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Abstract The tidal tributaries of the lower Chesapeake Bay experience seasonally recurring harmful algal blooms and the significance of submarine groundwater discharge (SGD) as a nutrient vector is largely unknown. Here, we determined seasonal SGD nutrient loads in two tributaries with contrasting hydrodynamic conditions, river‐fed (York River) vs. tidally dominated (Lafayette River). Radon surveys were performed in each river to quantify SGD at the embayment‐scale during spring and fall 2021. Total SGD was determined from a²²²Rn mass balance and Monte Carlo simulations. Submarine groundwater discharge rates differed by a factor of two during spring (Lafayette = 11 ± 17 cm d⁻¹; York = 6 ± 10 cm d⁻¹) and a factor of six during fall (Lafayette = 19 ± 27 cm d⁻¹; York = 3 ± 7 cm d⁻¹). Groundwater N concentrations and fluxes varied seasonally in the York (4–7 mmol N m⁻²d⁻¹). In the Lafayette River, seasonal N fluxes (22–37 mmol N m⁻²d⁻¹) were driven by seasonal water exchange rates, likely due to recurrent saltwater intrusion. Submarine groundwater discharge–derived nutrient fluxes were orders of magnitude greater than riverine inputs and runoff in each system. Additionally, sediment N removal by denitrification and anaerobic ammonium oxidation would only remove ~ 1–11% of dissolved inorganic nitrogen supplied through SGD. The continued recurrence of harmful algal blooms in the Bay's tidal tributaries may be indicative of an under‐accounting of submarine groundwater‐borne nutrient sources. This study highlights the importance of including SGD in water quality models used to advise restoration efforts in the Chesapeake Bay region and beyond. 

Research on the impact of seawater intrusion on nitrogen (N) cycling in coastal estuarine ecosystems is crucial; however, there is still a lack of relevant research conducted underin-situfield conditions. The effects of elevated salinity on N cycling processes and microbiomes were examinedin situseawater intrusion experiments conducted from 2019 to 2021 in the Nakdong River Estuary (South Korea), where an estuarine dam regulates tidal hydrodynamics. After the opening of the Nakdong Estuary Dam (seawater intrusion event), the density difference between seawater and freshwater resulted in varying degrees of seawater trapping at topographically deep stations. Bottom-water oxygen conditions had been altered in normoxia, hypoxia, and weak hypoxia due to the different degrees of seawater trapping in 2019, 2020, and 2021, respectively. Denitrification mostly dominated the nitrate (NO₃^-) reduction process, except in 2020 after seawater intrusion. However, denitrification rates decreased because of reduced coupled nitrification after seawater intrusion due to the dissolved oxygen limitation in 2020. Dissimilatory nitrate reduction to ammonium (DNRA) rates immediately increased after seawater intrusion in 2020, replacing denitrification as the dominant pathway in the NO₃^-reduction process. The enhanced DNRA rate was mainly due to the abundant organic matter associated with seawater invasion and more reducing environment (maybe sulfide enhancement effects) under high seawater-trapping conditions. Denitrification increased in 2021 after seawater intrusion during weak hypoxia; however, DNRA did not change. Small seawater intrusion in 2019 caused no seawater trapping and overall normoxic condition, though a slight shift from denitrification to DNRA was observed. Metagenomic analysis revealed a decrease in overall denitrification-associated genes in response to seawater intrusion in 2019 and 2020, while DNRA-associated gene abundance increased. In 2021 after seawater intrusion, microbial gene abundance associated with denitrification increased, while that of DNRA did not change significantly. These changes in gene abundance align mostly with alterations in nitrogen transformation rates. In summary, ecological change effects in N cycling after the dam opening (N retention or release, that is, eutrophication deterioration or mitigation) depend on the degree of seawater intrusion and the underlying freshwater conditions, which constitute the extent of seawater-trapping. 

ABSTRACT A nearly complete genome of an uncultured Mollicutes sp. was obtained from the metagenome of the gut of Limacina rangii (open-ocean snail), an important grazer and prey for higher trophic animals along the rapidly warming region of the western Antarctic Peninsula. 

Abstract Subterranean estuaries (STEs) form in the subsurface where fresh groundwater and seawater meet and mix. Subterranean estuaries support a variety of biogeochemical processes including those transforming nitrogen (N). Groundwater is often enriched with dissolved inorganic nitrogen (DIN), and transformations in the STE determine the fate of that DIN, which may be discharged to coastal waters. Nitrification oxidizes ammonium (NH₄⁺) to nitrate, making DIN available for N removal via denitrification. We measured nitrification at an STE, in Virginia, USA using in situ and ex situ methods including conservative mixing models informed by in situ geochemical profiles, an in situ experiment with¹⁵NH₄⁺tracer injection, and ex situ sediment slurry incubations with¹⁵NH₄⁺tracer addition. All methods indicated nitrification in the STE, but the ex situ sediment slurries revealed higher rates than both the in situ tracr experiment and mixing model estimations. Nitrification rates ranged 55.0–183.16 μmol N m⁻² d⁻¹based on mixing models, 94.2–225 μmol N m⁻² d⁻¹in the in situ tracer experiment, and 36.6–109 μmol N m⁻² d⁻¹slurry incubations. The in situ tracer experiment revealed higher rates and spatial variation not captured by the other methods. The geochemical complexity of the STE makes it difficult to replicate in situ conditions with incubations and calculations based on chemical profiles integrate over longer timescales, therefore, in situ approaches may best quantify transformation rates. Our data suggest that STE nitrification produces NO₃⁻, altering the DIN pool discharged to overlying water via submarine groundwater discharge. 

The nitrogen (N) loss processes have not been well examined in subterranean estuaries (STEs) between land and sea. We utilized a 15N isotope tracer method, q-PCR, and high-throughput sequencing to reveal the activities, abundances, and community compositions of N loss communities in a STE in Gloucester Point, Virginia, US. The highest activities, abundances and diversity of denitrifiers and anammox bacteria were detected at 50–60 cm depth in the aerobic-anaerobic transition zone (AATZ) characterized by sharp redox gradients. nirS-denitrifiers and anammox bacteria were affiliated to 10 different clusters and three genera, respectively. Denitrification and anammox played equal roles with an estimated N loss of 13.15 mmol N m−3 day−1. A positive correlation between ammonia oxidizing prokaryote abundances and DO as well as NOx− suggested that nitrification produces NOx− which supports the hotspot of denitrification and anammox within the AATZ. Overall, these results highlight the roles of N loss communities in STEs 

Codenitrification is a reactive nitrogen (N) removal pathway producing hybrid dinitrogen (N2) by combining nitrite (NO2–) and a partner-N substrate. Abiotic codenitrification also produces hybrid N2 through nitrosation of organic N by NO2–, but it is poorly constrained in soil N cycles. We determined the importance of abiotic codenitrification in soils and examined factors controlling abiotic codenitrification using live soils, sterile soils, and sterile solutions. Abiotic codenitrification in sterile soils ranged from 0.12 ± 0.001 to 0.60 ± 0.08 nmoles 29N2-N g–1 day–1, which accounts for 2.3 to 8.2% of total N2 production measured in live soils. Increased abiotic N2 production was observed in soils with the addition of an organic N partner (glutamine). Consistent with previous work, higher rates were observed in lower-pH soils, but the highest rate was found in the soil with the highest carbon:nitrogen (C:N) ratio. We further investigated a range of organic N partners and the influence of concentration and pH on abiotic codenitrification in solution. Similar to sterile soil incubations, abiotic 29N2 production was negatively correlated with increasing pH in solution. Greater rates of abiotic 29N2 production were measured as the substrate concentration increased and pH decreased. Solution experiments also showed that addition of organic N partners increased abiotic codenitrification rates, which are positively correlated with the C:N ratios of organic N partners. This is the first study demonstrating the importance of N removal through abiotic codenitrification in acidic soils and the C:N ratio of organic N partners as a controlling factor in abiotic codenitrification. 

Abstract Sandy sediment beaches covering 70% of non‐ice‐covered coastlines are important ecosystems for nutrient cycling along the land‐ocean continuum. Subterranean estuaries (STEs), where groundwater and seawater meet, are hotspots for biogeochemical cycling within sandy beaches. The STE microbial community facilitates biogeochemical reactions, determining the fate of nutrients, including nitrogen (N), supplied by groundwater. Nitrification influences the fate of N, oxidising reduced dissolved inorganic nitrogen (DIN), making it available for N removal. We used metabarcoding of 16S rRNA genes and quantitative PCR (qPCR) of ammonia monooxygenase (amoA) genes to characterise spatial and temporal variation in STE microbial community structure and nitrifying organisms. We examined nitrifier diversity, distribution and abundance to determine how geochemical measurements influenced their distribution in STEs. Sediment microbial communities varied with depth (p‐value = 0.001) and followed geochemical gradients in dissolved oxygen (DO), salinity, pH, dissolved inorganic carbon and DIN. Genetic potential for nitrification in the STE was evidenced by qPCR quantification ofamoAgenes. Ammonia oxidiser abundance was best explained by DIN, DO and pH. Our results suggest that geochemical gradients are tightly linked to STE community composition and nitrifier abundance, which are important to determine the fate and transport of groundwater‐derived nutrients to coastal waters. 

Abstract Subterranean estuaries (STEs) form at the land‐sea boundary where groundwater and seawater mix. These biogeochemically reactive zones influence groundwater‐borne nutrient concentrations and speciation prior to export via submarine groundwater discharge (SGD). We examined a STE located along the York River Estuary (YRE) to determine if SGD delivers dissolved inorganic nitrogen (DIN) and phosphorus (DIP) to the overlying water. We assessed variations in STE geochemical profiles with depth across locations, times, and tidal stages, estimated N removal along the STE flow path, measured hydraulic gradients to estimate SGD, and calculated potential nutrient fluxes. Salinity, dissolved oxygen (DO), DIN, and DIP varied significantly with depth and season (p < 0.05), but not location or tidal stage. Ammonium dominated the DIN pool deep in the STE. Moving toward the sediment surface, ammonium concentrations decreased as nitrate and DO concentrations increased, suggesting nitrification. Potential sediment N removal rates mediated by denitrification were <8 mmoles N m⁻² d⁻¹. The total groundwater discharge rate was 38 ± 11 L m⁻² d⁻¹; discharge followed tidal and seasonal patterns. Net SGD nutrient fluxes were 0.065–3.2 and 0.019–0.093 mmoles m⁻² d⁻¹for DIN and DIP, respectively. However, microbial N removal in the STE may attenuate 0.58% to >100% of groundwater DIN. SGD fluxes were on the same order of magnitude as diffusive benthic fluxes but accounted for <10% of the nutrients delivered by fluvial advection in the YRE. Our results indicate the importance of STE biogeochemical transformations to SGD flux estimations and their role in coastal eutrophication and nutrient dynamics. 

Abstract Coastal habitat‐forming species provide protection and essential habitat for fisheries but their ability to maintain these services are under threat from novel stressors including rising temperatures. Coastal habitat restoration is a powerful tool to help mitigate the loss of habitat‐forming species, however, many efforts focus on reintroducing a single, imperilled species instead of incorporating alternatives that are more conducive to current and future conditions. Seagrass restoration has seen mixed success in halting local meadow declines but could begin to specifically utilize generalist seagrasses with climate change‐tolerant and opportunistic life history traits including high reproduction rates and rapid growth.Here, we built on decades of successful eelgrass (Zostera marina) restoration in the Chesapeake Bay by experimentally testing seed‐based restoration potential of widgeongrass (Ruppia maritima)—a globally distributed seagrass that can withstand wide ranges of salinities and temperatures. Using field experiments, we evaluated which seeding methods yielded highest widgeongrass survival and growth, tested if seeding widgeongrass adjacent to eelgrass can increase restoration success, and quantified how either seagrass species changes restored bed structure, invertebrate communities, and nitrogen cycling.We found that widgeongrass can be restored via direct seeding in the fall, and that seeding both species maximized total viable restored area. Our pilot restoration area increased by 98% because we seeded widgeongrass in shallow, high temperature waters that are currently unsuitable for eelgrass survival and thus, would remain unseeded via only eelgrass restoration efforts. Restored widgeongrass had higher faunal diversity and double animal abundance per plant biomass than restored eelgrass, whereas restored eelgrass produced three times greater plant biomass per unit area and higher nitrogen recycling in the sediment.Synthesis and applications.Overall, we provide evidence that supplementing opportunistic, generalist species into habitat restoration is a proactive approach to combat climate change impacts. Specifically, these species can increase trait diversity which, for our study, increased total habitat area restored—a key factor to promote seagrass beds' facilitation cascades, stability, and grass persistence through changing environments. Now, we call for tests to determine if the benefits of restoration with generalist species alone or in conjunction with historically dominant taxa are broadly transferrable to restoration in other marine and terrestrial habitats. 

Abstract Microplastics are ubiquitous in estuarine, coastal, and deep sea sediments. The impacts of microplastics on sedimentary microbial ecosystems and biogeochemical carbon and nitrogen cycles, however, have not been well reported. To evaluate if microplastics influence the composition and function of sedimentary microbial communities, we conducted a microcosm experiment using salt marsh sediment amended with polyethylene (PE), polyvinyl chloride (PVC), polyurethane foam (PUF) or polylactic acid (PLA) microplastics. We report that the presence of microplastics alters sediment microbial community composition and nitrogen cycling processes. Compared to control sediments without microplastic, PUF- and PLA-amended sediments promote nitrification and denitrification, while PVC amendment inhibits both processes. These results indicate that nitrogen cycling processes in sediments can be significantly affected by different microplastics, which may serve as organic carbon substrates for microbial communities. Considering this evidence and increasing microplastic pollution, the impact of plastics on global ecosystems and biogeochemical cycling merits critical investigation.