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Bioaccumulation of per- and polyfluoroalkyl substances by freshwater benthic macroinvertebrates: Impact of species and sediment organic carbon content
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Metabolic interactions underpinning high methane fluxes across terrestrial freshwater wetlands
Current estimates of wetland contributions to the global methane budget carry high uncertainty, particularly in accurately predicting emissions from high methane-emitting wetlands. Microorganisms drive methane cycling, but little is known about their conservation across wetlands. To address this, we integrate 16S rRNA amplicon datasets, metagenomes, metatranscriptomes, and annual methane flux data across 9 wetlands, creating the Multi-Omics for Understanding Climate Change (MUCC) v2.0.0 database. This resource is used to link microbiome composition to function and methane emissions, focusing on methane-cycling microbes and the networks driving carbon decomposition. We identify eight methane-cycling genera shared across wetlands and show wetland-specific metabolic interactions in marshes, revealing low connections between methanogens and methanotrophs in high-emitting wetlands. Methanoregula emerged as a hub methanogen across networks and is a strong predictor of methane flux. In these wetlands it also displays the functional potential for methylotrophic methanogenesis, highlighting the importance of this pathway in these ecosystems. Collectively, our findings illuminate trends between microbial decomposition networks and methane flux while providing an extensive publicly available database to advance future wetland research.
Freshwater forcing of the Atlantic Meridional Overturning Circulation revisited
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Ecoregional distributions of the world’s freshwater vertebrate species
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Estimating biotic integrity to capture existence value of freshwater ecosystems
The US Environmental Protection Agency (EPA) uses a water quality index (WQI) to estimate benefits of proposed Clean Water Act regulations. The WQI is relevant to human use value, such as recreation, but may not fully capture aspects of nonuse value, such as existence value. Here, we identify an index of biological integrity to supplement the WQI in a forthcoming national stated preference survey that seeks to capture existence value of streams and lakes more accurately within the conterminous United States (CONUS). We used literature and focus group research to evaluate aquatic indices regularly reported by the EPA’s National Aquatic Resource Surveys. We chose an index that quantifies loss in biodiversity as the observed-to-expected (O/E) ratio of taxonomic composition because focus group participants easily understood its meaning and the environmental changes that would result in incremental improvements. However, available datasets of this index do not provide the spatial coverage to account for how conditions near survey respondents affect their willingness to pay for its improvement. Therefore, we modeled and interpolated the values of this index from sampled sites to 1.1 million stream segments and 297,071 lakes across the CONUS to provide the required coverage. The models explained 13 to 36% of the variation in O/E scores and demonstrate how modeling can provide data at the required density for benefits estimation. We close by discussing future work to improve performance of the models and to link biological condition with water quality and habitat models that will allow us to forecast changes resulting from regulatory options.
Declines in ice cover are accompanied by light limitation responses and community change in freshwater diatoms
The rediscovery of diatom blooms embedded within and beneath the Lake Erie ice cover (2007–2012) ignited interest in psychrophilic adaptations and winter limnology. Subsequent studies determined the vital role ice plays in winter diatom ecophysiology as diatoms partition to the underside of ice, thereby fixing their location within the photic zone. Yet, climate change has led to widespread ice decline across the Great Lakes, with Lake Erie presenting a nearly “ice-free” state in several recent winters. It has been hypothesized that the resultant turbid, isothermal water column induces light limitation amongst winter diatoms and thus serves as a competitive disadvantage. To investigate this hypothesis, we conducted a physiochemical and metatranscriptomic survey that spanned spatial, temporal, and climatic gradients of the winter Lake Erie water column (2019–2020). Our results suggest that ice-free conditions decreased planktonic diatom bloom magnitude and altered diatom community composition. Diatoms increased their expression of various photosynthetic genes and iron transporters, which suggests that the diatoms are attempting to increase their quantity of photosystems and light-harvesting components (a well-defined indicator of light limitation). We identified two gene families which serve to increase diatom fitness in the turbid ice-free water column: proton-pumping rhodopsins (a potential second means of light-driven energy acquisition) and fasciclins (a means to “raft” together to increase buoyancy and co-locate to the surface to optimize light acquisition). With large-scale climatic changes already underway, our observations provide insight into how diatoms respond to the dynamic ice conditions of today and shed light on how they will fare in a climatically altered tomorrow.
Community size-spectra applied to recreational freshwater fisheries in Puerto Rican reservoirs
We developed a management framework based on community size-spectra (CSS) to establish targets to maximize desirable gamefish. We evaluated the influence of relative abundance of fish functional groups and watershed characteristics on the slope of the CSS or ecological efficiency. Both ecological efficiency and capacity were strongly influenced by relative abundance of fish functional groups and the degree of water level variation. Steeper slopes indicated overfished gamefish populations, whereas flatter slopes indicated systems dominated by undesirable invasive large-bodied low trophic position fish. We hypothesize that a desirable fishery would have a target range of CSS slopes that provides a deterministic community-based framework of predictable responses to environmental and food web changes that can be used to evaluate outcomes of management actions and a means to assess annual progress toward desirable conditions.
An exopolysaccharide pathway from a freshwater Sphingomonas isolate
Bacteria embellish their cell envelopes with a variety of specialized polysaccharides. Biosynthesis pathways for these glycans are complex, and final products vary greatly in their chemical structures, physical properties, and biological activities. This tremendous diversity comes from the ability to arrange complex pools of monosaccharide building blocks into polymers with many possible linkage configurations. Due to the complex chemistry of bacterial glycans, very few biosynthetic pathways have been defined in detail. As part of an initiative to characterize novel polysaccharide biosynthesis enzymes, we isolated a bacterium from Lake Michigan called Sphingomonas sp. LM7 that is proficient in exopolysaccharide (EPS) production. We identified genes that contribute to EPS biosynthesis in LM7 by screening a transposon mutant library for colonies displaying altered colony morphology. A gene cluster was identified that appears to encode a complete wzy/wzx-dependent polysaccharide assembly pathway. Deleting individual genes in this cluster caused a non-mucoid phenotype and a corresponding loss of EPS secretion, confirming the role of this gene cluster in polysaccharide production. We extracted EPS from LM7 cultures and determined that it contains a linear chain of 3- and 4-linked glucose, galactose, and glucuronic acid residues. Finally, we show that the EPS pathway in Sphingomonas sp. LM7 diverges from that of sphingan-family EPSs and adhesive polysaccharides such as the holdfast that are present in other Alphaproteobacteria. Our approach of characterizing complete biosynthetic pathways holds promise for engineering polysaccharides with valuable properties.
Metagenome-assembled genomes of freshwater Hyphomicrobium sp. G-191 and Methylophilus sp. enriched from Cedar Swamp, Woods Hole, MA
ABSTRACT Hyphomicrobium are facultative denitrifying anaerobes capable of using one-carbon compounds as a sole carbon source. Hyphomicrobium sp. G-191 was enriched from Cedar Swamp, Woods Hole, Massachusetts, using a selective medium for methanol-utilizing bacteria. We present two draft metagenome-assembled genomes (MAGs) of a Hyphomicrobium and a Methylophilus species.
Data for Myers-Pigg et al. (2026), "Short-term coastal forest responses to a hurricane-scale freshwater and saltwater flooding experiment"
Coastal upland forests are exposed to intensifying precipitation regimes and sea level rise, increasing tree mortality and transforming these coastal forests into wetland ecosystems. Despite these well-known risks, the differing degrees to which hydrological, biogeochemical, and biological components of upland forests respond to novel salinity exposure is relatively unknown. The Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) experiment decouples two distinct disturbances associated with hydrological extremes: (1) flooding from heavy precipitation and (2) exposure to saline conditions from storm surge. This dataset includes data reported in Myers-Pigg et al. (2025), which analyzed data from the first TEMPEST flooding treatment in 2022. This includes: - Colored dissolved organic matter in porewaters - Soil temperature and oxygen - Groundwater temperature and chemistry - Dissolved organic carbon concentrations in porewaters - Soil-to-atmosphere CH4 and CO2 fluxes - Soil temperature, water content, and electrical conductivity - Root-influenced CH4 and CO2 flux - Tree sap flow velocity - The R analytical code and documentation about the computational environmental in which it was run (the "sessionInfo.txt" file) All data files are plain-text comma separated value (CSV) and no special software is required to read them.
Simulating the Effect of Accelerated Freshwater Discharge from the Antarctic and Greenland Ice Sheets on the Ocean Circulation
Fresh water discharge from the largest ice sheets (Antarctica and Greenland) is accelerating as the Earth warms, resulting in sea level rise and changes in ocean circulation. Understanding the relevant ocean and ice processes will help project possible future climate states
Assessing the Impacts of CO 2 Reduction and Utilization Technologies on Regional Freshwater Resources
This work, a product of the Bioenergy Technologies Office (BETO)-supported multi-lab CO 2 Reduction and Upgrading for e-Fuels Consortium (CO 2 RUe), focuses on advanced research and development and cross-cutting evaluation of environmental, economic, and social sustainability for CO 2 reduction and upgrading for fuels and chemicals. The Consortium develops and de-risks advanced technologies that use renewable electricity to convert CO 2 into e-fuels and commodity chemicals. One key aspect of environmental sustainability consideration is water resources. This report summarizes a three-year study that analyzed the impacts of water consumption in select CO 2 reduction and utilization technologies in two future scenarios using a pair of water indices—water availability index and water stress footprint. The analyses also account for projected electricity grid mixes and their water withdrawal and water consumption demand in grid regions. The work identifies drivers, challenges, and critical areas in water sustainability, along with valuable insights into technological and regional factors. The study also explores the potential of using non-traditional water resources to reduce water stress and increase availability. These findings are intended to support industry stakeholders and BETO with the knowledge needed for informed decision-making, contributing to strategies to mitigate risks associated with the implementation of CO 2 utilization technologies.
Assessing the Impacts of CO 2 Reduction and Utilization Technologies on Regional Freshwater Resources
This work, a product of the Bioenergy Technologies Office (BETO)-supported multi-lab CO 2 Reduction and Upgrading for e-Fuels Consortium (CO 2 RUe), focuses on advanced research and development and cross-cutting evaluation of environmental, economic, and social sustainability for CO 2 reduction and upgrading for fuels and chemicals. The Consortium develops and de-risks advanced technologies that use renewable electricity to convert CO 2 into e-fuels and commodity chemicals. One key aspect of environmental sustainability consideration is water resources. This report summarizes a three-year study that analyzed the impacts of water consumption in select CO 2 reduction and utilization technologies in two future scenarios using a pair of water indices—water availability index and water stress footprint. The analyses also account for projected electricity grid mixes and their water withdrawal and water consumption demand in grid regions. The work identifies drivers, challenges, and critical areas in water sustainability, along with valuable insights into technological and regional factors. The study also explores the potential of using non-traditional water resources to reduce water stress and increase availability. These findings are intended to support industry stakeholders and BETO with the knowledge needed for informed decision-making, contributing to strategies to mitigate risks associated with the implementation of CO 2 utilization technologies.