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Transcriptional changes in wild Yukon River Chinook Salmon associated with Ichthyophonus infections

Objective We compared differentially expressed genes in Chinook Salmon Oncorhynchus tshawytscha with three divergent Ichthyophonus statuses (undetected, subclinical infections, or clinical disease; n = 100) to investigate associated transcriptomic responses. Disease associated with the fish parasite Ichthyophonus sp. was first diagnosed in adult Chinook Salmon from the Yukon River in the late 1980s and has subsequently been implicated in premature host mortality. Methods Chinook Salmon tissue sample collections and Ichthyophonus infection data were leveraged from a multi-agency collaboration during summer 2022 at three locations along the main-stem Yukon River that spanned nearly 2,000 km of freshwater migration (lower, middle, and upper river). We sequenced the transcriptome and compared this to infection status based on routine diagnostic procedures. Results Among the 17,569 genes for which messenger RNA was detected, we identified a transcription signature in the skeletal muscle that was associated with Ichthyophonus infections and included 53 differentially expressed genes. The differentially expressed genes and their pathways included those known for involvement in immune functions, energy synthesis, cellular breakdown, and reproduction—all processes that are known to be influenced by senescence during spawning migrations. Conclusions Results demonstrate a clear transcriptional difference between diseased fish (clinical disease group) and those in which Ichthyophonus was undetected, including identifying candidate markers for infection in this population. These results provide a foundation for development of nonlethal biomarkers to evaluate potential Ichthyophonus infections in Chinook Salmon based on gene transcription, protein products, or gene variants (e.g., polymorphisms).

Journal of Aquatic Animal Health

Advancing current understanding of Martian impact-generated hydrothermal systems through novel coupled modeling: Insights from Gale, Jezero, and other craters

Impact-generated hydrothermal systems are considered potentially habitable environments on Mars, Earth, and other planetary bodies for microbial life. However, there is an ongoing debate regarding what geological features on Mars provide definitive evidence for such systems. Although earlier studies have modeled hydrothermal processes in Martian craters, they often lacked integration with shock physics hydrocodes to constrain initial impact conditions. The importance of this two-code coupling was demonstrated by successfully replicating alteration signatures in the Earth's Haughton impact structure. In this study, we use a similar two-code approach, combining the iSALE hydrocode with the HYDROTHERM hydrothermal model to simulate the full evolution of impact-generated hydrothermal systems. We apply this method to craters the size of Jezero (∼50 km) and Gale (∼154 km) in diameter. Although Jezero's interior is largely buried, our results align with hypothesized hydrothermal vents and alteration minerals near central uplifts in similarly sized exposed craters, such as Toro and Auki. Furthermore, our models correspond to alteration patterns observed by the Curiosity in the lower layers of Mount Sharp, which may represent remnants of impact-driven hydrothermal activity. A key finding is that these systems may persist much longer than previously estimated. Our simulations suggest that a Jezero-sized system could remain habitable for thermophiles for approximately 720,000 years, whereas a Gale-sized system could persist for nearly 2 million years. Additionally, simulations under unsaturated crustal conditions reveal that air-dominated near-surface layers can suppress vertical fluid flow, enabling deep subsurface alteration without producing detectable mineral signatures at the surface.

Journal of Geophysical Research - Planets

Applying U-Th disequilbrium for dating siliceous sinters

Continental hydrothermal systems are critical avenues for the crustal transport of heat and mass captured for geothermal energy and mineral exploration. Thus, understanding their temporal evolution and longevity is important for resource characterization. Deposits of microlaminated siliceous sinter, common surface expressions of high temperature reservoirs (> 170 °C), have the potential to trace hydrothermal histories. Geothermal reservoirs are often located within uranium-bearing silicic volcanic rock where subsurface fluid-rock interactions extract U into hydrothermal fluids. U incorporated in the surface sinter deposit has the potential to provide a U— Th disequilibrium dating option. We focus on samples from El Tatio geyser field in the Altiplano of northern Chile, the largest geothermal system in the Andes. Our resulting 230 Th/U ages, along with the water and deposit elemental compositions, suggest concentrations of U and Th vary predictably along the sinter apron. While distal facies containing the highest U concentrations (> 50 μg/g) are least affected by detrital Th corrections, they can display suspected open-system behavior. In contrast, more medial facies, where bacterial mats and other porous textures are co mmonly concentrated, have only trace amounts of U (< 0.1 μg/g), which leads to unreliable or geologically improbable dates. Proximal facies tend to date most consistently. By comparing existing 14 C ages with 230 Th/U results, 230 Th/U ages tend to be younger than the 14 C ages, supporting the presence of a 14 C-dead carbon influence. New data confirm that the onset of geothermal activity at El Tatio goes back to the late Pleistocene.

Altiplano, El Tatio geyser field

Geophysical architecture and geochronology of the Neoarchean Mentor anorthosite intrusive complex, northwestern Minnesota: Largest anorthosite complex of the Superior Province?

The Neoarchean Mentor anorthosite intrusive complex (MAIC) lies within the Wawa subprovince in northwestern Minnesota, in a region where the Wawa, Quetico, and Wabigoon subprovinces are juxtaposed in close proximity. Archean rocks are entirely concealed, and interpretations are developed from aeromagnetic, gravity, and borehole samples. The MAIC includes both anorthosite (dense, weakly magnetized) and oxide-rich gabbro (strongly magnetized) lithologies. Anorthosite is coarse-grained to megacrystic, intensely altered, and locally brecciated. Pervasive epidote alteration enhanced the density of the anorthosite via introduction of higher-density mineral assemblages, explaining why the MAIC produces a significant gravity high. Oxide-rich gabbro forms a border phase of the MAIC and has potential for vanadium, chromium, and titanium mineralization, and produces a strong aeromagnetic high. The MAIC is interpreted to extend over an area of 640 km 2 , making it the largest known anorthosite complex of the Superior Province, as measured by preserved areal extent. Modeling indicates the MAIC extends more than 6 km into the subsurface. A new Pb–Pb zircon age of 2737.2 ± 4.5 Ma is interpretated as the crystallization age of anorthosite within the MAIC, showing that the MAIC formed well before the ca. 2690 Ma Shebandowanian orogeny, and raising new questions about correlations with other parts of the Wawa subprovince. A low-density batholith, here informally called the Fertile batholith, is interpreted to intrude the southern part of the MAIC. A new Pb–Pb zircon age of 2701.1 ± 6 Ma is interpreted as the magmatic age of the Fertile batholith.

Minnesota

New constraints on location and timing of the Great Lakes tectonic zone, central Upper Peninsula, Michigan, USA

The Great Lakes tectonic zone (GLTZ) forms the boundary between the Wawa–Abitibi and Minnesota River Valley subprovinces within the Archean Superior Province. The GLTZ is concealed for all of its 1100 km length, except for a segment in the central Upper Peninsula of Michigan. There, it is exposed as a northwest-striking mylonite zone along a 11 km segment, extending to the onlap of Paleozoic rocks to the east. Farther east, its location has been unknown. Here, we use aeromagnetic and gravity data to develop interpretations of the expression of the GLTZ and to define its extent under cover. Aeromagnetic gradients over the mylonite zone are interpreted to be produced by structurally juxtaposed rocks with varying magnetizations. Gravity data show a regional gradient along the GLTZ, produced by the juxtaposition of a dense greenstone belt on the north against lower-density gneisses and granites on the south. The GLTZ is interpreted to extend ∼55 km under cover to the east. The GLTZ is terminated on the east by the buried eastern arm of the ca. 1100 Ma Midcontinent Rift. An undeformed granitic dike that cuts the mylonitic foliation produces a U–Pb apatite age of 2523 ± 33 Ma, implying no major post-Archean shearing occurred, and is at odds with previous interpretations of major Proterozoic reactivation. A granite intrusion in the Minnesota River Valley subprovince produces a Pb–Pb zircon age of 2606.9 ± 3.6/7.4 Ma. This suggests that magmatism related to the Sacred Heart orogeny, previously known in Minnesota, extended to Michigan.

Michigan

Impact of gas/liquid phase change of CO2 during injection for sequestration

CO 2 sequestration in deep saline formations is an effective and important process to control the rapid rise in CO 2 emissions. The process of injecting CO 2 requires reliable predictions of the stress in the formation and the fluid pressure distributions – particularly since monitoring of the CO 2 migration is difficult – to mitigate leakage, prevent induced seismicity, and analyze wellbore stability. A key aspect of CO 2 is the gas–liquid phase transition at the temperatures and pressures of relevance to leakage and sequestration, which has been recognized as being critical for accurate predictions but has been challenging to model without ad hoc empiricisms. This paper presents a robust multiphase thermodynamics-based poromechanics model to capture the complex phase transition behavior of CO 2 and predict the stress and pressure distribution under super- and sub- critical conditions during the injection process. A finite element implementation of the model is applied to analyze the behavior of a multiphase porous system with CO 2 as it displaces the fluid brine phase. We find that if CO 2 undergoes a phase transition in the geologic reservoir, the spatial variation of the density is significantly affected, and the migration mobility of CO 2 decreases in the reservoir. A key feature of our approach is that we do not a priori assume the location of the CO 2 gas/liquid interface – or even if it occurs at all – but rather, this is a prediction of the model, along with the spatial variation of the phase of CO 2 and the change of the saturation profile due to the phase change.

Journal of the Mechanics and Physics of Solids

Land application of drill waste: A scope analysis

Drilling fluid waste land application, a process where drilling wastes are spread and tilled into the land surface, has become common in some petroleum-producing states, however, the potential benefits and risks of this practice are not well studied. Drilling fluids can be water- or oil-based and can have high concentrations of total soluble salts and total petroleum hydrocarbons. Comprehensive chemical characterization of these fluids is not well documented in the literature, and the extent of land application is largely unknown. We hypothesized that the land application of drill waste would fluctuate over time due to economic factors. To begin to understand the extent of historical and potential future land application, we analyzed data from over 5,800 drilling fluid land application permits collected by the Oklahoma Corporation Commission for years 2000, 2005, 2010, and 2015–2020. During the years studied, drilling fluid wastes were applied to more than 250,000 acres in Oklahoma, with over 54,000 thousand barrels (Mbbl) of liquids and nearly 21,000 Mbbl of solids applied. Land application is widespread (occurring in 59/77 counties), however recent drilling activity, land availability, and the economics of transportation have created conditions favorable for land application specifically in the Anadarko Basin. Land application can co-occur with sensitive areas, such as important groundwater and surface-water drinking sources and agricultural fields used for subsistence or feed crop production. Our approach for quantifying the extent of land application, along with further chemical characterization studies, can aid operators and land managers who are considering this practice in assessing the associated benefits and risks.

Oklahoma

Satellite tracking of Galapagos Petrel Pterodroma phaeopygia reveals distribution and movements during chick rearing

We tracked 19 adult Galapagos Petrels Pterodroma phaeopygia during the chick-rearing seasons in 2009 and 2010 (Santa Cruz Island [ n = 16] and Floreana Island [ n = 3]) in the Galápagos Islands, Ecuador. Eight petrels performed 27 complete foraging trips lasting 0.6 to 18.8 days. Short trips (3.2 ± 2.1 days; 785 km; max displacement 671 km) and long trips (10.8 ± 3.9 days; 2,856 km; max displacement 1,034 km) resulted in concentrated use of waters off southern and western Isabela Island and within the Galápagos Marine Reserve (GMR). Less concentrated time extended farther southwest and eastward, in that case toward mainland Ecuador. Total distance covered among all completed trips, independent of duration, was strongly correlated with trip duration ( R ² = 0.92), indicating a strategy favoring active searching and foraging over commuting. Petrels ranged across Ecuador's exclusive economic zone (EEZ), as well as other countries' (Colombia, Costa Rica, Perú), and waters beyond; they spent 46%, 27%, and 34% of their time in the GMR during short, long, and apparent (incomplete) trips, respectively. However, overlap with EEZs or marine protected areas (MPAs) does not necessarily confer protection, because commercial tuna fishing, including legal fishing historically permitted inside the GMR, occurs within these waters. Including all complete and incomplete trips, petrels spent 37% of their time in high-seas waters without formal protection, outside both MPAs and EEZs. While some hot spots overlapped Galápagos MPAs, the far-ranging nature of chick-provisioning petrels underscores the importance for this species of also having coordinated, multinational protection of the high seas.

Floreana Island, Galápagos Islands, Santa Cruz Isl

Competition between invasive round goby and native slimy sculpin in a coldwater laboratory setting

Slimy sculpin ( Cottus cognatus ) abundance has substantially declined in many regions of the Laurentian Great Lakes coincident with the arrival and range expansions of invasive round goby ( Neogobius melanostomus ). Previous studies have shown that round goby can outcompete native mottled sculpin ( C. bairdii ) for shelter and negatively affect native spoonhead sculpin ( C. ricei ) growth, but direct behavioral interactions of slimy sculpin and round goby have not been observed. We conducted a laboratory experiment in which a pair of slimy sculpin were placed in an aquarium that contained an artificial spawning shelter and one round goby (treatment, n = 10) or no other fish (control, n = 10) for at least 30 days at temperatures reflective of their potential offshore overlap. We measured slimy sculpin egg deposition, aggressive interactions, artificial shelter occupancy, growth, and survival. Slimy sculpin were less likely to occupy shelters and experienced increased intraspecific competition when a round goby was present. In contrast, round goby rarely chased slimy sculpin, slimy sculpin were more likely to chase round goby, and slimy sculpin growth, egg deposition, and survival were not significantly different between groups. Differences in density between treatments and the relative size of fish could confound our observations. However, the dominant slimy sculpin occupied the shelter at similar rates between experimental groups if the round goby was smaller. Our results indicate that larger round goby overlapping with slimy sculpin could affect slimy sculpin shelter and space use, but the Great Lakes environment may create more stress for slimy sculpin than we observed.

Lake Michigan, Lake Superior

Seismic characteristics of the April 2024 eruption of Ruang Volcano, North Sulawesi, Indonesia

The two most recent eruptions of Ruang volcano, in 2002 and 2024, have been large (VEI 4) with very short precursory periods, 3 and 6 days, respectively. Background seismicity at Ruang volcano is generally low with 0–2 volcano-tectonic (VT) earthquakes per day. The 2024 eruptions were preceded by a notable increase in VT earthquakes from 11 to 15 April with a rapid escalation from 16 to 17 April in the form of increased VT swarms, and the appearance of low frequency earthquakes and short bursts of VT drumbeats shortly before the eruption. Similar VT seismic unrest was recorded in March 2015, May 2016, and April 2022, although none of these episodes culminated in an eruption. A comparison of seismic energy release between April 2022 and April 2024 shows distinct differences. In 2024, cumulative seismic energy reached its peak within 5 days, just before the onset of eruption on 17 April. In contrast, during the 2022-episode, energy release followed a more gradual increase over 8 days peaking on 16 April, then declining gradually without leading to eruption. Notably, low frequency (LF) and drumbeat earthquakes were absent in non-eruptive unrest episodes. The transition to proximal LFs in 2024 likely signals pressure fluctuations, intensified magma degassing, and conduit formation, acting as an important precursor to eruption. Additionally, the occurrence of short bursts of drumbeat seismicity likely reflects the onset of the shallow magma ascent and was an important short-term precursor to the eruption. Finally, we examine the potential influence of regional tectonic earthquakes on the escalation of precursory unrest in 2024.

North Sulawesi, Ruang volcano

Re-examining the growing degree day minimum for grass carp spawning initiation in Lake Erie: Have we missed the mark?

Understanding the timing of life history processes of invasive fish species, such as adult aggregations during spawning, allows natural resource managers to optimize targeted population control efforts. Temperature-based estimates of the timing of spawning initiation for grass carp ( Ctenopharyngodon idella ) exist from its native range, but have not previously been developed for grass carp reproduction in its invaded range in the Laurentian Great Lakes of North America. We accounted for differences among methods across studies and calculated cumulative growing degree days (GDD) for the dates of grass carp egg capture in Lake Erie tributaries (Sandusky, Maumee, and Huron rivers) during 2015–2024 and compared these values to the existing GDD base 15°C requirement estimate from the native range (633 GDD–15°C). The earliest egg detection in Lake Erie (Sandusky River) was 19 GDD–15°C or 361 GDD–5°C (latest egg detection was 2285 GDD–5°C from the Sandusky River), indicating that spawning was initiated up to 25 days earlier than would be predicted by the native range GDD. Moreover, spawning in Lake Erie tributaries occurred earlier than predicted for 58% of spawning events examined based on the native range GDD. The GDD values for spawning initiation in Lake Erie tributaries can be used to refine the timing of control efforts targeting pre-spawn and spawning adult fish, inform the timing of egg sampling, and provide linkages to existing early life stage models to infer the length of the growing season available for age-0 fish to reassess tributary suitability.

Lake Erie, Maumee, River, Sandusky river

Gas emissions from the Sulphur Bank Mercury Mine hydrothermal system, Clear Lake volcanic field, California

The Sulphur Bank Mercury Mine (SBMM) hydrothermal system offers insights into active degassing processes in the Clear Lake volcanic field (CLVF), a high-threat region based on its record of Holocene eruptions and proximity to populated areas. Here we present chemical and isotopic analyses of gas samples collected between 2015 and 2023, along with the first comprehensive CO 2 flux survey of the SBMM area conducted in 2023. Sampled gases are CO 2 - and CH 4 -rich (≥84 and 6 mol% in dry gas, respectively) with high mantle-derived helium contributions ( 3 He/ 4 He = 6.54–7.86 R C /R A ). Carbon isotopic compositions of CO 2 (δ 13 C = −10.0 to −9.5 ‰) and CH 4 (δ 13 C = −35.8 ‰) indicate mixed sources, with significant contributions from metamorphism of organic-rich Franciscan Complex rocks hosting the hydrothermal system. Modeling of gas compositions shows that scrubbing by interaction with air-saturated groundwater strongly influences observed compositional variability. From our CO₂ flux measurements, we estimate the deeply derived CO 2 emission rate from the SBMM hydrothermal area (0.2 km 2 ) at 240 t d −1 , comparable to many quiescently degassing volcanoes worldwide. We also provide a first-order estimate of CH 4 emissions at approximately 0.5 t d −1 . Our findings establish crucial baseline data for future volcanic monitoring efforts, enhancing detection capabilities for potential changes in this active hydrothermal system. This work contributes to the broader understanding of volatile contributions from volcanic and metamorphic sources to the global carbon budget, while highlighting the strong influence of bedrock geology on gas compositions in the CLVF.

California

Distinguishing natural from mining-related metal sources by including streambank groundwater data in a stream mass loading study

Distinguishing stream metal loading caused by mine features from that caused by natural background sources remains challenging, yet this distinction is essential for making effective remedial decisions at many legacy mine sites. We combine a stream tracer injection and synoptic sampling study with data from shallow near-stream groundwater wells to estimate left-bank versus right-bank metal loading contributions at the 100-m spatial scale. The study was performed in the East Mancos River, a mountain headwater stream in Colorado, USA. The dominant source of elevated stream metal concentrations could be either groundwater infiltration through right-bank Doyle Mine waste piles or natural acid rock drainage from hydrothermally altered bedrock located mainly on the left bank. For the five metals of concern (Cu, Al, Zn, Cd, and Mn), we find that 15 % of the load contributed by diffuse groundwater inputs in the section potentially influenced by Doyle mine waste originates from the right bank. This right-bank potential mine contribution equates to only 3 % of the total watershed instream load for these metals. Furthermore, apparent 3 H/ 3 He groundwater ages in segments contributing most of the right-bank metal loading are sufficiently old (9–12 yr) to suggest that infiltration through the waste piles, located only 140–180 m from the stream, is unlikely. Estimated potential Doyle mine loading contributions can therefore be considered maximum values. Study results thus indicate that Doyle mine waste piles are a minor source of metal loading under low-flow conditions, and streambank groundwater data can provide valuable additional information in stream mass loading studies.

Colorado

A spatiotemporal deep learning approach for predicting daily air-water temperature signal coupling and identification of key watershed physical parameters in a montane watershed

Seasonal shifts from runoff to groundwater dominance influence daily headwater stream temperatures, especially where local groundwater input is strong. This input buffers temperature during hot periods, supporting cold-water habitats. Recent studies use air–water temperature signal metrics to identify zones of strong stream–groundwater connectivity. While Previous studies used air–water signal ratios as proxies for groundwater influence but were limited to specific sites and periods, without dynamic forecasting. This study is the first to forecast daily A r as a spatiotemporal signal using a Graph Convolutional Network–Long Short-Term Memory (GCN-LSTM) model. The model was trained using hydroclimate data (air temperature, precipitation, shortwave radiation, streamflow) and watershed physical features (e.g., sand content, slope). Results showed high predictive skill, achieving R 2 (NSE, RMSE) of 0.86 (0.73, 0.0004) for one-day-ahead to 0.52 (0.50, 0.0009) for seven-days ahead forecasts. Prior studies often have not explicitly incorporated spatial hydrogeologic drivers, but this model explicitly incorporates them to assess their impact on A r forecasting and stream-groundwater connectivity. Feature analysis identified mean sand, elevation, slope, clay, and TWI as key predictors of A r . Stronger groundwater signals appeared in hillslopes, elevations, and tributaries, highlighting watershed influence on streamflow. However, limitations include reliance on historical air–water temperature patterns for training and limited representation of extreme climate conditions. Despite these limitations, unlike previous studies relying on measured in-situ stream and air temperature, this study forecasts A r directly from climate and physiographic features after training, avoiding in-situ data requirements. Findings aiding predictions of stream ecosystem resilience.

New York

Rapid seismic and infrasound assessment of large landslides: A case study from Denali National Park and Preserve (Alaska)

Large, rapid landslides are a global hazard that can occur in remote, mountainous areas. Eyewitness reports of landslides and satellite imagery can often be limited or delayed, particularly during inclement weather. However, landslide-generated seismic and infrasound (low-frequency atmospheric sound) waves can be remotely detected in near real-time. This information can significantly expedite characterization and possible landslide response activities. Here, we highlight these capabilities using a > 4 million m³ ice–rock avalanche in Denali National Park and Preserve (Alaska). This event was detected via a landslide-specific seismic location and volume estimation algorithm deployed in Alaska, and — notably — by standard earthquake monitoring systems. Following rapid detection of this event, we combined its seismic and infrasound dataset with optical, synthetic aperture radar, and oblique aerial imagery, multitemporal digital elevation models, and a numerical flow model to reconstruct its failure timeline and dynamics. We apply array processing to infrasound signals traveling > 250 km and find that two precursory events occurred minutes prior to the main failure. We use long-period seismic signals to infer the force exerted by the landslide on the Earth and constrain the rheological parameters of our numerical flow simulation with this result and deposit morphology. The main failure produced a steeply-dipping impulsive initial downward force and reached speeds exceeding 60 m/s. This impulsive force generated relatively strong seismic body waves, which contributed to the earthquake system detection. This large, remote Alaska landslide underscores the key value of seismic and infrasound analysis for rapid landslide assessment and motivates efforts to further operationalize these approaches.

Alaska

Upper Triassic igneous rocks of the southern Kenai Peninsula, Alaska – Prelude to Early Jurassic subduction along the western Wrangellia composite terrane margin

New U–Pb zircon geochronology identifies a latest Triassic (ca 214–201 Ma) igneous suite of tuff, hypabyssal dikes, and a pluton on the southern Kenai Peninsula, Alaska. The igneous suite was emplaced within Upper Triassic sedimentary rocks along the southern margin of Western Wrangellia, the western-most fragment of the Wrangellia composite terrane. The igneous rocks range from mafic (50.6% SiO 2 ) to felsic (78.3% SiO 2 ), characteristically have less than 1.55% K 2 O, and generally have low trace element abundances. The tonalitic and trondhjemitic magmas were largely sourced in mafic-rich lower crust and incompletely assimilated quartz and other mineral xenocrysts are common. Fractionation involving plagioclase and amphibole is indicated for some magmas and composite intrusions and igneous xenoliths indicate magma mixing was possible. Paleozoic and Precambrian inherited zircons and initial 87 Sr/ 86 Sr (0.704103–0.705609) and 143 Nd/ 144 Nd (0.512396–0.512777) ratios indicate that the Western Wrangellia crustal sources are heterogeneous and contain sialic components. The latest Triassic magmatism reflects processes that preceded Early Jurassic subduction along the Wrangellia composite terrane and Pacific Ocean plate boundary. These processes involved heating and melting of mantle lithosphere and lower crust as mantle instabilities accompanied the breaking of the plate boundary linkages. The Late Triassic transition to subduction along the Wrangellia composite terrane margin coincided with the transition to subduction cessation in the Late Triassic arcs of the western Intermontane terranes of Canada. The shift to subduction along the outboard Wrangellia composite terrane margin marks the beginning of the Pacific Ocean–Cordillera plate interactions that came to dominate the tectonic evolution of the northern Cordillera from the Early Jurassic to today.

Alaska

Deep subsurface organic-rich shale supports abundant, diverse, and novel fungi

As Earth’s principal reservoir of organic carbon and microbial biomass, the deep subsurface hosts microorganisms capable of mobilizing this once-sequestered carbon. Contrary to standard assumptions of eukaryotic scarcity, this study documents abundant fungal communities, ranging from 4.2 × 10 3 to 6.8 × 10 3 fungal cells mL −1 , across a methane-producing organic-rich shale 247–556 meters below the surface. Although fungal:bacterial cell ratios ranged from 1:7028 to 1:713, application of biomass conversion factors developed for oceanic systems yielded a median fungal:bacterial biomass ratio of 1:4.7. 16S rRNA gene amplicons revealed bacterial and archaeal communities mirroring those found in well-characterized extremophilic, carbon-degrading environments, while sequencing of 18S rRNA gene and ITS rRNA spacer amplicons collectively identified a eukaryotic hotspot with 689 fungal OTUs across six phyla. The dominant fungal classes, Agaricomycetes and Dothideomycetes, are well-established degraders of recalcitrant carbon compounds at the surface, suggesting they may similarly contribute to organic matter degradation and ecosystem maintenance in the subsurface. Cultivation and isolation efforts yielded 205 fungal strains, including 13 candidate novel taxa, underscoring the deep subsurface as an underexplored eukaryotic habitat. Stable carbon isotopes indicate methane is predominantly generated via microbial conversion of the fossil carbon, while water isotopes suggest in situ geochemical conditions have been relatively stable since the Late Pleistocene, with subglacial recharge as a plausible mechanism for microbial introduction. Collectively, these findings suggest that fungi are underrecognized contributors to organic matter transformation and functional diversity in the deep biosphere, revealing a critical gap in our understanding of deep subsurface ecosystem processes.

Indiana, Michigan, Ohio

Assessing environmental drivers of denitrification in restored riverine floodplains

Restoration of impaired floodplains is an increasingly prevalent strategy for alleviating water quality concerns and reducing downstream flooding at watershed scales. Floodplains temporarily store water and slow flow velocity to promote sedimentation during overbank flooding and remove inorganic nitrogen from floodwater and groundwater via denitrification. Evaluating the impacts of different restoration strategies on denitrification can inform more strategic investments into floodplain modifications that improve water quality outcomes. Our research investigates how denitrification rates in floodplains respond to environmental factors that are actionable from an engineering perspective through design and water resources management. We seasonally measured soil denitrification enzyme activity and various environmental characteristics in 4 floodplains with different restoration design and management approaches at the confluence of the Wabash and Tippecanoe Rivers in Indiana, United States. Our results showed that denitrification rates in an agricultural floodplain were significantly lower than in restored floodplains with native vegetation. Certain soil conditions characteristic of floodplain wetlands were associated with higher denitrification, particularly elevated total nitrogen, moisture, silt, and organic matter contents. Vegetation species composition was correlated with denitrification rates. This link may reflect the direct effects of vegetation on soil conditions, such as supplying labile organic carbon, or indirect effects, such as vegetation acting as an indicator of hydrologic regime and land use. Denitrification seasonally varied, peaking in winter when nitrate supply from rivers draining agricultural watersheds in the region is also high. Substrate limitation of soil denitrification enzyme activity was most significant during the summer when overbank flooding, which replenishes soil nitrogen stocks, rarely occurs. Our findings indicate that denitrification capacity will likely be maximized in riverine floodplains that are restored as wetlands with diverse native vegetation and enhanced hydrologic connectivity. Such restoration activities promote higher denitrification rates via elevated moisture, fine sediment deposition, and soil organic matter.

Tippecanoe River, Wabash River