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Results for “Journal of Freshwater Ecology”

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

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1,663 records · Page 4Linked to original sources
USGS2026

Estimating habitat availability for Chinook salmon (Oncorhynchus tshawytscha) and steelhead (O. mykiss) to inform reintroduction planning in the middle Snake River basin, USA

Anadromous fishes have been blocked from the middle Snake River basin since the construction of flood control, irrigation, and hydroelectric projects during the 19 th and 20 th centuries, culminating with the construction of Hells Canyon Dam (river kilometer [rkm] 398) in 1967. Seven large watersheds in the blocked area of the basin are under consideration for Pacific salmon reintroduction. The primary objective of this study was to identify and characterize potential reintroduction sites with high-quality rearing and spawning habitat for Chinook salmon ( Oncorhynchus tshawytscha ) and steelhead ( O. mykiss ) upstream of the Hells Canyon Complex in Idaho, Oregon, and Nevada, USA. We created and tested habitat models to predict rearing presence/absence, rearing abundance, and spawning presence/absence using channel morphology, hydrology, and stream temperature variables obtained from regional peer-reviewed datasets. Habitat models were trained with salmonid presence and abundance records collected in the lower Snake River basin (downstream of Hells Canyon Dam), where anadromous fish can currently access, from 1993 to 2011. Model performance was tested with set-aside data comprised of randomly selected reaches and independent environmental DNA data. An index model was created in the middle Snake River basin for each species by combining results from the habitat models. Modeling covariates differed by species and life stage and included different combinations of August stream temperature, summer flow, channel slope, and quadratic terms for temperature and slope. The habitat models predicted high versus low Chinook salmon and steelhead probability and abundance with 66% to 85% accuracy depending on species and life stage. The index models predicted a total of 2,887 km of Chinook salmon habitat and 2,434 km of steelhead habitat in the blocked area. The three basins in the blocked area with the greatest amount of predicted habitat were the Powder River, South Fork Payette River, and North Fork Payette River for Chinook salmon, and the Powder River, South Fork Boise River, and South Fork Payette River for steelhead. The modeling approach presented here is complementary to other planning efforts for Chinook salmon and steelhead reintroduction in the blocked area of the Snake River basin, and similar approaches may be useful for reintroduction planning in other systems.

Idaho, Nevada, Oregon, Utah, Washington, Wyoming↗
USGS2026

Age and colony variation in Adélie penguin metapopulation vital rates: Insights from a 25-year mark–recapture study

Understanding how vital rates vary with age, life-history stage, and among populations is fundamental for predicting the demographic consequences of environmental change, especially in longer-lived species with complex life histories. These species often exhibit delayed maturity and iteroparity, making nuanced demographic insights critical for assessing their long-term viability. This study investigated age- and colony-related variation in Adélie penguin vital rates including survival, recruitment, and breeding propensity. We used mark–recapture data collected over 25 years (1996–2020) from three Adélie penguin breeding colonies that differed in population sizes and trends but comprised a metapopulation located at capes Royds, Bird, and Crozier on Ross Island, Antarctica. We used multi-state models to estimate survival and detection rates relative to reproductive state and breeding colony and estimated transition probabilities reflecting movements between reproductive states and colonies. Apparent survival varied by reproductive state, colony, and age and averaged 0.80 (SD = 0.02) at Bird, and 0.72 (SD = 0.03) and 0.73 (SD = 0.03) at Crozier and Royds, respectively, for pre-breeders age 2–7 years with strong declines in pre-breeder survival after age 8. We observed less age-related variation in survival of breeders and non-breeders, but we observed differences between colonies with lower survival for breeders (0.72 to 0.80) compared to non-breeders (0.75 to 0.82). The average probability of surviving the first 2 years after fledging ranged from 0.43 (SD = 0.14) at Royds and Crozier (0.43, SD = 0.10) to 0.55 (SD = 0.15) at Bird. Movement between colonies was highest for pre-breeders (0.00%–12.00% depending on age and colony) and lowest for breeders (<0.20%). We observed the lowest age-related recruitment rates at Royds, with recruitment at Crozier almost twice as high, and intermediate at Bird. Breeding propensity was highest at Crozier and lowest at Bird. Colony-specific variation in vital rates likely contributed differently to population trajectories, suggesting that care must be taken to extrapolate vital rate estimates across colonies even within a metapopulation. These findings also highlight the importance of considering age, life-history stage, and geographic variation when assessing population vital rates in species with complex life histories.

Frontiers in Ecology and Environment↗
USGS2026

Decoding the oxidative digestion mechanism for polystyrene nanoplastic detection in the Great Lakes using a customizable Raman spectral processing algorithm

Despite the concerns surging around nanoplastics (NPs) regarding their prevalence and bioavailability in freshwater systems, robust detection of NPs in complex environmental matrices is hindered by the lack of standardized sample pretreatment and a mechanistic understanding of oxidative digestion. Here, we systematically investigate the interaction between hydrogen peroxide (H 2 O 2 ) and polystyrene (PS) NPs during digestion in deionized (DI) water and four environmental matrices from in and around the Great Lakes Basin. To facilitate high-throughput analysis, we develop Pre_peak, a customizable Raman spectral processing algorithm that achieves >99% accuracy for both NP identification and interference rejection, allowing reliable NP quantification via pixel counting and systematic decoding of the oxidative digestion mechanisms. In DI water, varying H 2 O 2 doses from 0 to 30% has negligible effects on the recovery and Raman signal intensity of PS NPs over 24 hours of digestion. However, morphological changes and aggregation of PS NPs are observed when the H 2 O 2 dose exceeds 20%. Prolonged digestion further leads to progressive NP loss. In natural waters, the optimal dosage and digestion duration depend on matrix characteristics, including dissolved organic matter (DOM) and ion composition. This study provides mechanistic insights into NP–oxidant interactions and underscores the need for matrix-tailored digestion protocols to advance standardized NP detection in freshwater environments.

Great Lakes↗
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

Hydrological control on soil redox condition and carbon loss of coastal wetland under sea-kevel rise

Coastal wetlands are critical carbon sinks with their biogeochemical and ecological functioning shaped by dynamic hydrological conditions that are increasingly influenced by climate change. A key unresolved question is how hydrologic flow, vegetation response, and rising sea levels interact to regulate soil redox condition and carbon loss in coastal wetlands. Using a field-tested hydrological–biogeochemical–ecological modeling framework, we reveal how the interplay between terrestrial groundwater discharge and tidal fluctuations generates complex groundwater flow patterns at the terrestrial–aquatic interface, and how these patterns modulate soil redox conditions, in turn influencing soil organic matter decomposition and carbon loss. Notably, rising sea levels suppress soil CO 2 emissions while reducing lateral dissolved carbon losses, thereby enhancing litter carbon sequestration under anoxic conditions. As vegetation responds to sea-level rise and carbon inputs diminish, litter carbon subsequently declines. These findings underscore a critical hydrological control on carbon cycling, advancing our understanding of coastal ecosystem resilience in a warming world.

Louisiana↗
USGS2025

Modeling seawater intrusion along the Alabama coastline using physical and machine learning models to evaluate the effects of multiscale natural and anthropogenic stresses

Seawater intrusion threatens groundwater resources in coastal regions, including southern Baldwin County, Alabama, where the freshwater-saltwater interface dynamics remain poorly understood. To address this gap, this study uses combined physics-based and machine-learning models to quantify seawater intrusion caused by natural (storm surges) and anthropogenic (human activities) perturbations. The long short-term memory network and wavelet analysis were used to assess vertical aquifer vulnerabilities, revealing that the shallow part of the Coastal lowlands aquifer system (CL1) in the southern Baldwin County region is more susceptible to sea level rise and groundwater extraction than deeper aquifers. Based on these findings, a cross-sectional numerical model (physics approach) for the CL1 aquifer was developed to evaluate tidal and storm surge effects, using Tropical Storm Claudette (June 2021) as a case study. Results showed that tidal fluctuations had a minimal impact on the saltwater-freshwater interface location, whereas storm surges caused substantial inland movement, with effects lasting for nine months. The steady-state version of the three-dimensional (3D) physical model predicted seawater intrusion across the entire area, and convolutional neural network-based modeling further validated the model results. The 3D physical model was also applied to a smaller area to assess human impact on the saltwater interface due to two groundwater pumping scenarios (± 50% of the baseline pumping rate). Results revealed that a 50% increase in groundwater withdrawals caused seawater to advance ~ 320 m inland, whereas a 50% reduction led to a ~ 270-meter retreat. This study highlights the vulnerability of Alabama’s shallow coastal aquifers to seawater intrusion due to storm surges and human activities, and demonstrates that combining physics-based models with machine learning approaches can improve groundwater predictions, though its accuracy depends on the availability of site-specific data.

Alabama↗
USGS2026

Simulated ground motion dataset in the Azores Plateau, Portugal, on rock and soil sites

Building on a previously developed bedrock dataset, this study extends the Azores Plateau ground motion simulations to include soil-amplified records and introduces a comprehensive validation framework. Soil amplification is modeled using one-dimensional soil profiles. A stochastic source-based approach is employed to generate the dataset, incorporating randomization of input-model parameters to account for the aleatory uncertainty in seismic activity. The accuracy of the dataset is verified through a comprehensive validation framework, showing that the randomization effectively captures variance and inter-period correlation observed in records. This work provides a robust dataset for advancing seismic hazard and risk assessment in the Azores Plateau.

central and eastern Azores islands↗
USGS1994

Hydrogeology of the Chickasaw National Recreation Area, Murray County, Oklahoma

The Travertine District (Park) of the Chickasaw National Recreation Area, operated and maintained by the National Park Service, is near the City of Sulphur in south-central Oklahoma. The Park was established in 1902 because of its unique hydrologic setting, which includes Rock Creek, Travertine Creek, numerous mineralized and freshwater springs, and a dense cover of riparian vegetation. Since the turn of the century several flowing artesian wells have been drilled within and adjacent to the Park. Discharge from many of these springs and the numbers of flowing wells have declined substantially during the past 86 years. To determine the cause of these declines, a better understanding of the hydrologic system must be obtained. The U.S. Geological Survey, in cooperation with the National Park Service, has appraised hydrologic information obtained for the Park from several studies conducted during 1902-87. The principal geologic units referred to in this report are the Arbuckle Group and the overlying Simpson Group. These rocks are of Upper Cambrian to Middle Ordovician age and are composed of dolomitic limestone, with some sandstones and shales in the Simpson Group. Surface geologic maps give a general understanding of the regional subsurface geology, but information about the subsurface geology within the Park is poor. The Simpson and Arbuckle aquifers are the principal aquifers in the study area. The two aquifers are not differentiated readily in some parts of the study area because of the similarity of the Simpson and Arbuckle rocks; thus, both water-bearing units are referred to frequently as the Arbuckle-Simpson aquifer. The aquifers are confined under the Park, but are unconfined east and south of the Park. Precipitation on the outcrop area of the Arbuckle aquifer northeast and east of the Park recharges the freshwater springs (Antelope and Buffalo Springs) near the east boundary of the Park. The source of water from mineralized springs located in the central part of the Park, and flowing wells within and north of the Park, is believed to be a mix of waters from rocks of the Arbuckle and Simpson Groups. The source of water from two highly mineralized springs, Bromide and Medicine, that ceased to flow in the early 1970’s is believed to be from the Simpson Group. Water-quality characteristics reflect the sources of ground water in the study area. The highly mineralized springs near the western end of the Park are a sodium chloride type with dissolved solids greater than 4,500 mg/L. The freshwater springs near the eastern end of the Park are a calcium bicarbonate type with total dissolved solids of less than 400 mg/L. Flow from the artesian wells has declined substantially during the past 86 years and the wells are estimated to currently discharge only about 10 percent of the total flow reported in 1939. The depletion is believed to be caused by a gradual lowering of the hydraulic head within the aquifer. The influence on the hydrologic system of local municipal and industrial pumping from the Arbuckle-Simpson aquifer is difficult to discern because the system is much more sensitive to precipitation than to pumpage. Ground-water levels and spring flows in this region respond rapidly to precipitation. The effects of withdrawals from the City of Sulphur and Oklahoma Gas and Electric Company power-plant water-well fields are not discernible at wells and springs. The hydrologic system may be influenced by pumping, particularly during extended dry periods of several years, but the impact of pumping on the system cannot be determined without further investigation.

Oklahoma↗
USGS2025

Multi-scale predictors of Northern Long-eared Bat (Myotis septentrionalis) occupancy in the United States

Historically, Myotis septentrionalis (Northern Long eared Bat) was among the most common forest-interior species in North America. Largely due to high mortality from white-nose syndrome, this species has experienced severe population declines across its range. To create an updated species distribution map representing summer occupancy probabilities from 2017 to 2022, we integrated stationary acoustic data with live-capture data from the database of the North American Bat Monitoring Program into a multi-scale, multi-method occupancy modeling framework. Our results provide data-driven predictions with quantified uncertainty for summer occupancy probabilities for Northern Long-eared Bats at 2 spatial scales across the range of the species, while also accounting for inherent observation biases (e.g., imperfect detection).

Journal of North American Bat Research↗
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↗
USGS2025

Irrigated agriculture influences selenium levels in an endangered marsh bird

Selenium bioaccumulation in aquatic food webs poses risks to wildlife, particularly in wetlands receiving irrigation runoff. The Salton Sea, California’s largest lake, is primarily sustained by agricultural drainage. This drainage creates wetland habitat along the lakeshore that many bird species depend on, including the federally endangered Yuma Ridgway’s rail ( Rallus obsoletus yumanensis ). However, these marshes may pose an ecological trap – attracting rails despite high selenium exposure. We captured rails during the 2020–2023 breeding seasons and compared rail selenium levels within three types of marshes (fed with irrigation runoff, Colorado River water, or groundwater). We collected blood, breast feathers, and head feathers of rails in all three water sources for selenium comparisons. We tagged adult rails with GPS transmitters to locate nests and foraging locations where we collected eggshells, unhatched eggs, and prey. We assessed selenium exposure by collecting multiple prey species commonly eaten by rails in all three water sources. Selenium concentrations varied among sampling locations. Selenium concentrations in most sample types were predominately influenced by water source and marsh inflow velocity (sometimes in combination with marsh size). Distance to inflow, however, did not influence selenium concentrations in any sample type. Selenium concentrations were highest in agricultural-fed marshes compared to river-fed and spring-fed marshes. Increased marsh inflow velocities resulted in lower selenium concentrations. Given the risk of an ecological trap, our results suggest that supplementing wetlands with Colorado River water could mitigate selenium bioaccumulation in Yuma Ridgway’s rails.

California↗
USGS2024

Deep syntectonic burial of the Anthracite belt, Eastern Pennsylvania

Fluid inclusion microthermometry and Raman spectroscopy of fluid inclusions in quartz veins from the Pennsylvanian rocks of the Anthracite belt, eastern Pennsylvania support a deep burial model of coalification in favor of focused orogenic hot fluid flow. High-temperature (250 to 255 °C) trapping of CH 4 ± CO 2 saturated aqueous fluids and CH 4 ± CO 2 inclusions indicate fluid trapping at depths of 11.5 to 13.4 km under a cover of Pennsylvanian to Permian(?) syntectonic load. In the folded rocks to the south of the Anthracite belt, CH 4 ± CO 2 fluid inclusions indicate a sediment load that was up to 16.3 km thick. Re -equilibrated aqueous fluid inclusions from veins in Silurian through Devonian rocks give the same range of trapping conditions but a wide range of fluid salinities suggesting that folding, fracturing, and meteoric recharge resulted in the intermixing of fluids from throughout the stratigraphic succession.

Pennsylvania↗
USGS1976

Solute transport and modeling of water quality in a small stream

An injection of chloride, sodium, and stable strontium was made at a constant rate for 3 hours into Uvas Creek, Santa Clara County, Calif., to determine the mass transport processes in a small stream. Five observation points were selected within a 610-metre reach of the stream below the injection site. Water samples were collected at the observation points during and immediately after the injection. A mathematical model of the stream was obtained by solving analytically and optimally the one-dimensional mass transport equation of the solutes in the stream. Comparison of field results with a simplified mathematical model indicates the dominance of convection in the behavior of sodium and chloride. The concentration of chloride and sodium can be closely simulated by the model. However, strontium cannot be well represented by the simplified model, which contains a first-order decay-type sink.

California↗
USGS2026

Remote compositional analyses of space-weathered lunar maria

Visible-to-shortwave infrared (VSWIR) reflectance spectroscopy has revolutionized our understanding of planetary surface compositions. However, space-weathering processes on airless bodies complicate quantitative compositional analyses. Here, we present a framework to isolate the signatures of space weathering in VSWIR spectra of lunar maria by leveraging radiative transfer modeling under the assumptions that (i) a space-weathered target can be expressed as a mixture of fresh and fully space-weathered components and (ii) remaining signatures can be modeled by including agglutinates as an end-member component. We first validate this approach against laboratory spectra of space-weathered Apollo mare soils of known mineral compositions using a probabilistic Markov Chain Monte Carlo implementation of the Hapke radiative transfer model. Second, we illustrate how this approach can be applied to orbital Moon Mineralogy Mapper data. The proposed space-weathering correction workflow for lunar maria could be expanded to other lunar lithologies and applied to existing and future data sets.

Planetary Science Journal↗