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At least 1,063 records · Page 59Linked to original sources

Semantic segmentation of light-toned veins in multimodal ChemCam data

Since the Mars Science Laboratory landed in 2012, the ChemCam instrument aboard the rover has collected in-situ laser-induced breakdown spectroscopy (LIBS) data and context images along more than 35 km of the Gale Crater traverse, providing valuable observations including diagenetic features such as light-toned veins. These veins are of particular scientific interest because they are interpreted as indicators of past fluid circulation on Mars and provide insights into the evolution of habitability on Mars. Their identification, however, currently relies on manual visual inspection of Remote Micro Imager (RMI) images, a process that is time-consuming and sensitive to differences in human interpretation. To address this issue, in this paper we introduce a novel pixel-level labeled, multimodal dataset of ChemCam observations specifically tailored for vein detection, along with customized U-Net models to integrate both textural (RMI) and chemical (LIBS) modalities. To further ensure trustworthy scientific use, we incorporate the Learn-Then-Test (LTT) framework to provide statistical control of the false discovery rate without requiring model retraining. The experimental results demonstrate that the proposed customized U-Net models trained on the developed dataset, combined with risk-controlled prediction, increases the efficiency of pixel-level vein identification through automation and produces statistically reliable predictions for multimodal ChemCam data.

Scientific Reports↗

Estimating GPS-based social aggregation metrics using collar data

Understanding social aggregation patterns in ungulate herds is essential for gaining behavioral insights, optimizing resource use, reducing human-wildlife conflict, and managing disease risk. As chronic wasting disease is the preeminent disease-related threat to cervid populations in North America, knowledge of contact between individuals and spatiotemporal patterns of aggregation provides opportunity to understand and potentially reduce disease risk while supporting sustainable population sizes. Herd density metrics, derived from global positioning system (GPS) data, can be used to inform management decisions. To effectively compare aggregation behavior within and between herds, aggregation metrics must be accurate. However, the consistency of metrics across different GPS collar sample sizes remains unclear and robust studies of big game require understanding how these factors may vary in different contexts. We examined the minimum sample size necessary for reliable calculations of three aggregation metrics: pairwise inter-animal distances, daily proximity rates, and kernel density estimate (KDE) areas. We used GPS collar data from the Jackson and West Green River elk herds ( Cervus canadensis ) in western Wyoming, USA, that differ in herd size and group structure (single versus multiple sub-groups), representing common practical contexts. Elk locations were acquired for the Jackson herd between 2016 and 2019 and from 2005 to 2010 for the West Green River herd. Herd-specific characteristics substantially influence the sample size necessary for accurate density measurements. As predicted, larger herds with many groups require more GPS collars than small herds with fewer groups. The sample size needed to accurately estimate aggregation varies by metric, with KDE areas, useful for indexing environmentally transmitted disease risk, generally requiring fewer samples, especially in high-density contexts. The required sample size also varies with seasonal changes in density. During periods of highest density, similar sample sizes are required to estimate inter-animal distances and proximity rates regardless of herd characteristics. Our results have implications for costs associated with studying big game herds, indicating fewer collars may be sufficient in some cases. These insights can aid researchers and managers in determining the appropriate number of GPS collars required for effective herd monitoring and informing relevant aggregation metrics for their management goals.

Wyoming↗

Identifying overwintering habitat of silver and bighead carp in the lower Mississippi River: Implications for harvesting and population reduction

A total of 41 sites along a 58 mi reach of the Lower Mississippi River (LMR) were surveyed during winter 2022 for invasive carp aggregation.* Sites consisting of scallops closest to the dike-vegetated bank interface with deeper, slow-moving water and consistent access back to the main channel were preferred. Carp avoided strong currents, and there was no trend in depth selection other than avoiding shallow (less than 20 ft) water. In January 2023, recreation-grade sonar (e.g., side-scan and down-imaging) surveys were conducted in the same reach of the LMR to demonstrate the technology and evaluate carp population size at sites with high abundances based on previous surveys. Fish density was estimated to be 32 fish/10,000 yd 3 (95% confidence interval [CI; 31–34]) using down-imaging software, which is the first estimate of assumed bigheaded carp density in the LMR. Additional fish collections are needed to confirm species composition and size abundance provided by sonar technology. Resurveying sites with high carp abundance over a range of river stages would be necessary to fully characterize habitat conditions, evaluate influence of river stage on occupancy duration, and continue to evaluate species composition and mass removal techniques as a management option in the Lower Mississippi River.

Louisiana, Mississippi↗

Simulation of groundwater flow to evaluate hydrogeologic controls on a PFAS plume, Coakley Landfill Superfund Site, Rockingham County, New Hampshire

Per- and polyfluoroalkyl substances (PFAS), including perfluorooctanoic acid (PFOA) and perfluorooctanesulfonic acid (PFOS), have been detected at combined concentrations above 2,000 nanograms per liter (ng/L) at groundwater seep locations near the Coakley Landfill Superfund site, in North Hampton, New Hampshire. The landfill was active from 1972 to 1985. An impermeable cap was placed on the landfill in 1998. The adjacent area to the Coakley Landfill has many water supply wells, and transport of PFAS compounds to the wells is a concern. Fracture anisotropy in the underlying bedrock aquifer complicates the understanding of PFAS transport because groundwater preferentially travels along fractures that may not align with the prevailing groundwater flow direction. In 2018, the U.S Environmental Protection Agency and the U.S. Geological Survey began an investigation of the groundwater flow from the Coakley Landfill site. This report describes the modification of a numerical groundwater-flow model for the local area around the Coakley Landfill and summarizes findings of the investigation. In addition, this report includes a brief description of PFOA and PFOS occurrence, a discussion of model construction, evaluation of model performance through calibration, and discussion of simulation results for two periods (before and after capping). Limitations are also discussed. Results show that simulated groundwater flow moves from the Coakley Landfill to the west and north. Advective transport modeling using particle tracking shows that groundwater from the landfill discharges primarily to streams to the west and north, and a small amount is transported to distal wells. Dilution of contaminants through advection and dispersion likely plays a role in whether PFAS compounds from the landfill will be detected above laboratory reporting levels at distal wells.

EarthArXiv↗

Woods Hole Coastal and Marine Science Center—2024 annual report

The 2024 annual report of the U.S. Geological Survey Woods Hole Coastal and Marine Science Center highlights accomplishments of 2024, includes a list of 2024 publications, and summarizes the work of the center, as well as the work of each of its science groups. This product allows readers to gain a general understanding of the focus areas of the center’s scientific research and learn more about specific projects and progress made throughout 2024, all while enjoying photographs taken in various environments and laboratories, and applicable maps and figures.

Circular↗

Yellowstone Volcano Observatory 2024 annual report

The Yellowstone Volcano Observatory (YVO) monitors volcanic and hydrothermal activity associated with the Yellowstone magmatic system, carries out research into magmatic processes occurring beneath Yellowstone Caldera, and issues timely warnings and guidance related to potential future geologic hazards. YVO is a collaborative consortium that includes the U.S. Geological Survey (USGS), Yellowstone National Park, University of Utah, University of Wyoming, Montana State University, EarthScope Consortium, Wyoming State Geological Survey, Montana Bureau of Mines and Geology, and Idaho Geological Survey. The USGS component of YVO also has the operational responsibility for monitoring volcanic activity in the Intermountain West of the United States, including Arizona, New Mexico, Utah, and Colorado. This report summarizes the activities and findings of YVO during the year 2024, focusing on the Yellowstone volcanic system.

Idaho, Montana, Wyoming↗

Escherichia coli monitoring and assessment in 2022 and 2023 after beach restoration at Lake St. Clair Metropark Beach, Macomb County, Michigan

Lake St. Clair Metropark Beach in Michigan has a history of closures because of elevated Escherichia coli ( E. coli ) concentrations in its recreational waters. To reduce closures, restoration projects were implemented in 2021 to deter waterfowl from congregating on the beach. In this study, the U.S. Geological Survey, in cooperation with the Michigan Department of the Environment, Great Lakes, and Energy and in collaboration with Huron-Clinton Metroparks and the Macomb County Health Department, monitored E. coli from 2022–23 in surface water, shallow groundwater, and sediment at Lake St. Clair Metropark Beach. Results were compared to data from a prerestoration (2018–19) study. A significant decrease in daily geometric mean E. coli concentrations in surface water was observed postrestoration, but the number of high concentration events increased. This resulted in more frequent beach closures postrestoration. Surface-sediment E. coli concentrations significantly decreased after restoration, and waterfowl populations generally decreased from 2021 to 2023, suggesting that the deterrence measures could be influencing E. coli concentrations in surface sediments and surface water. Groundwater E. coli concentrations were orders of magnitude higher than those in surface water and revealed no change correlated with restoration. Seepage measurements indicated that groundwater occasionally discharges into surface water, potentially providing a transport mechanism for E. coli to reach the lake. Continued monitoring and consideration of environmental factors could help to better understand the beach system.

Michigan↗

Arsenic and isotope concentrations in the lower Platte River valley of eastern Nebraska, early 1970s to 2023

The City of Lincoln, Nebraska, has been monitoring concentrations of arsenic in their source water and evaluating their options for treatment and removal since at least 2002. In 2022, the City of Lincoln, Nebr., with funding assistance from the Nebraska Water Sustainability Fund, began cooperating with the U.S. Geological Survey to examine arsenic concentrations in surface water and groundwater in the lower Platte River valley and the area around City of Lincoln Water System (LWS) well field. Arsenic data collected from the Platte River since 1974 were examined using the “weighted regression on time, discharge, and season” model, which compared the streamflow (also referred to as “discharge”), time of year, and season to estimate concentrations of arsenic. Annual mean arsenic concentrations modeled for more than 49 years at the Platte River at Louisville, Nebr., U.S. Geological Survey streamgage (station 06805500), indicated a significant increasing trend. Arsenic concentrations in the Platte River were seasonal, with the highest concentrations being observed during mid- to late summer. When seasonal patterns and streamflow were combined with arsenic concentrations in the Platte River during low streamflow conditions, groundwater contributions, which can have higher arsenic concentrations, make up a larger portion of the streamflow. Arsenic samples were collected from upstream rivers in 2022 and 2023 and were paired to analyze the arsenic contributions at the U.S. Geological Survey streamgage on the Platte River near Ashland, Nebr. (station 06801000), near the City of Lincoln well field. The arsenic concentrations from the streamgage on the Platte River near Ashland, Nebr., location, were higher than the U.S. Geological Survey streamgage on the Elkhorn River at Waterloo, Nebr. (station 06800500), and significantly lower than at the U.S. Geological Survey streamgage on the Platte River near Leshara, Nebr.(station 06796500), indicating that the Platte River usually contributes a higher concentration of arsenic than does the Elkhorn River as they join near Ashland, Nebr. During 1991–2023, six groundwater monitoring wells were analyzed to identify trends in arsenic concentrations. Two of the six wells had a positive trend during the 33-year period. One monitoring well did not reveal a long-term trend during this period but showed a trend during 2019–23, correlating to a period when the island in the middle of the Platte River was connected to the east bank of the river when manganese reducing conditions were present and groundwater levels were declining in the well. Across all wells the oxidation and reduction (redox) condition during the time of sampling was assessed. Mixed anoxic and (or) oxic redox condition was the most common redox process and the highest sampled arsenic concentrations in monitoring wells were observed in anoxic conditions driven by manganese reduction. Groundwater arsenic concentrations had seasonal variation around the City of Lincoln well field, with higher arsenic concentrations tending to be further south in comparison to samples collected further north. Isotope samples were collected and analyzed in surface water and groundwater around the LWS well field. The samples indicate that the proportion of surface water present in the LWS production wells can be higher in the spring and lower in the summer. With higher arsenic concentrations observed in the stream water during the summer period, the LWS source water can be affected by these elevated arsenic concentrations even though the proportion of surface water is lower.

Nebraska↗

Resource selection for an endangered flying squirrel, Glaucomys sabrinus coloratus, in a montane sky-island system

Geographically isolated endemic species and their habitats in montane systems face stressors of rapid climate change as well as legacy and contemporary land use change. In the case of endangered species in fragmented terrestrial montane habitats, effectively sky-islands, insight into habitat use and resource selection is vital for effective conservation measures. We created a resource selection function using a long-term dataset of multiple monitoring techniques (live-trapping, radio-telemetry, camera traps, acoustic detectors, and nest boxes) across a wide geographical range for an endangered subspecies, the Carolina northern flying squirrel Glaucomys sabrinus coloratus , in a vulnerable high-elevation sky-island boreal forest ecosystem in the southeastern USA. Using fine-scale habitat and topographic coverage on 8 sky-islands, we employed various models to capture nuanced habitat relationships that can better inform the conservation of remaining subpopulations as well as other endemic species that share their habitat. Our analyses confirmed that red spruce Picea rubens -Fraser fir Abies fraseri was the most significant habitat component for determining Carolina northern flying squirrel presence, but that relationships varied somewhat among sky-islands owing to differences in extent, elevation range, and forest community configurations. Further, we found that solely using nest boxes, as previously reported, to create a resource selection function biased the results, but that nest boxes remain an effective tool for overcoming habitat fragmentation and decreasing exposure to antagonistic species.

North Carolina, Tennessee, Virginia↗

Factors affecting the spatial distribution of Niangua darters Etheostoma nianguae in streams of the Osage River basin, Missouri, USA

Aquatic ecosystems are rapidly changing, posing challenges for the conservation of threatened and endangered species, such as the Niangua darter Etheostoma nianguae , and highlighting the need to evaluate habitat use at multiple scales. The Niangua darter is a small benthic fish endemic to north-flowing streams of the Osage River basin in south-central Missouri, USA, and is federally threatened due to habitat degradation and fragmentation. Effective conservation of this species requires understanding the environmental conditions where they occur. We examined habitat use of Niangua darters at 3 nested spatial scales: macrohabitats, stream reaches, and watersheds, across 74 stream reaches in the Osage River basin. At both the macrohabitat and reach scale, Niangua darters were more likely to occur in habitats with intermediate depth (mean 41.4 and 38.5 cm, respectively) and moderate water velocities (0.20 and 0.25 m s -1 ). At the reach scale, mean summer stream temperature (mean = 23.4°C) was positively associated with Niangua darter presence, suggesting increased likelihood of occurrence in warmer streams. At the watershed scale, darters were associated with watersheds underlain by limestone and dolomite bedrock, greater soil infiltration capacity, and greater elevational relief. These characteristics likely promote stable channels with coarse substrates and minimal fine sediment deposition. These results indicate that environmental drivers differ among spatial scales but collectively reinforce the importance of physical habitat stability. As aquatic ecosystems continue to change, conservation strategies that maintain natural flow regimes and prioritize instream and riparian habitat stability and geomorphic integrity will be essential to sustaining Niangua darter populations.

Missouri↗

How wildlife respond to tropical cyclones: Short-term tactics and long-term impacts

From butterflies to lizards and from sharks to seabirds, wildlife exhibit tactics to survive the impacts of tropical cyclones, also known as hurricanes, cyclones, or typhoons depending on where they occur. Some species seek refuge during the storm by moving, some remain in place and ride it out, and others move longer distances, avoiding the main impacts of the storm altogether. Tropical cyclones can have direct impacts on wildlife (e.g. mortality) but can also have indirect effects by altering resources and habitat, with downstream impacts on abundance and recruitment. Using examples from across taxa and ecosystems, we explore the pathways by which tropical cyclones can influence wildlife populations and communities. We describe tactics demonstrated by wildlife that enable them to survive the immediate impacts of the storm, as well as the longer-term impacts after the storm. We give examples of tropical cyclones as a selective pressure and as a facilitator for the introduction of invasive species. We also describe how tropical cyclones may provide a net benefit to some native species. The ecological and evolutionary impacts of tropical cyclones on wildlife can be complex, as they are often intertwined with concurrent pressures from land-use change, human development, and climate change. As the frequency of intense tropical cyclones is predicted to increase globally, identifying the mechanisms by which wildlife cope with such disturbances can aid in understanding and mitigating the impacts of climate change on wildlife.

Biological Reviews↗

Bayesian model selection to investigate meaningful spatial scales

Ecologists and other statistical practitioners with access to high-resolution spatial data often lack guidance on best approaches for discerning meaningful spatial scales for environmental covariates which is necessary when spatial factors influence environmental processes. Recently developed methods have attempted to automate investigating spatial scales for covariates by evaluating models for which potential explanatory variables are derived from circular extents of increasing size centered at survey locations. However, these methods make a strong assumption on the inclusion of the covariate and do not help discern whether a covariate should be included in the model. We present an approach that utilizes researcher guidance to create informative priors on the model space that, along with parallelizable Reversible Jump Markov chain Monte Carlo techniques, enables efficient estimation of posterior model probabilities to assist with the choice of meaningful spatial scales for environmental covariates.

Ecology and Evolution↗

A chromosome-level genome assembly of a vernal pool specialist amphibian, the Western Spadefoot, Spea hammondii

We assembled and annotated a chromosome-level genome for the Western Spadefoot, Spea hammondii (Anura, Scaphiopodidae) representing one of only three amphibians included in the California Conservation Genomics Project (CCGP). Spea hammondii is a vernal pool breeding anuran native to California and northwestern Baja California which has undergone both range contractions and local extirpations across its distribution, primarily due to habitat loss and degradation and drought. The species is recognized by the state of California as a Species of Special Concern and is proposed for listing under the United States Endangered Species Act. Using the established CCGP pipeline, this S. hammondii genome was produced using Pacific Biosciences HiFi long-reads and Omni-C proximity ligation, resulting in a de novo genome assembly 1.14 Gb in length, distributed across 479 scaffolds (scaffold N50 = 120.8 Mb; largest scaffold = 183.6 Mb) with a BUSCO completeness score of 90.9% using a conserved tetrapod ortholog set. Our assembly shows high base accuracy (quality value [QV] = 63.7) and low frameshift error in coding regions (QV 50.42). Annotation of this genome yielded 20,434 genes with a BUSCO completeness score of 94.7%. This genome assembly, in combination with range-wide resequencing data from CCGP, will facilitate statewide population genomic assessments to delineate conservation units, quantify inbreeding and genomic load, and test for adaptive variation associated with vernal pool hydrology and drought tolerance, all of which are important considerations in the proposed federal listing.

Journal of Heredity↗

Why are ornithological studies so focused on the breeding stage? A test of hypotheses

Unequal representation of focal research areas can arise during the initial stages of project development when investigators make decisions about what, when, and where to study. Regarding when research is conducted, publications on vertebrates are strongly skewed toward breeding-stage studies, leaving sizeable gaps in our knowledge pertaining to behavior and demography in nonbreeding stages. Here, we quantified how the focus on different annual cycle stages has changed over the past 64 years in the field of ornithology, and tested 3 hypotheses to explain underlying correlates of the focus on different stages. We surveyed field-based studies published in Ornithology from 1960 to 2024 and documented the annual cycle stages examined, regions of study, migratory strategies of focal species, and author affiliation for each paper. The tendency to conduct breeding-stage research in ornithology became more, rather than less, pronounced over the 64-year interval, and breeding-stage research was more common when field work focused on migratory species. Therefore, investigators, authors, and editors could likely increase representation of other annual-cycle stages by supporting, conducting, and publishing more studies in the tropics and more studies using remote tracking technologies. More nonbreeding and year-round studies are necessary to fully understand the ecology and evolution of species and develop the most effective strategies for conservation.

Ornithology↗

Selected water-quality data from the Cedar River and Cedar Rapids well fields, Cedar Rapids, Iowa, 2017–22

The Cedar River alluvial aquifer is the source of drinking water in Cedar Rapids, Iowa. Production wells are completed in the alluvial aquifer approximately 40 to 80 feet below land surface. The City of Cedar Rapids and the U.S. Geological Survey have studied the groundwater-flow system and water quality of the aquifer in the vicinity of Cedar Rapids since 1992. Results of these studies documented hydrologic conditions, water quality, and geochemistry of the alluvial aquifer and interactions with the Cedar River. Water-quality samples were collected for studies involving well field monitoring, trends, source-water protection, groundwater geochemistry, surface-water–groundwater interaction, and pesticides in groundwater and surface water. Water quality was analyzed for dissolved major ions (boron, bromide, calcium, chloride, fluoride, iron, magnesium, manganese, potassium, silica, sodium, sulfate, and total dissolved solids), dissolved nutrients (ammonia as nitrogen, ammonia plus organic nitrogen as nitrogen, nitrite plus nitrate as nitrogen, nitrite as nitrogen, orthophosphate as phosphorus, and phosphorus), dissolved organic carbon, and selected pesticides. Physical characteristics (alkalinity, dissolved oxygen, pH, specific conductance, and water temperature) were measured on site and recorded for each water sample collected. This report presents the results of routine water-quality data-collection activities from October 2017 through September 2022. Methods of data collection, quality assurance, water-quality analyses, and statistical procedures are presented. Data include the results of water-quality analyses from quarterly sampling from monitoring wells, production wells, two water treatment plants, and the Cedar River at Blairs Ferry Road at Palo, Iowa, streamgage (U.S. Geological Survey station number 05464420), as well as monthly nutrient sampling from the Cedar River and Morgan Creek near Covington, Iowa, streamgage (U.S. Geological Survey station number 05464475).

Iowa↗

Simulated seasonal loads of total nitrogen and total phosphorus by major source from watersheds draining to Washington waters of the Salish Sea, 2005 through 2020

The U.S. Geological Survey and the Washington State Department of Ecology (Ecology) have developed watershed models of seasonal load estimates of total nitrogen (TN) and total phosphorus (TP) discharging into the Washington State waters of the Salish Sea from 2005 through 2020. The modeling approach used was dynamic SPARROW (SPAtially Referenced Regressions On Watershed attributes), a statistical-physical watershed modeling technique, initially applied at large spatial scales to represent long-term average stream loads throughout a stream network, refined here to estimate seasonal TN and TP loads across watersheds. Upstream contributing sources included permitted treated wastewater facilities, crop fertilizer, animal feeding operations, septic systems, urban land and stormwater, atmospheric deposition (TN only), nitrogen fixation by Alnus rubra Bong. (red alder) trees (TN only), and background geologic material (TP only). Instream load magnitudes and their source compositions varied across watersheds, and even within each watershed, yet the largest loads typically occurred in the large rivers during winter and fall when streamflow was highest. Likewise, instream loads were typically lowest in summer during low streamflow, yet the relative instream aquatic decay was highest. The seasonal storage lag component of all nonpoint sources was estimated to contribute a quarter of the seasonal instream load during winter and fall high streamflow and sometimes half of the instream load during summer low streamflow. Simulated seasonal loads carried by streams to a few hundred river mouth marine discharge points ranged by several orders-of-magnitude for TN and TP due to the spatial and seasonal differences in hydrologic flows, magnitude and timing of contributing sources, and instream decay. The Snohomish and Skagit Rivers discharged the largest TN and TP loads, yet the Samish River was shown to have some of the highest TN and TP yields and concentrations. Additionally, a reference scenario estimate developed of the pre-industrial local and regional TN loads suggests that red alder tree density has increased in lower riparian areas and that treated wastewater is the dominant source in some watersheds that has led to increases in TN loading to marine waters.

British Columbia, Washington↗

Influence of modeling assumptions on pedestrian evacuation success for non-eruptive lahar hazards at Mount Rainier, Washington

Previous efforts to characterize lahar threats posed to communities downstream of volcanoes have focused primarily on delineating hazard zones that lack information on lahar-arrival times and exposure estimates that implicitly treat threats to be the same regardless of distance from the volcano. Estimated lahar-arrival times, travel times for individuals to leave hazard zones, and possible evacuation delays related to event identification, warning dissemination, and evacuee behavior are important, but often overlooked, aspects of understanding the societal threats posed by lahars. These temporal considerations are important for unexpected lahars that could occur due to slope failure in the absence of precursory volcanic unrest or eruption. This case study examines the role of time in lahar evacuations by quantifying population exposure and evacuation potential for non-eruptive lahar hazards associated with Mount Rainier, Washington. Lahars could directly affect tens of thousands of residents and employees, thousands of students at primary and secondary schools, and hundreds of individuals at long-term residential care facilities. Geospatial path-distance modeling quantified evacuation potential for 736 scenarios that represent combinations of lahar sources, evacuation destinations, pedestrian travel speeds, and a range of departure-delay assumptions. Depending on location, some communities may have substantial loss of life in tens of minutes after lahar initiation, whereas other communities may be managing large-scale evacuations over several hours. Estimates of evacuation success based on a range of scenarios provide individuals in hazard zones and risk-reduction agencies with insights on how their actions may increase or decrease the number of people that survive future lahars.

Washington↗