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At least 793 records · Page 44Linked to original sources
USGS2019

Incorporating climate change into invasive species management: Insights from managers

Invasive alien species are likely to interact with climate change, thus necessitating management that proactively addresses both global changes. However, invasive species managers’ concerns about the effects of climate change, the degree to which they incorporate climate change into their management, and what stops them from doing so remain unknown. Therefore, we surveyed natural resource managers addressing invasive species across the U.S. about their priorities, concerns, and management strategies in a changing climate. Of the 211 managers we surveyed, most were very concerned about the influence of climate change on invasive species management, but their organizations were significantly less so. Managers reported that lack of funding and personnel limited their ability to effectively manage invasive species, while lack of information limited their consideration of climate change in decision-making. Additionally, managers prioritized research that identifies range-shifting invasive species and native communities resilient to invasions and climate change. Managers also reported that this information would be most effectively communicated through conversations, research summaries, and meetings/symposia. Despite the need for more information, 65% of managers incorporate climate change into their invasive species management through strategic planning, preventative management, changing treatment and control, and increasing education and outreach. These results show the potential for incorporating climate change into management, but also highlight a clear and pressing need for more targeted research, accessible science communication, and two-way dialogue between researchers and managers focused on invasive species and climate change.

Biological Invasions↗
USGS2003

Arctic transitions in the Land - Atmosphere System (ATLAS): Background, objectives, results, and future directions

This paper briefly reviews the background, objectives, and results of the Arctic Transitions in the Land-Atmosphere System (ATLAS) Project to date and provides thoughts on future directions. The key goal of the ATLAS Project is to improve understanding of controls over spatial and temporal variability of terrestrial processes in the Arctic that have potential consequences for the climate system, i.e., processes that affect the exchange of water and energy with the atmosphere, the exchange of radiatively active gases with the atmosphere, and the delivery of freshwater to the Arctic Ocean. Three important conclusions have emerged from research associated with the ATLAS Project. First, associated with the observation that the Alaskan Arctic has warmed significantly in the last 30 years, permafrost is warming, shrubs are expanding, and there has been a temporary release of carbon dioxide from tundra soils. Second, the winter is a more important period of biological activity than previously appreciated. Biotic processes, including shrub expansion and decomposition, affect snow structure and accumulation and affect the annual carbon budget of tundra ecosystems. Third, observed vegetation changes can have a significant positive feedback to regional warming. These vegetation effects are, however, less strong than those exerted by land-ocean heating contrasts and the topographic constraints on air mass movements. The papers of this special section provide additional insights related to these conclusions and to the overall goal of ATLAS.

Journal of Geophysical Research D: Atmospheres↗
USGS2020

Limitations, lack of standardization, and recommended best practices in studies of renewable energy effects on birds and bats

Increasing global energy demand is fostering the development of renewable energy as an alternative to fossil fuels. However, renewable energy facilities may adversely affect wildlife. Facility siting guidelines recommend or require project developers complete pre‐ and postconstruction wildlife surveys to predict risk and estimate effects of proposed projects. Despite this, there are no published studies that have quantified the types of surveys used or how survey types are standardized within and across facilities. We evaluated 628 peer‐reviewed publications, unpublished reports, and citations, and we analyzed data from 525 of these sources (203 facilities: 193 wind and 10 solar) in the United States and Canada to determine the frequency of pre‐ and postconstruction surveys and whether that frequency changed over time; frequency of studies explicitly designed to allow before‐after or impact‐control analyses; and what types of survey data were collected during pre‐ and postconstruction periods and how those data types were standardized across periods and among facilities. Within our data set, postconstruction monitoring for wildlife fatalities and habitat use was a standard practice ( n = 446 reports), but preconstruction estimation of baseline wildlife habitat use and mortality was less frequently reported ( n = 84). Only 22% ( n = 45) of the 203 facilities provided data from both pre‐ and postconstruction, and 29% ( n = 59) had experimental study designs. Of 108 facilities at which habitat‐use surveys were conducted, only 3% estimated of detection probability. Thus, the available data generally preclude comparison of biological data across construction periods and among facilities. Use of experimental study designs and following similar field protocols would improve the knowledge of how renewable energy affects wildlife.

Conservation Biology↗
USGS2001

Green fluorescent protein is lighting up fungal biology

Prasher ( 42 ) cloned a cDNA for the green fluorescent protein (GFP) gene from the jellyfish Aequorea victoria in 1992. Shortly thereafter, to the amazement of many investigators, this gene or derivatives thereof were successfully expressed and conferred fluorescence to bacteria and Caenorhabditis elegans cells in culture ( 10 , 31 ), followed by yeast ( 24 , 39 ), mammals ( 40 ), Drosophila ( 66 ), Dictyostelium ( 23 , 30 ), plants ( 28 , 49 ), and filamentous fungi ( 54 ). The tremendous success of GFP as a reporter can be attributed to unique qualities of this 238-amino-acid, 27-kDa protein which absorbs light at maxima of 395 and 475 nm and emits light at a maximum of 508 nm. The fluorescence of GFP requires only UV or blue light and oxygen, and therefore, unlike the case with other reporters (β-glucuronidase, β-galacturonidase, chloramphenicol acetyltransferase, and firefly luciferase) that rely on cofactors or substrates for activity, in vivo observation of gfp expression is possible with individual cells, with cell populations, or in whole organisms interacting with symbionts or environments in real time. Complications caused by destructive sampling, cell permeablization for substrates, or leakage of products do not occur. Furthermore, the GFP protein is extremely stable in vivo and has been fused to the C or N terminus of many cellular and extracellular proteins without a loss of activity, thereby permitting the tagging of proteins for gene regulation analysis, protein localization, or specific organelle labeling. The mature protein resists many proteases and is stable up to 65°C and at pH 5 to 11, in 1% sodium dodecyl sulfate or 6 M guanidinium chloride (reviewed in references 17 and 67 ), and in tissue fixed with formaldehyde, methanol, or glutaraldehyde. However, GFP loses fluorescence in methanol-acetic acid (3:1) and can be masked by autofluorescent aldehyde groups in tissue fixed with glutaraldehyde. Fluorescence is optimal at pH 7.2 to 8.0 ( 67 ). Limitations on GFP as a reporter for some applications are its low turnover rate, 2-h lag time for autoactivation of its chromophore, improper folding at high temperatures (37°C), which results in nonfluorescent and insoluble forms of the protein, and requirement for oxygen, which is not present in equal concentrations in all subcellular locations or cell types (reviewed in references 17 and 67 ). These characteristics of GFP, however, have not posed a problem for many applications, and mutant forms of GFP that have an ability to fold properly at high temperatures, increased solubility and fluorescence, reduced photobleaching ( 16 , 17 , 51 ), and reduced half-lives ( 1 ) have been developed. Coupled with fluorescence-activated cell sorting, confocal microscopy or quantitative image analysis techniques, GFP technology can be used to isolate transformed cells or specific cell types from populations of cells ( 14 ), to quantify gene expression of individual cells within whole organisms ( 8 ), or to assess the dispersal and biomass of organisms in complex environments, such as in animal or plant hosts ( 38 , 59 ), in biofilms ( 55 ), in fermentors ( 41 ), on leaf surfaces ( 53 , 61 ), or in soils ( 2 ). The vast majority of studies utilizing GFP expression in fungi have been with yeast (reviewed in reference 13 ). Ustilago maydis was the first filamentous fungus for which successful expression of gfp was reported ( 54 ), followed closely by Aspergillus nidulans ( 22 , 57 ) and Aureobasidium pullulans ( 61 ). Presently, gfp expression has been reported for 16 species comprising 12 genera of filamentous fungi, including Colletotrichum ( 21 , 44 ), Mycosphaerella ( 52 ), Magnaporthe ( 32 , 35 ), Cochliobolus ( 38 ), Trichoderma ( 2 , 70 ), Podospora ( 5 ), Sclerotinia ( 63 ), Schizophyllum ( 37 ), Aspergillus ( 20 , 47 , 50 ) and Phytophthora ( 7 , 62 ). In this review we draw on published reports, with the goal of providing an overview of GFP technology as it applies to the biology of filamentous fungi. These reports are not exhaustive of potential applications of GFP technology, as examples of genomic approaches to utilizing GFP in bacterial and yeast systems attest ( 4 , 46 , 60 , 65 ). Expression of gfp in filamentous fungi requires a gfp variant that is efficiently translated in fungi, a transformation system, and a fungal promoter that satisfies the requirements of a given experimental objective. Transformation of fungi has recently been reviewed by Gold et al. ( 26 ). Robinson and Sharon ( 44 ) suggest that GFP can actually be used to optimize transformation protocols. In addition to reporting the construction of a new fungal transformation vector that expresses SGFP under the control of the ToxA gene promoter from Pyrenophora tritici-repentis ( 12 ) and demonstrating its use in plant pathogens belonging to eight different genera of filamentous fungi ( Fusarium, Botrytis, Pyrenophora, Alternaria, Cochliobolus, Sclerotinia, Colletotrichum , and Verticillium ), in this review we also enumerate and describe a comprehensive list of vectors for expressing GFP in fungi.

Applied and Environmental Microbiology↗
USGS2014

Methow and Columbia Rivers studies: summary of data collection, comparison of database structure and habitat protocols, and impact of additional PIT tag interrogation systems to survival estimates, 2008-2012

The U.S. Geological Survey (USGS) received funding from the Bureau of Reclamation (Reclamation) to provide monitoring and evaluation on the effectiveness of stream restoration efforts by Reclamation in the Methow River watershed. This monitoring and evaluation program is designed to partially fulfill Reclamation’s part of the 2008 Biological Opinion for the Federal Columbia River Power System that includes a Reasonable and Prudent Alternative (RPA) to protect listed salmon and steelhead across their life cycle. The target species in the Methow River for the restoration effort include Upper Columbia River (UCR) spring Chinook salmon (Oncorhynchus tshawytscha), UCR steelhead (Oncorhynchus mykiss), and bull trout (Salvelinus confluentus), which are listed as threatened or endangered under the Endangered Species Act. Since 2004, the USGS has completed two projects of monitoring and evaluation in the Methow River watershed. The first project focused on the evaluation of barrier removal and steelhead recolonization in Beaver Creek with Libby and Gold Creeks acting as controls. The majority of this work was completed by 2008, although some monitoring continued through 2012. The second project (2008–2012) evaluated the use and productivity of the middle Methow River reach (rkm 65–80) before the onset of multiple off-channel restoration projects planned by the Reclamation and Yakama Nation. The upper Methow River (upstream of rkm 80) and Chewuch River serve as reference reaches and the Methow River downstream of the Twisp River (downstream of rkm 65) serves as a control reach. Restoration of the M2 reach was initiated in 2012 and will be followed by a multi-year, intensive post-evaluation period. This report is comprised of three chapters covering different aspects of the work completed by the USGS. The first chapter is a review of data collection that documents the methods used and summarizes the work done by the USGS from 2008 through 2012. This data summary was designed to show some initial analysis and to disseminate summary information that could potentially be used in ongoing modeling efforts by USGS, Reclamation, and University of Idaho. The second chapter documents the database of fish and habitat data collected by USGS from 2004 through 2012 and compares USGS habitat protocols to the Columbia Habitat Monitoring Program (CHaMP) protocol. The third chapter is a survival analysis of fish moving through Passive Integrated Transponder (PIT) tag interrogation systems in the Methow and Columbia Rivers. It examines the effects of adding PIT tags and/or PIT tag interrogation systems on survival estimates of juvenile steelhead and Chinook salmon.

Washington↗
USGS2002

Perspectives on trans-Pacific biological invasions

Trans-Pacific biological invasion is one of the most striking and influential biological phenomena occurring in modern times and the process is still accelerating, and the associated invasives form neo-disjuncts (cf. many well-known paleo-disjuncts) between eastern Asia and North America. To better understand this phenomenon and the related taxa, I address the following questions: 1) what types of species (e.g., life/growth form) have been, or are likely to be, associated with trans-Pacific (eastern Asia, North America) invasions; 2) what has happened or may happen to these species after their remote geographic separation, and 3) what aspects of these species and their native and non-native habitats should be better understood for improved control. To answer these questions, comparisons of the invasive species' characteristics in their native and invaded habitats need to be examined, including: l) genetics, 2) life history/morphology (e.g., plant size, seed size, etc.), 3) ecology (e.g., life/growth forms, pollinators, competitors), 4) distributions (e.g., range size, shape, latitude) in their native (source) and introduced (target) ranges or habitats, and 5) physical factors such as soil, water, and climate. The purpose of these studies is 1) to identify the limiting factors that restrict the distributions of exotic species in native ranges, 2) to understand why invasive species are successful in the introduced ranges, 3) to predict possible future invasions, and, ultimately, 4) to provide information for more efficient and effective management.

Acta Phytoecologica Sinica↗
USGS2013

Seventy-five years of science—The U.S. Geological Survey’s Western Fisheries Research Center

As of January 2010, 75 years have elapsed since Dr. Frederic Fish initiated the pioneering research program that would evolve into today’s Western Fisheries Research Center (WFRC). Fish began his research working alone in the basement of the recently opened Fisheries Biological Laboratory on Lake Union in Seattle, Washington. WFRC’s research began under the aegis of the U.S. Fish and Wildlife Service and ends its first 75 years as part of the U.S. Geological Survey with a staff of more than 150 biologists and support personnel and a heritage of fundamental research that has made important contributions to our understanding of the biology and ecology of the economically important fish and fish populations of the Nation. Although the current staff may rarely stop to think about it, WFRC’s antecedents extend many years into the past and are intimately involved with the history of fisheries conservation in the Western United States. Thus, WFRC Director Lyman Thorsteinson asked me to write the story of this laboratory “while there are still a few of you around who were here for some of the earlier years” to document the rich history and culture of WFRC by recognizing its many famous scientists and their achievements. This historyalso would help document WFRC’s research ‘footprint’ in the Western United States and its strategic directions. Center Director Thorsteinson concluded that WFRC’s heritage told by an emeritus scientist also would add a texture of legitimacy based on personal knowledge that will all-to-soon be lost to the WFRC and to the USGS. The WFRC story is important for the future as well as for historical reasons. It describes how we got to the place we are today by documenting the origin, original mission, and our evolving role in response to the constantly changing technical information requirements of new environmental legislation and organizational decision-making. The WFRC research program owes its existence to the policy requirements of Federal conservation legislation originating with the construction of Grand Coulee Dam in 1933. The research program was shaped by laws enacted in subsequent years such as the Federal Water Pollution Control Act (1972), National Environmental Policy Act (1973), Endangered Species Act (1974), and Northwest Power Planning Act (1980), to name only a few. The WFRC has not been constrained by direct management or regulatory responsibility for a particular fishery (such as providing sustainable catch limits data to a resource management structure). Thus, WFRC has been able to concentrate on scientific pursuits and information needs required by contemporary environmental legislation. Over the years, we have pioneered in several important areas of fisheries research including the diagnoses and control of diseases in economically important fish, effects of environmental alterations on the physiological quality and survival of Pacific salmon released from federal mitigation hatcheries, applications in biotelemetry, and the bioenergetics of predator-prey interactions in the Columbia River. The WFRC of today is a widely distributed organization in the Western United States. Knowledge of the historical connections and accomplishments of our predecessors is important beyond the sense of pride and unity it instills in the WFRC family of today. For example, a discerning reader will note the evolution of WFRC’s research from a single disciplinary focus (early era—hatchery disease problems), to multiple disciplines (middle to late era—species, populations, habitats; threatened and endangered species), to the present era (multidisciplinary and with increasing process focus). For the benefit of the current WFRC staff, more emphasis has been placed on the early years rather than on the present day because people are quite naturally more familiar with the recent past than with the research done during the first decades of WFRC’s existence. By every rational measure, the WFRC has evolved into a fisheries research organization well positioned to provide the biological information needed to support the continued conservation and management of our Nation’s living aquatic natural resources. The high standard of excellence that connects WFRC’s past to our present research program provides a firm foundation on which to base the work yet to be done. In another 75 years, WFRC will undoubtedly be a very different place than it is today, but its evolution will be forever rooted in the story of the research and of the people related here. More about the diverse fisheries research projects WFRC scientists are conducting today is available at WFRC’s website: http://wfrc.usgs.gov/.

Washington↗
USGS2016

Processes of multibathyal aragonite undersaturation in the Arctic Ocean

During 3 years of study (2010–2012), the western Arctic Ocean was found to have unique aragonite saturation profiles with up to three distinct aragonite undersaturation zones. This complexity is produced as inflow of Atlantic-derived and Pacific-derived water masses mix with Arctic-derived waters, which are further modified by physiochemical and biological processes. The shallowest aragonite undersaturation zone, from the surface to ∼30 m depth is characterized by relatively low alkalinity and other dissolved ions. Besides local influence of biological processes on aragonite undersaturation of shallow coastal waters, the nature of this zone is consistent with dilution by sea-ice melt and invasion of anthropogenic CO 2 from the atmosphere. A second undersaturated zone at ∼90–220 m depth (salinity ∼31.8–35.4) occurs within the Arctic Halocline and is characterized by elevated p CO 2 and nutrients. The nature of this horizon is consistent with remineralization of organic matter on shallow continental shelves bordering the Canada Basin and the input of the nutrients and CO 2 entrained by currents from the Pacific Inlet. Finally, the deepest aragonite undersaturation zone is at greater than 2000 m depth and is controlled by similar processes as deep aragonite saturation horizons in the Atlantic and Pacific Oceans. The comparatively shallow depth of this deepest aragonite saturation horizon in the Arctic is maintained by relatively low temperatures, and stable chemical composition. Understanding the mechanisms controlling the distribution of these aragonite undersaturation zones, and the time scales over which they operate will be crucial to refine predictive models.

Journal of Geophysical Research: Oceans↗
USGS2021

Signatures of hydrologic function across the critical zone observatory network

Despite a multitude of small catchment studies, we lack a deep understanding of how variations in critical zone architecture lead to variations in hydrologic states and fluxes. This study characterizes hydrologic dynamics of 15 catchments of the U.S. Critical Zone Observatory (CZO) network where we hypothesized that our understanding of subsurface structure would illuminate patterns of hydrologic partitioning. The CZOs collect data sets that characterize the physical, chemical, and biological architecture of the subsurface, while also monitoring hydrologic fluxes such as streamflow, precipitation, and evapotranspiration. For the first time, we collate time series of hydrologic variables across the CZO network and begin the process of examining hydrologic signatures across sites. We find that catchments with low baseflow indices and high runoff sensitivity to storage receive most of their precipitation as rain and contain clay‐rich regolith profiles, prominent argillic horizons, and/or anthropogenic modifications. In contrast, sites with high baseflow indices and low runoff sensitivity to storage receive the majority of precipitation as snow and have more permeable regolith profiles. The seasonal variability of water balance components is a key control on the dynamic range of hydraulically connected water in the critical zone. These findings lead us to posit that water balance partitioning and streamflow hydraulics are linked through the coevolution of critical zone architecture but that much work remains to parse these controls out quantitatively.

Water Resources Research↗
USGS2018

Probabilistic substrate classification with multispectral acoustic backscatter: A comparison of discriminative and generative models

We propose a probabilistic graphical model for discriminative substrate characterization, to support geological and biological habitat mapping in aquatic environments. The model, called a fully-connected conditional random field (CRF), is demonstrated using multispectral and monospectral acoustic backscatter from heterogeneous seafloors in Patricia Bay, British Columbia, and Bedford Basin, Nova Scotia. Unlike previously proposed discriminative algorithms, the CRF model considers both the relative backscatter magnitudes of different substrates and their relative proximities. The model therefore combines the statistical flexibility of a machine learning algorithm with an inherently spatial treatment of the substrate. The CRF model predicts substrates such that nearby locations with similar backscattering characteristics are likely to be in the same substrate class. The degree of allowable proximity and backscatter similarity are controlled by parameters that are learned from the data. CRF model results were evaluated against a popular generative model known as a Gaussian Mixture model (GMM) that doesn’t include spatial dependencies, only covariance between substrate backscattering response over different frequencies. Both models are used in conjunction with sparse bed observations/samples in a supervised classification. A detailed accuracy assessment, including a leave-one-out cross-validation analysis, was performed using both models. Using multispectral backscatter, the GMM model trained on 50% of the bed observations resulted in a 75% and 89% average accuracies in Patricia Bay and Bedford Basin, respectively. The same metrics for the CRF model were 78% and 95%. Further, the CRF model resulted in a 91% mean cross-validation accuracy across four substrate classes at Patricia Bay, and a 99.5% mean accuracy across three substrate classes at Bedford Basin, which suggest that the CRF model generalizes extremely well to new data. This analysis also showed that the CRF model was much less sensitive to the specific number and locations of bed observations than the generative model, owing to its ability to incorporate spatial autocorrelation in substrates. The CRF therefore may prove to be a powerful ‘spatially aware’ alternative to other discriminative classifiers.

Geosciences↗
USGS2011

Rare and endangered species of Hawai`i Volcanoes National Park; endangered, threatened, and rare animal, plant, and community handbook

Introduction Hawai`i Volcanoes National Park (HAVO) is the largest area in the State of Hawai`i protected for its geology and landscapes and its native flora and fauna. The park covers approximately 135,000 hectares or 333,000 acres in all. These lands stretch from the seacoast of Kīlauea Volcano to far above timberline on the summit of Mauna Loa (Figure 1). This vast area includes expanses of forests, woodlands, shrublands, and barren lava flows that represent an array of native ecosystems. Contained within these communities are a great many species of rare animals and plants, most of them unique to the island of Hawai`i, and some of them surviving only in the park. These are the biological treasures of Hawai`i Volcanoes National Park. Our book is a guide to all animal and plant species in HAVO that are specially recognized as endangered species in the general sense. (The official designations at four levels and the unofficial designation of species of concern are explained later.) There are 23 such animal species and 71 plant species covered in the handbook, including six species planted in HAVO but not naturally occurring. In addition, we describe seven rare communities. In some cases, HAVO offers the best opportunity to save these species and communities from extinction. Increasingly, the park has attempted to restore rare populations by conducting surveys to locate them, controlling threats such as feral livestock, and bolstering existing populations or creating new ones by planting nursery stock. To aid such efforts, our original intent was to publish an identification guide for researchers and field management personnel. Particularly, we wanted to familiarize the reader with the many rare plant species which otherwise are known mainly from the technical literature. Because we soon came to realize that this handbook would be useful to a much larger, general readership, our aim is to make this information available to anyone interested in endangered animals and plants at Hawai`i Volcanoes National Park.

Hawaii↗
USGS1974

Effect of mine drainage on the quality of streams in Colorado, 1971-72

In July 1971, a study of the effects of mine drainage on Colorado's streams was begun in cooperation with the Colorado Water Pollution Control Commission. The objectives of this study were to determine the extent and magnitude of the problem as a whole, and to gain a greater understanding of the processes and their potential ramifications by detailed definition of problems in specific areas. In order to accomplish these objectives, a three-pronged approach was devised to include: (1) a reconnaissance of the entire State to locate problem areas, (2) the detailed study of selected problem areas on a short-term basis, and (3) the monitoring of selected problem areas on a long-term basis. This report summarizes the results of the reconnaissance phase. It describes some basic physical, chemical, and biological water-quality characteristics of the streams, discusses observed effects of mine drainage on the surface-water environment, delineates problem areas, and provides a list of streams where intensive study and subsequent monitoring might provide further insight into the various problems encountered.

Colorado↗
USGS2024

When to target control efforts? Using novel GPS telemetry to quantify drivers of invasive Argentine black and white tegu (Salvator merianae) movement

In South Florida, the Argentine black and white tegu ( Salvator merianae ), a large, omnivorous lizard, has become a recent threat to the Everglades ecosystem. The increase in tegu observations, especially near ecologically sensitive areas such as Everglades National Park, makes informed management critical to contain the tegu population. Using Very High Frequency (VHF) and Global Positioning System (GPS) telemetry, we tracked 24 tegus in the Southern Glades Wildlife Management Area and Redland Agricultural Area in Homestead, Florida from March 2016 to November 2018 and March 2021 to January 2022. We used generalized additive models to determine factors that drive tegu movement to inform managers when traps and surveillance plots are most likely to be effective. Our top model included temporal (time of day and time of year), environmental (air temperature, relative humidity, rain, and wind speed from closest weather station), and biological (sex) variables. This model explained 34.6% of the deviance in tegu minimum rate of movement. We determined that tegus were most active between mid-March and mid-April, and tegu minimum rate of movement positively correlates with air temperature (i.e., highest activity during the hottest part of the day in the early afternoon). We observed a slight positive trend between tegu minimum rate of movement and relative humidity, and no clear trend between rate of movement and either rainfall or wind. Our results can inform natural resource management actions to target tegu removal and surveillance during high activity periods to maximize resource use.

Biological Invasions↗
USGS2019

Context matters: Using reinforcement learning to develop human-readable, state-dependent outbreak response policies

The number of all possible epidemics of a given infectious disease that could occur on a given landscape is large for systems of real-world complexity. Furthermore, there is no guarantee that the control actions that are optimal, on average, over all possible epidemics are also best for each possible epidemic. Reinforcement learning (RL) has been used to develop machine-readable context-dependent solutions for complex problems with many possible realisations ranging from video-games to the game of Go. RL could be a valuable tool to generate context-dependent policies for outbreak response, though translating the resulting policies into simple rules that can be read and interpreted by human decision-makers remains a challenge. Here we illustrate the application of RL to the development of context-dependent outbreak response policies to minimise outbreaks of foot-and-mouth disease. We show that control based on the resulting context-dependent policies, which adapt interventions to the specific outbreak, result in smaller outbreaks than static policies. We further illustrate two approaches for translating the complex machine-readable policies into simple heuristics that can be evaluated by human decision-makers.

Philosophical Transactions of the Royal Society B:↗
USGS2017

Mitigating road mortality of diamond-backed terrapins (Malaclemy's terrapin) with hybrid barriers at crossing hot spots

Roads represent a pervasive feature on most landscapes that can pose multiple threats to wildlife populations and substantial challenges for management. To be effective, management strategies must often target where threats are most concentrated. Road mortality and nest predation are well-documented threats to Diamond-backed Terrapins ( Malaclemys terrapin ) across the majority of their range, including the 8.7-km causeway to Jekyll Island, Georgia, USA, where both are predicted to contribute to population declines if left unmitigated. From 2009 to 2014, we used intensive road surveying to identify spatial peaks (hot spots) of terrapin crossing activity and road mortality and exploit these as targets for management. In 2011, we deployed a hybrid barrier composed of nest boxes, which were designed to prevent terrapins from accessing the road and mitigate nest predation, at one hot spot while leaving two other hot spots unmanaged. We evaluated the impact of the barrier on terrapin emergences on the causeway under a Before-After-Control-Impact (BACI) design, and a companion study evaluated the effects of nest boxes on nest predation rates. We estimated a 57% reduction in annual terrapin emergences at the barrier site compared to no measurable change at control hot spots. Our findings support the use of hybrid barriers for simultaneously addressing road mortality and nest predation for other terrapin populations at risk to these threats. Our approach highlights the need to design feasible but robust management strategies that target spatial peaks of road mortality while addressing additional threats contributing to population declines of terrapins and other species.

Georgia↗
USGS2006

Control of whirling disease (Myxosoma cerebralis): Effects of drying, and disinfection with hydrated lime or chlorine

Thorough air drying of contaminated mud killed the spores of Myxosoma cerebralis . Treatment of simulated earthen ponds with hydrated lime with up to 4550 g/m 2 on the wet mud did not kill all of the spores. Treatment of simulated earthen ponds with up to 1200 p.p.m. chlorine did not kill all of the spores, however, treatment of contaminated water with 10 p.p.m. chlorine did kill the spores.

Journal of Fish Biology↗
USGS2014

Modeling the influence of organic acids on soil weathering

Biological inputs and organic matter cycling have long been regarded as important factors in the physical and chemical development of soils. In particular, the extent to which low molecular weight organic acids, such as oxalate, influence geochemical reactions has been widely studied. Although the effects of organic acids are diverse, there is strong evidence that organic acids accelerate the dissolution of some minerals. However, the influence of organic acids at the field-scale and over the timescales of soil development has not been evaluated in detail. In this study, a reactive-transport model of soil chemical weathering and pedogenic development was used to quantify the extent to which organic acid cycling controls mineral dissolution rates and long-term patterns of chemical weathering. Specifically, oxalic acid was added to simulations of soil development to investigate a well-studied chronosequence of soils near Santa Cruz, CA. The model formulation includes organic acid input, transport, decomposition, organic-metal aqueous complexation and mineral surface complexation in various combinations. Results suggest that although organic acid reactions accelerate mineral dissolution rates near the soil surface, the net response is an overall decrease in chemical weathering. Model results demonstrate the importance of organic acid input concentrations, fluid flow, decomposition and secondary mineral precipitation rates on the evolution of mineral weathering fronts. In particular, model soil profile evolution is sensitive to kaolinite precipitation and oxalate decomposition rates. The soil profile-scale modeling presented here provides insights into the influence of organic carbon cycling on soil weathering and pedogenesis and supports the need for further field-scale measurements of the flux and speciation of reactive organic compounds.

California↗
USGS1984

Water quality in the New River from Calexico to the Salton Sea, Imperial County, California

The New River enters the United States at Calexico, Calif., after it crosses the international boundary. Water-quality data from routine collection indicated that the New River was degraded by high organic and bacterial content. Intensive sampling for chemical and physical constituents and properties of the river was done May 9-13, 1977, to quantify the chemical composition of the water and to identify water-quality problems. Concentrations of total organic carbon in the New River at Calexico ranged from 80 to 161 milligrams per liter and dissolved organic carbon ranged from 34 to 42 milligrams per liter; the maximum chemical oxygen demand was 510 milligrams per liter. Intensive sampling for chemical and biological characteristics was done in the New River from May 1977 to June 1978 to determine the occurrence of the organic material and its effects on downstream water quality. Dissolved-oxygen concentration was measured along longitudinal profiles of the river from Calexico to the Salton Sea. A dissolved-oxygen sag downstream from the Calexico gage varied seasonally. The sag extended farther downstream and had lower concentrations of dissolved oxygen during the summer months than during the winter months. The sag of zero dissolved-oxygen concentration extended 26 miles in July 1977. In December 1976, the sag extended 20 miles but the minimum dissolved-oxygen concentration was 2.5 milligrams per liter. The greatest diel (24-hour) variation in dissolved-oxygen concentration occurred in the reach from the Calexico gage to Lyons Crossing, 8.8 miles downstream. High concentrations of organic material were detected as far as Highway 80, 19.5 miles downstream from the international boundary. Biological samples analyzed for benthic invertebrates showed that water at the Calexico and Lyons Crossing sites, nearest the international boundary, was of such poor quality that very few bottom-dwelling organisms could survive. Although the water was of poor quality at Keystone Road, 36 miles downstream, it was able to support a benthic community. The April sample had more than 9,150 organisms on a multiplate sampler, 8,770 of which were of one species. Farther downstream at the Westmorland gage, the water quality, as indicated by the number and diversity of organisms, had improved over that at the Keystone site. The Alamo River at its outlet to the Salton Sea--the control site--had the greatest diversity of all the study sites. This diversity, when compared with the diversity at the Westmorland gage, indicated that the effects of the degraded water quality observed at the New River at Calexico are detected as far as 62 miles downstream. Standard bacteria indicator tests indicate that fecal contamination exists in the New River. Counts of fecal coliform bacteria ranged from 180,000 to 2,800,000 colonies per 100 milliliters for the 20-mile reach from Calexico to Highway 80, and fecal streptococcal bacteria ranged from 5,000 to 240,000 colonies per 100 milliliters.

California↗