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1,659 records · Page 48Linked to original sources
USGS2025

The feasibility of using lidar-derived digital elevation models for gravity data reduction

Gravity data require submeter elevation accuracy for data processing, and differential global navigation satellite system (dGNSS) equipment is commonly used to acquire three-dimensional positional data to achieve such accuracy. However, lidar (light detection and ranging) data are commonly used to develop digital elevation models (DEMs) of Earth’s surface. Therefore, using elevations from lidar-derived DEMs for gravity-data acquisition and reduction may improve field efficiency and reduce cost. This study examines the feasibility of using DEMs for gravity-data reduction by comparing dGNSS elevation data from 435 gravity stations in Michigan, Wyoming, and Colorado with their respective DEM elevations. The results show that the average difference between DEM and dGNSS elevations is 13 centimeters (cm) and that 93 percent of those differences are less than 50 cm, even in areas with steep terrain. Because an elevation discrepancy of 50 cm corresponds to an error of roughly 0.1 milligals (mGal) in the simple Bouguer gravity anomaly, the results suggest that lidar-derived DEMs are a viable source for acquiring the elevation data needed to process gravity data, thus improving both the cost and efficiency of data collection for regional surveys where an accuracy of less than 1.0 mGal is desired.

Open-File Report↗
USGS2024

Analyzing spatial distributions and alignments of pitted cone features in Utopia Planitia on Mars

Martian geomorphology and surface features provide links to understanding past geologic processes such as fluid movement, local and regional tectonics, and feature formation mechanisms. Pitted cones are common features in the northern plains basins of Mars. They have been proposed to have formed from upwelling volatile-rich fluids, such as magma or water-sediment slurries. In this study, we map the spatial distributions of pitted cone features across the Utopia Planitia (UP) basin. Using the Average Nearest Neighbor technique, we find that pitted cone features appear to be clustered across the basin, occurring in a narrow band around the circumferential rim of UP. Additionally, we find that pitted cone features also appear to be aligned in chains that are sub-parallel with the basin margin. Parallel bands of cones generally follow elevation contours of the UP basin, which suggests elevation or a correlated factor plays a major role in pitted cone and cone chain formation. We propose that pitted cones and cone chains may be related to vertical fractures formed around the UP basin rim from subsidence of infilling basin material.

Icarus↗
USGS2025

Stable isotope composition and geochemistry of calcite and dolomite in the Mountain Pass carbonatite: A lens into petrogenesis

Carbonatites host most of the global rare earth element (REE) deposits. The petrogenesis of these rocks, including magmatic and post-magmatic processes, are poorly understood but critical in forming and upgrading these deposits. The Mountain Pass carbonatite, which hosts the only active REE mine in North America, is lithologically variable but consistently contains >50% calcite and/or dolomite. Multiple generations of carbonates are evident, suggesting bulk analysis of carbonate minerals would generate a mixed isotopic and geochemical signature. In-situ stable carbon and oxygen isotopes, combined with geochemical analysis and petrography, distinguish carbonate generations, trace the source region of the carbonatite magma, and link carbonate genesis to REE mineralization throughout the intrusion. Primary carbon and oxygen isotope values outside the accepted mantle range may suggest a subduction-related carbon and oxygen source in the mantle. Deformation textures in primary calcite indicate syn- or post-crystallization ductile flow. Carbonates with secondary textures and heavy δ 13 C and δ 18 O values are associated with ore mineralization, suggesting fluid mobilization was important in concentrating REE and upgrading of the Mountain Pass deposit.

California↗
USGS2016

Sedimentary exhalative (sedex) zinc-lead-silver deposit model

This report draws on previous syntheses and basic research studies of sedimentary exhalative (sedex) deposits to arrive at the defining criteria, both descriptive and genetic, for sedex-type deposits. Studies of the tectonic, sedimentary, and fluid evolution of modern and ancient sedimentary basins have also been used to select defining criteria. The focus here is on the geologic characteristics of sedex deposit-hosting basins that contain greater than 10 million metric tons of zinc and lead. The enormous size of sedex deposits strongly suggests that basin-scale geologic processes are involved in their formation. It follows that mass balance constraints of basinal processes can provide a conceptual underpinning for the evaluation of potential ore-forming mechanisms and the identification of geologic indicators for ore potential in specific sedimentary basins. Empirical data and a genetic understanding of the physicochemical, geologic, and mass balance conditions required for each of these elements are used to establish a hierarchy of quantifiable geologic criteria that can be used in U.S. Geological Survey national assessments. In addition, this report also provides a comprehensive evaluation of environmental considerations associated with the mining of sedex deposits.

Scientific Investigations Report↗
USGS2025

Metal fingerprints of Eocene rhyolite magmas coincident with Carlin-type gold deposition in Nevada USA

Eocene magmatic systems contemporaneous with world-class Carlin-type Au deposits in Nevada (USA) have been proposed by some researchers as a key ingredient for Au mineralization, though evidence conclusively demonstrating their genetic relationship remains tenuous. This study provides the first direct evidence of the pre-eruptive metal budget of volatile- and metal-charged silicic magmas coincident in time (~41 to 34 Ma) and space (within 5 km) with Carlin-type Au deposits. We characterize the pre-eruptive metal fingerprints of these diverse magmatic systems to assess their potential as sources of metals for Carlin-type Au mineralization. Metal abundances from quartz-hosted melt inclusions (Au, Te, Ag, Sb, Tl, Mo, W, Sn, As, Pb, Co, Cu, Ni, and Zn) characterized in situ by SHRIMP-RG and LA-ICP-MS represent our best (and only) estimates for the pre-eruptive metal budget in these systems. Median metal concentrations are generally within one order of magnitude of average upper crust and average continental rhyolite values. But there are two notable exceptions, with median Au contents extending >1 order of magnitude higher than average upper crust and median Cu contents ranging >1 order of magnitude lower than upper crust. Despite this, melts contain lower Au/Cu (<0.1), Au/Ag (<5), and Au/Tl (<0.3) than most ore-grade Carlin-type rock samples and quartz-hosted fluid inclusions, regardless of their age and timing relative to nearby Carlin-type Au mineralization. The metal fingerprints of these magmatic systems, de-fined both by traditional and multivariate compositional data analysis techniques, are distinct from one another. Yet none are particularly specialized, e.g., high Au/Cu, in terms of being ideal ingredients as postulated by magmatic models for Carlin-type Au mineralization. Magmatic Au contents do not appear to be correlated with rhyolite “flavors” in the way that Cu, Sn, and Nb contents are. Fluid/melt partitioning modeling and magma volume estimates support the idea that a diverse array of non-specialized silicic magmas could feasibly contribute some or potentially all of the Au, Ag, and Cu in Carlin-type systems. The compositional diversity among contemporaneous magmatic systems could possibly contribute to some of the diversity observed across Carlin-type Au districts in Nevada.

Nevada↗
USGS2025

Conceptual and numerical groundwater flow model of the Iowa River alluvial aquifer near Tama County, Iowa, 1980 through 2022

The Iowa River alluvial aquifer is an important source of water on the Meskwaki Settlement in Tama County, Iowa, which is land owned by the Sac & Fox Tribe of the Mississippi in Iowa (commonly known as the Meskwaki Nation). The U.S. Geological Survey constructed a groundwater flow model, including a conceptual and numerical model, of the Iowa River alluvial aquifer and underlying hydrogeologic units near the Meskwaki Settlement in Tama County, Iowa, for the period of January 1980–August 2022 to estimate the fraction of water pumped from the Iowa River alluvial aquifer by Meskwaki Settlement wells that is derived from streamflow depletion in the Iowa River and its tributaries. Streamflow depletion is a reduction in streamflow caused by groundwater pumping and includes the interception by groundwater production wells of water that otherwise would have been discharged to streams (called “captured groundwater discharge”) and induced infiltration of streamflow to the production wells. Calibrated model runs were performed with no simulated pumping and simulated pumping only at Meskwaki Settlement wells, and the change in simulated flow rates between the groundwater system and streams for the two model runs represents the amount of streamflow depletion in the Iowa River and tributary streams resulting from pumping at the Meskwaki Settlement wells. Streamflow depletion in the Iowa River and its tributaries as a percentage of simulated pumping at the Meskwaki Settlement wells was calculated by dividing this difference by the total simulated pumping rate for the Meskwaki Settlement wells. The model results demonstrate that the mean monthly streamflow depletion, including induced infiltration and captured discharge, in the Iowa River and its tributary streams as a percentage of mean monthly pumping at the Meskwaki Settlement wells was 97.4 percent and ranged from 65.4 to 112 percent. Of the total streamflow depletion, mean monthly induced recharge was 20.9 percent and ranged from 4.9 to 37.2 percent. Mean monthly captured discharge was 76.5 percent and ranged from 57.1 to 97.1 percent. These results indicate that most of the water pumped from the Meskwaki Settlement wells is the result of streamflow depletion, in the form of both induced infiltration and captured discharge.

Iowa↗
USGS2026

Hydrothermal manganese-oxide mineralization of a carbonate ooze, Samoan hotspot region, South Pacific Ocean

Low-temperature hydrothermal manganese oxides occur throughout the global oceans. However, the hydrothermal replacement of a carbonate ooze by manganese oxides is described here for the first time. The 24 samples dredged from three locations around the Territory of American Samoa in the South Pacific Ocean include six samples with remnant carbonate and volcaniclastic sediments, which we refer to as “low Mn,” and 18 samples in which the mineralization is pervasive and has replaced most original sediment, termed “high Mn.” The 18 high-Mn samples exhibit a mean Mn content of 51 wt.%. Higher Li and Mn contents and lower Fe contents in the high-Mn samples indicate a hydrothermal origin and distinguish these samples from hydrogenetic ferromanganese crusts. Mn-oxide layers are up to 90 mm thick, some with columns to 44 mm long and 10 mm wide, the magnitude of which has not been described previously. Samples are composed of birnessite and 10 Å phyllomanganate minerals. Textures of the thickest Mn layers indicate mineralization below the seabed from ascending fluids during multiple hydrothermal pulses. Mineralization took place by complete to partial replacement and cementation of foraminiferal sediments intermixed with volcaniclastic sediments in varying amounts. Our results highlight the production of carbonate sediment-hosted hydrothermal Mn oxides from multiple hydrothermal sources within the Samoan volcanic chain. The potential extensive distribution on the regional scale of this newly described mineralization process and unique element enrichments raise questions about its broader distribution globally and potential importance to hydrothermal processes, element mass balance, and seabed mineral resources.

Geochemistry, Geophysics, Geosystems↗
USGS2026

ShakeAlert Earthquake Early Warning System performance during the Mw 7.0 offshore Cape Mendocino earthquake

The 5 December 2024 M w 7.0 Offshore Cape Mendocino earthquake was a challenging test of the U.S. West Coast ShakeAlert earthquake early warning system due to its offshore epicenter and limited near‐source station coverage. We analyzed real‐time performance of all components of the ShakeAlert system, including the seismic algorithms (earthquake point‐source integrated code [EPIC] and Finite‐fault rupture Detector [FinDer]), the geodetic algorithm (Geodetic First Approximation of Size and Time–peak ground displacement [GFAST‐PGD]), and network telemetry during the event. EPIC created the first solution for this earthquake 15 s after origin time with an initial magnitude estimate of M 5.6 and location error of 10 km from the Advanced National Seismic System epicenter. An early spurious trigger from station CE.89101 fortuitously maintained location accuracy and, correspondingly, magnitude accuracy. FinDer contributed its first solution at 18 s with a location estimate closer to the seismic network and produced two distinct rupture geometries, leading to minor fluctuations in estimated intensity contours. GFAST‐PGD did not meet alerting thresholds but otherwise performed as expected. Network latencies were <2 s for most stations, supporting the rapid detection of this earthquake by the system. Roughly five million alerts were delivered to cell phone devices in California and Oregon during this event. This was also the first instance of a school district‐wide ShakeAlert‐powered system being activated. Comparisons to recorded seismograms demonstrate that the maximum warning times before potentially damaging shaking (intensity 6+) were in the range of 5–55 s. Although the ShakeAlert system provided accurate solutions and useful alert delivery, this earthquake raised awareness of potential issues within the system, including the need for improved offshore location estimates, a combination of solutions from ShakeAlert servers, and handling of spurious triggers.

California↗
USGS2026

Hazard potential of compound flooding from rainfall, storm surge, and groundwater in coastal New York and Connecticut

Compound flood events, the co-occurrence of multiple flood drivers, can result in flood hazard potential exceeding that of any single driver alone. To evaluate compound flooding in a semi-urbanized coastal area, historical records dating back to 1970 are used to study the co-occurrences of high precipitation, storm surge, and shallow groundwater conditions along the coastlines of New York and Connecticut. Joint return periods for coincident precipitation-surge events were computed using statistical dependence models and compared to the assumption of independence as a ratio, referred to here as a return period adjustment. Results indicate distinct seasonality where compound events in the area disproportionately occur in the cold season between October and April. Return period adjustments range from a factor of 1 to almost 9, demonstrating the range in precipitation-storm surge dependence across the study area. Across all 24 station triad locations, groundwater levels were elevated during times of precipitation- surge co-occurrence, reflecting the tendency for coastal storms and shallow groundwater conditions to co-occur seasonally. The result is a pseudo-trivariate compound flood hazard score and corresponding hazard map that integrates dependence between daily precipitation-surge events and overall monthly groundwater levels (as a precondition) into a relative compound hazard score. The location with the highest compound flood hazard score is on the south shore of Long Island, as well as locations across coastal Connecticut where groundwater levels compound the co-occurrence of heavy precipitation and storm surge.

Connecticut, New York↗
USGS2024

Conceptual hydrogeologic framework and groundwater budget near the southeastern part of Puget Sound, Washington

More than 1 million people live within the active model area (AMA) in the southeastern part of the lowlands surrounding Puget Sound, or Puget Lowland, Washington, and groundwater is the source for approximately one-half of their public, domestic, and irrigation water demands. The 887-square-mile AMA, located in King and Pierce Counties, represents the area of analysis for the conceptual hydrogeologic framework and numerical groundwater-flow models within the study area and includes the Puyallup River and Chambers-Clover Creek watersheds. To assess the potential hydrologic and anthropogenic impacts to groundwater and the connected surface-water resources, conceptual and numerical groundwater-flow models of groundwater flow were developed by the U.S. Geological Survey Washington Water Science Center in close cooperation with 18 water-resource agencies and stakeholders. This report presents information used to characterize the groundwater-flow system and the development of a numerical model in the AMA. Included are descriptions of the geology and conceptual hydrogeologic framework, groundwater levels and flow directions, groundwater recharge and discharge, numerical groundwater-flow model construction and results, and model limitations. The study area encompasses the western part of Pierce County and the southwestern part of King County, Washington. The study area extends south to the Nisqually River, southwest to Tanwax Creek, northeast to the Green River, and north through the valley near Auburn and adjacent uplands. It is bounded on the east by foothills of the Cascade Range, and on the northwest by Puget Sound.

Washington↗
USGS2024

Seismic tomography 2023

Seismic tomography is the most abundant source of information about the internal structure of the Earth at scales ranging from a few meters to thousands of kilometers. It constrains the properties of active volcanoes, earthquake fault zones, deep reservoirs and storage sites, glaciers and ice sheets, or the entire globe. It contributes to outstanding societal problems related to natural hazards, resource exploration, underground storage, and many more. The recent advances in seismic tomography are being translated to nondestructive testing, medical ultrasound, and helioseismology. Nearly 50 yr after its first successful applications, this article offers a snapshot of modern seismic tomography. Focused on major challenges and particularly promising research directions, it is intended to guide both Earth science professionals and early‐career scientists. The individual contributions by the coauthors provide diverse perspectives on topics that may at first seem disconnected but are closely tied together by a few coherent threads: multiparameter inversion for properties related to dynamic processes, data quality, and geographic coverage, uncertainty quantification that is useful for geologic interpretation, new formulations of tomographic inverse problems that address concrete geologic questions more directly, and the presentation and quantitative comparison of tomographic models. It remains to be seen which of these problems will be considered solved, solved to some extent, or practically unsolvable over the next decade.

Bulletin of the Seismological Society of America↗
USGS2026

Biome-scale spatial patterns of avian abundance reveal proactive conservation opportunities in North American grasslands

North American grassland birds have experienced steeper population declines than any other avian guild, yet conservation efforts remain largely reactive and fragmented. We used nearly four decades of North American Breeding Bird Survey data to identify biome-scale spatial patterns (clustering) of grassland bird abundance for the Great Plains. Our results reveal an ecological core in the north-central Plains where community-level abundance is either increasing by >100% or remains high and stable, providing a strategic roadmap for a “Defend the Core” conservation approach. This approach flips the script from reactive triage centered on isolated population fragments to a proactive strategy of maintaining large-scale ecosystem integrity. Conversely, we found that population losses are more spatially clustered than wins, reflecting the relentless, one-way movement of woody encroachment and agricultural conversion. This asymmetry supports prioritizing intact landscapes, as current restoration rates are often outpaced by the scale of habitat loss. Notably, we found that community-level spatial clustering is a more robust indicator of biome condition than trends of individual flagship species, suggesting that managing for ecosystem integrity provides a more effective multi-species umbrella. Given our results, there is an opportunity for operationalizing a Great Plains Conservation Design that is ecosystem-centric and rooted in the sustainability of the private-land cattle production that maintains these open spaces. By leveraging avian abundance as a biological sensor, managers and producers can deploy a shared vision that matches the spatial scale of the threats, moving from reactive triage to proactive defense of core working grasslands in North America.

Great Plains biome↗
USGS2025

Examining the compositional selectivity of hydrocarbon oxidation products using liquid–liquid extraction and solid-phase extraction techniques

The effect of extraction methods on detecting hydrocarbon oxidation products (HOPs) in groundwater remains unclear. HOPs are polar, water-soluble byproducts of petroleum biodegradation. Our previous work showed that liquid–liquid extraction (LLE), a method commonly used in regulatory monitoring, has a significantly lower extraction efficiency for HOPs compared to solid-phase extraction (SPE). In this study, we evaluate the analytical limitations and compositional selectivity of LLE and SPE using groundwater samples from the Bemidji, MN, crude oil spill site. Optical properties were characterized using excitation–emission matrix spectroscopy (EEMs), and a three-component PARAFAC model was validated, showing consistent trends across both extracts and whole water samples. Ultrahigh-resolution mass spectrometry (UHR-MS) revealed that LLE selectively recovered aliphatic-like compounds but underrepresented more polar oxygenated HOPs. In contrast, SPE methods were more effective at isolating highly oxidized compound classes. These differences were consistent across a gradient of contamination. Overall, the LLE was less precise and less representative of polar HOPs, introducing bias in the characterization of HOPs. This study is the first to quantitatively demonstrate the compositional selectivity and analytical bias of LLE versus SPE for HOPs using combined EEM-PARAFAC and UHR-MS techniques, with implications for long-term monitoring and site assessment protocols.

Environmental Science and Technology↗
USGS2026

Estimation of parental abundance using hierarchical Bayesian modeling with data augmentation

Pedigree-based estimation methods leverage the fact that each offspring in a cohort is genotypically “marked” by its parents and represent a recent and promising toolset for estimating population dynamics. This includes pedigree accumulation estimators that model the “accumulation” of inferred unique parents within a given cohort to estimate parental abundance. Unlike close-kin mark-recapture approaches, which rely on intercohort comparisons, pedigree accumulation modeling can be completed solely using intracohort samples. This is particularly advantageous for semelparous species, where intercohort pairs are impossible and adult life stages can be difficult to sample without affecting their likelihood of successfully reproducing. Previous work has evaluated a range of estimators for such datasets, concluding that the non-parametric Chao estimator provides the most accurate and precise estimates for feasible levels of sampling effort. We used simulated data to evaluate an alternative estimator based on hierarchical modeling and data augmentation in a Bayesian framework. Results indicate that estimates from the hierarchical Bayesian estimator had comparable accuracy and better precision than both the previously tested Chao1 estimator and the improved iChao formulation across a range of sample sizes and sex ratios. Furthermore, the Bayesian estimator was far more robust to simulated errors in pedigree reconstruction, especially the presence of false negatives. Hierarchical Bayesian pedigree accumulation models can also provide additional insight into underlying reproductive ecology through their use of an explicit observation process, allowing for the incorporation or estimation of species- and population-specific reproductive dynamics. More broadly, the parametric nature of these models offers opportunities to efficiently pool information among datasets as well as to propagate uncertainty within more complex models.

Ecology and Evolution↗
USGS2026

Earthquake rupture arrest from depth‐dependent frictional stability on the Pütürge segment of the East Anatolian Fault Zone, Türkiye (Turkey)

Determining why earthquake ruptures stop is a central challenge in earthquake science and seismic hazard assessment. The Pütürge segment of the East Anatolian Fault Zone, Türkiye, exhibits shallow creep (<∼3 km depth) yet hosts M > 6.5 earthquake ruptures at greater depth. Here, we evaluate whether variations in frictional stability along this segment aided arrest of the 2020 M 6.7 Elaziğ and 2023 M 7.8 Pazarcık earthquake ruptures. Analysis of Sentinel‐1 Synthetic Aperture Radar imagery indicates the 2023 M 7.8 rupture propagated laterally into a metamorphic massif within the Pütürge segment, where slip rapidly decayed below detection limits. Creepmeters along this segment recorded no significant surface afterslip (<3 mm) in the following year. To investigate this fault‐slip behavior, we conducted triaxial friction experiments on Pütürge fault gouge sampled from an outcrop exposure. The gouge, composed primarily of muscovite, quartz, and calcite, is velocity strengthening at conditions approximating 0–2.5 km depth and velocity weakening at 4–5 km depth. This transition to velocity‐weakening friction is associated with enhanced comminution and shear localization observed microstructurally. Our results suggest that depth‐dependent frictional stability of the Pütürge fault segment facilitates rupture nucleation and propagation at depth while maintaining rupture‐arresting behavior near Earth’s surface.

Pütürge segment of the East Anatolian Fault Zone↗
USGS2024

Shallow lake, strong shake: Record of seismically triggered lacustrine sedimentation from the 1959 M7.3 Hebgen Lake earthquake within Henrys Lake, Idaho

We investigate a shallow lake basin for evidence of a large historic intraplate earthquake in western North America. Henrys Lake, Idaho is an atypical candidate for a lacustrine paleoseismic study given its shallow depth (~7 m) and low relief (≤2° slopes ). Here, we test the earthquake-recording capacity of this basin type by showing sedimentological evidence of the 1959 M7.3 Hebgen Lake earthquake within sediment cores, using anthropogenically produced 137 Cs activity to constrain timing. In addition to expanding the morphologic range of basins targeted for lacustrine paleoseismic studies, this work has implications for sediment response in dam-enhanced basins. Lack of sedimentological evidence for other earthquakes coupled with radiocarbon chronology reveals that the 1959 event is the only clearly recorded earthquake within Henrys Lake since the mid-Holocene. Henrys Lake offers a proxy for paleo-earthquake signatures within similar lacustrine environments and underscores the importance of further paleoseismic studies in the region.

Idaho↗
USGS2024

Exploring landscape and geologic controls on spatial patterning of streambank groundwater discharge in a mixed land use watershed

Preferential groundwater discharge features along stream corridors are ecologically important at local and stream network scales, yet we lack quantification of the multiscale controls on the spatial patterning of groundwater discharge. Here we identify physical attributes that best explain variation in the presence and lateral extent of preferential groundwater discharges along two 5th order streams, the Housatonic and Farmington Rivers, and 32 1st to 4th order reaches across the Farmington River network. We mapped locations of preferential groundwater discharge exposed along streambanks using handheld thermal infrared cameras paired with high-resolution topographic and land use land cover datasets, surficial soil characteristic maps, and depth-to-bedrock geophysical measurements. The unconfined Housatonic River, MA, USA (12 km) had fewer discharge locations and less lateral extent (41 discharge locations with 38 m of active discharge/km of river) compared to the partially confined Farmington River, CT, USA (26 km; 169 discharge locations with 129 m of active discharge/km of river). Using a moving window analysis, we found along both rivers that discharge was more likely to occur where bank slopes were steeper, floodplain extent was narrower, and degree of confinement was higher. Along the Farmington River, groundwater discharge was more likely to occur where saturated hydraulic conductivity was higher and depth-to-bedrock was shallower. Among the 32 stream reaches surveyed (33.2 km of total stream length) within the Farmington River watershed, preferential discharge was observed in all but two stream reaches, varied from 0 to 25% of lateral extent along stream banks (mean = 6%), and was more likely to occur where stream reach slopes were steep, saturated hydraulic conductivity was high, and watershed urbanization was low. Our results show that, though both surface (e.g., topographic, land use land cover) and subsurface (e.g., soil characteristics, bedrock depth) factors control the prevalence of streambank preferential groundwater discharge, the dominant controls vary across valley settings and stream sizes.

Connecticut, Massachusetts↗
USGS2021

Factors influencing distribution of Coccidioides immitis in soil, Washington State, 2016

Coccidioides immitis and Coccidioides posadasii are causative agents of Valley fever, a serious fungal disease endemic to regions with hot, arid climate in the United States, Mexico, and Central and South America. The environmental niche of Coccidioide s spp. is not well defined, and it remains unknown whether these fungi are primarily associated with rodents or grow as saprotrophs in soil. To better understand the environmental reservoir of these pathogens, we used a systematic soil sampling approach, quantitative PCR (qPCR), culture, whole-genome sequencing, and soil chemical analysis to identify factors associated with the presence of C. immitis at a known colonization site in Washington State linked to a human case in 2010. We found that the same strain colonized an area of over 46,000 m 2 and persisted in soil for over 6 years. No association with rodent burrows was observed, as C. immitis DNA was as likely to be detected inside rodent holes as it was in the surrounding soil. In addition, the presence of C. immitis DNA in soil was correlated with elevated levels of boron, calcium, magnesium, sodium, and silicon in soil leachates. We also observed differences in the microbial communities between C. immitis -positive and -negative soils. Our artificial soil inoculation experiments demonstrated that C. immitis can use soil as a sole source of nutrients. Taken together, these results suggest that soil parameters need to be considered when modeling the distribution of this fungus in the environment.

Washington↗