Direct inhibition of methanogenesis by ferric iron

Shaken not stirred - effect of different mixing modes during the cultivation of methanogenic pure cultures

Numerous cultivation techniques for aerobic microorganisms have been extensively investigated in the field of microbiology. Optimisation of these techniques is important for scientific and economic reasons. Methanogenic archaea, however, are obligate anaerobic microorganisms requiring different cultivation techniques than aerobic organisms due to the fundamental differences in physiology. Mixing of aerobic cultures is generally considered as very important as it provides organisms with essential oxygen; however, for anaerobic microorganisms lacking the ability to grow with oxygen, this point in cultivation was widely neglected. This work aimed at investigating the effect of different mixing modes on cultures of the methanogenic archaea Methanomethylovorans thermophila, Methanosarcina acetivorans, Methanosarcina thermophila and Methanococcus vannielii by cultivating them anaerobically in the modes standing/lying, shaken/unshaken and large/small serum flask in order to analyse their impact on the methane and biomass production. This study showed that a shaken incubation mode had a positive impact on methane production and resulted in its accelerated production, especially in hydrogenotrophic cultures; however, higher methane production did not necessarily lead to higher biomass production.

Sulfur depletion through repetitive redox cycling unmasks the role of the cryptic sulfur cycle for (methyl)thioarsenate formation in paddy soils

Inorganic and oxymethylated thioarsenates form through the reaction of arsenite and oxymethylated arsenates with reduced sulfur, mainly as sulfide (SII-) but also as zerovalent sulfur (S0). In paddy soils, considered low-S systems, microbial reduction of the soil's "primary" sulfate pool is the principal SII- source for As thiolation. Under anoxic conditions, this primary pool is readily consumed, and the precipitation of iron (Fe) sulfides lowers SII- availability. Nonetheless, sulfate can be constantly replenished by the reoxidation of SII- coupled with the reduction of FeIII phases in the so-called cryptic S cycle (CSC). The CSC supplies a small secondary sulfate pool available for reduction and, according to previous studies, As thiolation. However, sulfate concentrations commonly found in paddy soils mask the biogeochemical processes associated with the CSC. Here, we depleted a paddy soil from excess S, Fe, and As from a paddy soil through repetitive flooding and draining (e.g., redox cycling). After 10, 20, and 30 such cycles, we followed thioarsenate formation during an anoxic incubation period of 10 days. Higher S/As ratios increased As thiolation contribution to total As up to 10-fold after 30 cycles. During the anoxic incubation, the depleted soils showed a transient first phase where the reduction of the primary sulfate pool led to inorganic thioarsenate formation. In the second phase, methylthioarsenate formation correlated with partially oxidized S species (S0, thiosulfate), suggesting CSC-driven sulfate replenishment, re-reduction, and thiolation. Methylthioarsenates formed even as inorganic thioarsenates de-thiolated, indicating thermodynamic preference under S-limited conditions. This study highlights the role of the CSC in sustaining thioarsenate formation in low-S systems.

Uncovering dynamic transcriptional regulation of methanogenesis via single-cell imaging of archaeal gene expression

Archaeal methanogenesis is a dynamic process regulated by various cellular and environmental signals. However, understanding this regulation is technically challenging due to the difficulty of measuring gene expression dynamics in individual archaeal cells. Here, we develop a multi-round hybridization chain reaction (HCR)-assisted single-molecule fluorescence in situ hybridization (FISH) method to quantify the transcriptional dynamics of 12 genes involved in methanogenesis in individual cells of Methanococcoides orientis. Under optimal growth condition, most of these genes appear to be expressed in a temporal order matching metabolic reaction order. Interestingly, an important environmental factor, Fe(III), stimulates cellular methane production without upregulating methanogenic gene expression, likely through a Fenton-reaction-triggered mechanism. Through single-cell clustering and kinetic analyses, we associate these gene expression patterns to a dynamic mixture of distinct cellular states, potentially regulated by a set of shared factors. Our work provides a quantitative framework for uncovering the mechanisms of metabolic regulation in archaea.

A Microbial-Centric View of Mobile Phones: Enhancing the Technological Feasibility of Biotechnological Recovery of Critical Metals

End-of-life (EoL) mobile phones represent a valuable reservoir of critical raw materials at higher concentrations compared to primary ores. This review emphasizes the critical need to transition from single-material recovery approaches to comprehensive, holistic strategies for recycling EoL mobile phones. In response to the call for sustainable techniques with reduced energy consumption and pollutant emissions, biohydrometallurgy emerges as a promising solution. The present work intends to review the most relevant studies focusing on the exploitation of microbial consortia in bioleaching and biorecovery processes. All living organisms need macro- and micronutrients for their metabolic functionalities, including some of the elements contained in mobile phones. By exploring the interactions between microbial communities and the diverse elements found in mobile phones, this paper establishes a microbial-centric perspective by connecting each element of each layer to their role in the microbial cell system. A special focus is dedicated to the concepts of ecodesign and modularity as key requirements in electronics to potentially increase selectivity of microbial consortia in the bioleaching process. By bridging microbial science with sustainable design, this review proposes an innovative roadmap to optimize metal recovery, aligning with the principles of the circular economy and advancing scalable biotechnological solutions for electronic waste management.

Iron forms regulate methane production and oxidation potentials in paddy soils

Paddy fields serve as significant sources of methane (CH4) emissions. The periodic flooding and draining in paddy soils induce alternating redox processes, leading to iron transformations and further influencing the production and oxidation of CH4. However, the relationships between CH4 production/oxidation and the concentrations/forms of iron oxides in rice paddies across different regions are largely unknown. Here we collected 26 paddy soil samples from various regions spanning from North to South China. We show that the CH4 production potential varies from 0.005 to 0.618 mg kg-1 d-1, which exhibits an overall trend of higher values in the south and lower values in the north. Moreover, the CH4 oxidation potential spans from 0.888 to 57.384 mg kg-1 d-1, showing no significant latitudinal trend. Highly weathered soils exhibit higher CH4 production potentials, mainly due to the high content of free iron oxides and the low reactivity of aged iron minerals. This hinders the protection of organic carbon (OC) by iron minerals, therefore increasing substrate availability for methanogenesis. In addition to the direct effect, iron forms also indirectly influence CH4 production and oxidation potentials by affecting soil pH, OC availability, and CH4-related microbial abundances. The coefficients of the indirect effect of iron forms on CH4 production and oxidation potential are 0.44 and 0.26, respectively, which are larger than that of the direct effects. Our research reveals the pivotal role of various iron forms in controlling CH4 production and oxidation processes in paddy soils, helping to expand the understanding of the effect of iron biogeochemistry on CH4 emissions in paddy soils and offering new perspectives for mitigating agricultural greenhouse gas emissions.

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.

Interactions between iron and carbon in permafrost thaw ponds

Thawing permafrost forms "thaw ponds" that accumulate and transport organic carbon (OC), redox-active iron (Fe), and other elements. Although Fe has been shown to act as a control on the microbial degradation of OC in permafrost soils, the role of iron in carbon cycling in thaw ponds remains poorly understood. Here, we investigated Fe-OC interactions in thaw ponds in partially and fully thawed soils ("bog" and "fen" thaw ponds, respectively) in a permafrost peatland complex in Abisko, Sweden, using size separation (large particulate fraction (LPF), small particulate fraction (SPF), and dissolved fraction (DF)), acid extractions, scanning electron microscopy (SEM), Fe K-edge X-ray absorption spectroscopy (XAS), and Fourier Transform Infrared (FTIR) spectroscopy. The bulk total Fe (total suspended Fe) in the bogs ranged from 135 mg/L (mean = 13 mg/L) whereas the fens exhibited higher total Fe (1.5 to 212 mg/L, mean = 30 mg/L). The concentration of bulk total OC (TOC) in the bog thaw ponds ranged from 50 to 352 mg/L (mean = 170 mg/L), higher than the TOC concentration in the fen thaw ponds (8.5 to 268 mg/L, mean = 17 mg/L). The concentration of 1 M HCl-extractable Fe in the bog ponds was slightly lower than that in the fens (93 ± 1.2 and 137 ± 3.5 mg/L Fe, respectively) with Fe predominantly (>75 %) in the DF in both thaw stages. Fe K-edge XAS analysis showed that while Fe(II) was the predominant species in LPF, Fe(III) was more abundant in the DF, indicating that the stage of thawing and particle size may control Fe redox state. Furthermore, Fe(II) and Fe(III) were partially complexed with natural organic matter (NOM, 8 to 80 %) in both thaw ponds. Results of our work suggest that Fe and OC released during permafrost thaw into thaw ponds (re-)associate, potentially protecting OC from microbial decomposition while also stabilizing the redox state of Fe.

Long-term paddy use influences response of methane production, arsenic mobility and speciation to future higher temperatures

Anaerobic microbial metabolisms make flooded paddy soils a major source of the greenhouse gas methane (CH4) and mobilize toxic arsenic (As), threatening rice production and consumption. Increasing temperatures due to climate change enhance these microbially mediated processes, increasing their related threats. Chronosequence studies show that long-term paddy use ("age") changes soil properties and redox biogeochemistry through soil organic carbon (SOC) accumulation, its association to amorphous iron (Fe) phases, and increased microbial activity. Using paddy and non-paddy soils from a chronosequence as proxies of soil development and incubating them at different temperatures, we show that paddy soil age influences the response of paddies to changes in temperature. Older paddies showed up to a 6-fold higher CH4 production with increasing temperature, compared to a 2-fold increase in young ones. Contrarily, changes in As mobility were higher in non-paddies and young paddies due to a lack of Fe-SOC-sorption sites. Temperature increased the formation of phytotoxic methylated As in all paddies, posing a risk for rice production. Mitigation strategies for future maintenance, abandonment, or management of paddy soils should include the consideration that history of use shapes the soils' biogeochemistry and microbiology and can influence the response of paddy soils to future temperature increases.

Non-conductive silicon-containing materials improve methane production by pure cultures of methanogens

Conductive materials (CM) enhance methanogenesis, but there is no clear correlation between conductivity and faster methane production (MP) rates. We investigated if MP by pure cultures of methanogens (Methanobacterium formicicum, Methanospirillum hungatei, Methanothrix harundinacea and Methanosarcina barkeri) is affected by CM (activated carbon (AC), magnetite), and other sustainable alternatives (sand and glass beads, without conductivity, and zeolites (Zeo)). The significant impact of the materials was on M. formicicum as MP was significantly accelerated by non-CM (e.g., sand reduced the lag phase (LP) duration by 48 %), Zeo and AC (LP reduction in 71% and 75 %, respectively). Conductivity was not correlated with LP reduction. Instead, silicon content in the materials was inversely correlated with the time required for complete MP, and silicon per se stimulated M. formicicum's activity. These findings highlight the potential of using non-CM silicon-containing materials in anaerobic digesters to accelerate methanogenesis.

Unveiling the unique role of iron in the metabolism of methanogens: A review

Methanogens are the main participants in the carbon cycle, catalyzing five methanogenic pathways. Methanogens utilize different iron-containing functional enzymes in different methanogenic processes. Iron is a vital element in methanogens, which can serve as a carrier or reactant in electron transfer. Therefore, iron plays an important role in the growth and metabolism of methanogens. In this paper, we cast light on the types and functions of iron-containing functional enzymes involved in different methanogenic pathways, and the roles iron play in energy/substance metabolism of methanogenesis. Furthermore, this review provides certain guiding significance for lowering CH4 emissions, boosting the carbon sink capacity of ecosystems and promoting green and low-carbon development in the future.

MmcA is an electron conduit that facilitates both intracellular and extracellular electron transport in Methanosarcina acetivorans

Methanogens are a diverse group of Archaea that obligately couple energy conservation to the production of methane. Some methanogens encode alternate pathways for energy conservation, like anaerobic respiration, but the biochemical details of this process are unknown. We show that a multiheme c-type cytochrome called MmcA from Methanosarcina acetivorans is important for intracellular electron transport during methanogenesis and can also reduce extracellular electron acceptors like soluble Fe3+ and anthraquinone-2,6-disulfonate. Consistent with these observations, MmcA displays reversible redox features ranging from -100 to -450 mV versus SHE. Additionally, mutants lacking mmcA have significantly slower Fe3+ reduction rates. The mmcA locus is prevalent in members of the Order Methanosarcinales and is a part of a distinct clade of multiheme cytochromes that are closely related to octaheme tetrathionate reductases. Taken together, MmcA might act as an electron conduit that can potentially support a variety of energy conservation strategies that extend beyond methanogenesis.

Methane emissions and the microbial community in flooded paddies affected by the application of Fe-stabilized natural organic matter

Redox chemistry involving the quinone/phenol cycling of natural organic matter (NOM) is known to modulate microbial respiration. Complexation with metals or minerals can also affect NOM solubilization and stability. Inspired by these natural phenomena, a new soil amendment approach was suggested to effectively decrease methane emissions in flooded rice paddies. Structurally stable forms of NOM such as lignin and humic acids (HAs) were shown to decrease methane gas emissions in a vial experiment using different soil types and rice straw as a methanogenic substrate, and this inhibitory behavior was likely enhanced by ferric ion-NOM complexation. A mechanistic study using HAs revealed that complexation facilitated the slow release of the humic components. Interestingly, borohydride-based reduction, which transformed quinone moieties into phenols, caused the HAs to lose their inhibitory capacity, suggesting that the electron-accepting ability of HAs is vital for their inhibitory effect. In rice field tests, the humic-metal complexes were shown to successfully mitigate methane generation, while carbon dioxide emissions were relatively unchanged. Microbial community analysis of the rice fields by season revealed a decrease in specific cellulose-metabolizing and methanogenic genera associated with methane emissions. In contrast, the relative abundance of Thaumarchaeota and Actinomycetota, which are associated with NOM and recalcitrant organics, was higher in the presence of Fe-stabilized HAs. These microbial dynamics suggest that the slow release of humic components is effective in modulating the anoxic soil microbiome, possibly due to their electron-accepting ability. Given the simplicity, cost-effectiveness, and soil-friendly nature of complexation processes, Fe-stabilized NOM represents a promising approach for the mitigation of methane emissions from flooded rice paddies.

Salinity causes widespread restriction of methane emissions from small inland waters

Inland waters are one of the largest natural sources of methane (CH4), a potent greenhouse gas, but emissions models and estimates were developed for solute-poor ecosystems and may not apply to salt-rich inland waters. Here we combine field surveys and eddy covariance measurements to show that salinity constrains microbial CH4 cycling through complex mechanisms, restricting aquatic emissions from one of the largest global hardwater regions (the Canadian Prairies). Existing models overestimated CH4 emissions from ponds and wetlands by up to several orders of magnitude, with discrepancies linked to salinity. While not significant for rivers and larger lakes, salinity interacted with organic matter availability to shape CH4 patterns in small lentic habitats. We estimate that excluding salinity leads to overestimation of emissions from small Canadian Prairie waterbodies by at least 81% ( ~ 1 Tg yr-1 CO2 equivalent), a quantity comparable to other major national emissions sources. Our findings are consistent with patterns in other hardwater landscapes, likely leading to an overestimation of global lentic CH4 emissions. Widespread salinization of inland waters may impact CH4 cycling and should be considered in future projections of aquatic emissions.

Changes in arsenic mobility and speciation across a 2000-year-old paddy soil chronosequence

Rice accumulates arsenic (As) when cultivated under flooded conditions in paddy soils threatening rice yield or its safety for human consumption, depending on As speciation. During long-term paddy use, repeated redox cycles systematically alter soil biogeochemistry and microbiology. In the present study, incubation experiments from a 2000-year-old paddy soil chronosequence revealed that As mobilization and speciation also change with paddy soil age. Younger paddies (≤100 years) showed the highest total As mobilization, with speciation dominated by carcinogenic inorganic oxyarsenic species and highly mobile inorganic thioarsenates. Inorganic thioarsenates formed by a high availability of reduced sulfur (S) due to low concentrations of reducible iron (Fe) and soil organic carbon (SOC). Long-term paddy use (>100 years) resulted in higher microbial activity and SOC, increasing the share of phytotoxic methylated As. Methylated oxyarsenic species are precursors for cytotoxic methylated thioarsenates. Methylated thioarsenates formed in soils of all ages being limited either by the availability of methylated As in young soils or that of reduced-S in older ones. The present study shows that via a linkage of As to the biogeochemistry of Fe, S, and C, paddy soil age can influence the kind and the extent of threat that As poses for rice cultivation.

Pyrogenic Black Carbon Suppresses Microbial Methane Production by Serving as a Terminal Electron Acceptor

Methane (CH4) is the second most important greenhouse gas, 27 times as potent as CO2 and responsible for >30% of the current anthropogenic warming. Globally, more than half of CH4 is produced microbially through methanogenesis. Pyrogenic black carbon possesses a considerable electron storage capacity (ESC) and can be an electron donor or acceptor for abiotic and microbial redox transformation. Using wood-derived biochar as a model black carbon, we demonstrated that air-oxidized black carbon served as an electron acceptor to support anaerobic oxidation of organic substrates, thereby suppressing CH4 production. Black carbon-respiring bacteria were immediately active and outcompeted methanogens. Significant CH4 did not form until the bioavailable electron-accepting capacity of the biochar was exhausted. An experiment with labeled acetate (13CH3COO-) yielded 1:1 13CH4 and 12CO2 without biochar and predominantly 13CO2 with biochar, indicating that biochar enabled anaerobic acetate oxidation at the expense of methanogenesis. Methanogens were enriched following acetate fermentation but only in the absence of biochar. The electron balance shows that approximately half (∼2.4 mmol/g) of biochar's ESC was utilized by the culture, corresponding to the portion of the ESC > +0.173 V (vs SHE). These results provide a mechanistic basis for quantifying the climate impact of black carbon and developing ESC-based applications to reduce CH4 emissions from biogenic sources.

Coupled Processes Involving Organic Matter and Fe Oxyhydroxides Control Geogenic Phosphorus Enrichment in Groundwater Systems: New Evidence from FT-ICR-MS and XANES

The enrichment of geogenic phosphorus (P) in groundwater systems threatens environmental and public health worldwide. Two significant factors affecting geogenic P enrichment include organic matter (OM) and Fe (oxyhydr)oxide (FeOOH). However, due to variable reactivities of OM and FeOOH, variable strategies of their coupled influence controlling P enrichment in groundwater systems remain elusive. This research reveals that when the depositional environment is enriched in more labile aliphatic OM, its fermentation is coupled with the reductive dissolution of both amorphous and crystalline FeOOHs. When the depositional environment is enriched in more recalcitrant aromatic OM, it largely relies on crystalline FeOOH acting concurrently as electron acceptors while serving as "conduits" to help itself stimulate degradation and methanogenesis. The main source of geogenic P enriched by these two different coupled processes is different: the former is P-containing OM, which mainly contained unsaturated aliphatic compounds and highly unsaturated-low O compounds, and the latter is P associated with crystalline FeOOH. In addition, geological setting affects the deposition rate of sediments, which can alter OM degradation/preservation, and subsequently affects geochemical conditions of geogenic P occurrence. These findings provide new evidence and perspectives for understanding the hydro(bio)geochemical processes controlling geogenic P enrichment in alluvial-lacustrine aquifer systems.

Sustainable disposal of Fenton sludge and enhanced organics degradation based on dissimilatory iron reduction in the hydrolytic acidification process

Fenton sludge generated in the flocculation stage of the Fenton oxidation process contains significant amounts of ferric iron and organic pollutants, which require proper treatment. Previous studies have demonstrated that adding Fenton sludge to an anaerobic digester can decompose some of the organic pollutants in the Fenton sludge to lower its environmental risk, but iron gradually accumulates in the reactor, which weakens the sustainability of the method. In this study, Fenton sludge was introduced into a hydrolytic acidification reactor with a weak acid environment to relieve the iron accumulation as well as improve the degradation of organic matter. The results showed that the added Fenton sludge acted as an extracellular electron acceptor to induce dissimilatory iron reduction, which increased chemical oxygen demand (COD) removal and acidification efficiency by 16.1% and 19.8%, respectively, compared to the group without Fenton sludge. Along with the operation, more than 90% of the Fe(III) in Fenton sludge was reduced to Fe(II), and part of them was released to the effluent. Moreover, the Fe(II) in the effluent could be used as flocculants and Fenton reagents to further decrease the effluent COD by 29.8% and 44.5%, respectively. It provided a sustainable strategy to reuse Fenton sludge to enhance organic degradation based on the iron cycle.

The reduction of environmentally abundant iron oxides by the methanogen Methanosarcina barkeri

Microbial dissimilatory iron reduction is a fundamental respiratory process that began early in evolution and is performed in diverse habitats including aquatic anoxic sediments. In many of these sediments microbial iron reduction is not only observed in its classical upper zone, but also in the methane production zone, where low-reactive iron oxide minerals are present. Previous studies in aquatic sediments have shown the potential role of the archaeal methanogen Methanosarcinales in this reduction process, and their use of methanophenazines was suggested as an advantage in reducing iron over other iron-reducing bacteria. Here we tested the capability of the methanogenic archaeon Methanosarcina barkeri to reduce three naturally abundant iron oxides in the methanogenic zone: the low-reactive iron minerals hematite and magnetite, and the high-reactive amorphous iron oxide. We also examined the potential role of their methanophenazines in promoting the reduction. Pure cultures were grown close to natural conditions existing in the methanogenic zone (under nitrogen atmosphere, N2:CO2, 80:20), in the presence of these iron oxides and different electron shuttles. Iron reduction by M. barkeri was observed in all iron oxide types within 10 days. The reduction during that time was most notable for amorphous iron, then magnetite, and finally hematite. Importantly, the reduction of iron inhibited archaeal methane production. When hematite was added inside cryogenic vials, thereby preventing direct contact with M. barkeri, no iron reduction was observed, and methanogenesis was not inhibited. This suggests a potential role of methanophenazines, which are strongly associated with the membrane, in transferring electrons from the cell to the minerals. Indeed, adding dissolved phenazines as electron shuttles to the media with iron oxides increased iron reduction and inhibited methanogenesis almost completely. When M. barkeri was incubated with hematite and the phenazines together, there was a change in the amounts (but not the type) of specific metabolites, indicating a difference in the ratio of metabolic pathways. Taken together, the results show the potential role of methanogens in reducing naturally abundant iron minerals in methanogenic sediments under natural energy and substrate limitations and shed new insights into the coupling of microbial iron reduction and the important greenhouse gas methane.

MmcA is an electron conduit that facilitates both intracellular and extracellular electron transport in Methanosarcina acetivorans

Methanogens are a diverse group of Archaea that couple energy conservation to the production of methane gas. While most methanogens have no alternate mode of energy conservation, strains like Methanosarcina acetivorans are known to also conserve energy by dissimilatory metal reduction (DSMR) in the presence of soluble ferric iron or iron-containing minerals. The ecological ramifications of energy conservation decoupled from methane production in methanogens are substantial, yet the molecular details are poorly understood. In this work, we conducted in vitro and in vivo studies with a multiheme c-type cytochrome (MHC), called MmcA, to establish its role during methanogenesis and DSMR in M. acetivorans. MmcA purified from M. acetivorans can donate electrons to methanophenazine, a membrane-bound electron carrier, to facilitate methanogenesis. In addition, MmcA can also reduce Fe(III) and the humic acid analog anthraquinone-2,6-disulfonate (AQDS) during DSMR. Furthermore, mutants lacking mmcA have slower Fe(III) reduction rates. The redox reactivities of MmcA are consistent with the electrochemical data where MmcA displays reversible redox features ranging from -100 to -450 mV versus SHE. MmcA is prevalent in members of the Order Methanosarcinales but does not belong to a known family of MHCs linked to extracellular electron transfer, bioinformatically, and instead forms a distinct clade that is closely related to octaheme tetrathionate reductases. Taken together, this study shows that MmcA is widespread in methanogens with cytochromes where it acts as an electron conduit to support a variety of energy conservation strategies that extend beyond methanogenesis.

Moderate potassium ferrate dosage enhances methane production from the anaerobic digestion of waste activated sludge

The annual increase of waste activated sludge (WAS) has become an urgent problem to be solved in sewage plants worldwide. Anaerobic digestion (AD) of WAS is an attractive choice to maximize the resource utilization rate. Nevertheless, the disintegration of sludge complex polymers is difficult, resulting in a low bioconversion rate. Potassium ferrate (PF), as a green oxidant with strong oxidizing property, has attracted great attention in WAS pretreatment recently. The effects of PF pretreatment on WAS hydrolysis and its dosage-response on methane production were investigated in the present study. Results show that as PF dosage raise from 0 to 50 g-K2FeO4/ kg-TS (total solids), the methane yield enhanced significantly by 40.3% from 0.083 to 0.12 L/g-VSadded (volatile solids). Nevertheless, the further increase in PF dosage resulted in decreased methane production. Especially with the PF dosage of 500 g-K2FeO4/ kg-TS, methane production is even slightly lower than the control reactor without PF oxidation. The mechanism analysis showed that although the dissolution of polysaccharides and proteins was enhanced with the high dosage of PF, the accompanying released humic-like substances and high concentration of ferric ions should be the main reasons inhibiting methane production.

Continuously feeding fenton sludge into anaerobic digesters: Iron species change and operating stability

Fenton sludge generated from the Fenton process contains a large number of ferric species and organic pollutants, which need to be properly treated before discharge. In this study, Fenton sludge as an Fe(III) source for dissimilatory iron reduction (DIR) was continuously added with increasing dosage into an anaerobic digester to enhance the treatment. Results showed continuously feeding Fenton sludge to the anaerobic digester did not deteriorate the performance and increased methane production and COD removal rate by 2.2 folds and 14.0%, respectively. The Fe content of sludge in the digester increased from 40.25 mg/g (dry weight) to 131.53 mg/g after continuously feeding for 77days, and then declined to 109.17 mg/g when the feeding was stopped. Mass balance analysis showed that 20.5 to 48.4% of Fe in the Fenton sludge was released to the effluent. After experiment, the ratio of reducible Fe species to the total Fe was 75.1%, which maintained the high activity in DIR. Microbial community analysis showed that iron-reducing bacteria were enriched with the addition of Fenton sludge and the sludge in the digester had a higher conductivity and capacitance to strengthen the electron transfer of DIR. All results suggested that feeding Fenton sludge into anaerobic digesters was a feasible method to dispose of Fenton sludge as well as to enhance the performance of anaerobic digestion.

Iron Compounds in Anaerobic Degradation of Petroleum Hydrocarbons: A Review

Waste and wastewater containing hydrocarbons are produced worldwide by various oil-based industries, whose activities also contribute to the occurrence of oil spills throughout the globe, causing severe environmental contamination. Anaerobic microorganisms with the ability to biodegrade petroleum hydrocarbons are important in the treatment of contaminated matrices, both in situ in deep subsurfaces, or ex situ in bioreactors. In the latter, part of the energetic value of these compounds can be recovered in the form of biogas. Anaerobic degradation of petroleum hydrocarbons can be improved by various iron compounds, but different iron species exert distinct effects. For example, Fe(III) can be used as an electron acceptor in microbial hydrocarbon degradation, zero-valent iron can donate electrons for enhanced methanogenesis, and conductive iron oxides may facilitate electron transfers in methanogenic processes. Iron compounds can also act as hydrocarbon adsorbents, or be involved in secondary abiotic reactions, overall promoting hydrocarbon biodegradation. These multiple roles of iron are comprehensively reviewed in this paper and linked to key functional microorganisms involved in these processes, to the underlying mechanisms, and to the main influential factors. Recent research progress, future perspectives, and remaining challenges on the application of iron-assisted anaerobic hydrocarbon degradation are highlighted.

Anaerobic methane oxidation coupled to ferrihydrite reduction by Methanosarcina barkeri

Fe(III) has been recognized as a potential electron sink for the anaerobic oxidation of methane (Fe-AOM) in diverse environments. However, most of previous Fe-AOM processes are limited to ANME archaea and the Fe-AOM mechanism remains unclear. Here we investigate, for the first time, the Fe-AOM performance and mechanisms by a single methanogen Methanosarcina barkeri. The results showed that M. barkeri was capable of oxidizing methane to CO₂ and reducing ferrihydrite to siderite simultaneously. The presence of methane enhanced both the abundances of redox-active species (such as cytochromes) and electrochemical activity of M. barkeri. The proteomic analyses revealed that M. barkeri up-regulated the expressions of a number of methanogenic enzymes during Fe-AOM, and significantly enriched metabolic pathways of amino acid synthesis and nitrogen fixation. Metabolic inhibition experiments indicated that membrane-bound redox-active components (cytochromes, methanophenazine and F₄₂₀H₂:quinone oxidoreductase) were probably involved in extracellular electron transfer (EET) from cells to ferrihydrite. Overall, these results provide a deep insight into the single‑carbon metabolism and survival strategy for methanogens and suggest that methanogens may play an important role in linking methane and iron cycling in the substrate-limited environments.

Ferric chloride aiding nitrite pretreatment for the enhancement of the quantity and quality of short-chain fatty acids production in waste activated sludge

The production of short-chain fatty acids (SCFAs) via anaerobic fermentation of waste activated sludge (WAS) is often limited with poor quality of SCFAs and long fermentation time. To overcome these issues, we provided an efficient strategy by using ferric chloride (FC) to aid nitrite pretreatment. Experimental results showed that the maximal SCFAs production of 211.3 ± 3.1 mg COD/g VS was achieved with 4 mmol/L of FC integrated with 250 mg/L of nitrite pretreatment on day 5, which was 4.1-fold higher than that of the blank control (52 ± 5 mg COD/g VS, day 7). Besides, the enrichment of acetic acid was observed in the combined system, which accounted for 54.6 ± 3.5% of total SCFAs, while the proportion was only 31.5 ± 4.9% in the blank control. Propionic acid, isobutyric acid, n-butyric acid, n-valeric acid and isovaleric acid accounted for 14.7 ± 1.5%, 6.9 ± 1.4%, 7.4 ± 1.5%, 13.1 ± 1.0%, and 3.3 ± 1.5% of total SCFAs in the combined system and 22.8 ± 4.0%, 11.9 ± 3.0%, 6.7 ± 3.1%, 17.6 ± 2.0%, and 9.5 ± 3.9% of total SCFAs in the blank control, respectively. It was found that soluble proteins and carbohydrates in the combined system were higher than those in the blank control, suggesting that FC and nitrite pretreatment was beneficial for WAS disintegration. The fluorescence spectrum results suggested that FC and nitrite pretreatment improved the biodegradability of released organics, which provided more biodegradable substances for the subsequent SCFAs production. This was because the addition of FC induced the formation of free nitrous acid from nitrite. Besides, FC-induced iron reduction also promoted the conversion of recalcitrant organics to biodegradable organic matter. Microbial community structure analysis demonstrated that the functional bacteria involved in acetogenesis process such as Enterococcus, Proteiniclasticum, and Petrimonas were highly enriched due to the pretreatment of FC and nitrite, indicating this method could improve the relative abundance of SCFAs producers. Overall, this study revealed that the pretreatment of FC and nitrite promoted the formation of free nitrous acid and increased the yield of SCFAs, which provided a novel method for wastewater treatment plants to ameliorate the sewage treatment craft and rationally use the existing substances in WAS to enhance resource recovery.

Mineralogical control on methylotrophic methanogenesis and implications for cryptic methane cycling in marine surface sediment

Minerals are widely proposed to protect organic carbon from degradation and thus promote the persistence of organic carbon in soils and sediments, yet a direct link between mineral adsorption and retardation of microbial remineralisation is often presumed and a mechanistic understanding of the protective preservation hypothesis is lacking. We find that methylamines, the major substrates for cryptic methane production in marine surface sediment, are strongly adsorbed by marine sediment clays, and that this adsorption significantly reduces their concentrations in the dissolved pool (up to 40.2 ± 0.2%). Moreover, the presence of clay minerals slows methane production and reduces final methane produced (up to 24.9 ± 0.3%) by a typical methylotrophic methanogen—Methanococcoides methylutens TMA-10. Near edge X-ray absorption fine structure spectroscopy shows that reversible adsorption and occlusive protection of methylamines in clay interlayers are responsible for the slow-down and reduction in methane production. Here we show that mineral-OC interactions strongly control methylotrophic methanogenesis and potentially cryptic methane cycling in marine surface sediments.

Adsorption of methylamines onto clay minerals provides a hitherto unrecognised control on methane production in marine surface sediment.

Seasonal Fluctuations in Iron Cycling in Thawing Permafrost Peatlands

In permafrost peatlands, up to 20% of total organic carbon (OC) is bound to reactive iron (Fe) minerals in the active layer overlying intact permafrost, potentially protecting OC from microbial degradation and transformation into greenhouse gases (GHG) such as CO₂ and CH₄. During the summer, shifts in runoff and soil moisture influence redox conditions and therefore the balance of Fe oxidation and reduction. Whether reactive iron minerals could act as a stable sink for carbon or whether they are continuously dissolved and reprecipitated during redox shifts remains unknown. We deployed bags of synthetic ferrihydrite (FH)-coated sand in the active layer along a permafrost thaw gradient in Stordalen mire (Abisko, Sweden) over the summer (June to September) to capture changes in redox conditions and quantify the formation and dissolution of reactive Fe(III) (oxyhydr)oxides. We found that the bags accumulated Fe(III) under constant oxic conditions in areas overlying intact permafrost over the full summer season. In contrast, in fully thawed areas, conditions were continuously anoxic, and by late summer, 50.4 ± 12.8% of the original Fe(III) (oxyhydr)oxides were lost via dissolution. Periodic redox shifts (from 0 to +300 mV) were observed over the summer season in the partially thawed areas. This resulted in the dissolution and loss of 47.2 ± 20.3% of initial Fe(III) (oxyhydr)oxides when conditions are wetter and more reduced, and new formation of Fe(III) minerals (33.7 ± 8.6% gain in comparison to initial Fe) in the late summer under more dry and oxic conditions, which also led to the sequestration of Fe-bound organic carbon. Our data suggest that there is seasonal turnover of iron minerals in partially thawed permafrost peatlands, but that a fraction of the Fe pool remains stable even under continuously anoxic conditions.

Methanogen Productivity and Microbial Community Composition Varies With Iron Oxide Mineralogy

Quantifying the flux of methane from terrestrial environments remains challenging, owing to considerable spatial and temporal variability in emissions. Amongst a myriad of factors, variation in the composition of electron acceptors, including metal (oxyhydr)oxides, may impart controls on methane emission. The purpose of this research is to understand how iron (oxyhydr)oxide minerals with varied physicochemical properties influence microbial methane production and subsequent microbial community development. Incubation experiments, using lake sediment as an inoculum and acetate as a carbon source, were used to understand the influence of one poorly crystalline iron oxide mineral, ferrihydrite, and two well-crystalline minerals, hematite and goethite, on methane production. Iron speciation, headspace methane, and 16S-rRNA sequencing microbial community data were measured over time. Substantial iron reduction only occurred in the presence of ferrihydrite while hematite and goethite had little effect on methane production throughout the incubations. In ferrihydrite experiments the time taken to reach the maximum methane production rate was slower than under other conditions, but methane production, eventually occurred in the presence of ferrihydrite. We suggest that this is due to ferrihydrite transformation into more stable minerals like magnetite and goethite or surface passivation by Fe(II). While all experimental conditions enriched for Methanosarcina, only the presence of ferrihydrite enriched for iron reducing bacteria Geobacter. Additionally, the presence of ferrihydrite continued to influence microbial community development after the onset of methanogenesis, with the dissimilarity between communities growing in ferrihydrite compared to no-Fe-added controls increasing over time. This work improves our understanding of how the presence of different iron oxides influences microbial community composition and methane production in soils and sediments.

Unraveling the role of polyferric chloride in anaerobic digestion of waste activated sludge

This study explored the effect of polyferric chloride (PFC) as a flocculant on waste activated sludge anaerobic digestion. The results verified that PFC has an inhibitory effect on methane production during anaerobic digestion. PFC with a concentration of 40 g/kg total suspended solids reduced methane production from 195 ± 2.10 to 156 ± 1.50 L/kg volatile suspended solids, a decrease of 20.0 ± 0.09%. PFC released hydroxyl polymers and Fe(III). Hydroxy polymers aggregated sludge flocs and hindered the release of dissolved organic matter. Fe(III) induced dissimilar iron reduction processes to contend with methyl-CoM for electrons, thereby further reducing methane production. In addition, PFC enriched iron-reducing bacteria and reduced the abundance of methanogens, resulting in microbial communities that are not conducive to methane production. This article puts forward innovative insights on the role of PFC in biological sludge treatment, which is expected to guide the flocculant selection during wastewater treatment.

Volcanic controls on the microbial habitability of Mars-analogue hydrothermal environments

Due to their potential to support chemolithotrophic life, relic hydrothermal systems on Mars are a key target for astrobiological exploration. We analysed water and sediments at six geothermal pools from the rhyolitic Kerlingarfjöll and basaltic Kverkfjöll volcanoes in Iceland, to investigate the localised controls on the habitability of these systems in terms of microbial community function. Our results show that host lithology plays a minor role in pool geochemistry and authigenic mineralogy, with the system geochemistry primarily controlled by deep volcanic processes. We find that by dictating pool water pH and redox conditions, deep volcanic processes are the primary control on microbial community structure and function, with water input from the proximal glacier acting as a secondary control by regulating pool temperatures. Kerlingarfjöll pools have reduced, circum-neutral CO₂ -rich waters with authigenic calcite-, pyrite- and kaolinite-bearing sediments. The dominant metabolisms inferred from community profiles obtained by 16S rRNA gene sequencing are methanogenesis, respiration of sulphate and sulphur (S⁰ ) oxidation. In contrast, Kverkfjöll pools have oxidised, acidic (pH < 3) waters with high concentrations of SO₄^2- and high argillic alteration, resulting in Al-phyllosilicate-rich sediments. The prevailing metabolisms here are iron oxidation, sulphur oxidation and nitrification. Where analogous ice-fed hydrothermal systems existed on early Mars, similar volcanic processes would likely have controlled localised metabolic potential and thus habitability. Moreover, such systems offer several habitability advantages, including a localised source of metabolic redox pairs for chemolithotrophic microorganisms and accessible trace metals. Similar pools could have provided transient environments for life on Mars; when paired with surface or near-surface ice, these habitability niches could have persisted into the Amazonian. Additionally, they offer a confined site for biosignature formation and deposition that lends itself well to in situ robotic exploration.

Pathways of Iron and Sulfur Acquisition, Cofactor Assembly, Destination, and Storage in Diverse Archaeal Methanogens and Alkanotrophs

Archaeal methanogens, methanotrophs, and alkanotrophs have a high demand for iron (Fe) and sulfur (S); however, little is known of how they acquire, traffic, deploy, and store these elements. Here, we examined the distribution of homologs of proteins mediating key steps in Fe/S metabolism in model microorganisms, including iron(II) sensing/uptake (FeoAB), sulfide extraction from cysteine (SufS), and the biosynthesis of iron-sulfur [Fe-S] clusters (SufBCDE), siroheme (Pch2 dehydrogenase), protoheme (AhbABCD), cytochrome c (Cyt c) (CcmCF), and iron storage/detoxification (Bfr, FtrA, and IssA), among 326 publicly available, complete or metagenome-assembled genomes of archaeal methanogens/methanotrophs/alkanotrophs. The results indicate several prevalent but nonuniversal features, including FeoB, SufBC, and the biosynthetic apparatus for the basic tetrapyrrole scaffold, as well as its siroheme (and F₄₃₀) derivatives. However, several early-diverging genomes lacked SufS and pathways to synthesize and deploy heme. Genomes encoding complete versus incomplete heme biosynthetic pathways exhibited equivalent prevalences of [Fe-S] cluster binding proteins, suggesting an expansion of catalytic capabilities rather than substitution of heme for [Fe-S] in the former group. Several strains with heme binding proteins lacked heme biosynthesis capabilities, while other strains with siroheme biosynthesis capability lacked homologs of known siroheme binding proteins, indicating heme auxotrophy and unknown siroheme biochemistry, respectively. While ferritin proteins involved in ferric oxide storage were widespread, those involved in storing Fe as thioferrate were unevenly distributed. Collectively, the results suggest that differences in the mechanisms of Fe and S acquisition, deployment, and storage have accompanied the diversification of methanogens/methanotrophs/alkanotrophs, possibly in response to differential availability of these elements as these organisms evolved.

IMPORTANCE Archaeal methanogens, methanotrophs, and alkanotrophs, argued to be among the most ancient forms of life, have a high demand for iron (Fe) and sulfur (S) for cofactor biosynthesis, among other uses. Here, using comparative bioinformatic approaches applied to 326 genomes, we show that major differences in Fe/S acquisition, trafficking, deployment, and storage exist in this group. Variation in these characters was generally congruent with the phylogenetic placement of these genomes, indicating that variation in Fe/S usage and deployment has contributed to the diversification and ecology of these organisms. However, incongruency was observed among the distribution of cofactor biosynthesis pathways and known protein destinations for those cofactors, suggesting auxotrophy or yet-to-be-discovered pathways for cofactor biosynthesis.

The Proposed Molecular Mechanisms Used by Archaea for Fe(III) Reduction and Fe(II) Oxidation

Iron (Fe) is the fourth most abundant element in the Earth's crust where ferrous Fe [Fe(II)] and ferric Fe [Fe(III)] can be used by archaea for energy conservation. In these archaea-Fe interactions, Fe(III) serves as terminal electron acceptor for anaerobic respiration by a variety of archaea, while Fe(II) serves as electron donor and/or energy sources for archaeal growth. As no Fe is incorporated into the archaeal cells, these redox reactions are referred to as dissimilatory Fe(III) reduction and Fe(II) oxidation, respectively. Dissimilatory Fe(III)-reducing archaea (FeRA) and Fe(II)-oxidizing archaea (FeOA) are widespread on Earth where they play crucial roles in biogeochemical cycling of not only Fe, but also carbon and sulfur. To reduce extracellular Fe(III) (oxyhydr)oxides, some FeRA transfer electrons directly to the Fe(III) (oxyhydr)oxides most likely via multiheme c-type cytochromes (c-Cyts). These multiheme c-Cyts may form the pathways similar to those found in bacteria for transferring electrons from the quinone/quinol pool in the cytoplasmic membrane to the Fe(III) (oxyhydr)oxides external to the archaeal cells. Use of multiheme c-Cyts for extracellular Fe(III) reduction by both Domains of Archaea and Bacteria emphasizes an ancient mechanism of extracellular electron transfer, which is well conserved. Other FeRA, however, reduce Fe(III) (oxyhydr)oxides indirectly via electron shuttles. Similarly, it is proposed that FeOA use pathways to oxidize Fe(II) on the surface of the cytoplasmic membrane and then to transfer the released electrons across the cytoplasmic membrane inward to the O2 and NAD+ in the cytoplasm. In this review, we focus on the latest understandings of the molecular mechanisms used by FeRA and FeOA for Fe(III) reduction and Fe(II) oxidation, respectively.

Biohydrogen production using kitchen waste as the potential substrate: A sustainable approach

This review explores the sustainable feasibility of kitchen wastes to implement as an effective substrate for biohydrogen production through dark fermentation. Being organic in nature, kitchen wastes are enomerous source of nutrients and carbohydrate, which are produced in huge quantity in our daily life, and therefore can be potentially used for biohydrogen production through microbial technique. The review discussed in detail about the impact of kitchen waste, its availability and sustainability on the biohydrogen production process along with future scope at industrial scale for the production of sustainable and renewable energy. In addition, recent advances, and their possibility to enhance the fermentative biohydrogen production using kitchen waste have been covered. Emphasis is also made on the application of nanomaterials to increase the yield of biohydrogen production and to make the entire process more economical and sustainable while using kitchen wastes as substrate for the microbial fermentation. Finally, advantages, limitations and future prospects of the process of biohydrogen production using kitchen wastes as potential substrate have been discussed.

An integrated strategy to enhance performance of anaerobic digestion of waste activated sludge

Anaerobic digestion (AD) is an essential process in wastewater treatment plants as it can reduce the amount of waste activated sludge (WAS) for disposal, and also enables the recovery of bioenergy (i.e. methane). Here, a new pretreatment method to enhance anaerobic digestion was achieved by treating thickened WAS (TWAS) with ferric (as FeCl₃) and nitrite simultaneously for 24-hour at room temperature. Biochemical methane potential tests showed markedly improved degradability in the pretreated TWAS, with a relative increase in hydrolysis rate by 30%. A comparative experiment with the operation of two continuous-flow anaerobic digesters further demonstrated the improvement in biogas quantity and quality, digestate disposal, and phosphorus recovery in the experimental digester. The dosed FeCl₃ (i.e. ~6 mM) decreased the pH of TWAS to ~5, which led to the formation of free nitrous acid (FNA, HNO₂) at parts per million levels (i.e. ~6 mg N/L), after dosing nitrite at 250 mg NO₂^--N/L. This FNA treatment caused a 26% increase in methane yield and volatile solids destruction, 55% reduction in the viscosity of sludge in digester, and 24% less polymer required in further digestate dewatering. In addition, the dosed Fe(III) was reduced to Fe(II) which precipitated sulfide and phosphorus, leading to decreased hydrogen sulfide concentration in biogas, and increased percentage of vivianite in the total crystalline iron species in digested sludge. Our study experimentally demonstrated that combined dosing of FeCl₃ and nitrite is a useful pretreatment strategy for improving anaerobic digestion of WAS.

A new insight on the effects of iron oxides and dissimilated metal-reducing bacteria on CH4 emissions in constructed wetland matrix systems

Iron oxides and dissimilated metal-reducing bacteria (DMRB) have been reported to result in a reduction in methane (CH₄) emissions in constructed wetlands (CWs), but their mechanisms on CH₄ production and oxidation remains unclear. Here, a set of CW matrix systems (Control, Fe-CWs, and FeB-CWs) was established to analyze the CH₄ emission reduction from various angles, including the valencies of iron, microbial community structure and enzyme activity. The results revealed that the addition of iron oxides promoted the electron transfer between methanogens and Geobacter to promote CH₄ production, but it was interesting that iron oxides also reduced the enzymes involved in the carbon dioxide (CO₂) reduction pathway and promoted the enzymes that participated in anaerobic oxidation of methane (AOM) thereby leading to the overall reduction in CH₄ emissions. Moreover, DMRB could promote iron reduction thereby further reducing CH₄ emissions by promoting AOM and competing with methanogens for organic substrates.

Rapid microbial methanogenesis during CO2 storage in hydrocarbon reservoirs

Carbon capture and storage (CCS) is a key technology to mitigate the environmental impact of carbon dioxide (CO₂) emissions. An understanding of the potential trapping and storage mechanisms is required to provide confidence in safe and secure CO₂ geological sequestration^1,2. Depleted hydrocarbon reservoirs have substantial CO₂ storage potential¹,³, and numerous hydrocarbon reservoirs have undergone CO₂ injection as a means of enhanced oil recovery (CO₂-EOR), providing an opportunity to evaluate the (bio)geochemical behaviour of injected carbon. Here we present noble gas, stable isotope, clumped isotope and gene-sequencing analyses from a CO₂-EOR project in the Olla Field (Louisiana, USA). We show that microbial methanogenesis converted as much as 13-19% of the injected CO₂ to methane (CH₄) and up to an additional 74% of CO₂ was dissolved in the groundwater. We calculate an in situ microbial methanogenesis rate from within a natural system of 73-109 millimoles of CH₄ per cubic metre (standard temperature and pressure) per year for the Olla Field. Similar geochemical trends in both injected and natural CO₂ fields suggest that microbial methanogenesis may be an important subsurface sink of CO₂ globally. For CO₂ sequestration sites within the environmental window for microbial methanogenesis, conversion to CH₄ should be considered in site selection.

Iron mineral dissolution releases iron and associated organic carbon during permafrost thaw

It has been shown that reactive soil minerals, specifically iron(III) (oxyhydr)oxides, can trap organic carbon in soils overlying intact permafrost, and may limit carbon mobilization and degradation as it is observed in other environments. However, the use of iron(III)-bearing minerals as terminal electron acceptors in permafrost environments, and thus their stability and capacity to prevent carbon mobilization during permafrost thaw, is poorly understood. We have followed the dynamic interactions between iron and carbon using a space-for-time approach across a thaw gradient in Abisko (Sweden), where wetlands are expanding rapidly due to permafrost thaw. We show through bulk (selective extractions, EXAFS) and nanoscale analysis (correlative SEM and nanoSIMS) that organic carbon is bound to reactive Fe primarily in the transition between organic and mineral horizons in palsa underlain by intact permafrost (41.8 ± 10.8 mg carbon per g soil, 9.9 to 14.8% of total soil organic carbon). During permafrost thaw, water-logging and O₂ limitation lead to reducing conditions and an increase in abundance of Fe(III)-reducing bacteria which favor mineral dissolution and drive mobilization of both iron and carbon along the thaw gradient. By providing a terminal electron acceptor, this rusty carbon sink is effectively destroyed along the thaw gradient and cannot prevent carbon release with thaw.

Iron minerals trap carbon in permafrost, preventing microbial degradation and release to the atmosphere as CO₂, but the stability of this carbon as permafrost thaws is unclear. Here the authors use nanoscale analyses to show that thaw conditions stimulate Fe-reducing bacteria that trigger carbon release.

Effect of Sub-Stoichiometric Fe(III) Amounts on LCFA Degradation by Methanogenic Communities

Long-chain fatty acids (LCFA) are common contaminants in municipal and industrial wastewater that can be converted anaerobically to methane. A low hydrogen partial pressure is required for LCFA degradation by anaerobic bacteria, requiring the establishment of syntrophic relationships with hydrogenotrophic methanogens. However, high LCFA loads can inhibit methanogens, hindering biodegradation. Because it has been suggested that anaerobic degradation of these compounds may be enhanced by the presence of alternative electron acceptors, such as iron, we investigated the effect of sub-stoichiometric amounts of Fe(III) on oleate (C18:1 LCFA) degradation by suspended and granular methanogenic sludge. Fe(III) accelerated oleate biodegradation and hydrogenotrophic methanogenesis in the assays with suspended sludge, with H₂-consuming methanogens coexisting with iron-reducing bacteria. On the other hand, acetoclastic methanogenesis was delayed by Fe(III). These effects were less evident with granular sludge, possibly due to its higher initial methanogenic activity relative to suspended sludge. Enrichments with close-to-stoichiometric amounts of Fe(III) resulted in a microbial community mainly composed of Geobacter, Syntrophomonas, and Methanobacterium genera, with relative abundances of 83-89%, 3-6%, and 0.2-10%, respectively. In these enrichments, oleate was biodegraded to acetate and coupled to iron-reduction and methane production, revealing novel microbial interactions between syntrophic LCFA-degrading bacteria, iron-reducing bacteria, and methanogens.

Response of soil microbial communities to additions of straw biochar, iron oxide, and iron oxide-modified straw biochar in an arsenic-contaminated soil

Anthropogenic activities have caused extensive arsenic (As) contamination in soils. The role of biochar in the remediation of As-contaminated soils has been attracting attention lately. In this study, effects of straw biochar, iron oxide, and iron oxide-modified biochar on soil microbial community composition and soil chemical properties were tested in an As-contaminated soil. After 9 months of incubation, soil chemical properties and microbial communities were analyzed. Our results showed that biochar addition significantly increased soil pH value, soil organic carbon (SOC) concentration, and the ratio of soil carbon to nitrogen (soil C:N ratio) but decreased soil dissolved organic C. Adding iron oxide also increased soil pH value, while iron oxide-modified biochar decreased it. Interestingly, compared with the control, all treatments significantly decreased soil total microbial biomass and biomasses of soil bacteria, fungi, Actinomyces, and protozoa. In addition, significantly positive correlations were found between soil pH and soil total microbial biomass as well as bacterial, Actinomyces, and arbuscular mycorrhizal fungal biomass. There were negative relationships between SOC, soil C:N ratio, and all soil microbial biomass indicators in all treatments. These results indicated that biochar and iron oxide-modified biochar affected soil microbial community composition by altering the soil C:N ratio, but iron oxide affected it via adjusting soil pH. Furthermore, the iron oxide-modified biochar effects on soil microbial community and soil chemical properties are not the same as the additive effects of biochar and iron oxide alone, and its effect on soil microbial community is regulated by the soil C:N ratio. These findings will help guide the development of remediation practices for As-contaminated soil using biochar.

Methane emission suppression in flooded soil from Amazonia

The coupling between ferrous iron and methane production has important global implications, with iron ions acting as electron acceptors for anaerobic oxidation of methane (AOM) and inhibitors of methanogenesis in different environments, including floodplain soils. In this sense, we analyzed the relationship between Fe(II) concentration and methane production in soil layers collected at 0-15 cm and 15-30 cm from flooded-forest and -agroforestry in Amazonian clear water floodplain incubated in anaerobic batch reactors using acetate, formate and glucose as organic sources. High throughput sequencing of archaeal and bacterial 16S rRNA genes was employed to assess the abundance and composition of the active methanogenic and methanotrophic microbial groups potentially involved in Fe(III)-dependent AOM in the soil used as inoculum. Positive correlation was revealed between Fe(II) concentration and methane production, with higher accumulation of Fe(II) in incubated soil layer collected at 0-15 cm in both forest and agroforestry sites for all the three organic sources. The accumulation of Fe(II) in the incubated soil evidenced the oxidation of Fe(III) potentially by Methanobacterium, Desulfobulbus and 'Candidatus methanoperedens nitroreducens' living in anaerobic condition at this soil layer. The results point out to the microbial ferric iron reduction as an important potential pathway for anaerobic organic matter decomposition in Amazonian floodplain, evidencing methanogenesis suppression by Fe(III) reduction in flooded-forest and -agroforestry in Amazonian clear water river floodplain.

Formation of Zerovalent Iron in Iron-Reducing Cultures of Methanosarcina barkeri

Methanogenic archaea have been shown to reduce iron from ferric [Fe(III)] to ferrous [Fe(II)] state, but minerals that form during iron reduction by different methanogens remain to be characterized. Here, we show that zerovalent iron (ZVI) minerals, ferrite [α-Fe(0)] and austenite [γ-Fe(0)], appear in the X-ray diffraction spectra minutes after the addition of ferrihydrite to the cultures of a methanogenic archaeon, Methanosarcina barkeri (M. barkeri). M. barkeri cells and redox-active, nonenzymatic soluble organic compounds in organic-rich spent culture supernatants can promote the formation of ZVI; the latter compounds also likely stabilize ZVI. Methanogenic microbes that inhabit organic- and Fe(III)-rich anaerobic environments may similarly reduce Fe(III) to Fe(II) and ZVI, with implications for the preservation of paleomagnetic signals during sediment diagenesis and potential applications in the protection of iron metals against corrosion and in the green synthesis of ZVI.

Effect of Aso limonite on anaerobic digestion of waste sewage sludge

The effect of Aso volcanic limonite was explored in anaerobic digestion using waste sewage sludge (WSS). In this study, methane and hydrogen sulfide were remarkably inhibited when Aso limonite was mixed with WSS as well as a significant reduction of ammonia. Although pH was lowered after adding Aso limonite, methane was still inhibited in neutralized pH condition at 7.0. Hydrolysis stage was not influenced by Aso limonite as supported by the result that a high protease activity was still detected in the presence of the material. However, acidogenesis stage was affected by Aso limonite as indicated by the different productions of organic acids. Acetic acid, was accumulated in the presence of Aso limonite due to the inhibition of methane production, except in the highest concentration of Aso limonite which the production of acetate may be inhibited. Besides, the production of propionate and butyrate reduced in accordance to the increased concentration of Aso limonite. In addition, Archaeal activity (methanogens) in WSS with Aso limonite was low in agreement with the low methane production. Thus, these results indicate that Aso limonite influences the acidogenesis and methanogenesis processes, by which the productions of methane and ammonia were inhibited. On the other hand, in the contactless of Aso limonite during the anaerobic digestion of WSS (Aso limonite was placed in the area of headspace in the vial), Aso limonite had the adsorptive ability for hydrogen sulfide from WSS, but not for methane. This contactless system of Aso limonite may be a practical means to remove hydrogen sulfide without inhibiting methane production as an important bioenergy source.

Effect of nickel, cobalt, and iron on methanogenesis from methanol and cometabolic conversion of 1,2-dichloroethene by Methanosarcina barkeri

Methanogens are responsible for the last step in anaerobic digestion (AD), in which methane (a biofuel) is produced. Some methanogens can cometabolize chlorinated pollutants, contributing for their removal during AD. Methanogenic cofactors involved in cometabolic reductive dechlorination, such as F₄₃₀ and cobalamin, contain metal ions (nickel, cobalt, iron) in their structure. We hypothesized that the supplementation of trace metals could improve methane production and the cometabolic dechlorination of 1,2‐dichloroethene (DCE) by pure cultures of Methanosarcina barkeri. Nickel, cobalt, and iron were added to cultures of M. barkeri growing on methanol and methanol plus DCE. Metal amendment improved DCE dechlorination to vinyl chloride (VC): assays with 20 µM of Fe³⁺ showed the highest final concentration of VC (5× higher than in controls without Fe³⁺), but also in assays with 5.5 µM of Co²⁺ and 5 µM of Ni²⁺ VC formation was improved (3.5–4× higher than in controls without the respective metals). Dosing of metals could be useful to improve anaerobic removal of chlorinated compounds, and more importantly decrease the detrimental effect of DCE on methane production in anaerobic digesters.

Waste Ochre for Control of Phosphates and Sulfides in Digesters at Wastewater Treatment Plants with Enhanced Biological Phosphorus Removal

Ochre, waste iron sludge from the treatment of iron rich groundwater for potable use, makes up a significant waste problem. Furthermore, wastewater treatment plants with enhanced biological phosphorus removal and the digestion of sludge are in lack of iron for the prevention of hydrogen sulfide production and the release of phosphorous during anaerobic digestion. Thus, the addition of ochre to anaerobic digestion is a potential beneficial reuse of ochre. Sludge from wastewater treatment plants with enhanced biological phosphorus removal was used for the experiments. Batch and continuous pilot-scale tests were performed for the mesophilic digestion of primary and waste-activated sludge with different doses of ochre. Two different doses of ochre corresponding to molar ratios of 1 and 2 moles Fe3+/mole P released in the batch test resulted in 29% and 57% reductions of phosphates respectively in the sludge liquor compared to the control sludge without inhibiting the digestion process. In the pilot experiment, the dosing of ochre at both a high and low dose (molar ratios of 1.6 and 0.8 Fe3+/S2−, respectively) resulted in an immediate drop in the H2S concentration (from >2000 ppm down to 570 ppm), while the control reactor still produced biogas with a high hydrogen sulfide concentration. The inhibition of the digestion process was observed (accumulation of acetate) at the higher dose. In a second pilot scale experiment, lower doses of ochre were tested continuously (1.5 and 0.75 mole Fe3+/mole Preleased) to avoid any inhibition, while evaluating the phosphate precipitation. A reduction of phosphates in sludge liquor (33% and 66% for the low and high doses respectively) was obtained.

Engineered addition of slag fines for the sequestration of phosphate and sulfide during mesophilic anaerobic digestion

The potential for weathered steel slag fines (D₅₀  < 1.6 mm) to sequester dissolved phosphorus and sulfur from fermenting biosolids was determined. Batch studies showed that sorption equilibrium between phosphates and sulfides was reached in less than 48 hr after adding basic oxygen furnace (BOF) slag grains to municipal digester sludge. When these same particles were added to pilot digesters (75 L) operating at a 30-day SRT, a classic dose-response was observed with respect to PO₄ and H₂ S sequestration, and an inhibitory performance threshold emerged above 20 g BOF/L. Only a fraction of the BOF slag solids contributed to the digester TS mass, because a substantial portion dissolved into the supernatant, some of which contributed to alkalinity. After 160 days of continuous operation, approximately 63% of the total phosphate was sequestered from the supernatant and 78% of the hydrogen sulfide from the biogas, when a steady-state BOF slag dose of 10 g BOF/L was applied. At or below this level, BOF slag fines had no significant effect on mesophilic digester performance as judged by conventional operational metrics. This study demonstrated that upcycling BOF slag directly into the anaerobic digestion process could offer wastewater resource recovery facilities a novel nutrient management tool. PRACTITIONER POINTS: Basic Oxygen Furnace (BOF) Slag fines can be engineered as a cost-effective alternative to conventional phosphorus and sulfur control strategies. A rapid phosphate and sulfide removal from anaerobic digestates occurs within hours after BOF slag addition. 63% of phosphate and 78% of hydrogen sulfide were removed when digester sludge was dosed with 10 g BOF/L, without impacting digester performance. Only a fraction of the dosed BOF slag contributed to digester TS, likely due to partial dissolution into the digestate. BOF slag can potentially increase the nutrient content of biosolids, facilitate biogas recovery, and reduce odors.

Enhanced solubilization and biochemical methane potential of waste activated sludge by combined free nitrous acid and potassium ferrate pretreatment

The increasing production of waste activated sludge (WAS) from wastewater treatment plants presents an inherent environmental burden. In this study, Free nitrous acid combined with potassium ferrate (FNA + PF) pretreatment was used to enhance solubilization and biochemical methane potential of WAS. Results indicated that the maximum removal rates of total suspended solid by PF, FNA, and PF + FNA pretreatment were 21.84%, 38.09%, and 56.17%, respectively. The biochemical methane potential of WAS without pretreatment reached 61.22 L CH₄/kg VSS added while this value increased to 147.07 L CH₄/kg VSS added after FNA + PF pretreatment (0.06 g/g TSS NaNO₂ and 0.25 g/g TSS K₂FeO₄). Shotgun metagenomic analysis revealed that FNA + PF pretreatment could increase the diversity and stability of microbial communities by shifting methanogenic pathways from strictly acetoclastic to acetoclastic/hydrogenotrophic, thereby enhancing methane production. This study suggested that FNA + PF pretreatment is a promising technology to reduce WAS and enhance methane production by pretreated WAS during anaerobic digestion.

Conductive materials in anaerobic digestion: From mechanism to application

Anaerobic digestion (AD) is an effective strategy combined advantages of maintaining the global carbon flux and efficient energy conversion. Various conductive materials (CMs) have been applied in anaerobic digesters to improve the performance of anaerobic fermentation and methanogenesis, including carbon-based CMs and metal-based CMs. Generally, CMs facilitated the AD thermodynamically and kinetically because they triggered more efficient syntrophic metabolism to increase electron capture capability and accelerate reaction rate as well as enhance the performance of AD stages (hydrolysis-acidification, methanogenesis). Besides, adding CMs into anaerobic digester is benefit to dealing with the deteriorating AD, which induced from temperature variation, acidified working condition, higher H₂ partial pressure, etc. However, few CMs exhibited inhibition on AD, including ferrihydrite, magnesium oxide, silver nanoparticles and carbon black. Inhibition comes from a series of complex factors, such as substrate competition, direct inhibition from Fe(III), Fe(III) reduction of methanogens, toxic effects to microorganisms and mass transfer limitation.

A composite taxonomical and functional framework of microbiomes under acid mine drainage bioremediation systems

Mining-industry is one of the most important activities in the economic development of many countries and produces highly significant alterations on the environment, mainly due to the release of a strong acidic metal-rich wastewater called acid mine drainage (AMD). Consequently, the establishment of multiple wastewater treatment strategies remains as a fundamental challenge in AMD research. Bioremediation, as a constantly-evolving multidisciplinary endeavor had been complemented during the last decades by novel tools of increasingly higher resolution such as those based on omics approaches, which are providing detailed insights into the ecology, evolution and mechanisms of microbial communities acting in bioremediation processes. This review specifically addresses, reanalyzes and reexamines in a composite comparative manner, the available sequence information and associated metadata available in public databases about AMD impacted microbial communities; summarizing our understanding of its composition and functions, and proposing potential genetic enhancements for improved bioremediation strategies. 16 S rRNA gene-targeted sequencing data from 9 studies previously published including AMD systems reported and studied around the world, were collected and reanalyzed to compare and identify the core and most abundant genera in four distinct AMD ecosystems: surface biofilm, water, impacted soils/sediments and bioreactor microbiomes. We determined that the microbial communities of bioreactors were the most diverse in bacterial types detected. The metabolic pathways predicted strongly suggest the key role of syntrophic communities with denitrification, methanogenesis, manganese, sulfate and iron reduction. The perspectives to explore the dynamics of engineering systems by high-throughput sequencing and biochemical techniques are discussed and foreseen application of synthetic biology and omics exploration on improved AMD biotransformation are proposed.

Different ferric dosing strategies could result in different control mechanisms of sulfide and methane production in sediments of gravity sewers

Ferric salt dosing is widely used to mitigate sulfide and methane emissions from sewers. In gravity sewers with sediments, responses of sulfate-reducing bacteria (SRB) and methanogenic archaea (MA) residing in different zones to Fe³⁺ dosing strategies still remain unknown. In this study, we investigated the changes in behavior of SRB and MA in different depths of sewer sediment using laboratory-scale sewer sediment reactors with different Fe³⁺ dosing strategies (different instant dosages and frequencies). All Fe³⁺ dosing strategies examined efficiently suppressed sulfide concentration for a short time, but the control mechanisms were different. When a low-dosage, high-frequency Fe³⁺ dosing strategy was employed, Fe³⁺ could not penetrate into the sewer sediment, therefore, the abundances of SRB and MA in all zones of sewer sediment did not change substantially. As a result, the active sulfide-producing and methane-producing zones kept unchanged. Sulfide was controlled mainly via chemical sulfide oxidation and precipitation, and methane formation was not influenced. In contrast, when a high-dosage, low-frequency Fe³⁺ dosing strategy was used, the SRB activity in the upper layer of the sewer sediment was nearly fully suppressed according to the down moving zones of sulfide production (from 0-5 mm to 20-25 mm) and lower sulfate reduction, in which sulfate reduction decreased by 56% in the long-term trial. The generated sulfide was further removed via chemical sulfide oxidation and precipitation. This strategy also significantly suppressed MA activity (21% reduction in methane production). However, considering a long-term satisfactory sulfide control, a low operational cost and less sediments deposited in gravity sewers, a low-dosage, high-frequency Fe³⁺ dosing strategy would be a more cost-effective solution for sulfide control in gravity sewers with thin (<20 mm) or thick (>20 mm) sediments if methane mitigation does not need to be taken into account.

A Membrane-Bound Cytochrome Enables Methanosarcina acetivorans To Conserve Energy from Extracellular Electron Transfer

The discovery of a methanogen that can conserve energy to support growth solely from the oxidation of organic carbon coupled to the reduction of an extracellular electron acceptor expands the possible environments in which methanogens might thrive. The potential importance of c-type cytochromes for extracellular electron transfer to syntrophic bacterial partners and/or Fe(III) minerals in some Archaea was previously proposed, but these studies with Methanosarcina acetivorans provide the first genetic evidence for cytochrome-based extracellular electron transfer in Archaea. The results suggest parallels with Gram-negative bacteria, such as Shewanella and Geobacter species, in which multiheme outer-surface c-type cytochromes are an essential component for electrical communication with the extracellular environment. M. acetivorans offers an unprecedented opportunity to study mechanisms for energy conservation from the anaerobic oxidation of one-carbon organic compounds coupled to extracellular electron transfer in Archaea with implications not only for methanogens but possibly also for Archaea that anaerobically oxidize methane.

Extracellular electron exchange in Methanosarcina species and closely related Archaea plays an important role in the global carbon cycle and enhances the speed and stability of anaerobic digestion by facilitating efficient syntrophic interactions. Here, we grew Methanosarcina acetivorans with methanol provided as the electron donor and the humic analogue, anthraquione-2,6-disulfonate (AQDS), provided as the electron acceptor when methane production was inhibited with bromoethanesulfonate. AQDS was reduced with simultaneous methane production in the absence of bromoethanesulfonate. Transcriptomics revealed that expression of the gene for the transmembrane, multiheme, c-type cytochrome MmcA was higher in AQDS-respiring cells than in cells performing methylotrophic methanogenesis. A strain in which the gene for MmcA was deleted failed to grow via AQDS reduction but grew with the conversion of methanol or acetate to methane, suggesting that MmcA has a specialized role as a conduit for extracellular electron transfer. Enhanced expression of genes for methanol conversion to methyl-coenzyme M and the Rnf complex suggested that methanol is oxidized to carbon dioxide in AQDS-respiring cells through a pathway that is similar to methyl-coenzyme M oxidation in methanogenic cells. However, during AQDS respiration the Rnf complex and reduced methanophenazine probably transfer electrons to MmcA, which functions as the terminal reductase for AQDS reduction. Extracellular electron transfer may enable the survival of methanogens in dynamic environments in which oxidized humic substances and Fe(III) oxides are intermittently available. The availability of tools for genetic manipulation of M. acetivorans makes it an excellent model microbe for evaluating c-type cytochrome-dependent extracellular electron transfer in Archaea.