Geochemical Gradients Research Articles

Multi-Decadal Impact of Mine Waters in Przemsza River Basin, Upper Silesian Coal Basin, Southern Poland

Anthropogenic increases in the salinity of surface waters are referred to as secondary salinization. In surface waters, salinity levels can vary significantly due to various natural and anthropogenic influences. This article presents multi-decadal observations of changes in surface water salinity in the highly industrialized region in southern Poland. The case study of the Przemsza River is an example of the significant impacts of industrial, mainly coal mining, activities that have changed the chemical and biological characteristics of water bodies. The presented research revealed that impacts on salinity and water body status due to mining discharges will be difficult or even impossible to restore, considering the process of transition of the coal sector. In the Przemsza river basin, almost 42% less mine water was discharged in 2023 than in 1991. Parallelly, the salinity of mine waters discharged from deeper levels of active coal mines has increased due to the geochemical gradient (the total load of chlorides and sulfates was 534.8 MgCl−+SO42− per day in 1991, while in 2023 the total salinity load was 480.1 MgCl−+SO42− per day). Moreover, of the 19 active mine water discharges in 1991, only 11 remain in 2023, while the observed salinity of surface water in the Przemsza watershed increased rapidly from an average of 2000 µS·cm−1 to 6700 µS·cm−1 due to the significant drought and adverse hydrological conditions, which represent low flows never observed before (three times lower flows in the mouth of the Przemsza River in the period 2021–2023 compared to the previous decades 1991–2020). Impacts on water bodies will continue to occur regardless of mining activities in the area—it should be noted that at the end of exploitation, mine water rebound and flooding do not automatically reduce long-lasting impacts on surface waters. Therefore, salinization is a growing threat that might be amplified by climate change. While industrial and urban impacts on surface water change its characteristics, the future challenge of proper water management with a holistic approach is necessary with proper monitoring data collection and river flow-dependent and surface water salinity-dependent discharge of wastewater in the river basin.

Characteristics of Microbial Diversity and Metabolic Versatility in Dynamic Mid-Okinawa Trough Subsurface Sediments

Large-scale and multi-sample datasets have revealed that microbial diversity and geographic distribution patterns are distinct across various habitats, particularly between hydrothermal vent and cold seep ecosystems. To date, our understanding of the effects of spatial and geochemical gradients on marine microbial communities remains limited. Here, we report the microbial diversity and metabolic versatility of a remote seafloor sediment ecosystem at different sites (GC-2, -4, -5, -6, -8) in the Mid-Okinawa Trough (Mid-OT) using high-throughput metagenomic sequencing technology. Desulfobacteraceae (3.1%) were detected in a high abundance at GC-2 with intense methane concentrations (353 μL/L), which showed a clear correlation with cold seeping. Whereas Candidatus Brocadiaceae (1.7%), Rhodobacteraceae (0.9%), and Rhodospirillaceae (0.7%), which are commonly involved in denitrification and sulfur oxidation, were enriched at GC-8. Concurrently investigating the potential of deep-sea microbial metabolism, we gained insights into the adaptive capabilities and metabolic mechanisms of microorganisms within seafloor environments. Utilizing the Kyoto Encyclopedia of Genes and Genomes (KEGG) database, the analysis of functional modules revealed a significant enrichment (71–74%) of genes associated with metabolic pathways. These results expand our knowledge of the relationship between microbial biodiversity and metabolic versatility in deep-sea extreme environments.

The enhanced neutral process with decreasing cell size: a study on phytoplankton metacommunities from the glacier-fed river of Qinghai-Xizang Plateau.

The cell size of phytoplankton is a key life-history trait and key determinant, and phytoplankton of different cell sizes are differentially affected by ecological processes. However, the study of the assembly patterns and drivers of phytoplankton metacommunities with different cell sizes has not been widely carried out. We provide an in-depth analysis of phytoplankton community diversity across three cell sizes in the glacier-fed river, describing how the pattern of phytoplankton communities differs across cell sizes in response to geochemical gradients. The results show that the smaller phytoplankton (picophytoplankton) are relatively more influenced by dispersal-based stochastic processes, whereas larger ones (microphytoplankton and nanophytoplankton) are more structured by selection-based deterministic processes.

Ecological patterns of benthic foraminiferal communities driven by seasonal and spatial environmental gradients in an Arctic fjord

AbstractArctic fjords, being transitional areas between glacier‐covered land and the ocean, are characterized by strong environmental gradients. The seasonal melting of glaciers generates strong turbidity and primary production antagonist gradients, which can affect benthic habitats. Two sampling campaigns were carried out in Kongsfjorden (Svalbard, Arctic Ocean) in May and August 2021 to investigate seasonal changes in benthic foraminifera spatial distribution and ecosystem functioning along a longitudinal transect of 10 km from the Kronebreen tidewater glacier front. Concurrently, organic matter quantity and biochemical composition, sediment grain size, and physical parameters of the water masses were investigated as possible driving factors of benthic ecosystem responses. In a previous study, three statistically determined foraminiferal biozonations (glacier proximal, medial, and distal) were observed on the basis of their species content within the closest 10 km from the glacier front, presenting similar assemblages in both seasons. Our results indicate that foraminiferal distribution at the local scale is mainly driven by physical and geochemical gradients induced by melting waters and sediment discharges from the tidewater glacier occurring during summer. Due to the climate change, the melting season is expected to last longer and increasing global temperature will much probably accelerate the melting processes. Our findings strongly support the use of foraminifera as bioindicators to monitor the effects of ongoing climate change on the benthic ecosystems of Arctic fjords and, accessorily, as proxies for reconstructing glacier front positions in the recent past.

Microbial assemblages and associated biogeochemical processes in Lake Bonney, a permanently ice-covered lake in the McMurdo Dry Valleys, Antarctica

BackgroundLake Bonney, which is divided into a west lobe (WLB) and an east lobe (ELB), is a perennially ice-covered lake located in the McMurdo Dry Valleys of Antarctica. Despite previous reports on the microbial community dynamics of ice-covered lakes in this region, there is a paucity of information on the relationship between microbial genomic diversity and associated nutrient cycling. Here, we applied gene- and genome-centric approaches to investigate the microbial ecology and reconstruct microbial metabolic potential along the depth gradient in Lake Bonney.ResultsLake Bonney is strongly chemically stratified with three distinct redox zones, yielding different microbial niches. Our genome enabled approach revealed that in the sunlit and relatively freshwater epilimnion, oxygenic photosynthetic production by the cyanobacterium Pseudanabaena and a diversity of protists and microalgae may provide new organic carbon to the environment. CO-oxidizing bacteria, such as Acidimicrobiales, Nanopelagicales, and Burkholderiaceae were also prominent in the epilimnion and their ability to oxidize carbon monoxide to carbon dioxide may serve as a supplementary energy conservation strategy. In the more saline metalimnion of ELB, an accumulation of inorganic nitrogen and phosphorus supports photosynthesis despite relatively low light levels. Conversely, in WLB the release of organic rich subglacial discharge from Taylor Glacier into WLB would be implicated in the possible high abundance of heterotrophs supported by increased potential for glycolysis, beta-oxidation, and glycoside hydrolase and may contribute to the growth of iron reducers in the dark and extremely saline hypolimnion of WLB. The suboxic and subzero temperature zones beneath the metalimnia in both lobes supported microorganisms capable of utilizing reduced nitrogens and sulfurs as electron donors. Heterotrophs, including nitrate reducing sulfur oxidizing bacteria, such as Acidimicrobiales (MAG72) and Salinisphaeraceae (MAG109), and denitrifying bacteria, such as Gracilimonas (MAG7), Acidimicrobiales (MAG72) and Salinisphaeraceae (MAG109), dominated the hypolimnion of WLB, whereas the environmental harshness of the hypolimnion of ELB was supported by the relatively low in metabolic potential, as well as the abundance of halophile Halomonas and endospore-forming Virgibacillus.ConclusionsThe vertical distribution of microbially driven C, N and S cycling genes/pathways in Lake Bonney reveals the importance of geochemical gradients to microbial diversity and biogeochemical cycles with the vertical water column.

Legacy copper/nickel mine tailings potentially harbor novel iron/sulfur cycling microorganisms within highly variable communities.

The oxidation of sulfide-bearing mine tailings catalyzed by acidophilic iron and sulfur-oxidizing bacteria releases toxic metals and other contaminants into soil and groundwater as acid mine drainage. Understanding the environmental variables that control the community structure and metabolic activity of microbes indigenous to tailings (especially the abiotic stressors of low pH and high dissolved metal content) is crucial to developing sustainable bioremediation strategies. We determined the microbial community composition along two continuous vertical gradients of Cu/Ni mine tailings at each of two tailings impoundments near Sudbury, Ontario. 16S rRNA amplicon data showed high variability in community diversity and composition between locations, as well as at different depths within each location. A temporal comparison for one tailings location showed low fluctuation in microbial communities across 2 years. Differences in community composition correlated most strongly with pore-water pH, Eh, alkalinity, salinity, and the concentration of several dissolved metals (including iron, but not copper or nickel). The relative abundances of individual genera differed in their degrees of correlation with geochemical factors. Several abundant lineages present at these locations have not previously been associated with mine tailings environments, including novel species predicted to be involved in iron and sulfur cycling.IMPORTANCEMine tailings represent a significant threat to North American freshwater, with legacy tailings areas generating acid mine drainage (AMD) that contaminates rivers, lakes, and aquifers. Microbial activity accelerates AMD formation through oxidative metabolic processes but may also ameliorate acidic tailings by promoting secondary mineral precipitation and immobilizing dissolved metals. Tailings exhibit high geochemical variation within and between mine sites and may harbor many novel extremophiles adapted to high concentrations of toxic metals. Characterizing the unique microbiomes associated with tailing environments is key to identifying consortia that may be used as the foundation for innovative mine-waste bioremediation strategies. We provide an in-depth analysis of microbial diversity at four copper/nickel mine tailings impoundments, describe how communities (and individual lineages) differ based on geochemical gradients, predict organisms involved in AMD transformations, and identify taxonomically novel groups present that have not previously been observed in mine tailings.

Metal-oxide precipitation influences microbiome structure in hyporheic zones receiving acid rock drainage.

In streams receiving acid-rock and mine drainage, the abundant precipitation of iron minerals can alter how groundwater and surface water mix along streams (in what is known as the "hyporheic zone") and may shape the distribution of microbial communities. The findings presented here suggest that neutral pH streams with large, well-mixed hyporheic zones may harbor and transport diverse microorganisms attached to particles/colloids through hyporheic pore spaces. In acidic streams where metal oxides clog pore spaces and limit hyporheic exchange, iron-oxidizing bacteria may dominate and phylogenetic diversity becomes low. The abundance of iron-oxidizing bacteria in acid mine drainage streams has the potential to contribute to additional clogging of hyporheic pore spaces and the accumulation of toxic metals in the hyporheic zone. This research highlights the dynamic interplay between hydrology, geochemistry, and microbiology at the groundwater-surface water interface of acid mine drainage streams.

Bacterial biogeography of the Indian Ocean.

Historically, our understanding of bacterial ecology in the Indian Ocean has been limited to regional studies that place emphasis on community structure and function within oxygen minimum zones. Thus, bacterial community dynamics across the wider Indian Ocean are largely undescribed. As part of Bio-GO-SHIP, we sequenced the 16S rRNA gene from 465 samples collected on sections I07N and I09N. We found that (i) there were 23 distinct bioregions within the Indian Ocean, (ii) the southeastern gyre had the largest gradient in bacterial alpha-diversity, (iii) the Indian Ocean surface microbiome was primarily composed of a core set of taxa, and (iv) bioregions were characterized by transitions in physical and geochemical conditions. Overall, we showed that bacterial community structure spatially delineated the surface Indian Ocean and that these microbially-defined regions were reflective of subtle ocean physical and geochemical gradients. Therefore, incorporating metrics of in-situ microbial communities into marine ecological regions traditionally defined by remote sensing will improve our ability to delineate warm, oligotrophic regions.

Metagenomic profiles of archaea and bacteria within thermal and geochemical gradients of the Guaymas Basin deep subsurface

Previous studies of microbial communities in subseafloor sediments reported that microbial abundance and diversity decrease with sediment depth and age, and microbes dominating at depth tend to be a subset of the local seafloor community. However, the existence of geographically widespread, subsurface-adapted specialists is also possible. Here, we use metagenomic and metatranscriptomic analyses of the hydrothermally heated, sediment layers of Guaymas Basin (Gulf of California, Mexico) to examine the distribution and activity patterns of bacteria and archaea along thermal, geochemical and cell count gradients. We find that the composition and distribution of metagenome-assembled genomes (MAGs), dominated by numerous lineages of Chloroflexota and Thermoproteota, correlate with biogeochemical parameters as long as temperatures remain moderate, but downcore increasing temperatures beyond ca. 45 ºC override other factors. Consistently, MAG size and diversity decrease with increasing temperature, indicating a downcore winnowing of the subsurface biosphere. By contrast, specific archaeal MAGs within the Thermoproteota and Hadarchaeota increase in relative abundance and in recruitment of transcriptome reads towards deeper, hotter sediments, marking the transition towards a specialized deep, hot biosphere.

Diagenetic Evolution of Upper Cretaceous Kawagarh Carbonates from Attock Hazara Fold and Thrust Belt, Pakistan

A recent hydrocarbons discovery in 2021 in the Kawagarh Formation has brought attention to the significance of sedimentology and specifically diagenesis for understanding and characterizing the reservoir properties. The diagenetic history and multiscale processes that contributed to diagenesis were vaguely known. This study aimed to reconstruct various diagenetic phases, paragenetic sequences, and the interrelationship of these phases in the Kawagarh Formation. The diagenetic processes were identified and characterized through an integrated methodology utilizing the outcrop, petrographic, and geochemical analyses. Early calcite cementation was found to occur in the early stages of marine burial diagenesis involving pore fluid originating from the dissolution of aragonite in interlayer marl/mudstone beds and reprecipitating as microspar in adjacent limestone beds. The absence of mechanical compaction in wackstone and mudstone facies and the presence of late compaction in lithified packstones clearly imply that early calcite cementation occurred prior to compaction. Dolomitization with stylolites coupled with significant negative oxygen (δ18O) isotope values implies a fault-related hydrothermal dolomitization model. Uplift introduced the fractures and low Mg fresh fluids to the system which caused calcitisation in shallow burial settings. The depleted δ13C and negative δ18O values indicate the mixing of surface-derived waters with hot burial fluids during the calcitization. This study offers valuable insights into several aspects related to the formation and the basin itself, including burial depths, fluid influx, and geochemical gradients. It also sheds light on the evolution of reservoir properties such as porosity and permeability in dolomitization fronts. Such insights can be used to gain a deeper understanding about the burial history, basin evaluation, and reservoir characterization for hydrocarbon exploration.

Characterizing Håkon Mosby Mud Volcano (Barents Sea) cold seep systems by combining ROV-based acoustic data and underwater photogrammetry

Cold-seeps have a unique geo-ecological significance in the deep-sea environment. They impact the variability of present-day submarine sedimentary environments, affecting the evolution of the landscape over time and creating a variety of submarine landforms, one of which is Mud Volcanoes (MVs). MVs form due to the extrusion of mud, fluids, and gas, mainly methane, from deeper sedimentary layers. These natural gas seepage systems could significantly affect climate change and the global carbon cycle. We present a comprehensive method that combines ROV-based multibeam mapping and underwater photogrammetry to enhance the understanding of the physical relationships between geomorphic units characterizing the Håkon Mosby Mud Volcano (HMMV) and the distribution of associated habitats. HMMV is indeed characterized by high thermal and geochemical gradients from its center to the margins resulting in a clear zonation of chemosynthetic communities. Our approach integrates multi-resolutions and multi-sources data acquired using a work-class ROV. The ROV-based microbathymetry data helped to identify the different types of fine-scale submarine landforms in the central part of HMMV. This revealed three distinct geomorphic units, with the central hummocky region being the most complex. To further study this area, ROV images were analyzed using a defined Structure from Motion workflow producing millimetric resolution 2D and 3D models. Object-Based Image Analysis (OBIA), applied on orthomosaics, allowed us to obtain a fine classification of main benthic communities covering a total area of 940m2, including the active seepage area of the hummocky rim. Four major substrate types were identified in these regions: uncovered mud, bacterial mats high-density, bacterial mats low-density, sediments and tubeworms. Their relationship with terrain morphology and seepage activity were investigated at different spatial scales, contributing to a deeper understanding the ecological functioning of cold seep ecosystems in MVs. The applied workflow is proposed as an innovative processing technique for future studies on cold-seep systems. Geomorphic and ecological processes in extreme environments are inherently linked and marked by spatial patterns typifying associated habitats and sedimentary environments. This is poorly investigated in previous studies, leaving a substantial gap in the geomorphological drivers responsible for habitat distribution and extent in cold seep systems.

Uranium migration lengths in Opalinus Clay depend on geochemical gradients, radionuclide source term concentration and pore water composition

Abstract. Safety assessments of highly radioactive waste disposal sites are done based on simulation of radionuclide migration lengths through the containment providing rock zone. For a close to real case situation, the present model concept established for uranium is derived from the hydrogeological evolution and geochemical and mineralogical data measured at the deep geothermal borehole Schlattingen including the effect of geo-engineered barriers on the source term. In the Schlattingen area, the Opalinus Clay is tectonically undeformed compared to the Mont Terri anticline and represents the geochemical and temperature conditions at the favoured disposal depth. The geochemical conditions are more or less constant with slightly decreasing concentrations of pore water components towards the footwall aquifer. Uranium migrates less compared to the Opalinus Clay system at Mont Terri, where gradients of pore water geochemistry towards the embedding aquifers are more pronounced. This means, stable geochemical conditions with no or low concentration gradients are to be favoured for a safe disposal since migration lengths strongly depend on spatial and temporal variation of the hydrogeological and geochemical conditions within the host formation. The engineered barriers reduce the source term concentration what, in turn, is associated with a decrease in uranium migration. Stable geochemical conditions further enable the application of the Kd approach to estimate the impact of the barriers. The hydrogeological system must always be considered when quantifying radionuclide migration.

Dueling Plant Phosphorus Acquisition Strategies Over a Geochemical Gradient: A Biogeochemistry Experiment Approach

Plants are likely to be phosphorus (P)-limited because of low availability of P to roots or mycorrhizae due to slow diffusion and high sorption in soils. Phosphorus sub-cycles (inorganic versus organic) also tend to vary predictably over gradients (Fig. 1A,B). Plant responses to mycorrhizal fungi also vary by plant species and grassland type (Reinhart et al. 2017). Mycorrhizae can scavenge nutrients (i.e. orthophosphate, organic-P); however, if they cannot solubilize calcium bound P, then geochemical gradients may constrain plant-mycorrhizal interactions (Fig. 1C). Calcareous soils are found in >30% of soils and are common in arid, semiarid, and semi-humid systems (e.g. grasslands, shrublands). We used geochemical and biogeochemical experiments to test hypotheses on P limitation and acquisition (Lajtha and Schlesinger 1988). Hypothesis: an increase in soil calcium carbonate (CaCO3) will 1) reduce soil P bioavailability (geochemical exp.), 2) reduce plant biomass and phosphorus uptake (biogeochemical exp.), and 3) shift P acquisition strategies (i.e. root mining, mycorrhizal scavenging) (biogeochemical exp., Fig. 1C). Experiments had a replacement series (CaCO3 to silica sand) geochemical treatment (CaCO3 additions: 0, 0.02, 0.10, and 0.30 [g × 100 g-1]) to simulate soil properties over natural grassland gradients. The biogeochemistry experiment was a completely randomized design with the geochemical and mycorrhizal fungi treatments (+, -) (4 × 2 factorial), 8 plant species, and 8 replications. Geochemical exp.’s response variables were soil extractable nutrients and pH. Biogeochemistry exp.’s response variables were nutrient uptake and plant performance. The geochemical experiment confirmed that increasing CaCO3 increased pHwater of subsurface soil (7.6 to 8.5), reduced the intensity of available P (assessed by anion exchange membranes) in treated soils by as much as 57%, and had no obvious effect on accessible P (Olsen-P). In other words, metaphorical cups of P (with straws) had similar amounts of accessible P per cup; however, additions of CaCO3 effectively reduced the straws’ diameter and limited (re-)supply of available P. On average, large additions of CaCO3 reduced plant biomass by 20% and plant uptake of P by 15% for the biogeochemistry experiment. On average, mycorrhizal fungi increased plant biomass by 6%. Rarely did mycorrhizal fungi and geochemical treatments interact and affect plant biomass. When they did interact, mycorrhizae benefited plants in pots with greater levels of P intensity (i.e. no or little added CaCO3) thereby suggesting mycorrhizae may not help to solubilize calcium bound P. These findings confirm CaCO3 in subsoils reduced the intensity of bioavailable P, which consequently decreased plant biomass and P uptake. However, we cannot rule out that CaCO3 additions may have additionally impacted plants response due to changes in micronutrient solubility (i.e. zinc), etc. (Lajtha and Schlesinger 1988). While plants tended to benefit from mycorrhizae, we found no evidence to support a prediction of the nutritional mutualisms hypothesis—that benefits are greatest under P-limitation. On the contrary, our data suggest that plants will rely more on root mining P acquisition strategies than mycorrhizal scavenging (Albornoz et al. 2020) where the inorganic-P sub-cycle dominates and P solubility is limited due to calcium-phosphate formation (Fig. 1C).

Geochemical factors impacting nitrifying communities in sandy sediments.

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 of amoA genes. 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.

Microbial gene expression in Guaymas Basin subsurface sediments responds to hydrothermal stress and energy limitation.

Analyses of gene expression of subsurface bacteria and archaea provide insights into their physiological adaptations to in situ subsurface conditions. We examined patterns of expressed genes in hydrothermally heated subseafloor sediments with distinct geochemical and thermal regimes in Guaymas Basin, Gulf of California, Mexico. RNA recovery and cell counts declined with sediment depth, however, we obtained metatranscriptomes from eight sites at depths spanning between 0.8 and 101.9 m below seafloor. We describe the metabolic potential of sediment microorganisms, and discuss expressed genes involved in tRNA, mRNA, and rRNA modifications that enable physiological flexibility of bacteria and archaea in the hydrothermal subsurface. Microbial taxa in hydrothermally influenced settings like Guaymas Basin may particularly depend on these catalytic RNA functions since they modulate the activity of cells under elevated temperatures and steep geochemical gradients. Expressed genes for DNA repair, protein maintenance and circadian rhythm were also identified. The concerted interaction of many of these genes may be crucial for microorganisms to survive and to thrive in the Guaymas Basin subsurface biosphere.

Magma mingling and ascent in the minutes to hours before an explosive eruption as recorded by banded pumice

High-threat explosive silicic eruptions commonly contain banded pumice, reflecting magma mingling in the conduit prior to or during eruption. Heterogeneities in tuffs have been attributed to the draw-up of compositionally distinct magmas, in which low-viscosity magmas ascend more quickly than high-viscosity magmas. The Rattlesnake Tuff of the High Lava Plains in Oregon (northwestern United States) represents a zoned magma reservoir where at least five different rhyolite compositions are preserved in banded pumice samples in variable mingled combinations. Geochemical gradients recorded across band boundaries in pumice were modeled using a Monte Carlo least-square minimization procedure to find the complementary error function that best fit observed Si and Ba diffusion profiles by iteratively varying the concentration of each plateau (i.e., the concentration on either side of the band boundary), the center and spacing of the diffusion profile, diffusion length scale, and temperature. Modeling indicates maximum time scales between mingling and conduit ascent from minutes to hours. Viscosity calculations for each rhyolite composition confirm that highly viscous rhyolites have longer ascent times than low-viscosity magmas, strongly supporting a model of sequential tapping of a zoned chamber controlled by viscosity.

Genes and genome-resolved metagenomics reveal the microbial functional make up of Amazon peatlands under geochemical gradients.

The Pastaza-Marañón Foreland Basin (PMFB) holds the most extensive tropical peatland area in South America. PMFB peatlands store ~7.07 Gt of organic carbon interacting with multiple microbial heterotrophic, methanogenic, and other aerobic/anaerobic respirations. Little is understood about the contribution of distinct microbial community members inhabiting tropical peatlands. Here, we studied the metagenomes of three geochemically distinct peatlands spanning minerotrophic, mixed, and ombrotrophic conditions. Using gene- and genome-centric approaches, we evaluate the functional potential of the underlying microbial communities. Abundance analyses show significant differences in C, N, P, and S acquisition genes. Furthermore, community interactions mediated by toxin-antitoxin and CRISPR-Cas systems were enriched in oligotrophic soils, suggesting that non-metabolic interactions may exert additional controls in low-nutrient environments. Additionally, we reconstructed 519 metagenome-assembled genomes spanning 28 phyla. Our analyses detail key differences across the geochemical gradient in the predicted microbial populations involved in degradation of organic matter, and the cycling of N and S. Notably, we observed differences in the nitric oxide (NO) reduction strategies between sites with high and low N2 O fluxes and found phyla putatively capable of both NO and sulfate reduction. Our findings detail how gene abundances and microbial populations are influenced by geochemical differences in tropical peatlands.

Tidal dynamics regulates potential coupling of carbon‑nitrogen‑sulfur cycling microbes in intertidal flats

Tide-driven hydrodynamic process causes significant geochemical gradients that influence biogeochemical cycling and ecological functioning of estuarine and coastal ecosystems. However, the effects of tidal dynamics on microbial communities, particularly at the functional gene level, remain unclear even though microorganisms play critical roles in biogeochemical carbon (C), nitrogen (N) and sulfur (S) cycling. Here, we used 16S rRNA gene amplicon sequencing and microarray-based approach to reveal the stratification of microorganisms related to C, N and S cycles along vertical redox gradients in intertidal wetlands. Alpha-diversity of bacteria and archaea was generally higher at the deep groundwater-sediment interface. Microbial compositions were markedly altered along the sediment profile, and these shifts were largely due to changes in nutrient availability and redox potential. Furthermore, functional genes exhibited redox partitioning between interfaces and transition layer, with abundant genes involved in C decomposition, methanogenesis, heterotrophic denitrification, sulfite reduction and sulfide oxidation existed in the middle anoxic zone. The influence of tidal dynamics on sediment function was highly associated with redox state, sediment texture, and substrates availability, leading to distinct distribution pattern of metabolic coupling of microbes involved in energy flux and elemental cycling in intertidal wetlands. These results indicate that tidal cycles are critical in determining microbial community and functional structure, and they provide new insights into sediment microbe-mediated biogeochemical cycling in intertidal habitats.

Iron colloidal transport mechanisms and sequestration of As, Ni, and Cu along AMD-induced environmental gradients

Colloids are common in mine waters and their chemistry and interactions are critical aspects of metal(loid)s cycling. Previous studies mostly focus on the colloidal transport of metal(loid)s in zones where rivers and soil profiles receive acid mine drainage (AMD). However, there is limited knowledge of the colloid and the associated toxic element behavior as the effluent flows through the coal waste dump, where a geochemical gradient is produced due to AMD reacting with waste rocks which have high acid-neutralization effects. Here, we investigated the geochemistry of Fe and co-occurring elements As, Ni, and Cu along the coal waste dump, in aqueous, colloidal, and precipitate phases, using micro/ultrafiltration combined with STEM, AFM-nanoIR, SEM-EDS, XRD, and FTIR analysis. The results demonstrated that a fast attenuation of H+, SO42−, and metal(loid)s happened as the effluent flowed through the waste-rock dump. The Fe, As, Ni, and Cu were distributed across all colloidal sizes and primarily transported in the nano-colloidal phase (3 kDa–0.1 μm). An increasing pH induced a higher percentage of large Fe colloid fractions (> 0.1 μm) associated with greater sequestration of trace metals, and the values for As from 39.5 % to 54.4 %, Ni from 40.8 % to 75.7 %, and Cu from 43.7 % to 56.0 %, respectively. The Fe-bearing colloids in AMD upstream (pH ≤ 3.0) were primarily composed of Fe–O–S and Fe–O–C with minor Al–Si–O and Ca–O–S, while in less acidic and alkaline sections (pH ≥ 4.1), they were composed of Fe–O with minor Ca–O–S. The iron colloid agglomerates associated with As, Ni, and Cu precipitated coupling the transformation of jarosite, and schwertmannite to ferrihydrite, goethite, and gypsum. These results demonstrate that the formation and transformation of Fe-bearing colloids response to this unique geochemical gradient help to understand the natural metal(loid)s attenuation along the coal waste dump.

Distinct microbial structure and metabolic potential shaped by significant environmental gradient impacted by ferrous slag weathering

Alkaline ferrous slags pose global environmental issues and long-term risks to ambient environments. To explore the under-investigated microbial structure and biogeochemistry in such unique ecosystems, combined geochemical, microbial, ecological and metagenomic analyses were performed in the areas adjacent to a ferrous slag disposal plant in Sichuan, China. Different levels of exposure to ultrabasic slag leachate had resulted in a significant geochemical gradient of pH (8.0–12.4), electric potential (−126.9 to 437.9 mV), total organic carbon (TOC, 1.5–17.3 mg/L), and total nitrogen (TN, 0.17–1.01 mg/L). Distinct microbial communities were observed depending on their exposure to the strongly alkaline leachate. High pH and Ca2+ concentrations were associated with low microbial diversity and enrichment of bacterial classes Gamma-proteobacteria and Deinococci in the microbial communities exposed to the leachate. Combined metagenomic analyses of 4 leachate-unimpacted and 2-impacted microbial communities led to the assembly of one Serpentinomonas pangenome and 81 phylogenetically diversified metagenome assembled genomes (MAGs). The prevailing taxa in the leachate-impacted habitats (e.g., Serpentinomonas and Meiothermus spp.) were phylogenetically related to those in active serpentinizing ecosystems, suggesting the analogous processes between the man-made and natural systems. More importantly, they accounted for significant abundance of most functional genes associated with environmental adaptation and major element cycling. Their metabolic potential (e.g., cation/H+ antiporters, carbon fixation on lithospheric carbon source, and respiration coupling sulfur oxidization and oxygen or nitrate reduction) may support these taxa to survive and prosper in these unique geochemical niches. This study provides fundamental understandings of the adaptive strategies of microorganisms in response to the strong environmental perturbation by alkali tailings. It also contributes to a better comprehension of how to remediate environments affected by alkaline industrial material.