Microorganisms pumping iron: anaerobic microbial iron oxidation and reduction

Effects of engineering injection and supplement mode of in-situ biogeochemical transformation enhancement EVO-FeSO4 on the remediation of tetrachloroethylene contaminated aquifer

Traditional in situ biogeochemical transformation suffers from competition among crucial microorganisms and inadequate formation of reactive minerals, thus leading to the accumulation of toxic intermediates. In this study, three regulation schemes were proposed to solve these problems from the perspective of engineering mode. Results showed intermittent injection mode effectively reduced the accumulation of toxic intermediates but the reduction rate of tetrachloroethylene was decreased. And periodical supplementation of carbon and sulfur sources accelerated the removal of tetrachloroethylene but failed to reduce the accumulation of toxic products. While, regular supplementation of sulfate effectively weakened the competition of methanogens and increased the iron sulfide proportion on the surface of the minerals, thus reducing the accumulation of toxicity. Based on the results, this study obtained an effective engineering approach for practical site application. In addition, the main forms of active minerals capable of β-eliminating contaminants during biogeochemical transformation were identified in this study, including FeS, FeS2, and Fe3S4. Furthermore, the engineered regulatory mechanism of this study was summarized through the analysis of microbial community structure and mineral morphology. The amendment promotes the production of minerals and thus controls the transformation pathway of contaminants by altering the abundance of sulfate-reducing bacteria and dissimilatory iron reducing bacteria. This mechanism can provide a basis for subsequent theoretical studies.

New insights into efficient iron sulfide oxidation for arsenic immobilization by microaerophilic and acidophilic Fe(II)-oxidizing bacteria under micro-oxygen and acidic conditions

Microbial-mediated FeS oxidation to Fe(Ⅲ) minerals via chemolithoautotrophic Fe(Ⅱ) oxidizers under pH/O₂ limitations engages As immobilization. However, this process is constrained under the dual stress of micro-oxygen and acidic conditions due to the critically diminished Fe(Ⅱ) oxidation capacity. Therefore, the interplay between Fe(Ⅱ) oxidation, carbon metabolism, and As immobilization in Fe(Ⅱ)-oxidizing bacteria under micro-oxygen and acidic conditions remains unclear. This study presents the first successful enrichment of microaerophilic and acidophilic Fe(II)-oxidizing bacteria (MAFeOB). These bacteria are capable of oxidizing FeS to Fe(III) minerals and immobilizing up to 27,835 mg/kg of As(Ⅴ) under micro-oxygen content (below 3.2 mg/L) and acidic pH (4.5-6.2). Through comprehensive metagenomic analysis, it was speculated that MAFeOB harbor a suite of genes potentially participating in critical processes, including carbon fixation, Fe(II) oxidation, and arsenic detoxification. Notably, a potential electron transfer pathway from Cyc2_repCluster2 to Cytochrome cbb3-type oxidases facilitates Fe(II) oxidation. Furthermore, As(Ⅲ) efflux pump (arsA, arsB, acr3) and As(Ⅲ) oxidase (aioA) genes indicate MAFeOB's potential for As immobilization. Our findings underscore the pivotal role of MAFeOB in overcoming limitations associated with Fe(III) mineral formation, thereby enhancing arsenic immobilization under micro-oxygen and acidic water.

Manganese oxide application reduces cadmium bioavailability in rice rhizosphere: Insights from desorption kinetics and high-resolution imaging

Cadmium (Cd) contamination in paddy soils threatens global food safety. While manganese (Mn)-based materials show promise in reducing soil Cd bioavailability, their efficacy requires further evaluation. Traditional ex situ sampling methods often overlook metal desorption kinetics and rhizosphere biochemical heterogeneity, potentially misinterpreting Mn's regulatory influence on Cd dynamics. This study employed in situ monitoring tools, including diffusive gradients in thin-films (DGT) measurements, DIFS (DGT-induced fluxes in soils) modeling, and high-resolution DGT and planar optode (PO) imaging, to assess the impact of two Mn oxides (MnO2 and Mn2O3) on Cd bioavailability in rice rhizosphere. Application of MnO2 and Mn2O3 reduced bioavailable Cd by 28.9 % and 15.3 %, respectively, attributed to elevated soil Mn and Fe levels fostering Cd immobilization. DGT-DIFS results revealed that Mn oxide application prolonged Cd replenishment time and reduced its desorption rate from soil solids. PO imaging identified pH heterogeneity in rice rhizosphere, confirming that Mn oxides mediated Cd bioavailability reduction by increasing pH. High-resolution DGT imaging revealed distinct spatial distribution patterns of Cd, Mn, and Fe fluxes, demonstrating Mn's inhibitory effects on Cd bioavailability. These findings highlight the potential of Mn oxides to mitigate Cd uptake by rice, offering a promising strategy for managing Cd-contaminated soils.

Iron-dependent autotrophic denitrification as a novel microbial driven and iron-mediated denitrification process: A critical review

Based on previous research results, iron-dependent autotrophic denitrification (IDAD) was evaluated in an all-around way to provide a theoretical basis for further research. First, this review systematically and comprehensively summarizes the development of IDAD technology and describes the physiological properties of relevant functional microorganisms and their potential mechanisms from different perspectives. Second, the possible Fe-N pathways involved in the reaction of different iron-based materials are discussed in detail. Then, the theoretical advantages of the IDAD process and potential problems are described, and the corresponding control strategies are summarized. The influence of key factors on denitrification is discussed in terms of operational and water quality parameters. In addition, the application and research direction of this technology in engineering are summarized. Finally, the latest development trends and prospects for future applications are discussed to promote an in-depth understanding of IDAD and its practical application in sewage treatment.

Intermittent Microaeration Enhanced Anaerobic Digestion: The Key Role of Fe(III)/Fe(II) Cycle and Reactive Oxygen Species

Microaeration has been reported to improve anaerobic digestion, which is generally attributed to increased microbial diversity, but a thorough explanation is lacking. In this study, it was found that intermittent microaeration (IMA) supplied to an anaerobic digester could oxidize Fe(II) produced by dissimilatory iron reduction (DIR) to form a Fe(III)/Fe(II) cycle and generate extracellular reactive oxygen species (ROS) to improve anaerobic treatment of phenol-containing wastewater. The results showed that compared to the control group without IMA, the removal rates of COD and phenol increased by 29.54 and 49.68 percentage points, respectively, and daily average methane production increased by 85.44%. The Fe(III)/Fe(II) cycle slowed down the loss of iron (13.97%) released from sludge due to the lower solubility of Fe(III) and facilitated •OH generation (1.22 ± 0.04 μM) via Fenton-like reactions. The DIR and the generation of •OH accelerated phenol degradation. Metagenomic analysis revealed that the abundance of methanogens and antioxidant enzymes-encoding genes in response to oxidative stress significantly increased in the IMA group compared to the control, enabling methanogenesis to proceed smoothly under microaeration. This study investigated the extracellular ROS generation induced by microaeration during anaerobic digestion and their roles in promoting anaerobic performance, thereby providing a new perspective for optimizing anaerobic systems with microaeration.

Suppressing sediment nutrient release via electrokinetic drainage of porewater: apparent paradox and underlying mechanisms

Sediment nitrogen and phosphorus release drives internal eutrophication in many waterbodies, with nutrient-rich porewater serving as the key pathway for nutrient transfer to overlying water. In this study, electrokinetic geosynthetics (EKGs) were employed as electrodes to drain porewater and suppress sediment nutrient release. Five treatment groups with varying voltage gradients and power-on modes were tested. Nitrogen and phosphorus were primarily drained as ammonium (NH4+) and phosphate (PO43-), respectively. The total nitrogen removal from sediments was 16-20 times greater than that of phosphorus; however, the increase in nitrogen concentration in the overlying water was also nearly 10 times higher than that of phosphorus. This apparent paradox likely resulted from two key mechanisms. On one hand, NH4+ was rapidly mobilized and drained under the electric field, whereas PO43- required a series of acidification reactions before it could be released and transported. On the other hand, even when phosphate entered the overlying water, it was readily re-adsorbed or precipitated by the sediment, while nitrogen continued to accumulate through ongoing biogeochemical processes. Despite the differing removal efficiencies, electrokinetic drainage of porewater reduced sediment nutrient content in situ and suppressed nutrient enrichment in the overlying water, offering a promising strategy for the mitigation of internal eutrophication.

Co-application of digestate and biochar reduced greenhouse gas emissions in paddy soil through enhanced denitrification and anaerobic methane oxidation

Digestate from food waste (FW) has been identified as a promising nutrient resource for agriculture. However, applying digestate directly to soil often produces considerable greenhouse gas (GHG) emissions. As a soil amendment, biochar has demonstrated potential for mitigating GHG emissions. At present, the effect of biochar on GHG emissions and the associated regulatory mechanisms in paddy soils amended with digestate remains unclear. A 45-day soil incubation was conducted with different nitrogen substitution ratios of urea by digestate, coupled with biochar application: CK (100 % urea), D0U100 (100 % urea + biochar), D50U50 (50 % urea, 50 % digestate + biochar), and D100U0 (100 % digestate + biochar). Results indicated that the co-application of biochar and digestate significantly reduced N2O accumulation by 44.99 %-80.39 % compared to CK, primarily due to a decrease in soil NO3--N content and an increase in soil pH, which together significantly improved the distribution of the nosZ gene involved in denitrification. The increase in the abundance of Conexibacter, Symbiobacterium, Anaerolinea, and Candidatus_Solibacter further contributed to N2O reduction. Furthermore, the co-application led to a 21.68 %-38.15 % reduction in CH4 accumulation compared to CK. Biochar increased the abundance of methanotrophic bacteria, such as Methylococcaceae, Methyloligellaceae, and Methylomirabilaceae. Co-application increased the abundance of nitrate-reducing bacteria Symbiobacterium and Anaerolinea, thereafter facilitating nitrite-dependent anaerobic methane oxidation (AOM) dominated by Methylomirabilaceae. Additionally, sulfate-dependent and Iron(III)-dependent AOM likely further contributed to CH4 reduction. Overall, this study proposed a low-carbon management strategy for FW digestate and GHG emissions mitigation of paddy soil.

Antimony mobility in soils: current understanding and future research directions

Antimony (Sb) has gained increased attention over the past few decades due to its possible detrimental effects on biota and its potential to leach and disperse from contaminated soils. The fate of Sb in the environment is largely controlled by its chemical speciation, as well as the speciation of solid phases (e.g. Mn/Fe-oxyhydroxides) that interact with Sb in soils. Microbes have the capacity to facilitate a multitude of oxidation and reduction reactions in soils. Therefore, they exert control over the reactivity of Sb in the environment, either directly and/or indirectly, by changing Sb speciation and/or affecting the redox state of soil solid phases. Here, we outline processes that determine the behaviour of Sb in soils. We conclude that based on laboratory studies there is a good theoretical understanding of pure soil components interacting with Sb species. However, comparatively little is known concerning the contribution of these interactions in complex natural systems that are dynamic in terms of biogeochemical conditions and that can hardly be simulated using laboratory incubations. We note that important biochemical foundations of microbially driven Sb conversions (i.e. molecular constraints on organisms, genes and enzymes involved) have emerged recently. Again, these are based on laboratory incubations and investigations in environments high in Sb. In this regard, an important remaining question is which microorganisms actively impact Sb speciation under real-world conditions, in particular where Sb concentrations are low. Multiple dissolved Sb species have been described in the literature. We note that more analytical development is needed to identify and quantify possible key Sb species in natural systems, as well as anthropogenically impacted environments with only moderate Sb concentrations. With these research needs addressed, we believe that the Sb fate in the environment can be more accurately assessed, and remediation options can be developed.

Uncovering anaerobic oxidation of methane and active microorganisms in landfills by using stable isotope probing

Anaerobic oxidation of methane (AOM) coupled electron acceptor reduction has been shown to regulate methane (CH4) emissions from the habitats. Landfill is one of the most important anthropogenic CH4 emission sources. However, the effect of electron acceptors on the AOM process and its microbial mechanism in landfills is poorly characterized. Herein, electron acceptors including nitrate, nitrite, sulfate and ferric iron were used to regulate the AOM process in landfill microcosms by using stable isotope probing analysis. The addition of electron acceptors could promote AOM in the landfilled waste. Among them, nitrate and nitrite had the strongest promoting effect on AOM in the waste with the maximum activities of 5.60-5.76 μg g-1 d-1, which increased by 1070.9%-1103.6% compared with the control without electron acceptor amendation. Candidatus Methylomirabilis was only detected in assimilating CH4 in the ferric iron-amended treatment. The proteobacterial methanotrophs and Methylacidiphilum were mainly observed in the ferric iron 13C-DNA, likely due to O2 released from the conversion of nitric oxide. Methanomassiliicoccus were the most abundant archaea in the treatments with nitrate, nitrite and sulfate, while Methanosarcina dominated in the ferric iron-amended treatment. Nitrate, nitrite, sulfate and ferric iron all could prompt the growth of sulfur, iron, nitrate and nitrite metabolizing microorganisms. Partial least squares path modeling indicated that AOM in the landfilled waste could be driven by electron acceptors via the changes of environmental variables, while the direct effect of electron acceptors on the AOM activity was weak with an intensity of 0.06. Taken together, this study demonstrated that the AOM process in landfills can be regulated by electron acceptors, especially nitrate and nitrite, to mitigate CH4 emissions from landfills.

Dual role of microorganisms in metal corrosion: a review of mechanisms of corrosion promotion and inhibition

The dual role of microorganisms in metal corrosion and corrosion inhibition reflects their complex biochemical interactions. In terms of corrosion, certain microorganisms accelerate metal oxidation by producing acidic metabolites or facilitating electrochemical processes, thereby causing damage to the material. Conversely, under specific conditions, they can form biofilms and/or biominerals that create protective layers, reducing the oxidation rate and delaying corrosion. This paper provides a comprehensive illustration of microbial corrosion promotion and inhibition, emphasizing the importance of key microorganisms involved in these corrosive processes. Microorganisms, including sulfate-reducing bacteria, nitrate-reducing bacteria, iron-oxidizing and iron-reducing bacteria and certain fungi, contribute to corrosion through their metabolic activities. Microbial corrosion mechanisms can be classified into extracellular electron transfer, microbial metabolism corrosion and the oxygen concentration cell theory. In contrast, microorganisms can effectively mitigate metal corrosion through a range of mechanisms including reduction of dissolved oxygen levels, secretion of antimicrobial substances, biological competition and biomineralization. Microbial corrosion and inhibition generally arise from multiple mechanisms working together, rather than a single cause. A deeper understanding of these mechanisms can provide a theoretical basis and practical guidance for the development of new anti-corrosion strategies.

Microbial community structure and causal analysis in sediments of shallow eutrophic freshwater lakes under heavy metal compound pollution

Heavy metals, due to their toxicity, persistence, and non-biodegradability, have become some of the most severe environmental pollutants globally. Their accumulation in lake sediments can significantly impact aquatic ecosystems' biogeochemical cycles by altering the ecological dynamics of microbial communities. To further elucidate the mechanisms underlying microbial responses to complex heavy metal pollution in lake sediments, sediment samples were collected from Nan Yi Lake, and their physicochemical properties and microbial composition were systematically analyzed. The results demonstrated that the sediments of Nan Yi Lake were significantly contaminated with heavy metals, which were identified as the predominant factors shaping microbial community structure. Heavy metals influenced microbial richness and distribution patterns along sediment depth gradients, driving the establishment of optimal ecological niches. Meanwhile, other physicochemical factors indirectly affected microbial communities by modulating the concentration of heavy metals. Furthermore, the microbial co-occurrence network was closely associated with the concentrations of Fe and As, with sediment particle size also playing a contributing role. This study highlights the intricate interactions between physicochemical factors and microorganisms, offering critical insights into the multifaceted impacts of heavy metal compound pollution on lake ecosystems. It provides a scientific foundation for effective management of lake environmental pollution and ecological restoration efforts.

Study on the effect of Shewanella oneidensis MR-1 coupled with the low molecular weight organic acid on the dissimilation reduction of Cd-containing goethite

Microbial dissimilated iron reduction is one of the important driving forces of the biological and geochemical cycles of iron in nature. Plant root exudates dominated by organic acids are important electron donors of the rhizosphere dissimilar iron reduction microorganisms under flooded conditions. In this paper, we investigated the effects of different kinds and concentrations of organic acids on the dissimilation reduction process of goethite by Shewanella oneidensis MR-1, and explored the effect of phase transformation of iron minerals on its adsorption of Cd. The results showed that the low molecular weight organic acid promoted the dissolution of Fe(Ⅲ) in goethite, and ternary carboxylic acids had more obvious effect than binary carboxylic acids. The concentration of the solution of Fe(Ⅱ) increased by 63.95%-342.3%, the Fe(Ⅲ) concentration increased by 2.95%-260.6%. In addition, in the process of dissimilated iron reduction, the concentration of Cd released during the dissolution of iron ore is low due to the complexation of the low molecular organic acid, which will reduce the negative impact of high concentration Cd on Shewanella oneidensis MR-1, and further reduce the inhibitory effect of Cd on dissimilated iron reduction. It is noteworthy that we found that Cd released by soil iron minerals will be adsorbed and fixed again, that is, heavy metals loaded on trivalent iron minerals will be released and redistributed in the process of dissimilated iron reduction, which is one of the migration and transformation ways of heavy metals in the environments.

In-situ synthesis of FeS nanoparticles enhances Sulfamethoxazole degradation via accelerated electron transfer in anaerobic bacterial communities

The impact of nanominerals on microbial electron transfer and energy metabolism strategies during pollutant degradation remains uncertain. This study used in situ synthesized FeS nanoparticles (FeS NPs) to increase the degradation efficiency of SMX by anaerobic bacterial communities from 25.80 % to 47.60 %. The proportion of intracellular degradation by bacteria in the community significantly increased by 23.25 times, which mainly facilitated by NADH-dependent reductases and iron-sulfur proteins. Microbial network analysis and electrochemical analysis indicated that the in-situ synthesis of FeS NPs altered the interactions among different microbial species, enabling Petrimonas to transfer electrons directly to Lysinibacillus more effectively. This adjustment led to an increase in the activity of the electron transport system by 1.2 times, an increase in the electron supply capacity by 2.8 times, and a decrease in the electrochemical impedance (EIS) to 3.21 Ω. Moreover, the coupling of electron transfer pathways and protease transport channels significantly increased Na+/K+-ATPase by 14.72 times. Inhibitor experiments and molecular dynamics (MD) results showed that FeS NPs interact with Nqo1 in the cell membrane via electrostatic force at -28.573 kcal/mol, forming a unique electron conduit with ubiquinone (CoQ). This study provides new insights into the role of in situ nanominerals in electron transfer between different microorganisms, aim to enhance the antibiotic wastewater treatment efficiency in actual anaerobic processes.

The interactive application and impacts of iron/nitrogen biogeochemical cycling in distributed ponds for non-point source pollution control in a watershed

The linkages of distributed ponds are utilized in conjunction with one another to remediate non-point source (NPS) pollution in a water-scarce basin. This study provides an overview of a state-of-the-art thorough evaluation of ponds, which offers insight into the majority of topics covered by the ongoing scientific studies, including their various functions and factors affecting their functioning on the hydrological, physicochemical, and biological processes, such as environmental climate factors and basin-specific landscape configuration parameters, as well as process parameters for design, operation and management aspects. The linkages of ponds provide a variety of sustainable services (6R functions), such as resources, restoration, reduction, reuse, recycling, and recovery. The significance of regional environmental geochemical substrates in the ponds, such as red soil, as a hotspot for microbial reaction is emphasized to demonstrate the significant contribution of the migration and transformation of Fe/N cycles to the pollution removal process. In this review, 178 original research publications were thoroughly analyzed to improve our knowledge of the iron-nitrogen cycle in wetlands. From a molecular biology standpoint, the identification of functional microbe species and genes linked to microbially driven iron-nitrogen cycle activities is delved. Reliable data and homogeneous datasets from 42 studies were collected. The correlation analysis results demonstrated Feammox rates contributed to the N loss amount (r = 0.871; p < 0.01), and they had a positive correlation with Fe(III) concentration (r = 0.965; p < 0.01). The proposal for the treatment of NPS pollution by large-scale linkages of ponds in a basin involves optimizing Fe/N microbial processes to promote iron crystallization and efficient circulation of Fe(II) and Fe(III). The co-benefits of geochemistry, biotechnology, and environmental science should be considered when managing contamination in engineering applications. The linkages framework for integrated ponds, which incorporates macro (watershed management) and micro (biogeochemical cycle mechanism) investigations, provides a systematic approach to the application of integrated ponds and sustainable water management for NPS pollution control.

Low-molecular weight organic acids can enhance the microbial reduction of iron oxide nanoparticles and pollutants by improving electrons transfer

The combined application of dissimilatory iron-reducing bacteria (DIRB) and Fe(III) nanoparticles has garnered widespread interest in the contaminants transformation and removal. The efficiency of this composite system relies on the extracellular electron transfer (EET) process between DIRB and Fe(III) nanoparticles. While modifications to Fe(III) nanoparticles have demonstrated improvements in EET, enhancing DIRB activity also shows potential for further EET enhancement, meriting further investigation. In this study, we demonstrated that the addition of low-molecular organic acids (LMWOAs) (oxalate, pyruvate, malate, citrate, or fumarate) can improve the reduction of Fe2O3 nanoparticles by Geobacter sulfurreducens PCA through three pathways: increasing intracellular electron production, enhancing the reductive activity of extracellular metabolites, and improving the electron-donating capacity of extracellular polymeric substances. The maximum reduction of Fe2O3 nanoparticles reached up to 72 %. Our results further showed that LMWOAs significantly boosted the removal rate and ratio of Cr(VI) and hexachlorobenzene (HCB) by accelerating the EET process. Following the introduction of LMWOAs, the maximum reduction ratio of Cr(VI) reached 98 ± 0.05 % within 24 h, while the degradation efficiency of HCB reached 92 ± 0.06 % within 9 h. Overall, our study provided a precise mechanism of the role of LMWOAs on the EET process and a new strategy for reductive bioremediation of pollutants.

Preservation of Extracellular Sheaths Produced by Iron-Oxidizing Bacteria: An Analog for Potential Morphological Biosignatures on Mars

In the search for life on Mars, evaluating the biogenicity of morphological structures may be important, as they can provide a primary independent line of evidence for past life and can be used to target areas to focus further analyses. However, our experience with terrestrial materials indicates that the deleterious effects of diagenetic processes regularly make the assessment, and even detection, of microfossils and other microscopic biosignatures challenging. To improve our understanding of these effects on Mars, we collected samples that contained sheath-shaped extracellular structures produced by iron-oxidizing bacteria (FeOB) from a Mars analog circumneutral iron deposit and subjected them to artificial maturation by hydrous pyrolysis. Simulated diagenesis induced a phase change in the mineralogy of the structures, from ferrihydrite to crystalline iron oxides. We found that conditions associated with the onset of this phase change were correlated with the start of significant degradation of the extracellular structures. Our results reveal the sensitivity of remains of FeOB to diagenesis, which provides insights for improved targeting of astrobiological missions to areas on Mars that are most conducive to morphological biosignature preservation. Additionally, these results compel increased scrutiny of FeOB-like purported biosignatures if their mineralogy is dominated by crystalline iron oxides.

Integrated use of electrochemical anaerobic reactors and genomic based modeling for characterizing methanogenic activity in microbial communities exposed to BTEX contamination

In soil polluted with benzene, toluene, ethylbenzene, and xylenes (BTEX), oxygen is rapidly depleted by aerobic respiration, creating a redox gradient across the plume. Under anaerobic conditions, BTEX biodegradation is then coupled with fermentation and methanogenesis. This study aimed to characterize this multi-step process, focusing on the interactions and functional roles of key microbial groups involved. A reactor system, comprising an Anaerobic Bioreactor (AB) and two Microbial Electrolysis Cell (MEC) chambers, designed to represent different spatial zones along the redox gradient, operated for 160 days with intermittent exposure to BTEX. The functional differentiation of each chamber was reflected by the gas emission profiles: 50%, 12% and 84% methane in the AB, anode and cathode chambers, respectively. The taxonomic profiling, assessed using 16S amplicon sequencing, led to the identification chamber-characteristic taxonomic groups. To translate the taxonomic shift into a functional shift, community dynamics was transformed into a simulative platform based on genome scale metabolic models constructed for 21 species that capture both key functionalities and taxonomies. Representatives include BTEX degraders, fermenters, iron reducers acetoclastic and hydrogenotrophic methanogens. Functionality was inferred according to the identification of the functional gene bamA as a biomarker for anaerobic BTEX degradation, taxonomy and literature support. Comparison of the predicted performances of the reactor-specific communities confirmed that the simulation successfully captured the experimentally recorded functional variation. Variations in the predicted exchange profiles between chambers capture reported and novel competitive and cooperative interactions between methanogens and non-methanogens. Examples include the exchange profiles of hypoxanthine (HYXN) and acetate between fermenters and methanogens, suggesting mechanisms underlying the supportive/repressive effect of taxonomic divergence on methanogenesis. Hence, the platform represents a pioneering attempt to capture the full spectrum of community activity in methanogenic hydrocarbon biodegradation while supporting the future design of optimization strategies.

Vertical distribution of methanotrophic archaea in an iron-rich groundwater discharge zone

Anaerobic oxidation of methane coupled to iron reduction (Fe-AOM) is a crucial process for methane removal in terrestrial environments. However, the occurrence of Fe-AOM in natural environments is rare, and the mechanisms behind the direct coupling of methane oxidation and iron reduction remain poorly understood. In this study, we investigated the environmental factors influencing the distribution of methanotrophic archaea in an iron-rich zone of a freshwater pond in Hiroshima Prefecture, Japan. High concentration of dissolved ferrous iron supplied by groundwater discharge led to considerable ferrihydrite precipitation. Pore water methane increased with sediment depth, while nitrate and sulfate concentrations were near detection limits throughout the sediment column. The coexistence of ferric iron and methane suggests the ongoing process of Fe-AOM. Tracer-based experiments using 14C showed potential Fe-AOM rates up to 110 pmol mL-1 day-1. Throughout the sediment core, except at the surface, PCR-based molecular ecological analyses of the 16S rRNA gene and functional genes for anaerobic oxidation of methane revealed abundant sequences belonging to the family "Candidatus Methanoperedenaceae". These geochemical and microbiological findings suggest that Fe-AOM plays a key role in biogeochemical cycles of iron and methane, positioning this environment as a modern analogue of early Earth conditions.

Size-Dependent Reduction Kinetics of Iron Oxides in Single and Mixed Mineral Systems

Iron(III) (oxyhydr)oxide minerals with varying particle sizes commonly coexist in natural environments and are susceptible to both chemical and microbial reduction, affecting the fate and mobility of trace elements, nutrients, and pollutants. The size-dependent reduction behavior of iron (oxyhydr)oxides in single and mixed mineral systems remains poorly understood. In this study, we used microbial and mediated electrochemical reduction approaches to investigate the reduction kinetics and extents of goethite and hematite. We found that small particles were preferentially reduced relative to their large counterparts in single and mixed mineral systems regardless of microbial or electrochemical treatments, which is attributed to the combined effect of higher thermodynamic favorability and greater surface availability. In mixed mineral systems, small particles were reduced slightly faster, whereas large particles were reduced notably slower and less extensively than solely predicted from single mineral systems. Specifically, when reduced alone, small particles showed Fe(III) reduction rate constants that were 1.5- to 3.6-fold higher than large particles, while when reduced together, the reduction rate constants for small particles were 6- to 21-fold higher than the rate constants for large particles. These collective findings provide new insights into the pivotal role of nanoparticulate iron (oxyhydr)oxides in environmental redox reactions.

Nitrous oxide is the main product during nitrate reduction by a novel lithoautotrophic iron(II)-oxidizing culture from an organic-rich paddy soil

Microbial nitrate reduction coupled to iron(II) oxidation (NRFeOx) occurs in paddy soils due to high levels of dissolved iron(II) and regular application of nitrogen fertilizer. However, to date, there is no lithoautotrophic NRFeOx isolate or enrichment culture available from this soil environment. Thus, resulting impacts on greenhouse gas emissions during nitrate reduction (i.e., nitrous oxide [N2O]) and on toxic metalloid (i.e., arsenic) mobility can hardly be investigated. We enriched a lithoautotrophic NRFeOx culture, culture HP (Huilongpu paddy, named after its origin), from a paddy soil (Huilongpu Town, China), which was dominated by Gallionella (71%). The culture reduced 0.45 to 0.63 mM nitrate and oxidized 1.76 to 2.31 mM iron(II) within 4 days leading to N2O as the main N-product (62%-88% N2O-N of total reduced NO3--N). Nitrite was present as an intermediate at a maximum of 0.16 ± 0.1 mM. Cells were associated with, but mostly not encrusted by, poorly crystalline iron(III) minerals (ferrihydrite). Culture HP performed best below an iron(II) threshold of 2.5-3.5 mM and in a pH range of 6.50-7.05. In the presence of 100 µM arsenite, only 0%-18% of iron(II) was oxidized. Due to low iron(II) oxidation, arsenite was not immobilized. However, the proportion of N2O-N of total reduced NO3--N decreased from 77% to 30%. Our results indicate that lithoautotrophic NRFeOx occurs even in organic-rich paddy soils, resulting in denitrification and subsequent N2O emissions. The obtained novel enrichment culture allows us to study the impact of lithoautotrophic NRFeOx on arsenic mobility and N2O emissions in paddy soils.IMPORTANCEPaddy soils are naturally rich in iron(II) and regularly experience nitrogen inputs due to fertilization. Nitrogen fertilization increases nitrous oxide emissions as it is an intermediate product during nitrate reduction. Microorganisms can live using nitrate and iron(II) as electron acceptor and donor, respectively, but mostly require an organic co-substrate. By contrast, microorganisms that only rely on nitrate, iron(II), and CO2 could inhabit carbon-limited ecological niches. So far, no isolate or consortium of lithoautotrophic iron(II)-oxidizing, nitrate-reducing microorganisms has been obtained from paddy soil. Here, we describe a lithoautotrophic enrichment culture, dominated by a typical iron(II)-oxidizer (Gallionella), that oxidized iron(II) and reduced nitrate to nitrous oxide, negatively impacting greenhouse gas dynamics. High arsenic concentrations were toxic to the culture but decreased the proportion of nitrous oxide of the total reduced nitrate. Our results suggest that autotrophic nitrate reduction coupled with iron(II) oxidation is a relevant, previously overlooked process in paddy soils.

The phospho-ferrozine assay: a tool to study bacterial redox-active metabolites produced at the plant root

Soil microbial communities are pivotal to plant health and nutrient acquisition. It is becoming increasingly clear that many interactions, both among and between microbes and plants, are governed by small bioactive molecules or "secondary metabolites" that can aid in communication, competition, and nutrient uptake. Yet, secondary metabolite biogeography - who makes what, where, and why-is in its infancy. Further, secondary metabolite biosynthesis genes are often silent or weakly expressed under standard laboratory conditions, making it incredibly difficult to study these small molecules. To begin to address these dual challenges, we focused on redox-active metabolites (RAMs), a specific class of small molecules, and took advantage of recent findings that many RAMs aid in acquiring phosphorus and that their production is frequently stimulated by stress for this macronutrient. We developed a screen for RAM-producing bacteria that leverages phosphorus limitation to stimulate metabolite biosynthesis and uses a colorimetric (ferrozine) iron-reduction assay to identify redox activity. We isolated 557 root-associated bacteria from grasses collected at sites across the United States (Santa Rita Experimental Range [AZ], Konza Prairie Biological Station [KS], and Harvard Forest [MA]) and from commercial tomato plants and screened them for RAM production. We identified 128 soil isolates of at least 19 genera across Proteobacteria, Actinobacteria, Firmicutes, and Bacteroidetes that produced RAMs under phosphorus stress. Our work reveals that the production of RAMs under phosphorus stress is common across diverse soil bacteria and provides an approach to screen for these small molecules rapidly.IMPORTANCEBy secreting secondary metabolites, bacteria at the plant root can defend against diseases and help acquire essential nutrients. However, the genes that synthesize secondary metabolites are typically inactive or are weakly expressed under standard laboratory conditions. This fact makes it difficult to study these small molecules and hinders the discovery of novel small molecules that may play crucial roles in agricultural and biomedical settings. Here, we focus on redox-active metabolites (RAMs), a class of secondary metabolites that can help bacteria solubilize phosphorus and are often produced when phosphorus is limited. We developed a screen that rapidly identifies RAM-producing bacteria by utilizing a colorimetric iron-reduction assay in combination with phosphorus limitation to stimulate biosynthesis. The screen reveals that RAM-producing bacteria are far more prevalent in soil than previously appreciated and that this approach can be used to identify RAM producers.

Low molecular weight organic acids stabilise siderite against oxidation and influence the composition of iron (oxyhydr)oxide oxidation products

Siderite (FeCO3) is an important reservoir of mineral-bound ferrous iron in non-sulfidic, reducing soils and sediments. It is redox sensitive, and its oxidation may facilitate the reduction of a range of pollutants, produce reactive oxygen species, or induce the formation of oxidation products with large surface areas for contaminant sorption. However, there is currently a limited understanding of the stability of siderite in complex environments such as soils and sediments. Here, we use a series of batch experiments complemented with thorough characterisation of mineral oxidation products to investigate the oxidation of siderite in the presence and absence of the low molecular weight organic acids (LMWOAs) citrate, tiron, salicylate, and EDTA as analogues for naturally occurring compounds or functional groups of natural organic matter that ubiquitously coexist with siderite. Our results show that siderite alone at pH 7.5 was completely oxidised to form ferrihydrite, nanocrystalline lepidocrocite, and nanocrystalline goethite in less than 6 hours. However, in the presence of LMWOAs, up to 48% of the siderite was preserved for more than 500 hours and the formation of goethite was inhibited in favour of ferrihydrite and lepidocrocite. Using experimental data from electron microscopy and chemical speciation modelling, we hypothesise that the siderite may be preserved through the formation of an Fe(III)-passivation layer at the siderite surface.

Rhizosphere microbial community structure and PICRUSt2 predicted metagenomes function in heavy metal contaminated sites: A case study of the Blesbokspruit wetland

This study investigated the microbial diversity inhabiting the roots (rhizosphere) of macrophytes thriving along the Blesbokspruit wetland, South Africa's least conserved Ramsar site. The wetland suffers from decades of pollution from mining wastewater, agriculture, and sewage. The current study focused on three macrophytes: Phragmites australis (common reed), Typha capensis (bulrush), and Eichhornia crassipes (water hyacinth). The results revealed a greater abundance and diversity of microbes (Bacteria and Fungi) associated with the free-floating E. crassipes compared to P. australis and T. capensis. Furthermore, the correlation between microbial abundance and metals, showed a strong correlation between fungal communities and metals such as nickel (Ni) and arsenic (As), while bacterial communities correlated more with lead (Pb) and chromium (Cr). The functional analysis predicted by PICRUSt2 identified genes related to xenobiotic degradation, suggesting the potential of these microbes to break down pollutants. Moreover, specific bacterial groups - Proteobacteria, Verrucomicrobia, Cyanobacteria, and Bacteroidetes - were linked to this degradation pathway. These findings suggest a promising avenue for microbe-assisted phytoremediation, a technique that utilizes plants and their associated microbes to decontaminate polluted environments.

Desalting strategies for native mass spectrometry

In native mass spectrometry (MS) salts are indispensable for preserving the native structures of biomolecules, but detrimental to mass sensitivity, resolution, and accuracy. Such a conflict makes desalting in native MS more challenging, distinctive, and sample-dependent than in peptide-centric MS. This review first briefly introduces the charged residue mechanism whereby native-like gaseous protein ions are released from electrospray droplets, revealing a higher degree of salt adduction than denatured proteins. Subsequently, this review summarizes and explores the existing strategies, underlying mechanisms and future perspectives of desalting in native MS. These strategies mainly focus on buffer exchange into volatile salts (offline and online approaches), addition of solution additives (e.g., anion, supercharging reagent, solution phase chelator and amino acid), use of submicron electrospray emitters (down to 60 nm), and other potential approaches (e.g., induced and electrophoretic nanoelectrospray ionization). The strategies of online buffer exchange and using nanoscale electrospray emitters are highlighted. This review would not only be a valuable addition to the field of sample preparation in MS, but would also serve as a beginner's guide to desalting in native MS.

Iron oxides promote physicochemical stabilization of carbon despite enhancing microbial activity in the rice rhizosphere

Rice rhizosphere soil is a hotspot of microbial activity and a complex interplay between soil abiotic properties, microbial community and organic carbon (C). The iron (Fe) plaque formation in the rice rhizosphere promotes Fe-bound organic C formation and increases microbial activity. Yet, the overall impact of Fe on C storage via physicochemical stabilization and microbial mineralization of rhizodeposits (rhizo-C) and soil organic C (SOC) in the rice rhizosphere remain unclear. We conducted a microcosm experiment using 13C-CO2 pulse labeling to grow rice (Oryza sativa L.) with four levels of α-FeOOH addition (Control, Fe-10 %, Fe-20 %, Fe-40 % w/w of α-FeOOH per total Fe in soil). This study aimed to evaluate the impact of Fe oxides on rhizo-C mineralization, the rhizosphere priming effect, and Fe-OM formation. Microbial community composition and localization of enzyme activities were also quantified through 16S rRNA sequencing and zymography. The hotspot area, as being indicated by zymography, increased by 20-50% in the presence of Fe compared to the soil without Fe addition. Despite being a hotspot, strong coprecipitation of Fe-OM in the rhizosphere promoted C immobilisation. Fe-20 % and Fe-40 % resulted in a 41 % and 33 % decrease of rhizodeposits derived 13C-CO2 emission and increased 13C stabilization mainly in 0.25-2 mm soil aggregates due to coprecipitation and aggregate formation with α-FeOOH. Moreover, Fe addition led to a dominance of Fe-oxidizing bacteria genera such as Pseudomonas, which fostered coprecipitation of Fe-OM formation. We highlight larger physicochemical stabilization of organic C by α-FeOOH addition despite raised hotspot area of microbial activity in the rice rhizosphere.

Triplet-Excited Riboflavin Promotes Labile Fe(III) Accumulation and Changes Mineralization Pathways in Fe(II)-Catalyzed Ferrihydrite Transformation

Flavins are well-known endogenous electron shuttles that facilitate long-distance extracellular electron transfer in dissimilatory iron reduction (DIR), but the effects of their photosensitivity on DIR and the transformation of metastable iron (oxyhydr)oxides like ferrihydrite (Fh) remain underexplored. This study compared the kinetics, pathways, and products of Fh transformation catalyzed by aqueous Fe(II) (Fe(II)aq) in the presence of oxidized riboflavin (RFox) at pH 7 under both dark and light conditions. While RFox has a negligible impact on Fe(II)-catalyzed Fh transformation in the dark, its photoexcited triplet state (3RF*) can significantly accelerate interfacial electron transfer (IET) from Fe(II)aq to Fh, increasing the reductive dissolution rate of Fh and boosting the accumulation rate of the key intermediate labile Fe(III) (Fe(III)labile) from 14.2 μM·h-1 to 35.6 μM·h-1. The 3RF*-promoted Fe(II)-Fh IET favors the oxolation of Fe(III)labile to lepidocrocite (Lp) over goethite (Gt) formation during Fh transformation and promotes the subsequent conversion of Lp to magnetite (Mt), altering the mineral products from sole Gt to a mixture of Lp (24.1%), Gt (45.4%), and Mt (30.5%). These findings highlight the notable effects of riboflavin as a photosensitizer on Fh biotransformation, with implications for microbial respiration and elemental cycling in natural environments.

Characterization of Bimetallic Pd-Fe Nanoparticles Synthesized in Escherichia coli

Biologically mediated nanoparticle (NP) synthesis offers a reliable and sustainable alternative route for metal NP production. Compared with conventional chemical and physical production methods that require hazardous materials and considerable energy expenditure, some microorganisms can reduce metal ions into NPs during standard metabolic processes. However, to be considered a feasible commercial option, the properties and inherent activity of bio-NPs still need to be significantly improved. In this work, we present an Escherichia coli-mediated synthesis method for catalytically active Pd-Fe NPs. The produced biogenic Pd-Fe NPs with varying Fe content were characterized using complementary analytical techniques to assess their size, composition, and structural properties. In addition, their catalytic performance was assessed by using standardized chemical reactions. We demonstrate that the combination of Pd with Fe leads to synergistic effects that enhance the catalytic performance of Pd NPs and make biogenic Pd-Fe NPs excellent potential substitutes for currently used catalysts. Briefly, the apparent rates for the model reaction of 4-nitrophenol reduction to 4-aminophenol catalyzed by Pd-based nanoparticles were as high as 0.1312 min-1 using bimetallic Pd-Fe NPs, which is far superior to the rates of monometallic Pd NPs counterparts. This study provides a feasible strategy for the synthesis of multimetallic Pd-based NPs using common microbial processes. It emphasizes the potential of biogenic Pd-Fe NPs as efficient and sustainable catalysts for hydrogenation reactions, offering an environmentally friendly synthesis for various applications, including wastewater treatment and the production of fine chemicals.

Effects of salinity on iron-organic carbon binding in the rhizosphere of Kandelia obovata: Insights from root exudate analysis

Iron (Fe) oxides in wetland soils are crucial for stabilizing soil organic carbon (SOC) by forming stable Fe-OC complexes, thus protecting SOC from microbial breakdown and aiding its preservation. This study delves into the response of Fe (hydr-)oxides to salt stress, a relatively unexplored area, by examining Kandelia obovata, a key mangrove species. Through controlled climate chamber experiments, we investigated how salt stress affects the interactions between Fe (hydr-)oxides and SOC in root exudates (REs) and rhizosphere soils. Our results demonstrate that salinity at 30 ppt significantly increases the release of sugars, amino acids, inorganic nutrients (NH4+, NO3-), and phosphorus in K. obovata's REs, while reducing crystalline and amorphous Fe (hydr-)oxides and increasing complexed Fe (hydr-)oxide levels, thereby reducing their crystallinity in rhizosphere soils. Importantly, at elevated salinity (30 ppt), the Fe-OC bond in the rhizosphere shows greater stability, indicating enhanced resilience to salt stress compared to bulk soil. Salt stress also raises the carbon to nitrogen (C/N) ratio in REs. Testing artificial REs (AREs) with different C/N ratios showed that Fe (hydr-)oxide content decreases at C/N ratios of 10 and 30 compared to the control, whereas Fe-OC content increases with higher C/N ratios. Introduction of AREs with a C/N ratio of 20 significantly affected rhizosphere crystalline Fe (hydr-)oxide and Fe-OC content, highlighting AREs' impact on the binding of Fe (hydr-) oxides and OC. The presence of soil microorganisms was critical for the binding of Fe (hydr-) oxides and OC, as sterilized soil exhibited significantly lower levels of Fe (hydr-) oxides and Fe-OC compared to unsterilized soil. This research reveals that under salt stress, mangrove plants play a crucial role in stabilizing rhizosphere SOC by influencing Fe (hydr-) oxide crystallinity and promoting the formation of stable Fe-OC complexes, highlighting the complex interactions between plant REs, salt stress, and soil minerals.

Controlling iron release and pathogenic bacterial growth in distribution pipes through nanofiltration followed by different disinfection methods

There is increasing concern about discoloration problems and microbial risks in drinking water. Until recently, how to control iron release and pathogenic bacterial growth in distribution pipes has been a knowledge gap. In our study, nanofiltration removed 13.3 % of lignins, 33.1 % of tannins and 17.7 % of proteins from dissolved organic matter (DOM). These DOM components were closely related to enzymes involved in the tricarboxylic acid (TCA) cycle. Therefore, nanofiltration followed by chlorine or chloramine disinfection inhibited the TCA cycle and induced lower adenosine triphosphate (ATP) and extracellular polymeric substance (EPS) production, resulting in reduced pathogenic bacterial growth. The number of Pseudomonas aeruginosa decreased to 7.43 × 105 and 2.43 × 105 gene copies/mL, respectively. Moreover, lower DOM concentrations increased the abundance of iron-reducing bacteria (IRBs) in the biofilm. IRBs can convert Fe(III) into Fe(II) through cellular c-type cytochromes, including CymA, MtrA, Cytc3, MacA, PpcA, and OcmB. The higher abundance of IRB and their cytochromes led to more Fe3O4 formation on the surface of the distribution pipes, resulting in lower iron release. The total iron concentration was 16.9 μg/L in the effluent of pipes treated with nanofiltration and chloramine disinfection. Therefore, nanofiltration followed by different disinfection methods, especially chloramine disinfection, effectively controlled iron release and pathogenic bacterial growth in distribution pipes. This study strongly contributes to maintaining the drinking water quality in distribution pipes.

Sulfate-mediated Fe(III) mineral reduction accelerates arsenic mobilization by a Desulfovibrio strain isolated from paddy soil

The biogeochemical cycling of arsenic (As) is often intertwined with iron (Fe) and sulfur (S) cycles, wherein Fe(III)- and sulfate-reducing bacteria (SRB) play a crucial role. Here, we isolated strain DS-1, a strictly anaerobic Fe(III)- and sulfate-reducing bacterium, from As-contaminated paddy soil. Using 16S rRNA gene sequence analysis, strain DS-1 was identified as a member of the genus Desulfovibrio. Strain DS-1 utilized energy derived from ferrihydrite reduction to support its cellular growth. Under anoxic sulfate-reducing conditions, the presence of strain DS-1 significantly increased As mobilization compared to sulfate-free conditions. Mechanistically, SRB-produced sulfide reacts with Fe(III) to form FeS, which disrupts Fe(III) minerals, thereby enhancing As release. These findings highlight the critical role of redox disequilibrium in As mobilization and suggest that SRB-produced sulfide may permeate to the rice rhizosphere, increasing As mobilization through Fe(III) reduction.

Sediment grain size regulates the biogeochemical processes of nitrate in the riparian zone by influencing nutrient concentrations and microbial abundance

Riparian zones play a crucial role in reducing nitrate pollution in both terrestrial and aquatic environments. Complex deposition action and dynamic hydrological processes will change the grain size distribution of riparian sediments, affect the residence time of substances, and have a cascade effect on the biogeochemical process of nitrate nitrogen (NO3--N). However, simultaneous studies on NO3--N transformation and the potential drivers in riparian zones are still lacking, especially neglecting the effect of sediment grain size (SGS). To fill this knowledge gap, we first systematically identified and quantified NO3--N biogeochemical processes in the riparian zone by integrating molecular biotechnology, 15N stable isotope tracing, and microcosmic incubation experiments. We then evaluated the combined effects of environmental variables (including pH, dissolved organic carbon (DOC), oxidation reduction potential, SGS, etc.) on NO3--N transformation through Random Forest and Structural Equation Models. The results demonstrated that NO3--N underwent five microbial-mediated processes, with denitrification, dissimilatory nitrate reduction to ammonium (DNRA) dominated the NO3--N attenuation (69.4 % and 20.1 %, respectively), followed by anaerobic ammonia oxidation (anammox) and nitrate-dependent ferric oxidation (NDFO) (8.4 % and 2.1 %, respectively), while nitrification dominated the NO3--N production. SGS emerged as the most critical factor influencing NO3--N transformation (24.96 %, p < 0.01), followed by functional genes (nirS, nrfA) abundance, DOC, and ammonia concentrations (14.12 %, 16.40 %, 13.08 %, p < 0.01). SGS influenced NO3--N transformation by regulating microbial abundance and nutrient concentrations. RF predicted that a 5 % increase in the proportion of fine grains (diameter < 50 μm) may increase the NO3--N transformation rate by 3.8 %. This work highlights the significance of integrating machine learning and geochemical analysis for a comprehensive understanding of nitrate biogeochemical processes in riparian zones, contributing valuable references for future nitrogen management strategies.

Biological and Chemical Processes of Nitrate Reduction and Ferrous Oxidation Mediated by Shewanella oneidensis MR-1

Iron, Earth's most abundant redox-active metal, undergoes both abiotic and microbial redox reactions that regulate the formation, transformation, and dissolution of iron minerals. The electron transfer between ferrous iron (Fe(II)) and ferric iron (Fe(III)) is critical for mineral dynamics, pollutant remediation, and global biogeochemical cycling. Bacteria play a significant role, especially in anaerobic Fe(II) oxidation, contributing to Fe(III) mineral formation in oxygen-depleted environments. In iron-rich, neutral anaerobic settings, microbial nitrate-reducing Fe(II) oxidation (NRFO) and iron reduction processes happen simultaneously. This study used Shewanella oneidensis MR-1 to create an anaerobic NRFO system between Fe(II) and nitrate, revealing concurrent Fe(II) oxidation and nitrate reduction. Both gene-mediated biological Fe(II) oxidation and chemical Fe(II) oxidation, facilitated by nitrite (a byproduct of nitrate reduction), were observed. The MtrABC gene cluster was linked to this process. At low Fe(II) concentrations, toxicity and mineral precipitation inhibited nitrate reduction by Shewanella oneidensis MR-1, whereas high Fe(II) levels led to Fe(II) oxidation, resulting in cell encrustation, which further constrained nitrate reduction.

Iron‑carbon complex types and bonding forms jointly control organic carbon mineralization in paddy soils

The crucial role of iron (Fe) oxides in stabilizing soil organic carbon (SOC) is well recognized, but their effects on SOC mineralization remain poorly understood. To address this knowledge gap, we evaluated the effects of four typical Fe-bound OC (Fe-OC) complexes including adsorbed ferrihydrite (Fh)- and goethite (Goe)- 13C, coprecipitated Fh/Goe-13C and 13C-glucose as the control, on OC mineralization during an 80-day anaerobic incubation in a paddy soil. 13C-tracing indicated that Fe-13C complexes significantly stimulated CO2 emissions from both the input 13C and SOC compared with glucose alone. In contrast, the addition of Fh- and Goe-C complexes consistently inhibited CH4 emissions by 72-91 % and 21-61 % compared with glucose addition, respectively. Fe-OC complexes reduced the CO2 equivalent by 62-71 % and 17-41 % in soils with Fh-C and Goe-C complexes, respectively. We concluded that Fe crystallinity and its bonding forms with organic carbon jointly control SOC mineralization. The coprecipitated Goe-C complexes had the lowest OC mineralization rate and highest OC residence time among four Fe-OC complexes. These findings highlighted that promoting the formation of coprecipitated well-ordered minerals would increase SOC sequestration by reducing OC mineralization and mitigating the global warming effect in paddy management.

Evolution of phosphate scouting in the terrestrial biosphere

Chemistry assigns phosphorus and its most oxidized form, inorganic phosphate, unique roles for propelling bioenergetics and metabolism in all domains of life, possibly since its very origin on prebiotic Earth. For plants, access to the vital mineral nutrient profoundly affects growth, development and vigour, thus constraining net primary productivity in natural ecosystems and crop production in modern agriculture. Unlike other major biogenic elements, the low abundance and uneven distribution of phosphate in Earth's crust result from the peculiarities of phosphorus cosmochemistry and geochemistry. Here, we trace the chemical evolution of the element, the geochemical phosphorus cycle and its acceleration during Earth's history until the present (Anthropocene) as well as during the evolution and rise of terrestrial plants. We highlight the chemical and biological processes of phosphate mobilization and acquisition, first evolved in bacteria, refined in fungi and algae and expanded into powerful phosphate-prospecting strategies during land plant colonization. Furthermore, we review the evolution of the genetic and molecular networks from bacteria to terrestrial plants, which monitor intracellular and extracellular phosphate availabilities and coordinate the appropriate responses and adjustments to fluctuating phosphate supply. Lastly, we discuss the modern global phosphorus cycle deranged by human activity and the challenges imposed ahead. This article is part of the theme issue 'Evolution and diversity of plant metabolism'.

Enhancing reductive dechlorination of trichloroethylene in bioelectrochemical systems with conductive materials

The incorporation of conductive materials to enhance electron transfer in bioelectrochemical systems (BES) is considered a promising approach. However, the specific effects and mechanisms of these materials on trichloroethylene (TCE) reductive dechlorination in BES remains are not fully understood. This study investigated the use of magnetite nanoparticles (MNP) and biochars (BC) as coatings on biocathodes for TCE reduction. Results demonstrated that the average dechlorination rates of MNP-Biocathode (122.89 μM Cl·d-1) and BC-Biocathode (102.88 μM Cl·d-1) were greatly higher than that of Biocathode (78.17 μM Cl·d-1). Based on MATLAB calculation, the dechlorination rate exhibited a more significantly increase in TCE-to-DCE step than the other dechlorination steps. Microbial community analyses revealed an increase in the relative abundance of electroactive and dechlorinating populations (e.g., Pseudomonas, Geobacter, and Desulfovibrio) in MNP-Biocathode and BC-Biocathode. Functional gene analysis via RT-qPCR showed the expression of dehalogenase (RDase) and direct electron transfer (DET) related genes was upregulated with the addition of MNP and BC. These findings suggest that conductive materials might accelerate reductive dechlorination by enhancing DET. The difference of physicochemical characteristics (e.g. particle size and specific surface area), electron transfer enhancement mechanism between MNP and BC as well as the reduction of Fe(III) by hydrogen may explain the superior dechlorination rate observed with MNP-Biocathode.

Impact of geochemistry and microbes on the methylmercury production in mangrove sediments

Unraveling the geochemical and microbial controls on methylmercury (MeHg) dynamics in mangrove sediments is important, as MeHg can potentially pose risks to marine biota and people that rely on these ecosystems. While the important role of sulfate-reducing bacteria in MeHg formation has been examined in this ecologically important habitat, the contribution of non-Hg methylating communities on MeHg production remains particularly unclear. Here, we collected sediment samples from 13 mangrove forests in south China and examined the geochemical parameters and microbial communities related to the Hg methylation. MeHg concentrations were significantly correlated to the OM-related parameters such as organic carbon content, total nitrogen, and dissolved organic carbon concentrations, suggesting the importance of OM in the MeHg production. Sulfate-reducing bacteria were the major Hg-methylators in mangrove sediments. Desulfobacteraceae and Desulfobulbaceae dominated the Hg-methylating microbes. Classification random forest analysis detected strong co-occurrence between Hg methylators and putative non-Hg methylators, thus suggesting that both types of microorganisms contribute to the MeHg dynamics in the sediments. Our study provides an overview of MeHg contamination in south China and advances our understanding of Hg methylation in mangrove ecosystems.

Reactions between ferric oxyhydroxide mineral coatings and a dimethoxyhydroquinone: A source of hydroxyl radicals

Quinones are organic molecules that facilitate electron-transfer reactions in terrestrial environments. The reduced forms, hydroquinones, are powerful reductants that can trigger non-enzymatic radical-based decomposition of organic matter and contaminants by simultaneous reduction of iron and oxygen. Iron oxides often occur as coatings on other minerals, thus our study investigated the reactions between the ferric oxyhydroxide (FeO(OH)) surface coatings on gibbsite (Al(OH)3) and 2,6-dimethoxy-1,4-hydroquinone (2,6-DMHQ). The main aim was to investigate the oxidation of 2,6-DMHQ and the generation ∙OH in the presence of O2 at low Fe concentrations in a novel setup that allows local structural characterization. The heterogeneous redox reactions between 2,6-DMHQ and the FeO(OH) coatings were studied at pH 5.0 as a function of the amount of Fe present on the gibbsite surfaces, including the effect of aging of the FeO(OH) coatings. The results showed that reactions between 2,6-DMHQ and FeO(OH) coated gibbsite under ambient conditions can generate substantial amounts of ·OH, comparable with amounts generated on pure ferrihydrite surfaces. The ·OH is the product of two sequential reactions: hydroquinone oxidation by O2 and degradation of the formed H2O2. The calculated rate constant of the former reaction is the same regardless of amount of FeO(OH) coating suggesting a surface catalytic process where 2,6-DMHQ is oxidized by O2 resulting in formation of H2O2. Subsequently, the observed induction period, the low Fe2+ (aq) concentrations in solution and the dependency of FeO(OH) coating amount influencing ·OH formation suggest that the pathway for ∙OH is through H2O2 decomposition by the surface sites on the FeO(OH) coating. Overall, this study shows that co-existence of oxygen, FeO(OH) and organic reductants, possibly secreted by soil microorganisms, creates favorable conditions for generation of ·OH contributing to decomposition of organic matter and organic pollutants in soil environments.

Coating Dormant Collagenase-Producing Bacteria with Metal-Anesthetic Networks for Precision Tumor Therapy

Tumor malignancy highly depends on the stiffness of tumor matrix, which mainly consists of collagen. Despite the destruction of tumor matrix is conducive to tumor therapy, it causes the risk of tumor metastasis. Here, metal-anesthetic network-coated dormant collagenase-producing Clostridium is constructed to simultaneously destruct tumor matrix and inhibit tumor metastasis. By metal-phenolic complexation and π-π stacking interactions, a Fe3+-propofol network is formed on bacterial surface. Coated dormant Clostridium can selectively germinate and rapidly proliferate in tumor sites due to the ability of carried Fe3+ ions to promote bacterial multiplication. Intratumoral colonization of Clostridium produces sufficient collagenases to degrade tumor collagen mesh and the loaded propofol restrains tumor metastasis by inhibiting tumor cell migration and invasion. Meanwhile, the delivered Fe3+ ions are reduced to the Fe2+ form by intracellular glutathione, thereby inducing potent Fenton reaction to trigger lipid peroxidation and ultimate ferroptosis of tumor cells. In addition to a satisfactory safety, a single intratumoral injection of coated dormant Clostridium not only effectively retards the growth of established large primary tumors, but also significantly suppresses distal lung metastasis in two different orthotopic tumor models. This work proposes a strategy to develop advanced therapeutics for malignant tumor treatment and metastasis prevention.

Fe(III) reduction mediates vanadium release and reduction in vanadium contaminated paddy soil under different organic amendments

Vanadium(V) contaminated soil is abundant in iron(Fe) oxides due to co-occurrence of V and Fe bearing minerals. However, biogeochemical transformation of redox-active V and Fe in soil, and the bacteria involved, has remained less investigated. This study explored the extent to which microbial mediated organic decomposition coupled to Fe(III) reduction contributed to V(V) release/reduction in V-contaminated paddy soil under different organic amendments. Soil flooding decreased toxic reducible V while increased less toxic oxidizable V. Glucose and straw promoted V(V) release with temporarily increasing V(V) concentration by 73.59-106.34 mg/kg compared to the control treatment and subsequently promoted V(V) reduction with decreasing V(V) to concentrations eventually similar to the control treatment. Biochar incorporation under glucose and straw amendments moderately alleviated V(V) release. The significantly positive correlation between Fe(II) and V(V) concentrations during the V solubilization process indicated a temporal coupling of Fe(III) reduction and V(V) release. Clostridium and Massilia mediated Fe(III) reductive dissolution and V(V) release, while Anaeromyxobacter, Sphingomonas, Bryobacter, Acidobacteriaceae and Anaerolineaceae contributed to V(V) reduction. This study provides a deeper understanding of V biotransformation coupled to Fe and C cycling and suggests a remediation strategy for V-contaminated soils via regulating Fe(III) reduction to weaken V(V) release or to promote V(V) reduction.

Performance and by-product generation in sulfur-siderite/limestone autotrophic denitrification systems: Enhancing nitrogen removal efficiency and operational insights

Sulfur autotrophic denitrification technology is a promising nitrogen removing process and is suitable for the tail water of sewage treatment plants with easy biodegradation and low C/N ratio. Nitrogen removal efficiency and along-path variation of related product concentrations in the sulfur-siderite autotrophic denitrification (SSAD) and sulfur-limestone autotrophic denitrification (SLAD) systems were comprehensively investigated in this work. The optimal denitrification conditions for SSAD and SLAD systems were pH of 7, HRT of 3 h, temperatures of 20-25 °C with NO3--N removal rates of more than 99%. Although a greater capacity for alkalinity was provided by limestone than siderite, siderite can also meet the advanced nitrogen removal of SSAD system. A transient accumulation of NO2--N in the SLAD system eventually decreased to 0.02 mg/L, while S2- concentration gradually increased relative to SSAD. It might be due to the fact that Fe2+ promoted the nitrogen removal efficiency of SSAD system and further reduced the content of intermediates in the nitrogen removal process. The results obtained may provide the scientific basis and technical countermeasures for the application of sulfur autotrophic denitrification in actual low-C/N wastewater.

Extremely acidic proteomes and metabolic flexibility in bacteria and highly diversified archaea thriving in geothermal chaotropic brines

Few described archaeal, and fewer bacterial, lineages thrive under salt-saturating conditions, such as solar saltern crystallizers (salinity above 30% w/v). They accumulate molar K+ cytoplasmic concentrations to maintain osmotic balance ('salt-in' strategy) and have proteins adaptively enriched in negatively charged acidic amino acids. Here we analysed metagenomes and metagenome-assembled genomes from geothermally influenced hypersaline ecosystems with increasing chaotropicity in the Danakil Depression. Normalized abundances of universal single-copy genes confirmed that haloarchaea and Nanohaloarchaeota encompass 99% of microbial communities in the near-life-limiting conditions of the Western-Canyon Lakes. Danakil metagenome- and metagenome-assembled-genome-inferred proteomes, compared with those of freshwater, seawater and solar saltern ponds up to saturation (6-14-32% salinity), showed that Western-Canyon Lake archaea encode the most acidic proteomes ever observed (median protein isoelectric points ≤4.4). We identified previously undescribed haloarchaeal families as well as an Aenigmatarchaeota family and a bacterial phylum independently adapted to extreme halophily. Despite phylum-level diversity decreasing with increasing salinity-chaotropicity, and unlike in solar salterns, adapted archaea exceedingly diversified in Danakil ecosystems, challenging the notion of decreasing diversity under extreme conditions. Metabolic flexibility to utilize multiple energy and carbon resources generated by local hydrothermalism along feast-and-famine strategies seemingly shapes microbial diversity in these ecosystems near life limits.

Iron driven organic carbon capture, pretreatment, recovery and upgrade in wastewater: Process technologies, mechanisms, and implications

Wastewater treatment plants face significant challenges in transitioning from energy-intensive systems to carbon-neutral, energy-saving systems, and a large amount of chemical energy in wastewater remains untapped. Iron is widely used in modern wastewater treatment. Research shows that leveraging the coupled redox relationship of iron and carbon can redirect this energy (in the form of carbon) towards resource utilization. Therefore, re-examining the application of iron in existing wastewater carbon processes is particularly important. In this review, we investigate the latest research progress on iron for wastewater carbon flow restructuring. During the iron-based chemically enhanced primary treatment (CEPT) process, organic carbon is captured into sludge and its bioavailability is enhanced through iron-based advanced oxidation processes (AOP) pretreatment, further being recovered or upgraded to value-added products in anaerobic biological processes. We discuss the roles and mechanisms of iron in CEPT, AOP, anaerobic biological processes, and biorefining in driving organic carbon conversion. The dosage of iron, as a critical parameter, significantly affects the recovery and utilization of sludge carbon resources, particularly by promoting effective electron transfer. We propose a pathway for beneficial conversion of wastewater organic carbon driven by iron and analyze the benefits of the main products in detail. Through this review, we hope to provide new insights into the application of iron chemicals and current wastewater treatment models.

Remediation of arsenic- and nitrate-contaminated groundwater through iron-dependent autotrophic denitrifying culture

Groundwater contamination with arsenic and nitrate poses a pressing concern for the safety of local communities. Bioremediation, utilizing Fe(II)-oxidizing nitrate reducing bacteria, shows promise as a solution to this problem. However, the relatively weak environmental adaptability of a single bacterium hampers practical application. Therefore, this study explored the feasibility and characteristics of a mixed iron-dependent autotrophic denitrifying (IDAD) culture for effectively removing arsenic and nitrate from synthetic groundwater. The IDAD biosystem exhibited stable performace and arsenic resistance, even at a high As(III) concentration of 800 μg/L. Although the nitrogen removal efficiency of the IDAD biosystem decreased from 71.4% to 64.7% in this case, the arsenic concentration in the effluent remained below the standard (10 μg/L) set by WHO. The crystallinity of the lepidocrocite produced by the IDAD culture decreased with increasing arsenic concentration, but the relative abundance of the key iron-oxidizing bacteria norank_f_Gallionellaceae in the culture showed an opposite trend. Metagenomic analysis revealed that the IDAD culture possess arsenic detoxification pathways, including redox, methylation, and efflux of arsenic, which enable it to mitigate the adverse impact of arsenic stress. This study provides theoretical understanding and technical support for the remediation of arsenic and nitrate-contaminated groundwater using the IDAD culture.

Neglected role of iron redox cycle in direct interspecies electron transfer in anaerobic methanogenesis: Inspired from biogeochemical processes

Anaerobic digestion is an indispensable technical option towards green and low-carbon wastewater treatment, with interspecies electron transfer (IET) playing a key role in its efficiency and operational stability. The exogenous semiconductive iron oxides have been proven to effectively enhance IET, while the cognition of the physicochemical-biochemical coupling stimulatory mechanism was circumscribed and remains to be elucidated. In this study, semiconductive iron oxides, α-Fe2O3, γ-Fe2O3, α-FeOOH, and γ-FeOOH were found to significantly enhance syntrophic methanogenesis by 76.39, 72.40, 37.33, and 32.64% through redirecting the dominant IET pathway from classical interspecies hydrogen transfer to robust direct interspecies electron transfer (DIET). Their alternative roles as electron shuttles potentially substituting for c-type cytochromes were conjectured to establish an electron transport matrix associated with conductive pili. Distinguished from the conventional electron conductor mechanism of conductive Fe3O4, semiconductive iron oxides facilitated DIET intrinsically through the capacitive Fe(III/II) redox cycles coupled with secondary mineralization. The growth of Aminobacterium, Sedimentibacter, and Methanothrix was enriched and the gene copy numbers of Geobacteraceae 16S ribosomal ribonucleic acid were selectively flourished by 2.0-∼4.5- fold to establish a favorable microflora for DIET pathway. Metabolic pathways of syntrophic acetogenesis from propionate/butyrate and CO2 reduction methanogenesis were correspondingly promoted. The above findings provide new insights into the underlying mechanism of iron minerals enhancing the DIET-oriented pathway and offer paradigms for redox-mediated energy harvesting biological wastewater treatment.

Effect of sand minerals on microbially induced carbonate precipitation by denitrification

Soil improvement techniques utilizing the metabolic functions of microorganisms, including microbially induced carbonate precipitation (MICP), have been extensively researched over the past few decades as part of bio-inspired geotechnical engineering research. Given that metabolic reactions in microorganisms produce carbonate minerals, an enhanced understanding of microbial interaction with soils could improve the effectiveness of MICP as a soil improvement technique. Therefore, this study investigated the effects of sands on MICP by denitrification to employ MICP for geotechnical soil improvement. Under the coexistence of natural sand and artificial silica sand, nitrate-reducing bacteria were cultured in a mixed liquid medium with nitrate, acetate, and calcium ions at 37 °C. Nitrate reduction occurred only in the presence of natural sand. However, the lack of chemical weathering of the composed minerals likely prevented the progress of bacterial growth and nitrate reduction in artificial silica sands. For natural sand, artificial chemical weathering by acid wash and ferrihydrite coating of the sand improved bacterial growth and accelerated nitrate reduction. The calcium carbonate formation induced by denitrification was also influenced by the state of the minerals in the soil and the nitrate reduction rate. The observed MICP enhancement is due to the involvement of coexisting secondary minerals like ferrihydrite with large specific surface areas and surface charges, which may improve the reaction efficiency by serving as adsorbents for bacteria and electron donors and acceptors in the solid phases, thereby promoting the precipitation and crystallization of calcium carbonate on the surfaces. This crystal formation in the minerals provides valuable insights for improving sand solidification via MICP. Considering the interactions between the target soil and microorganisms is essential to improving MICP processes for ground improvement.

Facet-dependent activation of oxalic acid over hematite nanocrystals under the irradiation of visible light for efficient degradation of pollutants

Naturally occurring hematite has been widely studied in the Fenton-like system for water pollutant remediation due to its abundance and non-toxicity. However, its inadequate catalytic activity results in difficulty in effectively degrading pollutants in the catalytic degradation system that it constitutes. Thus, we constructed a photochemical system composed of hematite with {001} facet of high activity facet and low-cost and non-toxic oxalic acid (OA) for the removal of various types of pollutants. The removal rate for the degradation of metronidazole, tetracycline hydrochloride, Rhodamine B, and hexavalent chromium by hematite nanoplate with the exposed {001} facet activating OA under visible light irradiation was 4.75, 2.25, 2.33, and 2.74 times than that by the exposed {110} facet, respectively. Density functional theory (DFT) calculation proved that the OA molecule was more easily adsorbed on the {001} facet of hematite than that on the {110} facet, which would favor the formation of the more Fe(III)-OA complex and reactive species. In addition, the reactive site of metronidazole for the attraction of radicals was identified on the basis of the DFT calculation on the molecular occupied orbitals, and the possible degradation pathway for metronidazole included carbon chain fracture, hydroxyethyl-cleavage, denitrogenation, and hydroxylation. Thus, this finding may offer a valuable direction in designing an efficient iron-based catalyst based on facet engineering for the improved activity of Fenton-like systems such as OA activation.

Reduced greenhouse gas emissions from particulate organic matter degradation in iron-enriched sediments

Iron (Fe) plays an important role in the biogeochemical cycling of carbon and nutrients in aquatic systems. Reactive Fe phases can interact with organic carbon and facilitate the removal of carbon from the biogeochemical cycle; however, this important ecosystem function is often strongly controlled by Fe availability. Due to pollution from lignite mining in the Lusatian province in Northeast Germany, large amounts of iron and sulfate are released into the fluvial-lacustrine system of the Spree River. It was hypothesized that the input of freshly precipitated iron oxyhydroxides from mining areas (e.g., ferrihydrite) alter the biodegradation of particulate organic matter (POM) in downstream lacustrine sediments. To investigate the Fe-dependent degradation of POM, slurries mimicking iron-polluted sediments (85 mg Fe per g, 116 mg Fe per g, and 149 mg Fe per g dry weight) were incubated with plankton or leaf POM under anoxic and oxic headspace conditions, and CO2 and CH4 emissions, water chemistry, and stable isotopes of dissolved inorganic carbon were measured. The experiments revealed that (i) with an increasing Fe content, the CO2 and CH4 emissions were gradually reduced, (ii) CO2 and CH4 production was higher during plankton degradation than during leaf decomposition, and (iii) under oxic conditions, CO2 production was higher and CH4 production was lower when compared to the treatments under anoxic conditions. These findings demonstrate that while benthic mineralization of fresh POM typically releases greenhouse gases into the water column, the availability of iron oxyhydroxides can contribute to reduced greenhouse gas emissions from sediments. This is of considerable relevance for future carbon budgets of similar mining-affected, iron-polluted fluvial-lacustrine river systems.

Holed up, but thriving: Impact of multitrophic cryoconite communities on glacier elemental cycles

Cryoconite holes (water and sediment-filled depressions), found on glacier surfaces worldwide, serve as reservoirs of microbes, carbon, trace elements, and nutrients, transferring these components downstream via glacier hydrological networks. Through targeted amplicon sequencing of carbon and nitrogen cycling genes, coupled with functional inference-based methods, we explore the functional diversity of these mini-ecosystems within Antarctica and the Himalayas. These regions showcase distinct environmental gradients and experience varying rates of environmental change influenced by global climatic shifts. Analysis revealed a diverse array of photosynthetic microorganisms, including Stramenopiles, Cyanobacteria, Rhizobiales, Burkholderiales, and photosynthetic purple sulfur Proteobacteria. Functional inference highlighted the high potential for carbohydrate, amino acid, and lipid metabolism in the Himalayan region, where organic carbon concentrations surpassed those in Antarctica by up to 2 orders of magnitude. Nitrogen cycling processes, including fixation, nitrification, and denitrification, are evident, with Antarctic cryoconite exhibiting a pronounced capacity for nitrogen fixation, potentially compensating for the limited nitrate concentrations in this region. Processes associated with the respiration of elemental sulfur and inorganic sulfur compounds such as sulfate, sulfite, thiosulfate, and sulfide suggest the presence of a complete sulfur cycle. The Himalayan region exhibits a higher potential for sulfur cycling, likely due to the abundant sulfate ions and sulfur-bearing minerals in this region. The capability for complete iron cycling through iron oxidation and reduction reactions was also predicted. Methanogenic archaea that produce methane during organic matter decomposition and methanotrophic bacteria that utilize methane as carbon and energy sources co-exist in the cryoconite, suggesting that these niches support the complete cycling of methane. Additionally, the presence of various microfauna suggests the existence of a complex food web. Collectively, these results indicate that cryoconite holes are self-sustaining ecosystems that drive elemental cycles on glaciers and potentially control carbon, nitrogen, sulfur, and iron exports downstream.

Soil organic carbon sequestration potential explained by mineralogical and microbiological activity using spectral transfer functions

The ability of soil to sequester carbon and reduce atmospheric CO2 concentrations is limited and depends on the soil minerals and their interaction with the microbiota. Microbial activities are closely associated with the types and amounts of soil organic matter (SOM) and clay minerals that have functional groups that interact with energy in Vis NIR-SWIR and Mid-IR wavelengths. The main objective of this research was to determine, based on these spectral ranges, the relation between mineralogical and organic compounds, as their sequestration and specialization in soils from Brazil. It was possible to map microbiological activity by spectral transfer functions and digital soil mapping reaching R2 from 0.77 to 0.85. Multiple regression equations were constructed to quantify enzymatic activity, microbial biomass carbon (MBC), particulate organic matter (POM), and resistant forms of carbon, and SOM associated with the mineral fraction (MAOM). All these properties were detected by specific bands obtained with the recursive feature elimination (RFE) algorithm, reaching correlations from 0.64 to 0.98 in specific ranges. The prediction model of the carbon sequestration potential was adjusted with microbiological and mineralogical variables from Vis-NIR-SWIR and the Mid-IR spectral range. A SARAR double autoregressive model was adjusted with r 0.61 and to a spatial error model (SEM) with r 0.7. The explanatory variables were associated with kaolinite, hematite, goethite, gibbsite, and the abundance of fungi, actinomycetes, vesico-arbuscular mycorrhizal fungi, enzymatic activity of beta-glucosidase, urease and phosphatase, and POM. Among the microbiological variables, the general abundance of fungi was the most important, in contrast to enzymatic activity that was the least important. The interaction between the different maps constructed and historical land use allowed the identification of areas that contribute to sequestering new carbon and could be the key to climate change mitigation strategies.

Soil organic matter priming: The pH effects

Priming of soil organic matter (SOM) decomposition by microorganisms is a key phenomenon of global carbon (C) cycling. Soil pH is a main factor defining priming effects (PEs) because it (i) controls microbial community composition and activities, including enzyme activities, (ii) defines SOM stabilization and destabilization mechanisms, and (iii) regulates intensities of many biogeochemical processes. In this critical review, we focus on prerequisites and mechanisms of PE depending on pH and assess the global change consequences for PE. The highest PEs were common in soils with pH between 5.5 and 7.5, whereas low molecular weight organic compounds triggered PE mainly in slightly acidic soils. Positive PEs up to 20 times of SOM decomposition before C input were common at pH around 6.5. Negative PEs were common at soil pH below 4.5 or above 7 reflecting a suboptimal environment for microorganisms and specific SOM stabilization mechanisms at low and high pH. Short-term soil acidification (in rhizosphere, after fertilizer application) affects PE by: mineral-SOM complexation, SOM oxidation by iron reduction, enzymatic depolymerization, and pH-dependent changes in nutrient availability. Biological processes of microbial metabolism shift over the short-term, whereas long-term microbial community adaptations to slow acidification are common. The nitrogen fertilization induced soil acidification and land use intensification strongly decrease pH and thus boost the PE. Concluding, soil pH is one of the strongest but up to now disregarded factors of PE, defining SOM decomposition through short-term metabolic adaptation of microbial groups and long-term shift of microbial communities.