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Results for “Philosophical Transactions of the Royal Society B: Biological Sciences”

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

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1,687 records · Page 84Linked to original sources
USGS2024

Using surficial geologic maps, vegetation, and monitoring to address erosion impacts from grazing in Channel Islands National Park, California

Employing a map-unit classification scheme based on geomorphic process and age, the U.S. Geological Survey (USGS) mapped Quaternary surficial deposits of the five islands comprising Channel Islands National Park (CHIS), California, as no such maps previously existed. Mapping was motivated through an agreement with the National Park Service (NPS) to aid natural resource assessments, including post-grazing disturbance recovery and identification of mass wasting and tectonic hazards. The resulting detailed (1:12,000 scale) maps portray areas of upland erosional transport processes and alluvial, fluvial, eolian, beach, marine terrace, mass wasting, and mixed depositional processes at a scale commensurate with the process signal on the landscape. Detailed, GPS-located observations of sedimentology, pedogenic development, landscape position, and geomorphology constrain map unit identification. In addition, map-unit boundary delineation was determined in a GIS using a variety of high-resolution (sub-meter) aerial imagery and lidar-based DEMs complemented by derivative raster products. The GIS geodatabase schema used is GeMS compliant. Resolvable map-unit widths are as small as 10-15 meter. Locational accuracy of unit boundaries is estimated to be as low as 10 m or better. Detailed mapping is at a scale allowing determination of geomorphic transport processes operating on the landscape and conveys geologic information to land managers at a resolution commensurate with park resources. Map unit ages are constrained by relative soil chronostratigraphy, vertebrate and invertebrate fossils, and materials collected for dating control using radiogenic, luminescence, and cosmogenic radionuclide techniques. Associated topical studies examined connections between geology, surface water, and vegetation distribution and restoration.

California↗
USGS2025

Combining scanning electron microscopy, X-ray diffraction, and X-ray fluorescence to characterize shear zones at the Pogo gold deposit, Alaska

This study employs a multi-method analytical approach to characterize the mineralogical, geochemical, and textural properties of fault rocks from the Pogo gold mine in the Yukon-Tanana Upland, central Alaska. Specifically, we examine cataclasites, to document the structural and geochemical evolution of shear zones and their associations with gold mineralization. To investigate the shear zone, we integrate portable X-ray fluorescence (pXRF), scanning electron microscopy-based automated mineralogy (SEM-AM), X-ray diffraction (XRD), and high-resolution micro-X-ray fluorescence (micro-XRF) mapping. These methods collectively provide insights into bulk and trace element chemistry, mineralogical composition, and deformation-related textures across multiple scales. Handheld pXRF enables rapid geochemical screening, guiding SEM-AM and XRD analyses to ensure consistent mineralogical interpretation. X-ray diffraction identifies and quantifies crystalline phases, while SEM-AM produces high-resolution mineral maps, revealing mineral abundances, grain-scale textures, and gold associations. Micro-XRF mapping further refines our understanding by showing visual trace element distributions at sub-millimetre resolution. By integrating these techniques, we improve our understanding of the nature and geochemistry of Pogo shear zones, their role in gold mineralization, and support metallurgical processing strategies. This approach enhances exploration models and resource characterization for structurally complex gold deposits.

Alaska↗
USGS2025

Metal-rich lacustrine sediments from legacy mining perpetuate copper exposure to aquatic-riparian food webs

Historic copper mining left a legacy of metal-rich tailings resulting in ecological impacts along and within Torch Lake, an area of concern in the Keweenaw Peninsula, Michigan, USA. Given the toxicity of copper to invertebrates, this study assessed the influence of this legacy on present day nearshore aquatic and terrestrial ecosystems. We measured the metal (Co, Cu, Ni, Zn, Cd) and metalloid (As) concentrations in sediment, pore water, surface water, larval and adult insects, and two riparian spider taxa collected from Torch Lake and a nearby reference lake. Overall, elevated metal and metalloid concentrations, particularly Cu, were measured in all sediment samples and some surface and pore water samples collected from Torch Lake. For instance, Cu concentrations in the Torch Lake sediment were ∼200% higher than the reference lake and all measured concentrations exceeded predicted effects concentrations by at least ninefold. Within larval insect tissues, we observed 160% higher Cu concentrations than measured in the reference lake, and Cu was the only measured element above predicted effects concentrations in Torch Lake. Adult insects collected at both lakes had similar metal concentrations irrespective of exposure levels. Yet we found 100% higher copper concentrations in Torch Lake riparian spiders, demonstrating elevated exposure risk to insectivores across the aquatic-terrestrial boundary. Our results highlight that other metals in the mixture may not be as concerning to adjacent riparian ecosystems, but copper remains a contaminant of concern in Torch Lake 60 years after mining ceased.

Michigan↗
USGS2025

Groundwater structures fish growth and production across a riverscape

Landscapes are composed of habitat patches and conditions that vary across space and time. While habitat variability and complexity can support important ecological processes and ecosystem services, the dynamic nature of habitats can also constrain organismal growth and production as optimal conditions are fleeting. In riverine ecosystems, groundwater discharge to streams stabilises water temperature and flow regimes, thus mediating how habitat complexity is expressed. Yet, how stable habitats structure growth and production within the broader landscape matrix is not well understood. In this study, we explored the effects of groundwater on spatiotemporal variation in growth and production for juvenile Yellowstone cutthroat trout ( Oncorhynchus virginalis bouvieri ) across the upper Snake River catchment, Wyoming, USA. We combined machine learning techniques and remotely sensed landscape data to estimate groundwater availability across the river network, which we linked to stream temperature regimes and conspecific density. We then used Bayesian hierarchical models to quantify the effects of temperature, density and groundwater on spatiotemporal variation in fish growth and production in 52 focal reaches. Finally, we predicted body size trajectories and trends in total production continuously over both space and time to understand the effect of groundwater at the riverscape scale. Groundwater discharged to streams where topography changes abruptly in valley-bottom areas underlain by coarse glacial deposits. Groundwater stabilised temperature regimes and was associated with high trout densities. Temperature and density, in turn, interacted to influence growth rates: growth increased strongly with temperature, but this effect was reduced when density was high. Accordingly, variation in groundwater availability among stream reaches diversified growth and production regimes. In reaches with low groundwater availability, growth and production declined over time from summer maxima. In contrast, in reaches with high groundwater availability, temporal trends in growth and production were hump-shaped—peaking in autumn—and mean production was greater. At the riverscape scale, temporal asynchrony in growth rates generated convergent spatial variation in growth capacity, but—when combined with density—led to the formation of distinct hotspots of production. Our results demonstrate how groundwater, an important driver of aquatic ecosystem heterogeneity, structures trout growth and production across space and time. Importantly, rare, but stable habitats may disproportionately affect ecological processes and serve as key sources of population diversity at larger spatial scales.

Wyoming↗
USGS2025

Fossil diatoms in Arctic marine surface sediments

Diatoms are one of the main constituents of marine phytoplankton in the Arctic, and thanks to their siliceous skeletons, diatom fossils are relatively well preserved in sediments. Due to their species-specific sensitivity to different ocean conditions, their abundance and assemblages in sediments are routinely used by paleoceanographers to reconstruct the state of the surface ocean in the past (Koç 2007). By using statistical methods, we can obtain valuable knowledge about their ecological preferences (Oksman et al. 2019) and generate quantitative reconstructions of various parameters, such as sea-surface temperature and sea-ice concentration through time (Krawczyk et al. 2021; Sha et al. 2014). The Marine Arctic Diatoms (MARDI) working group (WG) ( pastglobalchanges.org/mardi ) aims to advance knowledge on marine-diatom ecology and diatom-based reconstructions by compiling and harmonizing data from surface-sediment samples across the Arctic.

Pages Magazine↗
USGS2026

Measuring stress In high pressure deformation experiments with high speed fiber-optics

High‐pressure, high‐temperature rock deformation experiments are essential for understanding deep Earth processes, but accurately measuring stress is challenging due to the inaccuracy introduced by seal friction within the apparatus and large inertia, which affects earthquake process measurements made far from the experimental fault. To overcome these limitations, we developed and implemented a simple, compact fiber‐optic sensor based on an External Cavity Fabry–Perot Interferometer for in situ load measurement on a piston inside the pressure vessel of a Griggs‐type high‐pressure apparatus. The sensor can be used at sample temperatures up to 800°C for both slow creep and fast rupture testing with bandwidth capability from DC to 6 MHz. Two important experimental results are described: (1) the first direct measurements of seal friction in this apparatus type; these measurements record seal friction approximately one‐tenth of the confining pressure under both low (150 MPa) and high (1 GPa) pressure conditions; and (2) high‐temporal resolution capture of dynamic stress drops during stick‐slip faulting events at high‐confining pressure, revealing near‐fault wave propagation details, high‐frequency oscillations, and implying high‐transient slip rates (6–12 m/s) previously inaccessible with external sensors.

The Seismic Record↗
USGS2025

Aftershocks in stress shadows are inconsistent with modeled static Coulomb stress changes

Aftershock triggering is commonly attributed to increases in static Coulomb stress. In some areas, termed "stress shadows", a decrease in Coulomb stress is predicted to suppress earthquake occurrence. However, aftershocks are often observed in the modeled stress shadows. We examine several hypotheses that attempt to reconcile these shadow aftershocks with the static Coulomb stress change model: (1) they appear to be in shadows because of inaccuracy in the stress change calculations, (2) they occur on faults of unusual orientation which actually experienced increased Coulomb stress, (3) they occur on faults with different frictional properties, not modeled well by Coulomb stress, and (4) they are secondary aftershocks triggered by prior aftershocks or afterslip. When tested on the 2016 Mw7.0 Kumamoto, Japan, and 2019 Mw7.1 Ridgecrest, California, aftershock sequences, none of these hypotheses can explain the majority of the shadow aftershocks, and taken together these hypotheses can explain only about half of these aftershocks. This implies that Coulomb stress modeling that lacks small-scale fault zone heterogeneity might be inadequate to fully capture the true static stress changes and/or that other physical triggering models are needed, for example transient processes such as delayed triggering by dynamic stress changes from the passing seismic waves.

California↗
USGS2025

Microbial ecology of permafrost soils: Populations, processes, and perspectives

Permafrost microbial research has flourished in the past decades, due in part to improvements in sampling and molecular techniques, but also the increased focus on the permafrost greenhouse gas feedback to climate change and other ecological processes in high latitude and alpine permafrost soils. Permafrost microorganisms are adapted to these extreme environments and remain active at low temperatures and when resources are limited. They are also an important component of global elemental cycles as they regulate organic matter turnover and greenhouse gas production, particularly as permafrost thaws. Here we review the permafrost microbiology literature coupled with an exploration of its historical aspects, with a particular focus on a new understanding advanced by molecular biology techniques. We further identify knowledge gaps and ways forward to improve our understanding of microbial contributions to ecosystem biogeochemistry of permafrost-affected systems.

Permafrost and Periglacial Processes↗
USGS2026

CRESCENT earthquake dynamic rupture, earthquake cycle, and tsunami code verification platform

Physics-based simulations are critical for understanding natural hazards. The increasing complexity of numerical codes requires benchmark exercises to verify that different computational methods yield consistent results when solving the same governing equations. Here, we present an open-access web platform designed for the verification of earthquake dynamic rupture, seismic cycle, and tsunami simulations. The platform architecture utilizes a modular, serverless backend on Amazon Web Services (AWS) to provide scalable file processing and visualization. A lightweight static web application provides a secure interface for uploading and managing results, while the browser-based data visualization enables interactive analysis of time series and surface grid data. By using structured JavaScript Object Notation (JSON) text files to define benchmark structures, the system remains fully extensible, allowing the addition of new scenarios without modifying the underlying software logic. The platform hosts the "The Tsunami Problem Versions" (TTPV) 1 & 2, two benchmarks for 3D fully coupled earthquake dynamic rupture and tsunami generation, and provides a framework for earthquake cycle models. This community resource aims to build trust in numerical simulations and facilitate long-term collaborative code verification as modeling software continues to evolve.

Seismica↗
USGS2026

Cruise summary—Samoa Basin abyssal mapping—Box coring leg, Pago Pago, Territory of American Samoa to Pago Pago, American Samoa, April 11– May 1, 2026

Expedition Summary U.S. Geological Survey scientists led a box coring effort to the Samoa Basin to characterize minerals and the surrounding abyssal sediments and fauna. Thirty-eight box cores were deployed between April 13, 2026, and April 28, 2026. Thirty-six box cores recovered sufficient material to determine nodule density, and 35 recovered sufficient material for subcores to be collected. The purpose of this Data Report is to provide a summary of samples collected, initial results that were obtained shipboard, and briefly mention planned future analyses from this expedition.

Data Report↗
USGS2024

Imaging of seismic discontinuities using an adjoint method

For imaging of seismic discontinuities at depth, reverse time migration (RTM) is a powerful method to apply to recordings of seismic events. It is especially powerful when an extensive receiver array, numerous seismic sources, or both, permit adequate reconstruction of incident and scattered wavefields at depth. Reconstructing either the incident or scattered wavefield at depth becomes less accurate when relatively few recordings of seismic events are available. Here we explore an inverse scattering approach to imaging discontinuities based on an adjoint method, employing sensitivity kernels (Frechet derivatives) that represent jumps in material properties across seismic-discontinuity surfaces. When combined with ray-based requirements on scattering geometry, it constitutes a powerful approach to determining the locations and amplitudes of the discontinuities, recovering only those properties that can be resolved by a spatially limited source and/or receiver distribution. This is illustrated by synthetic examples with local sources followed by a field example in a subduction zone setting

Washington↗
USGS2024

Reference 1D seismic velocity models for volcano monitoring and imaging: Methods, models, and applications

Seismic velocity models of the crust are an integral part of earthquake monitoring systems at volcanoes. 1D models that vary only in depth are typically used for real‐time hypocenter determination and serve as critical reference models for detailed 3D imaging studies and geomechanical modeling. Such models are usually computed using seismic tomographic methods that rely on P ‐ and S ‐wave arrival‐time picks from numerous earthquakes recorded at receivers around the volcano. Traditional linearized tomographic methods that jointly invert for source locations, velocity structure, and station corrections depend critically on having reasonable starting values for the unknown parameters, are susceptible to local misfit minima and divergence, and often do not provide adequate uncertainty information. These issues are often exacerbated by sparse seismic networks, inadequate distributions of seismicity, and/or poor data quality common at volcanoes. In contrast, modern probabilistic global search methods avoid these issues only at the cost of increased computation time. In this article, we review both approaches and present example applications and comparisons at several volcanoes in the United States, including Mount Hood (Oregon), Mount St. Helens (Washington), the Island of Hawai’i, and Mount Cleveland (Alaska). We provide guidance on the proper usage of these methods as relevant to challenges specific to volcano monitoring and imaging. Finally, we survey‐published 1D P ‐wave velocity models from around the world and use them to derive a generic stratovolcano velocity model, which serves as a useful reference model for comparison and when local velocity information is sparse.

Seismological Research Letters↗
USGS2026

Quantifying methane emissions from a rich fen with uncrewed aircraft systems in boreal Alaska

Thawing of permafrost in northern latitudes is accelerating, potentially releasing substantial amounts of methane (CH 4 ) as forested permafrost plateaus transition into wetlands. This ecosystem shift alters the carbon exchange between the soil and atmosphere, influencing the permafrost-carbon feedback. Monitoring these changes may require measurement platforms operating across varied spatial and temporal scales. Recent advancements in small uncrewed aircraft systems (sUAS) enable high resolution CH 4 flux quantification in remote, complex terrains; however, comparisons with established methods such as eddy covariance flux towers remain limited. We used a hexacopter sUAS to quantify CH 4 emissions from the Alaska Peatland Experiment, a wetland within the Bonanza Creek Experimental Forest. Using an ensemble of methods to define the background CH 4 concentration, along with near surface emissions from soil chambers, helped constrain our flux estimates. The sUAS method yielded an average flux of 0.0077 ± 0.0019 mol s −1 CH 4 , within a factor of two concurrent tower-derived total source flux estimates (0.0036 ± 0.00042 mol s −1 CH 4 ). To assess spatial drivers of observed fluxes, we conducted a 2D footprint analysis and overlaid the results with high-resolution hyperspectral land cover classification, quantifying vegetative contributions within each footprint. This revealed higher fen representation in sUAS measurements (73.8%) than in tower footprints (58.8%), and lower tussock meadow representation (15.6% and 30.3%, respectively). These differences were consistent with known variation in vegetation-specific CH 4 emissions. Our results highlight that combining footprint modeling with land cover characterization can enhance interpretations of CH 4 fluxes and guide cross-platform comparisons.

JGR Atmospheres↗
USGS2024

Wildfire, extreme precipitation and debris flows, oh my! Channel response to compounding disturbances in a mountain stream in the Upper Colorado Basin, USA

Compounding changes in climate and human activities stand to increase sediment input to rivers in many landscapes, including via discrete perturbations such as post-fire debris flows. Because sediment supply is a dominant control on river morphology, understanding mountain river responses to sediment regime perturbations is critical to predicting and addressing downstream effects to infrastructure, water security and aquatic habitat. A growing body of literature explores the causes, likelihood, size and composition of post-fire debris flows, but the channel response to these disturbances remains poorly studied. This study used repeat field surveys, time-lapse photographs and pre- and post-disturbance remote sensing datasets to document and analyse space- and time-varying channel response to post-fire debris flows along a steep mountain stream in the Upper Colorado River Basin, USA. Specifically, we evaluated channel morphology and bed composition changes, correlations between channel changes and valley and channel attributes, and the relative importance of spring snowmelt versus summer monsoon events. Several cross-sectional channel change types were observed from lidar a month after post-fire debris-flow events, including channelized and braided incision into deposits, incision into the pre-fire channel bed, bank erosion and no change. Channel changes were most correlated with pre-fire channel width, valley width and unit stream power, and these relationships could be tested in other burned locations to evaluate their transferability. Repeat channel surveys before and after snowmelt indicate rapid recovery and channel narrowing following major sediment disturbances, although sediment deposits remained in the channel margins. Together, these results highlight the importance of field and remote sensing-based channel surveys to improve understanding of, and potential to predict, mountain channel response to compounding climate disturbances.

Earth Surface Processes and Landforms↗
USGS2025

Statistical approaches for modeling correlated grade and tonnage distributions and applications for mineral resource assessments

Correlations between grade and tonnage exist in mineral resource data compiled from published reports, but they are not always addressed during quantitative assessment of undiscovered mineral resources. Failure to account for correlated grade and tonnage distributions can result in geologically unrealistic assessment results. Current software tools simulate univariate ore tonnage and multivariate resource grades of undiscovered deposits independently. As a result, analysts are forced to rely on ad-hoc solutions to minimize the correlation issues by: 1) creating subsets of data with restricted criteria; 2) truncating grade and tonnage distributions; and 3) testing model robustness using exploratory data analysis. While these methods represent pragmatic solutions, the statistical solutions presented here provide additional options to address real correlations in grade and tonnage data used for mineral resource assessments. We present a modified version of the MapMark4 package in R that introduces two alternatives for modeling grade and tonnage distributions, consisting of a multivariate solution that accounts for correlations between ore tonnage and metal grades and an empirical solution that utilizes simple random sampling with replacement to reproduce coupled grades and tonnages from the input data. We present simulations for contained ore and metal for three case studies representing tungsten skarn, komatiite-hosted nickel, and sediment-hosted carbonate amagmatic zinc-lead (Mississippi Valley-type) deposits. Employing the methods presented here yields quantitative mineral resource assessment results that more closely reflect the empirical distributions of grades and tonnages observed in nature and expands the applicability of these tools for ongoing critical mineral resource assessments.

Applied Computing and Geosciences↗
USGS2026

Neutron scattering reveals fractionation of natural gas mixtures in unconventional petroleum reservoir pores: Perspectives on energy resource recovery and storage

In unconventional petroleum reservoirs hydrocarbon fluids are hosted by both mineral and organic matter pores. These pores can have diameters that range from microns to less than a single nanometer and, for unconventional reservoirs, there is evidence that small pores ( <20 nm diameter) may constitute a large proportion of the available space. Understanding subsurface volumes and how fluids behave in them can be helpful for predicting hydrocarbon production and storage in the subsurface. One area with knowledge gaps regarding hydrocarbon behavior in small pores is the possibility for mixtures to fractionate (i.e., unmix) based on pore size or pore type. Mixture fractionation as a function of pore size could impact recovery of hydrocarbons, drive compositional shifts during production, and limit fluid storage within candidate reservoirs. To investigate natural gas fractionation in small geologic pores, we applied total neutron scattering to probe methane-ethane mixtures at reservoir pressures (up to ≈30 MPa) and temperature (60°C) within a sample from the Upper Cretaceous Niobrara Formation. Neutron scattering data reveal only minor fractionation occurs between methane and ethane in 20-nm diameter sample mesopores. Increased fractionation is observed for sample micropores, with up to 72% (±1% at 1-sigma) methane found in 2 nm diameter pores following injection of a 50%-50% methane-ethane mixture. These data provide rarely available direct experimental observations of hydrocarbon mixture behavior under nanoconfinement in a sample from an important unconventional petroleum reservoir. Our results are discussed in the context of evaluating hydrocarbon resources in unconventional reservoir meso- and micropores, reconciling observed gas composition changes during production, and more broadly, understanding subsurface pore volumes within an energy storage framework.

Fuel↗
USGS2026

Ringtail (Bassariscus astutus) survival in southwestern Oregon

The effective conservation and management of small carnivore populations requires understanding species’ life-history traits and identifying important vital rates that drive population trajectories. However, many of these species are rare or elusive and of state or federal conservation concern, and demographic information is often lacking and difficult to obtain. At the northern limit of their range in Oregon, USA, ringtail ( Bassariscus astutus ) occupy mid-elevation forests and are a species of conservation concern because of their limited distribution and suspected low density. We initiated a radio-telemetry study in 2020 to estimate monthly and annual survival of ringtail in southwest Oregon. We monitored 26 ringtail from November 2020 to October 2022 and estimated survival rates using a known-fate framework and Program MARK. Model-averaged monthly survival estimates ranged from lows of 0.963 (SE = 0.022, 95% CI = 0.887–0.988) in spring (Feb–May) of 2021 to highs of 0.980 (SE = 0.018, 95% CI = 0.889–0.997) in summer (Jun–Oct) of 2022. Model-averaged estimates of annual survival were 0.695 (SE = 0.176, 95% CI = 0.310–0.920) during 2020–2021 and 0.728 (SE = 0.168, 95% CI = 0.336–0.934) during 2021–2022. Predation was the leading cause of mortality, but notably, no mortalities could be attributed to avian predation. Survival rates were much higher within forested landscapes in Oregon than for populations in the southwestern United States, which may have implications for regional conservation and management strategies.

Oregon↗
USGS2026

Groundwater tracing used to delineate recharge areas and map karst groundwater pathways for subterranean streams at Oregon Caves National Monument and Preserve

Oregon Caves National Monument and Preserve in southwestern Oregon is a 4,554-​acre area managed by the National Park Service that is home to several cave systems, including Oregon Caves, which is the longest cave in Oregon, with 3.03 miles of mapped passages. Because of the interconnected nature of karst hydrologic systems, it is critical to understand the areas that can influence water quality and quantity in karst environments. Toward this goal, dye tracing was conducted by the U.S. Geological Survey from 2021 to 2024 to better understand the pathways that karst groundwater follows at Oregon Caves National Monument and Preserve and to delineate recharge areas for two caves, Oregon Caves and Cave Next Door. During the project, eight dye injections were conducted, delineating a 0.51-​square-​mile recharge area for Oregon Caves and a 0.69-​square-​mile recharge area for Cave Next Door. Additionally, the study helped to identify three resurgences associated with Oregon Caves that were previously unknown and showed that the recharge areas for the two caves were distinct from one another. The dye traces also illuminated some unique recharge characteristics of the karst at Oregon Caves, including a high variance in karst groundwater velocities, retention within the karst aquifers, and a significant diffuse-​flow component.

Oregon↗