relatively new focus, even among programs that have been engaging a co-production approach for decades (9). Alternatively, in some recent work the concept of equity in co-production is explicit, but it has only been considered in a limited context (7). Here, we present a discussion about co-production that is informed by research, practice, and community perspectives across partnerships from a range of regions and topics. We are specifically interested in how different actors in these projects think about equity and work towards more equitable approaches in the context of their co-production work. This understanding is needed, as the federal government has increasingly focused on co-production approaches in the design of their programs and funding calls, and most recently the Biden administration has called on federal agencies to more intentionally center equity for underserved groups of people in their work (16). Furthermore, with the Biden administration’s focus on environmental and climate justice, the opportunity for researchers and their societal partners to engage in co-production is expanding. Numerous programs within federal agencies have embraced a co-production approach, such as the National Oceanic and Atmospheric Administration (NOAA) Climate Adaptation Partnerships (CAP; formerly called the Regional Integrated Sciences and Assessments or RISA program) (9,17), Department of the Interior (DOI) Climate Adaptation Science Centers (CASCs)(18), and the US Department of Agriculture (USDA) Climate Hubs. However, the actual implementation of co-production processes varies significantly (1,19), with multiple implications for the design of equitable partnerships. Researchers, their partners, and funders have frequently cited many tensions and challenges in the successful implementation of co-production, including higher resource demands and few systemic structures for support (20). Practically implementing co-production, especially with people who have been underrepresented in or historically excluded from research activities, must consider fairness and the accessibility of co-production processes. While co-production is often cited as important for environmental governance, issues like power and equity are infrequently addressed (15). To explore this topic, we identified and studied three projects that centered on equity in co-production from three federal climate programs (CASC, CAP, USDA Climate Hubs) in three different regions of the U.S. (Alaska, Northeast, Southeast). We aimed to identify consensus or divergence in perspectives related to equitable co-production processes to elevate effective practices and link co-production research and practice. Findings from interviews and a survey (explained further in Akerlof et al., 2023) informed a twoday hybrid workshop involving participants from the three case studies, as well as individuals representing research, governmental, non-governmental, and community organizations across the United States. Participants also included scholars of co-production, program coordinators, and people who participated in co-production projects on behalf of their communities. Several boundary spanners, those practitioners who work at the intersection of the production and use of science (21,22), also attended the workshop. The goals of the workshop were to discuss and build on what was learned from the three case studies, discuss the three distinct perspectives on equitable co-production that emerged from the pre-workshop research, and draft a framework for equitable co-production processes. During the workshop, participants considered the three perspectives on equitable co-production, defining equitable co-production for each and discussing the practical implications of each, including barriers and priorities for overcoming them. We aimed to address the question: How can federal climate programs support equitable co-production processes?

Report

Comparison of seven DNA metabarcoding sampling methods to assess diet in a large avian predator

DNA metabarcoding is a rapidly advancing tool for diet assessment in wildlife ecology. Studies have used a variety of field collection methods to evaluate diet; however, there is a pressing need to understand the differences among sampling methods and the downstream inferential consequences they may have on our ability to document diet accurately and efficiently. We evaluated seven DNA metabarcoding sampling methods to assess the diet of a large avian predator: Buteo lagopus (rough-legged hawk). We collected beak swabs, talon swabs, cheek (buccal) swabs, cloacal swabs, and cloacal loops from captured birds, and collected fecal samples from both captured and uncaptured birds. We described and compared variation in prey recovery within and among the seven sampling methods and identified appropriate analytical methods to compare diet among individuals sampled via different methods. Beak and talon swabs produced the highest prey detection rates, yielded the greatest prey richness per sample, and contributed the most to an individual's total prey richness per sampling occasion compared to other sampling methods. Within individuals sampled using five methods during a single capture occasion, cloacal swabs and cheek swabs positively predicted prey richness and average prey mass, respectively, from fecal samples. While all methods identified similar dominant prey taxa that were consistent with prior diet studies, beak and talon swabs detected greater prey richness at both the individual and population levels. We propose a food residue duration hypothesis whereby methods which sample areas containing food DNA consumed from longer and more continuous pre-sampling time intervals explain variation among sampling methods in observed prey richness. Choice of sampling method can influence predator diet characterization and is particularly important if researchers wish to quantify uncommon diet items or compare diet metrics using samples collected via different methods.

Environmental DNA

Coproduction and modeling spatial contact networks prevent bias about infectious hematopoietic necrosis virus transmission for Snake River Basin salmonids

Much remains unknown about variation in pathogen transmission across the geographic range of a free-ranging fish or animal species and about the influence of movement (associated with husbandry practices or animal behavior) on pathogen transmission. Salmonid hatcheries are an ideal system in which to study these processes. Salmonid hatcheries are managed for endangered species recovery, supplementation of threatened or at-risk fish stocks, support of fisheries, and ecosystem stability. Infectious hematopoietic necrosis virus (IHNV) is a rhabdovirus of significant concern to salmon aquaculture. Landscape IHNV transmission dynamics previously had been estimated only for salmonid hatcheries in the Lower Columbia River Basin (LCRB). The objectives of this study were to estimate IHNV transmission dynamics in a unique geographic region, the Snake River Basin (SRB), and to quantitatively estimate the effect of model coproduction on inference because previous assessments of coproduction have been qualitative. In contrast to the LCRB, the SRB has hatchery complexes consisting of a main hatchery and ≥1 satellite facility. Knowledge about hatchery complexes was held by a subset of project researchers but would not have been available to project modelers without coproduction. Project modelers generated and tested multiple versions of Bayesian susceptible-exposedinfected models to realistically represent the SRB and estimate the effect of coproduction. Models estimated the frequency of transmission routes, route-specific infection probabilities, and infection probabilities for combinations of salmonid hosts and IHNV lineages. Model results indicated that in the SRB, avoiding exposure to IHNV-positive adult salmonids is the most important action to prevent juvenile infections. Migrating adult salmonids exposed juvenile cohort-sites most frequently, and the infection probability was greatest following exposure to migrating adults. Without coproduction, the frequency of exposure by migrating adults would have been overestimated by 70 cohort-sites, and the infection probability following exposure to migrating adults would have been underestimated by∼0.09. The coproduced model had less uncertainty in the infection probability if no transmission route could be identified (Bayesian credible interval (BCI) width = 0.12) compared to the model without coproduction (BCI width = 0.34). Evidence for virus lineage MD specialization on steelhead and rainbow trout (both Oncorhynchus mykiss) was apparent without model coproduction. In the SRB, we found a greater probability of virus lineage UC infection in Chinook salmon (Oncorhynchus tshawytscha) compared to in O. mykiss, whereas in the LCRB, UC more clearly exhibited a generalist approach. Coproduction influenced estimates that depended on transmission routes, which operated differently at main hatcheries and satellite sites within hatchery complexes. Hatchery complexes are found outside of the SRB and are not specific to salmonid hatcheries alone. There is great potential for coproduction and modeling spatial contact networks to advance understanding about infectious disease transmission in complex production systems and surrounding free-ranging animal populations.

Idaho, Oregon, Washington

Reassessing water availability in the Nile River Basin using satellite-based irrigation water use accounting

Existing estimates of irrigation areas and water use in the Nile River Basin vary widely and are based on inconsistent data and methodologies. This study leverages advances in remote sensing to provide an up-to-date and consistent basin-wide reassessment of water use in the Nile River Basin. Land cover and actual evapotranspiration data from 2013 to 2022 were used to quantify irrigated areas, irrigation water use, and the average naturalized water yield. Across the basin, 7.1 million hectares of irrigated land consume an average of 72.5 ± 2.6 billion cubic meters (BCM) of blue water annually. Egypt and Sudan together account for 92% of the irrigated area and 97% of the irrigation water use. The basin’s average naturalized yield, evaluated at Dongola station, is determined to be between 108 and 114.4 ± 3.2 BCM. Although conservative, this updated analysis indicates the basin’s average naturalized yield is 14%–20% higher than the previous naturalized yield estimate (95 BCM) and 29%–36% higher than the commonly cited observed flow of 84 BCM, which is frequently treated as the total basin-wide available water. Importantly, the study underscores that the 84 BCM represents flow at the Aswan gauging station after upstream consumptive uses, not the total water available in the basin under naturalized conditions. This distinction is critical for accurate water accounting, planning, and governance in this water-scarce basin. This study demonstrates the value of open-source remote sensing resources in data-scarce regions while emphasizing the need for region specific validation and bias correction for improved accuracy.

Nile River Basin

Cooperative Fish and Wildlife Research Units program—2018 year in review

The Cooperative Fish and Wildlife Research Units (CRU) program had an interesting and challenging year in 2018. We made significant strategic advances on many fronts and had setbacks in others. Our relationship with the U.S. Fish and Wildlife Service, the agency we belonged to from 1935 to the mid-1990s, was further reinforced through strategic efforts with the Service’s Science Applications senior staff. This is bearing fruit in terms of research collaborations and funding support. As part of a larger effort between the U.S. Geological Survey (USGS) Ecosystems Mission Area and the Service’s endangered species program, we are also collaborating to address science needs for species in pre-listing status. Barry Grand, Unit Supervisor (South), has been instrumental in this effort. Tom Edwards of the Utah Unit has met with representatives of the U.S. Fish and Wildlife Service and the Association of Fish and Wildlife Agencies to promote training of leaders and “hands dirty” biologists in species distribution modeling. The Association passed a unanimous resolution endorsing the training at their midyear meeting in March. Tom held a workshop at the annual meeting of the Association of Fish and Wildlife Agencies in September, and future workshops, supported by the U.S. Fish and Wildlife Service, will be held bringing State agency and U.S. Fish and Wildlife Service biologists together to work on species of common concern. Wyoming Unit Leader Matt Kauffman’s pioneering work in identifying and mapping big-game migration corridors has captured the attention of conservationists far and wide. In the spring, the Secretary of the Interior signed Secretarial Order No. 3362, "Improving Habitat Quality in Western Big-Game Winter Range and Migration Corridors" directing efforts of several U.S. Department of the Interior (DOI) bureaus to collaborate with States in identifying and protecting big-game corridors in 11 States. Matt has conducted several workshops that directly support the Secretarial order, and more are planned. Corridor mapping efforts supported by the USGS and the DOI, based in the States and coordinated by Matt, are unfolding. Unit Administrative Officer Shana Coulby and her staff hosted a training program for university support staff at USGS National Headquarters in March. Shana’s team did a superb job, and the camaraderie among all was evident. We co-sponsored the third in a series of workshops at the North American Wildlife and Natural Resources Conference in March on bridging the gap between science and management. The State Department requested that we coordinate a workshop that would bring CRU scientists and other U.S. representatives together with Brazilian, Colombian, and Peruvian scientists and decision makers to develop best practices to minimize environmental damage from infrastructure development in the Amazon and to collaborate on science needs. The workshop was held in Iquitos, Peru, in the heart of the Amazon during August. Our cooperator community, represented by the National Cooperators Coalition, was very active in response to the President’s budget proposal that would have redirected funding for the CRU program to other priorities. Their efforts are reflected in the House and Senate marks on the fiscal year 2019 budget that not only restored funding, but recommended increases. You will see in this report many other accomplishments of our individual scientists and students during 2018. It was an impressive and productive year! What you won’t see chronicled is the work of the CRU headquarters staff and University support staff. These folks are extraordinary in their dedication to working with cooperators and scientists to solve problems and ensure the important work gets accomplished with minimal interference. We are truly fortunate to have such skilled and dedicated folks in the trenches. I was fortunate to visit several units during 2018. For me, this is the most enriching part of my duties. I get to see firsthand the work our scientists do, the incredible students being mentored, and meet our cooperators on their turf. As we look forward towards the horizon, 2019 looks brighter for the CRU program. Efforts by our cooperators to generate support for filling our vacancies are materializing. Our cadre of scientists is second to none, and the breadth and depth of our work are nothing short of impressive. Thanks to all who are part of this cooperative endeavor—conservation is the ultimate winner in our efforts!

Circular

Non-native Rhizophora mangle as sinks for coastal contamination on Moloka'i, Hawai'i

Coastal mangrove forests provide a suite of environmental services, including sequestration of anthropogenic contamination. Yet, research lags on the environmental fate and potential human health risks of mangrove-sequestered contaminants in the context of mangrove removal for development and range shifts due to climate change. To address this, we conducted a study on Moloka'i, Hawai'i, comparing microplastic and pesticide contamination in coastal compartments both at areas modified by non-native red mangroves ( Rhizophora mangle ) and unmodified, open coastline. Sediment, porewater, and mangrove plant tissues were collected to quantify microplastic and pesticide concentrations across ecosystem type. Average microplastics were similar between mangrove (8.89 items/kg) and non-mangrove areas (9.01 items/kg) in sediment and porewater, but mangrove roots were a substantial reservoir of microplastics (2004 items/kg). Additionally, there was a strong relationship between proximity to urban development and microplastics detected. Six pesticides were detected, most commonly the insecticide bifenthrin, found in most sediment samples (11.3 ng/g), all root samples (243.3 ng/g), and one propagule sample (8.60 ng/g). Other pesticides detected with appreciable concentrations include the neonicotinoid insecticide imidacloprid and the legacy insecticide transformation product, p,p’-DDE. The other detections, all at concentrations < 1 ng/g, were p,p’-DDT, trifluralin, and permethrin. The high concentrations of bifenthrin in roots compared to lower concentrations detected in sediment suggest that mangrove roots strongly accumulate some pesticides, indicating mangrove roots as a sink for organic contaminants. Study methods could be applied to other Hawaiian Islands and other locations where mangroves have been introduced to further examine the observed trends. Additional information is needed to investigate the fate and cycling of pesticides and microplastics adhered to mangrove roots, to better inform non-native mangrove removal efforts on Moloka'i and elsewhere.

Hawaii

Assessment of the potential for in-plume sulphur dioxide gas-ash interactions to influence the respiratory toxicity of volcanic ash

Background Volcanic plumes are complex environments composed of gases and ash particles, where chemical and physical processes occur at different temperature and compositional regimes. Commonly, soluble sulphate- and chloride-bearing salts are formed on ash as gases interact with ash surfaces. Exposure to respirable volcanic ash following an eruption is potentially a significant health concern. The impact of such gas-ash interactions on ash toxicity is wholly un-investigated. Here, we study, for the first time, whether the interaction of volcanic particles with sulphur dioxide (SO 2 ) gas, and the resulting presence of sulphate salt deposits on particle surfaces, influences toxicity to the respiratory system, using an advanced in vitro approach. Methods To emplace surface sulphate salts on particles, via replication of the physicochemical reactions that occur between pristine ash surfaces and volcanic gas, analogue substrates (powdered synthetic volcanic glass and natural pumice) were exposed to SO 2 at 500 °C, in a novel Advanced Gas-Ash Reactor, resulting in salt-laden particles. The solubility of surface salt deposits was then assessed by leaching in water and geochemical modelling. A human multicellular lung model was exposed to aerosolised salt-laden and pristine (salt-free) particles, and incubated for 24 h. Cell cultures were subsequently assessed for biological endpoints, including cytotoxicity (lactate dehydrogenase release), oxidative stress (oxidative stress-related gene expression; heme oxygenase 1 and NAD(P)H dehydrogenase [quinone] 1) and its (pro-)inflammatory response (tumour necrosis factor α, interleukin 8 and interleukin 1β at gene and protein levels). Results In the lung cell model no significant effects were observed between the pristine and SO 2 -exposed particles, indicating that the surface salt deposits, and the underlying alterations to the substrate, do not cause acute adverse effects in vitro . Based on the leachate data, the majority of the sulphate salts from the ash surfaces are likely to dissolve in the lungs prior to cellular uptake. Conclusions The findings of this study indicate that interaction of volcanic ash with SO 2 during ash generation and transport does not significantly affect the respiratory toxicity of volcanic ash in vitro . Therefore, sulphate salts are unlikely a dominant factor controlling variability in in vitro toxicity assessments observed during previous eruption response efforts.

Environmental Research

Mortality monitoring design for utility-scale solar power facilities

Introduction Solar power represents an important and rapidly expanding component of the renewable energy portfolio of the United States (Lovich and Ennen, 2011; Hernandez and others, 2014). Understanding the impacts of renewable energy development on wildlife is a priority for the U.S. Fish and Wildlife Service (FWS) in compliance with Department of Interior Order No. 3285 (U.S. Department of the Interior, 2009) to “develop best management practices for renewable energy and transmission projects on the public lands to ensure the most environmentally responsible development and delivery of renewable energy.” Recent studies examining effects of renewable energy development on mortality of migratory birds have primarily focused on wind energy (California Energy Commission and California Department of Fish and Game, 2007), and in 2012 the FWS published guidance for addressing wildlife conservation concerns at all stages of land-based wind energy development (U.S. Fish and Wildlife Service, 2012). As yet, no similar guidelines exist for solar development, and no published studies have directly addressed the methodology needed to accurately estimate mortality of birds and bats at solar facilities. In the absence of such guidelines, ad hoc methodologies applied to solar energy projects may lead to estimates of wildlife mortality rates that are insufficiently accurate and precise to meaningfully inform conversations regarding unintended consequences of this energy source and management decisions to mitigate impacts. Although significant advances in monitoring protocols for wind facilities have been made in recent years, there remains a need to provide consistent guidance and study design to quantify mortality of bats, and resident and migrating birds at solar power facilities (Walston and others, 2015). In this document, we suggest methods for mortality monitoring at solar facilities that are based on current methods used at wind power facilities but adapted for the unique conditions encountered at solar facilities. In particular, unlike at wind-power facilities, the unimpeded access to almost all areas within the facilities, the typically flat terrain, and general absence of thick vegetation allow distance-sampling techniques (Buckland and others, 2001, 2004) to be exploited to advantage at industrial solar sites. These protocols build on the work of Nicolai and others (2011), and as our understanding and techniques for monitoring improve, the methods may be further modified to incorporate improvements in the future. We present case studies based on monitoring methods currently implemented at different utility-scale solar facilities to illustrate how distance-sampling techniques may improve overall detectability without substantially increasing costs. Every facility is unique, and the protocols presented may be adapted based on specific monitoring objectives and conditions at each site. We provide guidance for designing monitoring programs whose objective it is to estimate the total number of bird and bat fatalities occurring at a facility over an extended period of time. We address spatial variation in causes of mortality, as well as potential sources of imperfect detection, for example, animals falling in or moving to unsearched areas, carcasses removed by predators, and carcasses missed by searchers. We suggest methods to estimate and account for each source of imperfect detection. This document focuses on monitoring design only and does not discuss approaches for estimating mortality from collected data. The development of statistically sound estimators relevant to the solar context is a current topic of research, although there are already strong foundations for estimation with distance-sampling methods in similar open, arid environments (Anderson and others, 2001; Freilich and others, 2005). Nonetheless, if protocols described in this document are followed, the resulting data will be adequate and sufficient for estimating mortality using newly formulated estimators.

Open-File Report

Ecological risks of shale oil and gas development to wildlife, aquatic resources and their habitats

Technological advances in hydraulic fracturing and horizontal drilling have led to the exploration and exploitation of shale oil and gas both nationally and internationally. Extensive development of shale resources has occurred within the United States over the past decade, yet full build out is not expected to occur for years. Moreover, countries across the globe have large shale resources and are beginning to explore extraction of these resources. Extraction of shale resources is a multistep process that includes site identification, well pad and infrastructure development, well drilling, high-volume hydraulic fracturing and production; each with its own propensity to affect associated ecosystems. Some potential effects, for example from well pad, road and pipeline development, will likely be similar to other anthropogenic activities like conventional gas drilling, land clearing, exurban and agricultural development and surface mining (e.g., habitat fragmentation and sedimentation). Therefore, we can use the large body of literature available on the ecological effects of these activities to estimate potential effects from shale development on nearby ecosystems. However, other effects, such as accidental release of wastewaters, are novel to the shale gas extraction process making it harder to predict potential outcomes. Here, we review current knowledge of the effects of high-volume hydraulic fracturing coupled with horizontal drilling on terrestrial and aquatic ecosystems in the contiguous United States, an area that includes 20 shale plays many of which have experienced extensive development over the past decade. We conclude that species and habitats most at risk are ones where there is an extensive overlap between a species range or habitat type and one of the shale plays (leading to high vulnerability) coupled with intrinsic characteristics such as limited range, small population size, specialized habitat requirements, and high sensitivity to disturbance. Examples include core forest habitat and forest specialists, sagebrush habitat and specialists, vernal pond inhabitants and stream biota. We suggest five general areas of research and monitoring that could aid in development of effective guidelines and policies to minimize negative impacts and protect vulnerable species and ecosystems: (1) spatial analyses, (2) species-based modeling, (3) vulnerability assessments, (4) ecoregional assessments, and (5) threshold and toxicity evaluations.

Environmental Science & Technology

Surficial sediment character of the New York-New Jersey offshore continental shelf region: A GIS compilation

Broad continental shelf regions such as the New York Bight are the product of a complex geologic history and dynamic oceanographic processes, dominated by the Holocene marine transgression (>100 m sea-level rise) following the end of the last Pleistocene ice advance ~ 20,000 years ago. The area of the U.S. Exclusive Economic Zone (U.S. EEZ) territory, extending 200 nautical miles seaward from the coast, is larger than the continental U.S. and contains submerged landforms that provide a variety of natural functions and societal benefits, such as: critical habitats for fisheries, ship navigation and homeland security, and engineering activities (i.e. oil and gas platforms, pipeline and cable routes, potential wind-energy-generation sites). Some parts of the continental margins, particularly inner-continental shelf regions, also contain unconsolidated hard-mineral deposits such as sand and gravel that are regarded as potential aggregate resources to meet or augment needs not met by onshore deposits (Williams, 1992). The present distribution of surficial sediment off the northeastern United States is shaped from the deposits left by the last glaciation and reflects the cumulative effects of sediment erosion, transport, sorting, and deposition by storm and tidal processes during the Holocene rise in sea level. As a result, the sediments on the sea floor represent both an historical record of former conditions and a guide to possible future sedimentary environments. The U.S. Geological Survey (USGS) through the Coastal and Marine Geology Program, in cooperation with the University of Colorado and other partners, has compiled extant sediment character and textural data as well as other geologic information on the sea floor from all regions around the U.S. into the usSEABED data system (Reid and others, 2005; Buczkowski and others, 2006; Reid and others, 2006). The usSEABED system, which contains information on sediment grain size and lithology for more than 340,500 stations within the U.S. EEZ. has been developed and populated with data as part of the USGS Marine Aggregate Resources and Processes and the National Benthic Habitats projects in order to provide the base-line data needed to update the current maps of offshore surficial geologic character and sediment distribution. The maps are also used to characterize benthic sea floor environments important for marine ecosystems. U.S. Geological Survey, Data Series 118 (Reid and others, 2005), of the usSEABED data release series, represents the combined efforts of the USGS and several other government agencies to provide a unified resource for accessing and preserving records of U.S. east coast sea floor geologic information and sediment texture data. For this present report, we have chosen to focus on the New York-New Jersey region, an area that has been intensely studied by the USGS for many years to address many complex issues. This report illustrates the uses of the usSEABED database for GIS applications, while offering additional insight into the resources and data available from the USGS and its collaborative institutions. This report is based on data contained in U.S. Geological Survey Data Series 118 (Reid and others, 2005) and shows an assortment of example GIS products that are possible using usSEABED. All data are intended to be GIS-ready and should not require any additional cleanup, formatting, or renaming of fields in order to use the data in a Geographic Information System. This project employs the Environmental Systems Research Institute's (ESRI) ArcView™ software. Many of these maps were made as part of the ongoing USGS study to assess marine aggregate resources offshore New York and New Jersey, but these maps can serve many other purposes. The marine science community, educators, students and others are encouraged to use these data to generate GIS products for their own purposes. The objectives of the Marine Aggregate Resources and Processes project are to produce a series of new geologic maps and reports of the sea floor that will provide scientific insights into the character and geologic development of U.S. continental margins and to use these maps and information to assess the potential availability of offshore sand and gravel resources. The mapping and aggregate resource assessments are being conducted on a national scale using the usSEABED data base as described in Williams and others (2003). Potential uses for these data include: (1) defining the geological variability of the sea floor in relation to benthic habitat diversity; (2) improving our understanding of the processes that control the distribution and transport of bottom sediments and benthic habitats; (3) locating aggregate resources for beach nourishment and industrial applications; and (4) providing a detailed geospatial framework for future marine science research, monitoring, and management activities. The initial assessments are in progress for the New York Bight and Louisiana offshore areas.

New Jersey, New York

This week?s Citation Classic: 'Stickel, L. F. A comparison of certain methods of measuring ranges of small mammals. J. Mammalogy 35: 1-15, 1954.'

During my first employment as a junior biologist conducting food habits analyses at the Patuxent Research Refuge (now Patuxent Wildlife Research Center) of the US Fish and Wildlife Service, the first station director, Arnold L. Nelson, gave each staff biologist the opportunity to spend a little time conducting field studies on the 2,600-acre research area. These studies were to help in ecological evaluation of the area, but also, no doubt, functioned as a morale builder for biologists daily engaged in difficult, demanding and confining laboratory work. I undertook to measure the population density of small mammals in different habitats. The state-of-the-art methods recommended to me and prevalent in the literature worried me, especially after preliminary field work. Reading the classic, paper by W.H. Burt [Terrioriality and home range concepts as applied to mammals. J. Mammalogy 24:346-352, 1943] was a turning point for me in seeing that knowledge of home-range size was the key to measuring population density. My first papers employed these concepts in field evaluations. However, they could give-only limited attention to the question of how home ranges could be measured. Furthermore, the importance of knowledge of the home range to habitat evaluation and to understanding animal behavior was becoming increasingly apparent. Advocacy of many different methods of measuring home ranges appeared in the literature. It did not seem possible to evaluate them objectively. It occurred to me that artificial populations could be used to help in understanding the mechanisms of measuring home ranges. The effects of random trap-visiting, bias toward central traps, trap-spacing, range shape, and other factors could be considered. So grids of traps were inked onto oversize graph paper, and simulated ranges were cut from plastic to be tossed as randomly as possible on the trap-grids. It was a slow, laborious job. Analysis showed that random captures in artificial populations produced patterns that were similar in many ways to those observed in field studies; the necessity of appropriate trap-spacing in relation to range size became obvious. Some commonly used methods of expressing range size proved to be clearly superior to others. However, the artificial populations could not fully simulate actual populations, where use patterns changed as conditions changed and the ?boundaries? of ranges tended to shift continuously or with time. Progress was made, but problems remained. I suspect that the reasons the paper has been cited frequently rest on the continuing interest in home-range behavior and the continuing difficulty in field evaluations, despite the many advances in observational methodology. The sophisticated techniques that became possible with the use of computers [R.I. Jennrich and F.B. Turner. Measurement of non-circular home range. J. Theor. Biol 23:227-237, 1969] also presented new possibilities for analysis and understanding of home-range characteristics and created a resurgence of interest in home-range behavior and its biological significance.

Current Contents / Agriculture, Biology & Environm

Research, monitoring, and evaluation of emerging issues and measures to recover the Snake River Fall Chinook Salmon ESU: January 2019 - December 2019

The portion of the Snake River fall Chinook salmon Oncorhynchus tshawytscha evolutionary significant unit (ESU) that spawns upstream of Lower Granite Dam transitioned from low to high abundance during 19922019 in association with U.S. Endangered Species Act recovery efforts and other federally mandated actions. This annual report focuses on (1) numeric and habitat use responses by natural- and hatchery-origin spawners, (2) phenotypic and numeric responses by natural-origin juveniles, and (3) use of a small unmanned aerial system (sUAS) to search for fall Chinook salmon redds and carcasses. Spawners have located and used most of the available spawning habitat and that habitat is gradually approaching redd capacity. Timing of spawning and fry emergence have been relatively stable, but effects of density dependence are evident in juvenile life stages. Apparent abundance of juvenile fall Chinook salmon has increased and we noted the following responses: parr dispersal from riverine rearing habitat into Lower Granite Reservoir has become earlier; growth rate (g/d) and dispersal size of parr declined; and passage timing of smolts from the two Snake River reaches has become earlier and downstream movement rate faster. These findings coupled with stock-recruitment analyses presented in this report provide evidence for density-dependence in the Snake River reaches and in Lower Granite Reservoir that was influenced by the expansion of the recovery program. The long-term goal is to use this information in a comprehensive modeling effort to conduct action-effectiveness and uncertainty research and to inform Fish Population, Hydrosystem, Harvest, Hatchery, and Predation and Invasive Species Management Research, Monitoring, and Evaluation (RM&E) progams. In 2019, the U.S. Geological Survey (USGS) shifted survey efforts in the Snake River toward deepwater redd searches and fish collection for parentage-based tagging (PBT) analyses because all unmanned aerial system (UAS) activities were suspended by the Department of the Interior two weeks into the spawning season. We counted 81 deepwater redds at 17 of the 29 sites surveyed. Redd depths averaged 3.6 m. We collected a total of 123 live fall Chinook salmon from 16 unique geographic locations that spanned 55 river kilometers. Forty-six fish were recovered at Eureka Bar (rkm 307.1) and Kirby Creek (rkm 352.0), which accounted for 37% of all collected fish in 2019. Most (73 fish) post-spawned salmon were collected from early to mid-November just after peak spawning. A summary of 2019 PBT results can be found in Appendix A.1. In 2019, we PIT tagged subyearling fall Chinook salmon in both the Snake and Clearwater rivers. In the Snake River, we tagged 410 fish with 8-mm tags, 666 fish with 9-mm tags, and 1,082 fish 12-mm tags. During seining, our recapture rate of previously tagged fish was slightly higher in the lower reach at 11.4% than in the upper reach at 10.6%. In an effort to represent more of the population through tagging, we tagged fish as small as 45 mm with 8-mm tags at one site in the upper reach. This allowed us to increase the number of fish tagged in that reach by 17.7%. An additional 10.6% of collected fish could have been tagged in the lower reach had we used 8-mm tags in that reach. In the Clearwater River, we tagged 2,451 subyearlings and recaptured 260 (10.6%) fish in the river and 66 fish (48 tagged by USGS, 18 tagged by the Nez Perce Tribe) at Lower Granite Dam during October to provide information for growth estimation. Within riverine habitats, growth in both length and mass were higher for fish tagged with 8-mm tags than with 9- and 12-mm tags. Estimated growth in length and mass of subyearlings was higher in Lower Granite Reservoir than in riverine habitats. We adapted existing statistical models used to estimate abundance of steelhead and spring/summer Chinook salmon for fall Chinook salmon passing Lower Granite Dam. Run reconstruction efforts to date at Lower Granite Dam for Snake River fall Chinook salmon have provided estimates of the number of returning adults but with no measure of uncertainty about the estimates. The objective of this study was to estimate the abundance, with uncertainty, of marked (coded-wire tagged CWT or adipose clipped) and unmarked fall Chinook salmon past Lower Granite Dam for return years 20032018. Estimating uncertainty is important for informing the state-space life cycle model (Chapter 5), which incorporates both observation and process uncertainty into parameter estimates. The coefficient of variation (CV) for log- abundance was 1.0% or less in all years, whereas the CV for abundance averaged 4.2% and ranged from 1.4% to 10.4% among years. Over the past five years, we have been developing a two-stage state-space life-cycle model for naturally produced fall Chinook salmon in the Snake River basin. Initial efforts focused on generating juvenile and adult abundance estimates, with estimates of uncertainty, for informing the life-cycle model. In this report we 1) describe the statistical life-cycle model and improvements made since our last report to the Independent Scientific Advisory Board (ISAB), 2) estimate the effects of covariates on key demographic parameters, and 3) use the fitted life- cycle model to simulate population trajectories under hydrosystem actions proposed for the NOAA 2020 Biological Opinion (hereafter, the Proposed Action). Major recent advancements to the model include revised juvenile abundance estimates, the ability to estimate smolt-to-adult return rates (SAR) separately for subyearling and yearling juvenile fall Chinook salmon, and improvements in the observation model for estimating age, sex, and outmigration structure in adult returns. We examined the effect of numerous environmental, hydrosystem, and ocean covariates on key demographic parameters but only a few covariates were significant. For the adult-to-juvenile transition, we found the maximum weekly river flows during the winter egg- incubation period had a significant negative effect on the juvenile outmigrant abundance from that brood year. For subyearling outmigrants, percent spill during the summer had a significant positive effect on SAR and the mean winter PDO (Pacific Decadal Oscillation) had a significant negative effect on SAR. For yearling outmigrants, NPGO (North Pacific Gyre Oscillation) had a significant positive effect on SAR. We used the fitted model to simulate population trajectories under the Proposed Action, and the median 10-year geometric mean abundance was 8,222 female spawners (interquartile range: 2,592 26,714). Overall, the probability of quasi- extinction (probability of falling below 50 female spawners for 4 consecutive years) was low, with only 1.6% of all simulations having a quasi-extinction probability >0.95. Although quasi-extinction probability was low, we did not assess the additional effect of climate change, which would be expected to increase quasi-extinction probability.

Idaho, Oregon, Washington

Historical methane hydrate project review

In 1995, U.S. Geological Survey made the first systematic assessment of the volume of natural gas stored in the hydrate accumulations of the United States. That study, along with numerous other studies, has shown that the amount of gas stored as methane hydrates in the world greatly exceeds the volume of known conventional gas resources. However, gas hydrates represent both a scientific and technical challenge and much remains to be learned about their characteristics and occurrence in nature. Methane hydrate research in recent years has mostly focused on: (1) documenting the geologic parameters that control the occurrence and stability of gas hydrates in nature, (2) assessing the volume of natural gas stored within various gas hydrate accumulations, (3) analyzing the production response and characteristics of methane hydrates, (4) identifying and predicting natural and induced environmental and climate impacts of natural gas hydrates, and (5) analyzing the effects of methane hydrate on drilling safety. Methane hydrates are naturally occurring crystalline substances composed of water and gas, in which a solid water-­‐lattice holds gas molecules in a cage-­‐like structure. The gas and water becomes a solid under specific temperature and pressure conditions within the Earth, called the hydrate stability zone. Other factors that control the presence of methane hydrate in nature include the source of the gas included within the hydrates, the physical and chemical controls on the migration of gas with a sedimentary basin containing methane hydrates, the availability of the water also included in the hydrate structure, and the presence of a suitable host sediment or “reservoir”. The geologic controls on the occurrence of gas hydrates have become collectively known as the “methane hydrate petroleum system”, which has become the focus of numerous hydrate research programs. Recognizing the importance of methane hydrate research and the need for a coordinated effort, the U.S. Congress enacted Public Law 106-­‐193, the Methane Hydrate Research and Development Act of 2000. This Act called for the Secretary of Energy to begin a methane hydrate research and development program in consultation with other U.S. federal agencies. At the same time a new methane hydrate research program had been launched in Japan by the Ministry of International Trade and Industry to develop plans for a methane hydrate exploratory drilling project in the Nankai Trough. Since this early start we have seen other countries including India, China, Canada, and the Republic of Korea establish large gas hydrate research and development programs. These national led efforts have also included the investment in a long list of important scientific research drilling expeditions and production test studies that have provided a wealth of information on the occurrence of methane hydrate in nature. The most notable expeditions and projects have including the following: -­‐Ocean Drilling Program Leg 164 (1995) -­‐Japan Nankai Trough Project (1999-­‐2000) -­‐Ocean Drilling Program Leg 204 (2004) -­‐Japan Tokai-­‐oki to Kumano-­‐nada Project (2004) -­‐Gulf of Mexico JIP Leg I (2005) -­‐Integrated Ocean Drilling Program Expedition 311 (2005) -­‐Malaysia Gumusut-­‐Kakap Project (2006) -­‐India NGHP Expedition 01 (2006) -­‐China GMGS Expedition 01 (2007) -­‐Republic of Korea UBGH Expedition 01 (2007) -­‐Gulf of Mexico JIP Leg II (2009) -­‐Republic of Korea UBGH Expedition 02 (2010) -­‐MH-­‐21 Nankai Trough Pre-­‐Production Expedition (2012-­‐2013) -­‐Mallik Gas Hydrate Testing Projects (1998/2002/2007-­‐2008) -­‐Alaska Mount Elbert Stratigraphic Test Well (2007) -­‐Alaska Iġnik Sikumi Methane Hydrate Production Test Well (2011-­‐2012) Research coring and seismic programs carried out by the Ocean Drilling Program (ODP) and Integrated Ocean Drilling Program (IODP), starting with the ODP Leg 164 drilling of the Blake Ridge in the Atlantic Ocean in 1995, have also contributed greatly to our understanding of the geologic controls on the formation, occurrence, and stability of gas hydrates in marine environments. For the most part methane hydrate research expeditions carried out by the ODP and IODP provided the foundation for our scientific understanding of gas hydrates. The methane hydrate research efforts under ODP-­‐IODP have mostly dealt with the assessment of the geologic controls on the occurrence of gas hydrate, with a specific goal to study the role methane hydrates may play in the global carbon cycle. Over the last 10 years, national led methane hydrate research programs, along with industry interest have led to the development and execution of major methane hydrate production field test programs. Two of the most important production field testing programs have been conducted at the Mallik site in the Mackenzie River Delta of Canada and in the Eileen methane hydrate accumulation on the North Slope of Alaska. Most recently we have also seen the completion of the world’s first marine methane hydrate production test in the Nankai Trough in the offshore of Japan. Industry interest in gas hydrates has also included important projects that have dealt with the assessment of geologic hazards associated with the presence of hydrates. The scientific drilling and associated coring, logging, and borehole monitoring technologies developed in the long list of methane hydrate related field studies are one of the most important developments and contributions associated with methane hydrate research and development activities. Methane hydrate drilling has been conducted from advanced scientific drilling platforms like the JOIDES Resolution and the D/V Chikyu, which feature highly advanced integrated core laboratories and borehole logging capabilities. Hydrate research drilling has also included the use of a wide array of industry, geotechnical and multi-­‐service ships. All of which have been effectively used to collect invaluable geologic and engineering data on the occurrence of methane hydrates throughout the world. Technologies designed specifically for the collection and analysis of undisturbed methane hydrate samples have included the development of a host of pressure core systems and associated specialty laboratory apparatus. The study and use of both wireline conveyed and logging-­‐while-­‐drilling technologies have also contributed greatly to our understanding of the in-­‐situ nature of hydrate-­‐bearing sediments. Recent developments in borehole instrumentation specifically designed to monitor changes associated with hydrates in nature through time or to evaluate the response of hydrate accumulations to production have also contributed greatly to our understanding of the complex nature and evolution of methane hydrate systems. Our understanding of how methane hydrates occur and behave in nature is still growing and evolving – we do not yet know if methane hydrates can be economically produced, nor do we know fully the role of hydrates as an agent of climate change or as a geologic hazard. But it is known for certain that scientific drilling has contributed greatly to our understanding of hydrates in nature and will continue to be a critical source of the information to advance our understanding of methane hydrates.

Report

Grassland birds wintering at U.S. Navy facilities in southern Texas

Grassland birds have undergone widespread decline throughout North America during the past several decades. Causes of this decline include habitat loss and fragmentation because of conversion of grasslands to cropland, afforestation in the East, brush and shrub invasion in the Southwest and western United States, and planting of exotic grass species to enhance forage production. A large number of exotic plant species, including grasses, have been introduced in North America, but most research on the effects of these invasions on birds has been limited to breeding birds, primarily those in northern latitudes. Research on the effects of exotic grasses on birds in winter has been extremely limited. This is the first study in southern Texas to examine and compare winter bird responses to native and exotic grasslands. This study was conducted during a period of six years (2003–2009) on United States Navy facilities in southern Texas including Naval Air Station–Corpus Christi, Naval Air Station–Kingsville, Naval Auxiliary Landing Field Waldron, Naval Auxiliary Landing Field Orange Grove, and Escondido Ranch, all of which contained examples of native grasslands, exotic grasslands, or both. Data from native and exotic grasslands were collected and compared for bird abundance and diversity; ground cover, vegetation density, and floristic diversity; bird and vegetation relationships; diversity of insects and arachnids; and seed abundance and diversity. Effects of management treatments in exotic grasslands were evaluated by comparing numbers and diversity of birds and small mammals in mowed, burned, and control areas. To determine bird abundance and bird species richness, birds were surveyed monthly (December–February) during the winters of 2003–2008 in transects (100 meter × 20 meter) located in native and exotic grasslands distributed at all five U.S. Navy facilities. To compare vegetation in native and exotic grasslands, vegetation characteristics were measured during 2003–2008 in the same transects used for bird surveys and included five measures of ground cover, plus estimates of plant species richness, vegetation density (visual obstruction) at two different heights, and shrub numbers. These data, plus seasonal rainfall, were then used to evaluate components of variation in native and exotic grasslands. Relations between total bird numbers and bird species richness with environmental variation in native and exotic grasslands were compared. To compare diversity of arthropods in native and exotic grasslands, insects and arachnids were collected using three different methodologies (standardized sweep-net, random sweep-net, and pitfall traps) during four seasons, (2005–2006), at Naval Air Station–Corpus Christi, Naval Auxiliary Landing Field Waldron, and Naval Air Station–Kingsville. To compare seed abundance and diversity between native and exotic grasslands, seeds were collected for two winters (2004–2006) at Naval Air Station–Corpus Christi and Naval Air Station–Kingsville. To evaluate effects of management on grassland vertebrates, abundance and diversity of birds and small mammals were estimated and compared in exotic grasses subjected to mowing, burning, or no active management (control) for one full year (2008–2009). Observations were made of 1,044 birds of 30 species in grassland transects during five winters. The Savannah Sparrow ( Passerculus sandwichensis ) was the most common bird, which, with 644 detections, accounted for 63 percent of all individuals identified to species. Meadowlarks ( Sturnella spp. ) and Le Conte’s Sparrows ( Ammodramus leconteii ) were the second (10 percent) and third (7 percent) most abundant bird species, respectively. Six of the seven most abundant species detected in grasslands were grassland species, and their numbers accounted for 87 percent of all birds, but 20 of the 30 species (67 percent) that used grasslands were not grassland species. Seven species observed in grassland transects during the study were Species of Conservation Concern: Le Conte’s Sparrow, Sedge Wren ( Cistothorus platensis ), Grasshopper Sparrow ( Ammodramus savannarum ), Long-billed Curlew ( Numenius americanus ), Sprague’s Pipit ( Anthus spragueii ), Cassin’s Sparrow ( Aimophila cassinii ), and Loggerhead Shrike ( Lanius ludovicianus ). Native grasslands consistently supported greater bird species richness than exotic grasslands. In one winter, exotic grasslands supported more birds than native grasslands. Native grasslands were determined to have more forb cover, more bare ground, and greater plant species richness than exotic grasslands, whereas exotic grasslands were characterized by more grass cover and relatively greater vegetation density during dry years. Not only did these individual measures differ between native and exotic grasslands, but components of variation also differed. In native grasslands, grass density and cover contributed more to variation, whereas in exotic grasslands, non-grass vegetation was a greater component of variation. Total bird numbers and bird species richness in native grasslands were related to the principal component that contained a measure of litter cover. Total bird numbers and bird species richness in exotic grasslands indicated no significant relationships with any of the principal components of variation. The two most common insect orders in native grasslands were Hymenoptera and Coleoptera, which accounted for 42 percent of all insects. The two most common insect orders in exotic grasslands were Hemiptera and Homoptera, which accounted for about 80 percent of all insects. Insect family richness was greater in exotic grasslands than in native grasslands in two of four seasons. Proportions of arachnid families were similar in native and exotic grasslands, but arachnid family richness was greater in exotic grasslands than in native grasslands. Abundance of seeds was greater in exotic than in native grasslands. However, seed diversity was greater in native grasslands than in exotic grasslands. Among the three types of management (mowed, burned, and control) applied to exotic grasses, birds were most abundant in the mowed area. Sedge Wrens, however, were never encountered in mowed sites. Meadowlarks were similarly abundant in all treatments, but Le Conte’s Sparrows were detected only in the control (unmanaged) area. Hispid cotton rats ( Sigmodon hispidus ) accounted for 93 percent of all rodent captures, with the number of captures peaking December through February. Hispid cotton rat numbers and total rodent numbers were greatest in control and pre-burn areas, and lowest in the mowed area. Mammal diversity, however, was greatest in the mowed habitat. Native and exotic grasslands differed essentially in all categories (bird numbers and diversity, vegetation characteristics, components of variation, diversity of insects and arachnids, and seed abundance and diversity) used to measure and compare them. This indicates that fundamental ecosystem processes have been altered after native grasslands have undergone invasion and ultimate domination by exotic grass species. Future research in Texas grassland ecosystems is essential because: 1) Texas sustains more area in grasslands than any other state or province in the Central Flyway; 2) Texas serves as the winter destination or migration pathway for hundreds of species of birds, including winter residents and Neotropical migrants; 3) ecology, distribution, and numbers of grassland birds wintering in southern latitudes of the United States remains poorly understood; and 4) climate change threatens to further accelerate advances of invading grass species.

Open-File Report

Applied Geochemistry Special Issue on Environmental geochemistry of modern mining

Environmental geochemistry is an integral part of the mine-life cycle, particularly for modern mining. The critical importance of environmental geochemistry begins with pre-mining baseline characterization and the assessment of environmental risks related to mining, continues through active mining especially in water and waste management practices, and culminates in mine closure. The enhanced significance of environmental geochemistry to modern mining has arisen from an increased knowledge of the impacts that historical and active mining can have on the environment, and from new regulations meant to guard against these impacts. New regulations are commonly motivated by advances in the scientific understanding of the environmental impacts of past mining. The impacts can be physical, chemical, and biological in nature. The physical challenges typically fall within the purview of engineers, whereas the chemical and biological challenges typically require a multidisciplinary array of expertise including geologists, geochemists, hydrologists, microbiologists, and biologists. The modern mine-permitting process throughout most of the world now requires that potential risks be assessed prior to the start of mining. The strategies for this risk assessment include a thorough characterization of pre-mining baseline conditions and the identification of risks specifically related to the manner in which the ore will be mined and processed, how water and waste products will be managed, and what the final configuration of the post-mining landscape will be. In the Fall 2010, the Society of Economic Geologists held a short course in conjunction with the annual meeting of the Geological Society of America in Denver, Colorado (USA) to examine the environmental geochemistry of modern mining. The intent was to focus on issues that are pertinent to current and future mines, as opposed to abandoned mines, which have been the focus of numerous previous short courses. The geochemical challenges of current and future mines share similarities with abandoned mines, but differences also exist. Mining and ore processing techniques have changed; the environmental footprint of waste materials has changed; environmental protection has become a more integral part of the mine planning process; and most historical mining was done with limited regard for the environment. The 17 papers in this special issue evolved from the Society of Economic Geologists’ short course. The relevant geochemical processes encompass the source, transport, and fate of contaminants related to the life cycle of a mine. Contaminants include metals and other inorganic species derived from geologic sources such as ore and solid mine waste, and substances brought to the site for ore processing, such as cyanide to leach gold. Factors, such as mine-waste mineralogy, hydrologic setting, mine-drainage chemistry, and microbial activity, that affect the hydrochemical risks from mining are reviewed by Nordstrom et al. In another paper, Nordstrom discusses baseline characterization at mine sites in a regulatory framework, and emphasizes the influence of mineral deposits in producing naturally elevated concentrations of many trace elements in surface water and groundwater. Surface water quality in mineralized watersheds is influenced by a number of processes that act on daily (diel) cycles and can produce dramatic variations in trace element concentrations as described by Gammons et al. Pre-mining baseline characterization studies should strive to capture the magnitude of these diel variations. Desbarats et al., using a case study of mine drainage from a gold mine, illustrate how elements that commonly occur as negatively charged species (anions) in solution, such as arsenic as arsenate, behave in an opposite fashion than most metals, which occur as positively charged species (cations). Significant improvement in the understanding of factors that influence the toxicity of metals to aquatic organisms in surface water has highlighted the importance of aqueous chemistry, particularly dissolved organic carbon, as described by Smith et al. Stream sediment contamination is another important pathway for affecting aquatic organisms, as reviewed by Besser et al. Understanding and predicting environmental consequences from mining begins with knowing the mineralogy and mineral reactivity of the ore, the wastes, and of secondary minerals formed later. Jamieson et al. review the importance of mineralogical studies in mine planning and remediation. A number of types of site-specific studies are needed to identify environmental risks related to individual mines. Lapakko reviews the general framework of mine waste characterization studies that are integral to the mine planning process. Hageman et al. present a comparative study of several static tests commonly used to characterize mine waste. The mining and ore processing practices employed at a specific mine site will vary on the basis of the commodities being targeted, the geology of the deposit, the geometry of the deposit, and the mining and ore processing methods used. Thus, these factors, in addition to the waste management practices used, can result in a variety of end-member mine waste features, each of which has its own set of challenges. Open pit mines and underground mines require waste rock to be removed to access ore. Waste rock presents unique problems because the rock is commonly mineralized at sub-economic grades and has not been processed to remove potentially problematic minerals, such as pyrite. Amos et al. examine the salient aspects of the geochemistry of waste rock. Mill tailings – the waste material after ore minerals have been removed – are a volumetrically important solid waste at many mine sites. Their fine grain size and the options for their management make their behavior in the environment distinct from that of waste rock. Lindsay et al. describe some of these differences through three case-study examples. Subaqueous disposal of tailings is another option described by Moncur et al. Cyanide leaching for gold extraction is a common method throughout the world. Johnson describes environmental aspects of cyanidation. Uranium mining presents unique environmental challenges, particularly since in-situ recovery has seen widespread use. Campbell et al. review the environmental geochemistry of uranium mining and current research on bioremediation. Ore concentrates from many types of metal mining undergo a pyrometallurgical technique known as smelting to extract the metal. Slag is the result of smelting, and it may be an environmental liability or a valuable byproduct, as described by Piatak et al. Finally, the open pits that result from surface mining commonly reach below the water table. At the end of mining, these pits may fill to form lakes that become part of the legacy of the mine. Castendyk et al., in two papers, review theoretical aspects of the environmental limnology of pit lakes. They also describe approaches that have been used to model pit lake water balance, wall-rock contributions to pit lake chemistry, pit lake water quality, and limnological processes, such as vertical mixing, through the use of three case studies.

Applied Geochemistry

Review of revised Klamath River Total Maximum Daily Load models from Link River Dam to Keno Dam, Oregon

Flow and water-quality models are being used to support the development of Total Maximum Daily Load (TMDL) plans for the Klamath River downstream of Upper Klamath Lake (UKL) in south-central Oregon. For riverine reaches, the RMA-2 and RMA-11 models were used, whereas the CE-QUAL-W2 model was used to simulate pooled reaches. The U.S. Geological Survey (USGS) was asked to review the most upstream of these models, from Link River Dam at the outlet of UKL downstream through the first pooled reach of the Klamath River from Lake Ewauna to Keno Dam. Previous versions of these models were reviewed in 2009 by USGS. Since that time, important revisions were made to correct several problems and address other issues. This review documents an assessment of the revised models, with emphasis on the model revisions and any remaining issues. The primary focus of this review is the 19.7-mile Lake Ewauna to Keno Dam reach of the Klamath River that was simulated with the CE-QUAL-W2 model. Water spends far more time in the Lake Ewauna to Keno Dam reach than in the 1-mile Link River reach that connects UKL to the Klamath River, and most of the critical reactions affecting water quality upstream of Keno Dam occur in that pooled reach. This model review includes assessments of years 2000 and 2002 current conditions scenarios, which were used to calibrate the model, as well as a natural conditions scenario that was used as the reference condition for the TMDL and was based on the 2000 flow conditions. The natural conditions scenario included the removal of Keno Dam, restoration of the Keno reef (a shallow spot that was removed when the dam was built), removal of all point-source inputs, and derivation of upstream boundary water-quality inputs from a previously developed UKL TMDL model. This review examined the details of the models, including model algorithms, parameter values, and boundary conditions; the review did not assess the draft Klamath River TMDL or the TMDL allocations. Attention to the details of a model is one of the best ways to identify potential problems, correct them if possible, and begin to assess the magnitude of potential model errors and uncertainty. Model users need to determine the level of acceptable uncertainty associated with their objectives, identify all sources of potential uncertainty (model uncertainty, data uncertainty, etc.), and assess their approach and results accordingly. In the draft Klamath River TMDL, the Oregon Department of Environmental Quality identified the upstream boundary conditions as the largest source of uncertainty for both the current and natural conditions scenarios, not the model algorithms or choice of model parameters. We agree that the upstream boundary conditions are one of the largest, if not the largest, source of model uncertainty; therefore, the derivation of upstream boundary conditions may be more important to the TMDL than some other model-related issues identified in this review. The revised models contain a number of changes, some of which were done to solve small problems and are largely inconsequential to model results, but others of which are important and affect model predictions of instream concentrations. A consistent version of the model is now applied to all scenarios, and an error in the source code was corrected that had inadvertently discarded 20 percent of the incoming solar radiation in the original model. The baseline light-extinction coefficient for water was decreased and set to a consistent and defensible value across all models of reservoir reaches. Inconsistencies among the values of certain parameters in the original models, such as the ammonia nitrification rate and the decomposition rates of organic matter, have been eliminated, although the reasoning behind the final selections was not documented. The dependence of the rate of sediment oxygen demand (SOD) on temperature was modified such that the SOD rate was substantially decreased at temperatures less than 20°C, causing the model to predict higher dissolved oxygen (DO) concentrations in spring, autumn, and winter. Although that change to the temperature dependence function was done to make the function more similar to the model’s default, this change was not accompanied by any documentation of recalibration or sensitivity exercises. The maximum SOD rate for the 2002 current conditions scenario was decreased from 3.0 grams per square meter per day (g/m 2 /d) in the original model to 2.0 g/m 2 /d in the revised model, a considerable adjustment that appears to have been needed to offset effects of a change to another variable (O2LIM) that would have resulted in a substantial increase in the effective SOD rate for 2002. A 50-percent decrease in the SOD rate over a 2-year period, however, is not likely to be mirrored by field measurements, so this change may be compensating for some process that is not represented correctly in the DO budget for the current conditions scenarios. Several important changes were made to the natural conditions scenario. First, the elevation of the Keno reef was corrected; the elevation specified in the original model was 1 foot too high, which affected the volume of the pooled reach and the travel time through it. The most important changes to this scenario were to the upstream boundary inputs of organic matter and algae, which affect incoming fluxes of nitrogen and phosphorus. Algal biomass inputs were increased by approximately 60 percent during summer because of a change in the way those inputs were derived from results of the UKL TMDL model. Non-algal organic matter inputs were decreased, particularly in summer to correct a problem attributed to double-counting of phosphorus in the original inputs. The distribution of non-algal organic matter was changed from 20 percent dissolved in the original model to 90 percent dissolved in the revised model in response to review comments and published data. The overall sum of algal biomass and non-living organic matter was decreased, which resulted in lower inputs of total phosphorus and nitrogen. Total phosphorus inputs were less than 0.03 mg/L, and although the inputs were derived from selected results of the UKL TMDL model, these concentrations seem too low to be representative of a historically eutrophic system surrounded by extensive wetlands, peat soils, and a groundwater system high in phosphorus. The draft TMDL states that the upstream boundary conditions are the greatest source of uncertainty, greater than any uncertainty associated with the models. Efforts to improve existing models of algal growth and nutrient cycling in UKL, therefore, would provide a substantial benefit to downstream modeling efforts on the Klamath River. Although many improvements were made in revising the Klamath River TMDL models, some issues and uncertainties remain. Several errors in the model source code remain, but do not affect model results for this application as long as certain options and rates are not changed; future users of these models should be aware of these issues. Although the distribution of dissolved and particulate organic matter was modified for the natural conditions scenario, that distribution was not changed for the current conditions scenarios. Recent data on that distribution and the likely rates of organic matter decomposition could be used to improve these models in the future. Nitrate predictions at Keno (Highway 66) still are too high for the current conditions scenarios; future efforts should re-evaluate the model’s denitrification rates and the release rate of ammonia from anoxic sediments. Possibly the most important of the remaining issues are tied to the two-state (healthy/unhealthy) hypothesis for the algae population that was coded into the model. Some of the rates and conversion functions could be refined to make them more acceptable; currently, the published literature does not support the concept of moderately low dissolved-oxygen concentrations as a stressor of algae in the ranges used by the model. More research is needed before these algorithms can be truly tested. The algorithms currently appear to help the model fit the patterns in the available data, and that is useful and perhaps sufficient for some purposes, but those algorithms are not truly predictive or reliable for certain purposes until they can be tested through well-designed experiments and research. In summary, the TMDL models used to simulate Link and Klamath Rivers from Link River Dam to Keno Dam were revised to fix several problems and address various issues. The resulting models are an improvement over those that were reviewed by USGS in 2009, and represent a useful advance in the simulation of a complex system that is difficult to model. However, several issues remain that cause increased uncertainty in the model results. Depending on the objectives of the modeling, now or in the future, these remaining issues could be more or less important. For the Klamath River TMDL, the upstream boundary conditions may be a larger source of uncertainty than the concerns with model algorithms and model parameters identified in this review. Efforts to re-evaluate the available models of algal growth and nutrient cycling in UKL would be highly beneficial to downstream modeling efforts in the Klamath River.

Oregon;California