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Coastal wetlands can store carbon by sequestering more carbon through primary production than they release though biogenic greenhouse gas production. The joint effects of saltwater intrusion and sea level rise (SWISLR) and changing precipitation patterns alter sulfate and oxygen availability, challenging estimates of biogenic greenhouse gas emissions. Iron-rich soils have been shown to buffer soil sulfidization by sequestering sulfide into iron-sulfide. But as SWISLR increases soil sulfate concentrations, sulfide produced via sulfate reduction will likely exceed the buffering capacity of soil iron, allowing toxic sulfide levels to accumulate. We used a soil mesocosm approach to examine the influence of hydrology (wet, dry, interim) and plant presence (with or without plants) on wetland soils sourced from different hydrologic histories at a restored coastal wetland. We hypothesized that reducing conditions (i.e., flooded, no plants) impact anaerobic metabolisms similarly, whereas oxidizing conditions (i.e., dry, plant presence) disrupt coupled sulfate reduction and iron reduction. Over eight weeks of hydrologic manipulation, 16S rRNA amplicon sequencing and shotgun metagenomic sequencing were used to characterize microbial communities, while greenhouse gas fluxes, soil redox potential, and physicochemical properties were measured. Results showed that contemporary hydrologic treatment affected assimilatory sulfate reduction gene composition, and hydrologic history influenced dissimilatory sulfate reduction and iron reduction gene composition. Sulfate and iron reduction genes were correlated, and dissimilatory sulfate reduction genes explained variance in methane fluxes. These findings highlight the role of historical hydrology, potential saltwater exposure, and soil iron in shaping microbial responses to future changes in soil moisture and salinity. 

ABSTRACT Temperature significantly impacts microbial communities’ composition and function, which plays a vital role in the global carbon cycle that determines climate change. Nutrient influxes often accompany rising temperatures due to human activity. While ecological interactions between different microorganisms could shape their response to environmental change, we do not understand how predation may influence these responses in a warmer and increasingly nutrient-rich world. Here, we assess whether predation by a ciliate community of bacterial consumers influences changes in the diversity, biomass, and function of a freshwater prokaryotic community under different temperature and nutrient conditions. We found that predator presence mediates the effects of temperature and nutrients on the total prokaryotic community biomass and composition through various mechanisms, including direct and indirect effects. However, the total community function was resilient. Our study supports previous findings that temperature and nutrients are essential drivers of microbial community composition and function but also demonstrates how predation can mediate these effects, indicating that the biotic context is as important as the abiotic context to understanding microbial responses to novel climates.IMPORTANCEWhile the importance of the abiotic environment in microbial communities has long been acknowledged, how prevalent ecological interactions like predation may influence these microbial community responses to shifting abiotic conditions is largely unknown. Our study addresses the complex interplay between temperature, nutrients, predation, and their joint effects on microbial community diversity and function. Our findings suggest that while temperature and nutrients are fundamental drivers of microbial community dynamics, the presence of predators significantly alters these responses. Our study underscores the impact of abiotic factors on microbial communities and the importance of accounting for the biotic context in which these occur to understand, let alone predict, these responses properly. 

Although the gut and the brain vastly differ in physiological function, they have been interlinked in a variety of different neurological and behavioral disorders. The bacteria that comprise the gut microbiome communicate and influence the function of various physiological processes within the body, including nervous system function. However, the effects of social experience in the context of dominance and social stress on gut microbiome remain poorly understood. Here, we examined whether social experience impacts the host zebrafish (Danio rerio) gut microbiome. We studied how social dominance during the first 2 weeks of social interactions changed the composition of zebrafish gut microbiome by comparing gut bacterial composition, diversity, and relative abundance between socially dominant, submissive, social isolates and control group–housed communal fish. Using amplicon sequencing of the 16S rRNA gene, we report that social dominance significantly affects host gut bacterial community composition but not bacterial diversity. At the genus level, Aeromonas and unclassified Enterobacteriaceae relative abundance decreased in dominant individuals while commensal bacteria (e.g., Exiguobacterium and Cetobacterium) increased in relative abundance. Conversely, the relative abundance of Psychrobacter and Acinetobacter was increased in subordinates, isolates, and communal fish compared to dominant fish. The shift in commensal and pathogenic bacteria highlights the impact of social experience and the accompanying stress on gut microbiome, with potentially similar effects in other social organisms. 

Abstract Private groundwater wells can be unmonitored sources of contaminated water that can harm human health. Developing models that predict exposure could allow residents to take action to reduce risk. Machine learning models have been successful in predicting nitrate contamination using geospatial information such as proximity to nitrate sources, but previous models have not considered meteorological factors that change temporally. In this study, we test random forest (regression and classification) and linear regression models to predict nitrate contamination using rainfall, temperature, and readily available soil parameters. We trained and tested models for (1) all of North Carolina, (2) each geographic region in North Carolina, (3) a three‐county region with a high density of animal agriculture, and (4) a three‐county region with a low density of animal agriculture. All regression models had poor predictive performance (R² < 0.09). The random forest classification model for the coastal plain showed fair agreement (Cohen'sκ = 0.23) when trying to predict whether contamination occurred. All other classification models had slight or poor predictive performance. Our results show that temporal changes in rainfall and temperature, or in combination with soil data, are not enough to predict nitrate contamination in most areas of North Carolina. The low level of contamination (<25%) measured during the study could have contributed to the poor performance of the models. 

ABSTRACT In nutrient-limited conditions, plants rely on rhizosphere microbial members to facilitate nutrient acquisition, and in return, plants provide carbon resources to these root-associated microorganisms. However, atmospheric nutrient deposition can affect plant-microbe relationships by changing soil bacterial composition and by reducing cooperation between microbial taxa and plants. To examine how long-term nutrient addition shapes rhizosphere community composition, we compared traits associated with bacterial (fast-growing copiotrophs, slow-growing oligotrophs) and plant (C 3 forb, C 4 grass) communities residing in a nutrient-poor wetland ecosystem. Results revealed that oligotrophic taxa dominated soil bacterial communities and that fertilization increased the presence of oligotrophs in bulk and rhizosphere communities. Additionally, bacterial species diversity was greatest in fertilized soils, particularly in bulk soils. Nutrient enrichment (fertilized versus unfertilized) and plant association (bulk versus rhizosphere) determined bacterial community composition; bacterial community structure associated with plant functional group (grass versus forb) was similar within treatments but differed between fertilization treatments. The core forb microbiome consisted of 602 unique taxa, and the core grass microbiome consisted of 372 unique taxa. Forb rhizospheres were enriched in potentially disease-suppressive bacterial taxa, and grass rhizospheres were enriched in bacterial taxa associated with complex carbon decomposition. Results from this study demonstrate that fertilization serves as a strong environmental filter on the soil microbiome, which leads to distinct rhizosphere communities and can shift plant effects on the rhizosphere microbiome. These taxonomic shifts within plant rhizospheres could have implications for plant health and ecosystem functions associated with carbon and nitrogen cycling. IMPORTANCE Over the last century, humans have substantially altered nitrogen and phosphorus cycling. Use of synthetic fertilizer and burning of fossil fuels and biomass have increased nitrogen and phosphorus deposition, which results in unintended fertilization of historically low-nutrient ecosystems. With increased nutrient availability, plant biodiversity is expected to decline, and the abundance of copiotrophic taxa is anticipated to increase in bacterial communities. Here, we address how bacterial communities associated with different plant functional types (forb, grass) shift due to long-term nutrient enrichment. Unlike other studies, results revealed an increase in bacterial diversity, particularly of oligotrophic bacteria in fertilized plots. We observed that nutrient addition strongly determines forb and grass rhizosphere composition, which could indicate different metabolic preferences in the bacterial communities. This study highlights how long-term fertilization of oligotroph-dominated wetlands could alter diversity and metabolism of rhizosphere bacterial communities in unexpected ways. 

Abstract Fertilization studies have elucidated basic principles of the role of nutrients in shaping plant communities and demonstrated the potential effects of anthropogenic nutrient deposition. Yet less is known about how these effects are mediated by interacting ecological factors, particularly in nutrient‐poor wetland habitats. In a long‐term experiment in a coastal plain wetland, we examined how fertilization and mowing affected the diversity and composition of a plant community as it reestablished after major disturbance. A drainage ditch in proximity to the experimental plots allowed us also to consider the influence of hydrology and its interactions with nutrient addition. Fertilization decreased species richness, with wetland specialist species showing especially great losses, and several lines of evidence suggest that the effect was mediated by competition for light. Altered hydrology via ditch drainage had effects that were similar to fertilization, with more rapidly draining plots showing lower diversity and decreased abundance of wetland species. Plant community diversity and dynamics were influenced by complex interactions between fertilization, disturbance, and hydrology. The negative effect of fertilization on species richness was initially mitigated by mowing, but in later years was more evident in mowed than in unmowed plots. In the absence of disturbance, nutrient addition increased the rate of transition to primarily woody communities. Similarly, drained plots experienced increased rates of succession compared to wetter plots. Our results suggest that these interactions need to be considered to understand the potential effects of anthropogenic nutrient addition and hydrologic alterations to wetland ecosystems. 

ABSTRACT Hydrologic changes modify microbial community structure and ecosystem functions, especially in wetland systems. Here, we present 24 metagenomes from a coastal freshwater wetland experiment in which we manipulated hydrologic conditions and plant presence. These wetland soil metagenomes will deepen our understanding of how hydrology and vegetation influence microbial functional diversity. 

Abstract Salinization and eutrophication are nearly ubiquitous in watersheds with human activity. Despite the known impacts of the freshwater salinization syndrome (FSS) to organisms, we demonstrate a pronounced knowledge gap on how FSS alters wetland biogeochemistry. Most experiments assessing FSS and biogeochemistry pertain to coastal saltwater intrusion. The few inland wetland studies mostly add salt as sodium chloride. Sodium chloride alone does not reflect the ionic composition of inland salinization, which derives from heterogeneous sources, producing spatially and temporally variable ionic mixtures. We develop mechanistic hypotheses for how elevated ionic strength and changing ionic composition alter urban wetland sediment biogeochemistry, with the prediction that FSS diminishes nutrient removal capacity via a suite of related direct and indirect processes. We propose that future efforts specifically investigate inland urban wetlands, a category of wetland heavily relied on for its biogeochemical processing ability that is likely to be among the most impacted by salinization.