Electron shuttling mediated by humic substances fuels anaerobic methane oxidation and carbon burial in wetland sediments

Salinity causes differences in stratigraphic methane sources and sinks

Methane metabolism, driven by methanogenic and methanotrophic microorganisms, plays a pivotal role in the carbon cycle. As seawater intrusion and soil salinization rise due to global environmental shifts, understanding how salinity affects methane emissions, especially in deep strata, becomes imperative. Yet, insights into stratigraphic methane release under varying salinity conditions remain sparse. Here we investigate the effects of salinity on methane metabolism across terrestrial and coastal strata (15-40 m depth) through in situ and microcosm simulation studies. Coastal strata, exhibiting a salinity level five times greater than terrestrial strata, manifested a 12.05% decrease in total methane production, but a staggering 687.34% surge in methane oxidation, culminating in 146.31% diminished methane emissions. Salinity emerged as a significant factor shaping the methane-metabolizing microbial community's dynamics, impacting the methanogenic archaeal, methanotrophic archaeal, and methanotrophic bacterial communities by 16.53%, 27.25%, and 22.94%, respectively. Furthermore, microbial interactions influenced strata system methane metabolism. Metabolic pathway analyses suggested Atribacteria JS1's potential role in organic matter decomposition, facilitating methane production via Methanofastidiosales. This study thus offers a comprehensive lens to comprehend stratigraphic methane emission dynamics and the overarching factors modulating them.

Humic substances as electron acceptor for anaerobic oxidation of methane (AOM) and electron shuttle in Mn (IV)-dependent AOM

Anaerobic methanotrophic archaea (ANME) belonging to the family Methanoperedenaceae are crucial for the global carbon cycle and different biogeochemical processes, owing to their metabolic versatility to couple anaerobic oxidation of methane (AOM) with different electron acceptors. A universal feature of Methanoperedenaceae is the abundant genes encoded in their genomes associated with extracellular electron transfer (EET) pathways. Candidatus. 'Methanoperedens manganicus', an archaeon belonging to the family Methanoperedenaceae, was recently enriched in a bioreactor performing AOM coupled with Mn (IV) reduction. Using this EET-capable ANME, we tested the hypothesis in this study that ANME can catalyse the humic-dependent AOM for growth. A two-year incubation showed that AOM activity can be sustained by Ca. 'M. manganicus' consortium in a bioreactor fed only with humic acids and methane. An isotopic mass balance batch test confirmed that the observed AOM was coupled to the reduction of humic acids. The increase of relative abundance of Ca. 'M. manganicus', and the total archaea population in the microbial community suggested that Ca. 'M. manganicus' can grow on methane and humic acids. The observation of humic-dependent AOM led to a subsequent hypothesis that humic acids could be used as the electron shuttle to mediate the EET in dissimilatory Mn (IV) reduction by Ca. 'M. manganicus'. We tested this hypothesis by adding humic acids to a Ca. 'M. manganicus' dominated-culture, which showed that the AOM rate was doubled by the addition of humic acids. X-ray photoelectron spectroscopy (XPS) showed that quinone moieties were consumed when humic acids worked as electron acceptors while remaining stable when functioning as a shuttle for electron transfer. The results of our study suggest that humic acids may serve as electron shuttles to allow ANME to access more electron acceptors through long-range EET.

Seasonal dynamics of the microbial methane filter in the water column of a eutrophic coastal basin

In coastal waters, methane-oxidizing bacteria (MOB) can form a methane biofilter and mitigate methane emissions. The metabolism of these MOBs is versatile, and the resilience to changing oxygen concentrations is potentially high. It is still unclear how seasonal changes in oxygen availability and water column chemistry affect the functioning of the methane biofilter and MOB community composition. Here, we determined water column methane and oxygen depth profiles, the methanotrophic community structure, methane oxidation potential, and water-air methane fluxes of a eutrophic marine basin during summer stratification and in the mixed water in spring and autumn. In spring, the MOB diversity and relative abundance were low. Yet, MOB formed a methane biofilter with up to 9% relative abundance and vertical niche partitioning during summer stratification. The vertical distribution and potential methane oxidation of MOB did not follow the upward shift of the oxycline during summer, and water-air fluxes remained below 0.6 mmol m-2 d-1. Together, this suggests active methane removal by MOB in the anoxic water. Surprisingly, with a weaker stratification, and therefore potentially increased oxygen supply, methane oxidation rates decreased, and water-air methane fluxes increased. Thus, despite the potential resilience of the MOB community, seasonal water column dynamics significantly influence methane removal.

Role of n-DAMO in Mitigating Methane Emissions from Intertidal Wetlands Is Regulated by Saltmarsh Vegetations

Coastal wetlands are hotspots for methane (CH4) production, reducing their potential for global warming mitigation. Nitrite/nitrate-dependent anaerobic methane oxidation (n-DAMO) plays a crucial role in bridging carbon and nitrogen cycles, contributing significantly to CH4 consumption. However, the role of n-DAMO in reducing CH4 emissions in coastal wetlands is poorly understood. Here, the ecological functions of the n-DAMO process in different saltmarsh vegetation habitats as well as bare mudflats were quantified, and the underlying microbial mechanisms were explored. Results showed that n-DAMO rates were significantly higher in vegetated habitats (Scirpus mariqueter and Spartina alterniflora) than those in bare mudflats (P < 0.05), leading to an enhanced contribution to CH4 consumption. Compared with other habitats, the contribution of n-DAMO to the total anaerobic CH4 oxidation was significantly lower in the Phragmites australis wetland (15.0%), where the anaerobic CH4 oxidation was primarily driven by ferric iron (Fe3+). Genetic and statistical analyses suggested that the different roles of n-DAMO in various saltmarsh wetlands may be related to divergent n-DAMO microbial communities as well as environmental parameters such as sediment pH and total organic carbon. This study provides an important scientific basis for a more accurate estimation of the role of coastal wetlands in mitigating climate change.

Anaerobic oxidation of methane in terrestrial wetlands: The rate, identity and metabolism

The recent discovery of anaerobic oxidation of methane (AOM) in freshwater ecosystems has caused a great interest in "cryptic methane cycle" in terrestrial ecosystems. Anaerobic methanotrophs appears widespread in wetland ecosystems, yet, the scope and mechanism of AOM in natural wetlands remain poorly understood. In this paper, we review the recent progress regarding the potential of AOM, the diversity and distribution, and the metabolism of anaerobic methanotrophs in wetland ecosystems. The potential of AOM determined through laboratory incubation or in situ isotopic labeling ranges from 1.4 to 704.0 nmol CH4·g-1 dry soil·d-1. It appears that the availability of electron acceptors is critical in driving different AOM in wetland soils. The environmental temperature and salinity exert a significant influence on AOM activity. Reversal methanogenesis and extracellular electron transfer are likely involved in the AOM process. In addition to anaerobic methanotrophic archaea, the direct involvement of methanogens in AOM is also probable. This review presented an overview of the rate, identity, and metabolisms to unravel the biogeochemical puzzle of AOM in wetland soils.

Anaerobic methanotrophy is stimulated by graphene oxide in a brackish urban canal sediment

Anthropogenic activities are influencing aquatic environments through increased chemical pollution and thus are greatly affecting the biogeochemical cycling of elements. This has increased greenhouse gas emissions, particularly methane, from lakes, wetlands, and canals. Most of the methane produced in anoxic sediments is converted into carbon dioxide by methanotrophs before it reaches the atmosphere. Anaerobic oxidation of methane requires an electron acceptor such as sulphate, nitrate, or metal oxides. Here, we explore the anaerobic methanotrophy in sediments of three urban canals in Amsterdam, covering a gradient from freshwater to brackish conditions. Biogeochemical analysis showed the presence of a shallow sulphate-methane transition zone in sediments of the most brackish canal, suggesting that sulphate could be a relevant electron acceptor for anaerobic methanotrophy in this setting. However, sediment incubations amended with sulphate or iron oxides (ferrihydrite) did not lead to detectable rates of methanotrophy. Despite the presence of known nitrate-dependent anaerobic methanotrophs (Methanoperedenaceae), no nitrate-driven methanotrophy was observed in any of the investigated sediments either. Interestingly, graphene oxide stimulated anaerobic methanotrophy in incubations of brackish canal sediment, possibly catalysed by anaerobic methanotrophs of the ANME-2a/b clade. We propose that natural organic matter serving as electron acceptor drives anaerobic methanotrophy in brackish sediments.

Methanotrophic potential of Dutch canal wall biofilms is driven by Methylomonadaceae

Global urbanization of waterways over the past millennium has influenced microbial communities in these aquatic ecosystems. Increased nutrient inputs have turned most urban waters into net sources of the greenhouse gases carbon dioxide (CO2) and methane (CH4). Here, canal walls of five Dutch cities were studied for their biofilm CH4 oxidation potential, alongside field observations of water chemistry, and CO2 and CH4 emissions. Three cities showed canal wall biofilms with relatively high biological CH4 oxidation potential up to 0.48 mmol gDW-1 d-1, whereas the other two cities showed no oxidation potential. Salinity was identified as the main driver of biofilm bacterial community composition. Crenothrix and Methyloglobulus methanotrophs were observed in CH4-oxidizing biofilms. We show that microbial oxidation in canal biofilms is widespread and is likely driven by the same taxa found across cities with distinctly different canal water chemistry. The oxidation potential of the biofilms was not correlated with the amount of CH4 emitted but was related to the presence or absence of methanotrophs in the biofilms. This was controlled by whether there was enough CH4 present to sustain a methanotrophic community. These results demonstrate that canal wall biofilms can directly contribute to the mitigation of greenhouse gases from urban canals.

High Voltage: The Molecular Properties of Redox-Active Dissolved Organic Matter in Northern High-Latitude Lakes

Redox-active functional groups in dissolved organic matter (DOM) are crucial for microbial electron transfer and methane emissions. However, the extent of aquatic DOM redox properties across northern high-latitude lakes and their relationships with DOM composition have not been thoroughly described. We quantified electron donating capacity (EDC) and electron accepting capacity (EAC) in lake DOM from Canada to Alaska and assessed their relationships with parameters from absorbance, fluorescence, and ultrahigh resolution mass spectrometry (FT-ICR MS) analyses. EDC and EAC are strongly tied to aromaticity and negatively related to aliphaticity and protein-like content. Redox-active formulae spanned a range of aromaticity, including highly unsaturated phenolic formulae, and correlated negatively with many aliphatic N and S-containing formulae. This distribution illustrates the compositional diversity of redox-sensitive functional groups and their sensitivity to ecosystem properties such as local hydrology and residence time. Finally, we developed a reducing index (RI) to predict EDC in aquatic DOM from FT-ICR MS spectra and assessed its robustness using riverine DOM. As the hydrology of the northern high-latitudes continues to change, we expect differences in the quantity and partitioning of EDC and EAC within these lakes, which have implications for local water quality and methane emissions.

Humic substances derived from unconventional resources: extraction, properties, environmental impacts, and prospects

Humic substances comprise up to 70% of the total organic matter in soils, between 50 and 80% of the dissolved organic matter in water, and about 25% of dissolved organic matter in groundwater. Elucidation of the complex structure and properties of humic substances requires advanced analytical tools; however, they are of fundamental importance in medicine, agriculture, technology, and the environment, at large. Although they are naturally occurring, significant efforts are now being directed into their extraction owing to their relevance in improving soil properties and other environmental applications. In the present review, the different fractions of humic substances were elucidated, underlying the mechanisms by which they function in soils. Furthermore, the extraction processes of humic substances from various feedstock were illustrated, with the alkali extraction technique being the most widely used. In addition, the functional group and elemental composition of humic substances were discussed. The similarities and/or variations in the properties of humic substances as influenced by the source and origin of feedstock were highlighted. Finally, the environmental impacts of humic substances were discussed while highlighting prospects of humic acid production. This review offers enormous potential in identifying these knowledge gaps while recommending the need for inter- and multidisciplinary studies in making extensive efforts toward the sustainable production of humic substances.

Water column dynamics control nitrite-dependent anaerobic methane oxidation by Candidatus "Methylomirabilis" in stratified lake basins

We investigated microbial methane oxidation in the water column of two connected but hydrodynamically contrasting basins of Lake Lugano, Switzerland. Both basins accumulate large amounts of methane in the water column below their chemoclines, but methane oxidation efficiently prevents methane from reaching surface waters. Here we show that in the meromictic North Basin water column, a substantial fraction of methane was eliminated through anaerobic methane oxidation (AOM) coupled to nitrite reduction by Candidatus Methylomirabilis. Incubations with ¹⁴CH₄ and concentrated biomass from this basin showed enhanced AOM rates with nitrate (+62%) and nitrite (+43%). In the more dynamic South Basin, however, aerobic methanotrophs prevailed, Ca. Methylomirabilis was absent in the anoxic water column, and no evidence was found for nitrite-dependent AOM. Here, the duration of seasonal stratification and anoxia seems to be too short, relative to the slow growth rate of Ca. Methylomirabilis, to allow for the establishment of anaerobic methanotrophs, in spite of favorable hydrochemical conditions. Using 16 S rRNA gene sequence data covering nearly ten years of community dynamics, we show that Ca. Methylomirabilis was a permanent element of the pelagic methane filter in the North Basin, which proliferated during periods of stable water column conditions and became the dominant methanotroph in the system. Conversely, more dynamic water column conditions led to a decline of Ca. Methylomirabilis and induced blooms of the faster-growing aerobic methanotrophs Methylobacter and Crenothrix. Our data highlight that physical (mixing) processes and ecosystem stability are key drivers controlling the community composition of aerobic and anaerobic methanotrophs.

Non-negligible roles of archaea in coastal carbon biogeochemical cycling

Coastal zones are among the world's most productive ecosystems. They store vast amounts of organic carbon, as 'blue carbon' reservoirs, and impact global climate change. Archaeal communities are integral components of coastal microbiomes but their ecological roles are often overlooked. However, archaeal diversity, metabolism, evolution, and interactions, revealed by recent studies using rapidly developing cutting-edge technologies, place archaea as important players in coastal carbon biogeochemical cycling. We here summarize the latest advances in the understanding of archaeal carbon cycling processes in coastal ecosystems, specifically, archaeal involvement in CO₂ fixation, organic biopolymer transformation, and methane metabolism. We also showcase the potential to use of archaeal communities to increase carbon sequestration and reduce methane production, with implications for mitigating climate change.

Biocatalyst developed with recovered iron-rich minerals enhances the biotransformation of SARS-CoV-2 antiviral drugs in anaerobic bioreactors

The biotransformation of the SARS-CoV-2 antiviral drugs, ribavirin and tenofovir, was studied in methanogenic bioreactors. The role of iron-rich minerals, recovered from a metallurgic effluent, on the biotransformation process was also assessed. Enrichment of anaerobic sludge with recovered minerals promoted superior removal efficiency for both antivirals (97.4 % and 94.7 % for ribavirin and tenofovir, respectively) as compared to the control bioreactor lacking minerals, which achieved 58.5 % and 37.9 % removal for the same drugs, respectively. Further analysis conducted by liquid chromatography coupled to mass spectroscopy revealed several metabolites derived from the biotransformation of both antivirals. Interestingly, tracer analysis with ¹³CH₄ revealed that anaerobic methane oxidation coupled to Fe(III) reduction occurred in the enriched bioreactor, which was reflected in a lower content of methane in the biogas produced from this system, as compared to the control bioreactor. This treatment proposal is suitable within the circular economy concept, in which recovered metals from an industrial wastewater are applied in bioreactors to create a biocatalyst for promoting the biotransformation of emerging pollutants. This strategy may be appropriate for the anaerobic treatment of wastewaters originated from hospitals, as well as from the pharmaceutical and chemical sectors.

Biochar facilitates ferrihydrite reduction by Shewanella oneidensis MR-1 through stimulating the secretion of extracellular polymeric substances

Biochar can mediate extracellular electron transfer (EET) of Shewanella oneidensis MR-1 and subsequently facilitate dissimilatory reduction of iron(III) minerals. Previous studies mainly focused on the interaction of biochar and membrane cytochrome complexes to reveal the mediating mechanisms between biochar and S. oneidensis MR-1. However, the influence of biochar on the production and activity of extracellular polymeric substances (EPS) has long been neglected, despite the fact that EPS are commonly exudated by S. oneidensis MR-1 and can participate in a variety of electron transfer processes due to their redox activity. Here, we performed a series of microbial ferrihydrite reduction experiments in combination with electrochemical voltametric and impedance analyses to investigate the role of biochar in the formation and transformation of cell EPS during EET. Results showed that the added biochar not only functioned as an electron shuttle facilitating electron transfer, but also induced the secretion of five times more EPS by S. oneidensis MR-1, leading to a 1.4-fold faster ferrihydrite reduction in comparison with biochar-free setups. We further extracted the secreted EPS and found that the proportion of redox-active exoproteins was significantly (p < 0.05) increased in the EPS and resulted in a higher electron exchange capacity in secreted EPS. Such increased exoprotein content also induced a higher ratio of exoprotein to exopolysaccharide, which largely dropped diffusion and electron transfer impedance of EPS to 1.1 and 18 Ω, respectively, and accelerated the EET and thus the ferrihydrite reduction. Overall, our findings revealed the interactions between biochar and EPS matrices, which could potentially play a critical role in EET processes in both environmental or biotechnological systems.

Denitrifying anaerobic methane oxidation and mechanisms influencing it in Yellow River Delta coastal wetland soil, China

Methane oxidation coupled to denitrification is mediated by Candidatus "Methylomirabilis oxyfera" (M. oxyfera), which belongs to the candidate phylum NC10, and plays a crucial role in the global carbon and nitrogen cycle. Using the Yellow River Delta coastal wetland as the study area, molecular biology technology and laboratory incubation were used to determine the abundance of NC10 bacteria and the denitrifying anaerobic methane oxidation (DAMO) rate in soils from different vegetation areas. The results of the electrophoresis detection show that M. oxyfera-like bacteria can be found in the four types of soils, according to the growth analysis by the system, OTU1 (SA) has been found the highest similarity to first-discovered Candidatus Methylomir-abilis oxyfera (FP565575) (over 98%); Vegetation cover significantly increased the abundance of M. oxyfera-like bacteria compared to beach areas, which abundance was significantly higher in deeper layers than in surface ones. Nitrate, nitrite, total nitrogen, and conductivity were identified as the main environmental factors affecting the DAMO rate. This study showed that both groups A and B of Candidatus M. oxyfera-like bacteria exist in the coastal wetland of the Yellow River Delta, which provides molecular biological evidence for the existence of the DAMO process therein. Moreover, it was revealed the influence mechanism of physical and chemical characteristics of each region on the DAMO rate. This is of significance for furthering our understanding of the coupled effect of the global carbon and nitrogen cycle.

Redox reaction between solid-phase humins and Fe(III) compounds: Toward a further understanding of the redox properties of humin and its possible environmental effects

Redox reactions between humic substances and Fe(III) compounds play a critical role in the biogeochemical cycle of pollutants. Most humic substances in soils and sediments are in a solid form (i.e. humin (HM)). In order to assess the contribution of electron shuttling via HM within the electron transfer network in natural environments and to predict environmental fate of pollutants associated with iron oxides, it is necessary to understand the electron transfer processes from HM to the environmentally relevant Fe(III) minerals, and to examine the redox reversibility of HM. The results of this study demonstrated that non-reduced HMs could only donate electrons to dissolved ferric citrate and poorly crystalline ferrihydrite, but reduced HMs could also reduce hematite and magnetite that had high crystallinity. The degree of reduction depended on the difference in redox potential and the crystallinity of the Fe(III) compounds. The electron-accepting capacities of different HMs correlated well with their organic carbon content, and quinones and Fe-bound organic component were important electron-accepting groups in HMs. Furthermore, the redox reversibility experiments demonstrated that HMs could maintain stable electron transfer capacities over three reduction-oxidation cycles, indicating that the HM could be an environmentally sustainable electron shuttle. Our results suggest that (1) HM may play an unrecognized and important role in biogeochemical cycles of pollutants in Fe(III) mineral-rich environments; (2) electron shuttling through HM to ferric citrate and ferrihydrite can occur even in the presence of O₂; and (3) HM would be a promising material for environmental remediation.

Multiple Groups of Methanotrophic Bacteria Mediate Methane Oxidation in Anoxic Lake Sediments

Freshwater lakes represent an important source of the potent greenhouse gas methane (CH4) to the atmosphere. Methane emissions are regulated to large parts by aerobic (MOx) and anaerobic (AOM) oxidation of methane, which are important CH4 sinks in lakes. In contrast to marine benthic environments, our knowledge about the modes of AOM and the related methanotrophic microorganisms in anoxic lake sediments is still rudimentary. Here, we demonstrate the occurrence of AOM in the anoxic sediments of Lake Sempach (Switzerland), with maximum in situ AOM rates observed within the surface sediment layers in presence of multiple groups of methanotrophic bacteria and various oxidants known to support AOM. However, substrate-amended incubations (with NO2 -, NO3 -, SO4 2-, Fe-, and Mn-oxides) revealed that none of the electron acceptors previously reported to support AOM enhanced methane turnover in Lake Sempach sediments under anoxic conditions. In contrast, the addition of oxygen to the anoxic sediments resulted in an approximately 10-fold increase in methane oxidation relative to the anoxic incubations. Phylogenetic and isotopic evidence indicate that both Type I and Type II aerobic methanotrophs were growing on methane under both oxic and anoxic conditions, although methane assimilation rates were an order of magnitude higher under oxic conditions. While the anaerobic electron acceptor responsible for AOM could not be identified, these findings expand our understanding of the metabolic versatility of canonically aerobic methanotrophs under anoxic conditions, with important implications for future investigations to identify methane oxidation processes. Bacterial AOM by facultative aerobic methane oxidizers might be of much larger environmental significance in reducing methane emissions than previously thought.

Metabolic potential of anaerobic methane oxidizing archaea for a broad spectrum of electron acceptors

Methane (CH₄) is a potent greenhouse gas significantly contributing to the climate warming we are currently facing. Microorganisms play an important role in the global CH₄ cycle that is controlled by the balance between anaerobic production via methanogenesis and CH₄ removal via methanotrophic oxidation. Research in recent decades advanced our understanding of CH₄ oxidation, which until 1976 was believed to be a strictly aerobic process. Anaerobic oxidation of methane (AOM) coupled to sulfate reduction is now known to be an important sink of CH₄ in marine ecosystems. Furthermore, in 2006 it was discovered that anaerobic CH₄ oxidation can also be coupled to nitrate reduction (N-DAMO), demonstrating that AOM may be much more versatile than previously thought and linked to other electron acceptors. In consequence, an increasing number of studies in recent years showed or suggested that alternative electron acceptors can be used in the AOM process including Fe^III, Mn^IV, As^V, Cr^VI, Se^VI, Sb^V, V^V, and Br^V. In addition, humic substances as well as biochar and perchlorate (ClO₄^-) were suggested to mediate AOM. Anaerobic methanotrophic archaea, the so-called ANME archaea, are key players in the AOM process, yet we are still lacking deeper understanding of their metabolism, electron acceptor preferences and their interaction with other microbial community members. It is still not clear whether ANME archaea can oxidize CH₄ and reduce metallic electron acceptors independently or via electron transfer to syntrophic partners, interspecies electron transfer, nanowires or conductive pili. Therefore, the aim of this review is to summarize and discuss the current state of knowledge about ANME archaea, focusing on their physiology, metabolic flexibility and potential to use various electron acceptors.

Establishment of the upstream processing for renewable production of hydrogen using vermicomposting-tea and molasses as substrate

This study aimed to establish the optimal operational conditions for hydrogen production using vermicomposting-tea and sugarcane molasses as substrate. The experiments were carried out by triplicate in 110 ml serological bottles, a Box-Behnken design of experiments was performed in anaerobic dark conditions. The maximal hydrogen production (HP), hydrogen production rate (HPR), and hydrogen yield (HY) attained were 1021.0 mlL^-1, 5.32 mlL^-1h^-1, and 60.3 mlL_H2^-1/g_TCC, respectively. The statistical model showed that the optimal operational conditions for pH, molasses concentration, and temperature were 6.5; 30 % (v/v) and 25 °C. The bioreactor run showed 17.202 L of hydrogen, 0.58 Lh^-1, and 77.2 ml_H2g_TCC^-1 For HP, HPR, and HY. Chemometric analysis for the volatile fatty acids obtained at the fermentation showed that only two principal components are required to explain 90 % of the variance. The representative pathways for hydrogen production were acetic and butyric acids. This study established the operational conditions for the upstream processing amenable to pilot and industrial-scale operations. Our results add value to molasses within the circular economy for hydrogen production using a novel consortium from vermicompost.

Performance and enhancement mechanism of redox mediator for nitrate removal in immobilized bioreactor with preponderant microbes

The acceleration of nitrate removal in wastewater treatment by redox mediator (RM) is greatly weakened due to wash-out loss and mass transfer resistance (low hydrophilia) of RM during operation. In this study, an RM reactor with the fixed 1-Amino-4-hydroxyanthraquinone (AHAQ) and three core strains was established and achieved high nitrate removal efficiency (NRE) under low carbon to nitrogen ratio (C/N) and short hydraulic retention time (HRT) conditions, with the maximum efficiency of 99.41% (14.00 mg L-1 h-1) and average improvement by 11.97% (1.41 mg L-1 h-1). This acceleration led to more proportion of carbon consumption by denitrifying bacteria and improved their competitiveness against others in carbon deficiency, although resulting in nitrite accumulation (NIA) in lower C/N. The RM reactor induced the decorrelation tendencies between NRE and active extracellular organics and more sensitive denitrification toward C/N, which favored the stability of effluent organics and biological activities. The increase of oxidative phosphorylation and ubiquinone and other terpenoid-quinone biosynthesis pathway suggested electron transport activity was potentially enhanced by AHAQ. Although the lower C/N deteriorated the reactor NRE, the abundances of amino acids-, fatty acids- and carbohydrate-related metabolisms (45% of the total up-regulating pathways) were enhanced to utilize carbon source effectively. Meanwhile, the enhanced phosphotransferase system facilitated the balance between carbon and nitrogen metabolism. These indicated the changes in biological strategy to grow better and resist the adverse condition. This study highlighted the superior NRE by AHAQ in an immobilized reactor with core strains and more importantly, extended the RM application in wastewater treatment.

Microbial dynamics and activity of denitrifying anaerobic methane oxidizers in China's estuarine and coastal wetlands

Estuarine and coastal wetlands, which act as large sources of methane (CH₄) and undergo substantial loading of anthropogenic nitrogen (N), provide ideal conditions for denitrifying anaerobic methane oxidation (DAMO) to occur. Yet the microbial mechanisms governing DAMO and the main driving factors in estuarine and coastal ecosystems remain unclear. This study investigated the spatiotemporal distribution and associated activity of DAMO microorganisms along a wide swath of China's coastline (latitudinal range: 22-41°N) using molecular assays and isotope tracing techniques. We uncovered significant spatial and seasonal variation in DAMO bacterial community structure, whereas DAMO archaeal community structure exhibited no seasonal differences. The abundance of DAMO bacterial pmoA gene (2.2 × 10⁵-1.0 × 10⁷ copies g^-1) was almost one order of magnitude higher than that of DAMO archaeal mcrA gene (8.7 × 10⁴ -1.8 × 10⁶ copies g^-1). A significant positive correlation between pmoA and mcrA gene abundances (p < 0.01) was observed, indicating that DAMO bacteria and archaea may cooperate closely and thus complete nitrate elimination. Potential DAMO rates, in the range of 0.09-23.4 nmol ¹³CO₂ g^-1 day^-1 for nitrite-DAMO and 0.03-43.7 nmol ¹³CO₂ g^-1 day^-1 for nitrate-DAMO, tended to be greater in the relatively warmer low-latitudes. Potential DAMO rates were weakly positively correlated with gene abundances, suggesting that DAMO microbial activity could not be predicted directly by gene abundance alone. The heterogeneous variability of DAMO was shaped by interactions among key environmental characteristics (sediment texture, N availability, TOC, Fe³⁺, salinity of water, and temperature). On a broader continental scale, potential N removal rates of 0.1-11.2 g N m^-2 yr^-1 were estimated via nitrite-DAMO activity in China's coastal wetlands. Overall, our results highlight the widespread distribution of DAMO microbes and their potential role in eliminating excess N inputs and reducing CH₄ emissions in estuarine and coastal ecosystems, which could help mitigate global warming.

Influence of Environmental Factors on the Variability of Archaeal Communities in a Karst Wetland

Archaea are ubiquitous and play an important role in elemental cycles in Earth’s biosphere; but little is known about their diversity, distribution, abundance, and impact in karst environments. The present study investigated the effect of environmental factors on the variability of archaeal communities in the sediment of the Huixian karst wetland, the largest karst wetland in South China. Sediment cores were obtained from four sampling sites with different water depths and macrophyte inhabitants in both the winter of 2016 and the summer of 2018. The community analysis was based on PacBio sequencing and quantitative PCR of the archaeal 16S rRNA gene. The results showed that Euryarchaeota (57.4%) and Bathyarchaeota (38.7%) were dominant in all the samples. Methanogenic Methanosarcinales (25.1%) and Methanomicrobiales (13.7%), and methanotrophic archaea ANME-2d (9.0%) were the dominant Euryarchaeota; MCG-11 (16.5%), MCG-6 (9.1%), and MCG-5b (5.5%) were the dominant Bathyarchaeota. The community composition remained stable between summer and winter, and the vertical distributions of the archaeal phyla conformed to two patterns among the four sampling sites. In the winter samples, the archaeal 16S rRNA gene abundance was approximately 1.0E+10 copies/g of wet sediment and the Shannon index was 7.3±5, which were significantly higher than in the summer samples and in other karst environments. A correlation analysis showed that the moisture content and pH were the factors that mostly affected the archaeal communities. The prevalence of nitrate in the summer may be a key factor causing a significant decrease in archaeal abundance and diversity. Two features specific to karst environments, calcium-richness and weak alkalescence of the water supplies, may benefit the prevalence of bathyarchaeotal subgroups MCG-11, MCG-5b, and MCG-6. These results suggest that in karst wetlands, most of the archaea belong to clades that have significant roles in carbon turnover; their composition remains stable, but their abundance and diversity vary significantly from season to season.

Source or sink? A study on the methane flux from mangroves stems in Zhangjiang estuary, southeast coast of China

Mangrove ecosystems are an important component of "blue carbon". However, it is not clear whether the stems play roles in the CH₄ budget of mangrove ecosystems. This study investigated the CH₄ emission from mangrove stems and its potential driving factors. We set up six sample plots in the Zhangjiang Estuary National Mangrove Nature Reserve, where Kandelia obovata, Avicennia marina and Aegiceras corniculata are the main mangrove tree species. Soil properties such as total carbon content, redox potential and salinity were determined in each plot. The dynamic chamber method was used to measure mangrove stems and soil CH₄ fluxes. Combined field survey results with Principal Component Analysis (PCA) of soil properties, we divided the six plots into two sites (S1 and S2) to perform statistical analyses of stem CH₄ fluxes. Then the CH₄ fluxes from mangrove tree stems and soil were further scaled up to the ecosystem level through the mapping model. Under different backgrounds of soil properties, salinity and microbial biomass carbon were the main factors modified soil CH₄ fluxes in the two sites, and further affected the stem CH₄ fluxes of mangroves. The soil of both sites are sources of CH₄, and the soil CH₄ emission of S2 was about twice higher than that of S1. Results of upscaling model showed that mangrove stems in S1 were CH₄ sinks with -105.65 g d^-1. But stems in S2 were CH₄ sources around 1448.24 g d^-1. Taken together, our results suggested that CH₄ emission from mangrove soils closely depends on soils properties. And mangrove stems were found to act as both CH₄ sources and CH₄ sinks depend on soil CH₄ production. Therefore, when calculating the CH₄ budget of the mangrove ecosystem, the contribution of mangrove plant stems cannot be ignored.

Lower C/N ratio induces prior utilization of soluble microbial products with more dramatic variability and higher biodegradability in denitrification by strain YSF15

The emphasis of this study lies in how strain SYF15 regulates molecular weight (MW) fractions of soluble microbial products (SMPs) in response to low carbon to nitrogen (C/N) ratio, with high denitrification performance (over 99%). Results indicated SMPs with MW >100 and <50 kDa undoubtedly participated in denitrification before 12.0 h in C/N = 2.0, while sodium acetate was preferred in C/N = 5.0, indicating strain YSF15 was induced to degrade SMPs as a carbon source in low C/N. Additionally, lower C/N activated the extracellular metabolism, with increased fluorescence regional integration (FRI) volume amplitude by 48.08 and 53.43% (versus C/N = 5.0) in MW = 50-10 and 10-3 kDa, respectively. The FRI volume of proteins yielded greater with more degradable components than higher C/N in MW = 100-3 kDa, whereas polysaccharide and protein concentrations differed little with considerable biodegradability, implying components inside protein changed dramatically. This pioneering work contributed to the understanding of denitrification with carbon source deficiency.

Artificial humic substances improve microbial activity for binding CO2

Humic substances (HS) are an indicator of fertile soils, but more and more soils keep losing there humic matter. This is mostly due to anthropogenic over-cultivation. Artificial humic acid (A-HA) and artificial fulvic acid were synthesized from agricultural litter, with high similarity to natural HS extracted from soil. These samples were added to black soils, and soil activity and nutrients availability were analyzed. The results demonstrate that the content of dissolved organic matter and total organic carbon (TOC) largely increased. The increase in TOC 28 days after addition of A-HA was 21.4 g/kg. This was much higher than the amount of the added A-HA carbon, which was 0.3 g/kg. As a "secondary" benefit, nutrient availability is increased, promoting the growth of plants. Using high-throughput sequencing we revealed that A-HA strongly supports the growth of photosynthetic Rubrivivax gelatinosus, which induced the carbon sequestration. Thus, application of artificial HS shows potential for biologically amplified carbon sequestration within black soils.

Interactions between Humic Substances and Microorganisms and Their Implications for Nature-like Bioremediation Technologies

The state of the art of the reported data on interactions between microorganisms and HSs is presented herein. The properties of HSs are discussed in terms of microbial utilization, degradation, and transformation. The data on biologically active individual compounds found in HSs are summarized. Bacteria of the phylum Proteobacteria and fungi of the phyla Basidiomycota and Ascomycota were found to be the main HS degraders, while Proteobacteria, Actinobacteria, Bacteroidetes, and Firmicutes were found to be the predominant phyla in humic-reducing microorganisms (HRMs). Some promising aspects of interactions between microorganisms and HSs are discussed as a feasible basis for nature-like biotechnologies, including the production of enzymes capable of catalyzing the oxidative binding of organic pollutants to HSs, while electron shuttling through the utilization of HSs by HRMs as electron shuttles may be used for the enhancement of organic pollutant biodegradation or lowering bioavailability of some metals. Utilization of HSs by HRMs as terminal electron acceptors may suppress electron transfer to CO2, reducing the formation of CH4 in temporarily anoxic systems. The data reported so far are mostly related to the use of HSs as redox compounds. HSs are capable of altering the composition of the microbial community, and there are environmental conditions that determine the efficiency of HSs. To facilitate the development of HS-based technologies, complex studies addressing these factors are in demand.

Global distribution and environmental drivers of methylmercury production in sediments

Neurotoxic methylmercury (MeHg) in environments poses substantial risks to human health. Saturated sediments are basic sources of MeHg in food chains; however, distribution patterns and environmental drivers of MeHg at a global scale remain largely unexplored. Here, we characterized global patterns of MeHg distribution and environmental drivers of MeHg production based on 495 sediment samples across five typical ecosystems from the literature (1995-2018) and our own field survey. Our results showed the MeHg concentration ranged from 0.009 to 55.7 μg kg^-1 across the different ecosystems, and the highest MeHg concentration and Hg methylation potential were from the sediments of paddy and marine environments, respectively. Further, using combined analysis of random forest and structural equation modeling, we identified temperature and precipitation as important regulators of MeHg production after accounting for the well-known drivers including Hg availability and sediment geochemistry. More importantly, we found increased MeHg production in sediments with elevated mean annual Hg precipitation, and warmer temperature could also accelerate MeHg production by facilitating activities of microbial methylators. Together, this work advances our understanding of global MeHg distribution in sediments and environmental drivers, which are fundamental to the prediction and management of MeHg production and its potential health risk globally.

Enhanced denitrification performance of strain YSF15 by different molecular weight of humic acid: Mechanism based on the biological products and activity

This study aimed to clarify the facilitation by humic acid (HA) fractions (>100, 100-50, 50-30, 30-10, 10-3 and < 3 kDa), as well as their variable effect on denitrification of strain YSF15 under low carbon-nitrogen ratio and nitrate conditions. All HA fractions with 7 mg L^-1 were able to accelerate nitrate removal by strain YSF15 and the role of carbon source was inconspicuous. The molecular weight (MW) < 3 kDa was the best promoter for denitrification, with the efficiency (91.32%) far exceeding the control (43.27%), resulting in more stable oxidation-reduction potential, higher nutrients utilization and electron transport activity, more compact protein structure in extracellular polymeric substances and the production of endogenous HA. Each HA fraction could change the bio-products and denitrification activity of strain YSF15. This study sheds light on the facilitation of HA in denitrification from the perspective of MW, implying the potential effect of HA on denitrifying bacteria in community.

Fundamentals and potential environmental significance of denitrifying anaerobic methane oxidizing archaea

Many properties of denitrifying anaerobic methane oxidation (DAMO) bacteria have been explored since their first discovery, while DAMO archaea have attracted less attention. Since nitrate is more abundant than nitrite not only in wastewater but also in the natural environment, in depth investigations of the nitrate-DAMO process should be conducted to determine its environmental significance in the global carbon and nitrogen cycles. This review summarizes the status of research on DAMO archaea and the catalyzed nitrate-dependent anaerobic methane oxidation, including such aspects as laboratory enrichment, environmental distribution, and metabolic mechanism. It is shown that appropriate inocula and enrichment parameters are important for the culture enrichment and thus the subsequent DAMO activity, but there are still relatively few studies on the environmental distribution and physiological metabolism of DAMO archaea. Finally, some hypotheses and directions for future research on DAMO archaea, anaerobic methanotrophic archaea, and even anaerobically metabolizing archaea are also discussed.

Microbial abundance and activity of nitrite/nitrate-dependent anaerobic methane oxidizers in estuarine and intertidal wetlands: Heterogeneity and driving factors

Nitrite/nitrate-dependent anaerobic methane oxidation (n-DAMO) is a crucial link between carbon and nitrogen cycles in estuarine and coastal ecosystems. However, the factors that affect the heterogeneous variability in n-DAMO microbial abundance and activity across estuarine and intertidal wetlands remain unclear. This study examined the spatiotemporal variations in n-DAMO microbial abundance and associated activity in different estuarine and intertidal habitats via quantitative PCR and ¹³C stable isotope experiments. The results showed that Candidatus 'Methylomirabilis oxyfera' (M. oxyfera)-like DAMO bacteria and Candidatus 'Methanoperedens nitroreducens' (M. nitroreducens)-like DAMO archaea cooccurred in estuarine and intertidal wetlands, with a relatively higher abundance of the M. oxyfera-like bacterial pmoA gene (4.0 × 10⁶-7.6 × 10⁷ copies g^-1 dry sediment) than the M. nitroreducens-like archaeal mcrA gene (4.5 × 10⁵-9.4 × 10⁷ copies g^-1 dry sediment). The abundance of the M. oxyfera-like bacterial pmoA gene was closely associated with sediment pH and ammonium (P<0.05), while no significant relationship was detected between M. nitroreducens-like archaeal mcrA gene abundance and the measured environmental parameters (P>0.05). High n-DAMO microbial activity was observed, which varied between 0.2 and 84.3 nmol ¹³CO₂ g^-1 dry sediment day^-1 for nitrite-DAMO bacteria and between 0.4 and 32.6 nmol ¹³CO₂ g^-1 dry sediment day^-1 for nitrate-DAMO archaea. The total n-DAMO potential tended to be higher in the warm season and in the upstream freshwater and low-salinity estuarine habitats and was significantly related to sediment pH, total organic carbon, Fe(II), and Fe(III) contents (P<0.05). In addition to acting as an important methane (CH₄) sink, n-DAMO microbes had the potential to consume a substantial amount of reactive N in estuarine and intertidal environments, with estimated nitrogen elimination rates of 0.5-224.7 nmol N g^-1 dry sediment day^-1. Overall, our investigation reveals the distribution pattern and controlling factors of n-DAMO bioprocesses in estuarine and intertidal marshes and gains a better understanding of the coupling mechanisms between carbon and nitrogen cycles.

Effects of Dissolved Organic Matter on the Bioavailability of Heavy Metals During Microbial Dissimilatory Iron Reduction: A Review

Dissolved organic matter (DOM), a type of mixture containing complex structures and interactions, has important effects on environmental processes such as the complexation and interface reactions of soil heavy metals. Furthermore, microbial dissimilatory iron reduction (DIR), a key process of soil biogeochemical cycle, is closely related to the migration and transformation of heavy metals and causes the release of DOM by carbon-ferrihydrite associations. This chapter considers the structural properties and characterization techniques of DOM and its interaction with microbial dissimilated iron. The effect of DOM on microbial DIR is specifically manifested as driving force properties, coprecipitation, complexation, and electronic shuttle properties. The study, in addition, further explored the influence of pH, microorganisms, salinity, and light conditions, mechanism of DOM and microbial DIR on the toxicity and bioavailability of different heavy metals. The action mechanism of these factors on heavy metals can be summarized as adsorption coprecipitation, methylation, and redox. Based on the findings of the review, future research is expected to focus on: (1) The combination of DOM functional group structure analysis with high-resolution mass spectrometry technology and electrochemical methods to determine the electron supply in the mechanism of DOM action on DIR; (2) Impact of DOM on differences in structure and functions of plant rhizosphere in heavy metal contaminated soil; and (3) Bioavailability of DOM-dissociative iron-reducing bacteria-heavy metal ternary binding on rhizosphere heavy metals under dynamic changes of water level from the perspective of the differences in DOM properties, such as polarity, molecular weight, and functional group.

The role of humic substances in mitigating greenhouse gases emissions: Current knowledge and research gaps

Humic substances (HS) constitute a highly transformed fraction of natural organic matter (NOM) with a heterogeneous structure, which is rich in electron-transferring functional moieties. Because of this feature, HS display a versatile reactivity with a diversity of environmentally relevant organic and inorganic compounds either by abiotic or microbial processes. Consequently, extensive research has been conducted related to the potential of HS to drive relevant processes in bio-engineered systems, as well as in the biogeochemical cycling of key elements in natural environments. Nevertheless, the increase in the number of reports examining the relationship between HS and the microorganisms related to the production and consumption of greenhouse gases (GHG), the main drivers of global warming, has just emerged in the last years. In this paper, we discuss the importance of HS, and their analogous redox-active organic molecules (RAOM), on controlling the emission of three of the most relevant GHG due to their tight relationship with microbial activity, their abundance on the Earth's atmosphere, and their important global warming potentials: carbon dioxide (CO₂), methane (CH₄) and nitrous oxide (N₂O). The current knowledge gaps concerning the microbial component, on-site occurrence, and environmental constraints affecting these HS-mediated processes are provided. Furthermore, strategies involving the metabolic traits that GHG-consuming/HS-reducing and -oxidizing microbes display for the development of environmental engineered processes are also discussed.

New applications of quinone redox mediators: Modifying nature-derived materials for anaerobic biotransformation process

Due to their wide-distribution, high-biocompatibility and low-cost, nature-derived quinone redox mediators (NDQRM) have shown great potential in bioremediation through mediating electron transfers between microorganisms and between microorganisms and contaminants in anaerobic biotransformation processes. It is obvious that their performance in bioremediation was limited by the availability of quinone-based groups in NDQRM. A sustainable solution is to enhance the electron transfer capacity and retention capacity by the modification of NDQRM. Therefore, this review comprehensively summarized the modification techniques of NDQRM according to their multiple roles in anaerobic biotransformation systems. In addition, their potential applications in greenhouse gas mitigation, contaminant degradation in anaerobic digestion, contaminant bioelectrochemical remediation and energy recovery were discussed. And the problems that need to be addressed in the future were pointed out. The obtained knowledge would promote the exploration of novel NDQRM, and provide suggestions for the design of anaerobic consortia in biotransformation systems.

Anaerobic oxidation of methane and associated microbiome in anoxic water of Northwestern Siberian lakes

Arctic lakes emit methane (CH₄) to the atmosphere. The magnitude of this flux could increase with permafrost thaw but might also be mitigated by microbial CH₄ oxidation. Methane oxidation in oxic water has been extensively studied, while the contribution of anaerobic oxidation of methane (AOM) to CH₄ mitigation is not fully understood. We have investigated four Northern Siberian stratified lakes in an area of discontinuous permafrost nearby Igarka, Russia. Analyses of CH₄ concentrations in the water column demonstrated that 60 to 100% of upward diffusing CH₄ was oxidized in the anoxic layers of the four lakes. A combination of pmoA and mcrA gene qPCR and 16S rRNA gene metabarcoding showed that the same taxa, all within Methylomonadaceae and including the predominant genus Methylobacter as well as Crenothrix, could be the major methane-oxidizing bacteria (MOB) in the anoxic water of the four lakes. Correlation between Methylomonadaceae and OTUs within Methylotenera, Geothrix and Geobacter genera indicated that AOM might occur in an interaction between MOB, denitrifiers and iron-cycling partners. We conclude that MOB within Methylomonadaceae could have a crucial impact on CH₄ cycling in these Siberian Arctic lakes by mitigating the majority of produced CH₄ before it leaves the anoxic zone. This finding emphasizes the importance of AOM by Methylomonadaceae and extends our knowledge about CH₄ cycle in lakes, a crucial component of the global CH₄ cycle.

Assessing the Effect of Humic Substances and Fe(III) as Potential Electron Acceptors for Anaerobic Methane Oxidation in a Marine Anoxic System

Marine anaerobic methane oxidation (AOM) is generally assumed to be coupled to sulfate reduction, via a consortium of anaerobic methane-oxidizing archaea (ANME) and sulfate-reducing bacteria (SRB). ANME-1 are, however, often found as single cells, or only loosely aggregated with SRB, suggesting they perform a form of AOM independent of sulfate reduction. Oxidized metals and humic substances have been suggested as potential electron acceptors for ANME, but up to now, AOM linked to reduction of these compounds has only been shown for the ANME-2 and ANME-3 clades. Here, the effect of the electron acceptors anthraquinone-disulfonate (AQDS), a humic acids analog, and Fe3+ on anaerobic methane oxidation were assessed by incubation experiments with anoxic Black Sea water containing ANME-1b. Incubation experiments with 13C-methane and AQDS showed a stimulating effect of AQDS on methane oxidation. Fe3+ enhanced the ANME-1b abundance but did not substantially increase methane oxidation. Sodium molybdate, which was added as an inhibitor of sulfate reduction, surprisingly enhanced methane oxidation, possibly related to the dominant abundance of Sulfurospirillum in those incubations. The presented data suggest the potential involvement of ANME-1b in AQDS-enhanced anaerobic methane oxidation, possibly via electron shuttling to AQDS or via interaction with other members of the microbial community.

Niche differentiation of denitrifying anaerobic methane oxidizing bacteria and archaea leads to effective methane filtration in a Tibetan alpine wetland

Denitrifying anaerobic methane oxidation (DAMO) is a vital methane sink in wetlands. However, the interactions and niche partitioning of DAMO bacteria and archaea in freshwater wetland soils, in addition to the interactions among microorganisms that couple methane and nitrogen cycling is still unclear, despite that these factors may govern the fate of methane and nitrogen in wetlands. Here, we evaluated the vertical distribution of DAMO bacteria and archaea in soil layers along with the potential interactions among populations in the methane-coupled nitrogen cycling microbial community of Tibetan freshwater wetlands. A combination of molecular biology, stable isotope tracer technology, and microbial bioinformatics was used to evaluate these interrelated dynamics. The abundances and potential methane oxidation rates indicated that DAMO bacteria and archaea differentially occupy surface and subsurface soil layers, respectively. The inferred interactions between DAMO bacteria and nitrogen cycling microorganisms within their communities are complex, DAMO bacteria apparently achieve an advantage in the highly competitive environment of surface soils layers and occupy a specific niche in those environments. Conversely, the apparent relationships between DAMO archaea and nitrogen cycling microorganisms are relatively simple, wherein high levels of cooperation are inferred between DAMO archaea and nitrate-producing organisms in subsurface soils layers. These results suggest that the vertical distribution patterns of DAMO bacteria and archaea enable them to play significant roles in the methane oxidation activity of different soil layers and collectively form an effective methane filtration consortium.

Impact of Electron Acceptor Availability on Methane-Influenced Microorganisms in an Enrichment Culture Obtained From a Stratified Lake

Methanotrophs are of major importance in limiting methane emissions from lakes. They are known to preferably inhabit the oxycline of stratified water columns, often assumed due to an intolerance to atmospheric oxygen concentrations, but little is known on the response of methanotrophs to different oxygen concentrations as well as their preference for different electron acceptors. In this study, we enriched a methanotroph of the Methylobacter genus from the oxycline and the anoxic water column of a stratified lake, which was also present in the oxic water column in the winter. We tested the response of this Methylobacter-dominated enrichment culture to different electron acceptors, i.e., oxygen, nitrate, sulfate, and humic substances, and found that, in contrast to earlier results with water column incubations, oxygen was the preferred electron acceptor, leading to methane oxidation rates of 45–72 pmol cell⁻¹ day⁻¹. Despite the general assumption of methanotrophs preferring microaerobic conditions, methane oxidation was most efficient under high oxygen concentrations (>600 μM). Low (<30 μM) oxygen concentrations still supported methane oxidation, but no methane oxidation was observed with trace oxygen concentrations (<9 μM) or under anoxic conditions. Remarkably, the presence of nitrate stimulated methane oxidation rates under oxic conditions, raising the methane oxidation rates by 50% when compared to oxic incubations with ammonium. Under anoxic conditions, no net methane consumption was observed; however, methanotroph abundances were two to three times higher in incubations with nitrate and sulfate compared to anoxic incubations with ammonium as the nitrogen source. Metagenomic sequencing revealed the absence of a complete denitrification pathway in the dominant methanotroph Methylobacter, but the most abundant methylotroph Methylotenera seemed capable of denitrification, which can possibly play a role in the enhanced methane oxidation rates under nitrate-rich conditions.

Humic Substances Mediate Anaerobic Methane Oxidation Linked to Nitrous Oxide Reduction in Wetland Sediments

Humic substances are redox-active organic molecules, which play pivotal roles in several biogeochemical cycles due to their electron-transferring capacity involving multiple abiotic and microbial transformations. Based on the redox properties of humic substances, and the metabolic capabilities of microorganisms to reduce and oxidize them, we hypothesized that they could mediate the anaerobic oxidation of methane (AOM) coupled to the reduction of nitrous oxide (N₂O) in wetland sediments. This study provides several lines of evidence indicating the coupling between AOM and the reduction of N₂O through an extracellular electron transfer mechanism mediated by the redox active functional groups in humic substances (e.g., quinones). We found that the microbiota of a sediment collected from the Sisal wetland (Yucatán Peninsula, southeastern Mexico) was able to reduce N₂O (4.6 ± 0.5 μmol N₂O g _sed.^–1 day^–1) when reduced humic substances were provided as electron donor in a close stoichiometric relationship. Furthermore, a microbial enrichment derived from the wetland sediment achieved simultaneous ¹³CH₄ oxidation (1.3 ± 0.1 μmol ¹³CO₂ g _sed.^–1 day^–1) and N₂O reduction (25.2 ± 0.5 μmol N₂O g _sed.^–1 day^–1), which was significantly dependent on the presence of humic substances as an extracellular electron shuttle. Taxonomic characterization based on 16S rRNA gene sequencing revealed Acinetobacter (a ɣ-proteobacterium), the Rice Cluster I from the Methanocellaceae and an uncultured archaeon from the Methanomicrobiaceae family as the microbes potentially involved in AOM linked to N₂O reduction mediated by humic substances. The findings reported here suggest that humic substances might play an important role to prevent the emission of greenhouse gases (CH₄ and N₂O) from wetland sediments. Further efforts to evaluate the feasibility of this novel mechanism under the natural conditions prevailing in ecosystems must be considered in future studies.

Reactivity, fate and functional roles of dissolved organic matter in anoxic inland waters

The transit of organic matter (OM) through the aquatic compartment of its global cycle has been intensively studied, traditionally with a focus on the processing and degradation of its dissolved fraction (dissolved organic matter, DOM). Because this is so intimately related to oxidation, the notion tenaciously persists that where oxygen is absent, DOM turnover is markedly slowed. In this Opinion Piece, we outline how diverse processes shape, transform and degrade DOM also in anoxic aquatic environments, and we focus here on inland waters as a particular case study. A suite of biogeochemical DOM functions that have received comparatively little attention may only be expressed in anoxic conditions and may result in enhanced biogeochemical roles of these deoxygenated habitats on a network scale.

Sub-oxycline methane oxidation can fully uptake CH4 produced in sediments: case study of a lake in Siberia

It is commonly assumed that methane (CH₄) released by lakes into the atmosphere is mainly produced in anoxic sediment and transported by diffusion or ebullition through the water column to the surface of the lake. In contrast to that prevailing idea, it has been gradually established that the epilimnetic CH₄ does not originate exclusively from sediments but is also locally produced or laterally transported from the littoral zone. Therefore, CH₄ cycling in the epilimnion and the hypolimnion might not be as closely linked as previously thought. We utilized a high-resolution method used to determine dissolved CH₄ concentration to analyze a Siberian lake in which epilimnetic and hypolimnetic CH₄ cycles were fully segregated by a section of the water column where CH₄ was not detected. This layer, with no detected CH₄, was well below the oxycline and the photic zone and thus assumed to be anaerobic. However, on the basis of a diffusion-reaction model, molecular biology, and stable isotope analyses, we determined that this layer takes up all the CH₄ produced in the sediments and the deepest section of the hypolimnion. We concluded that there was no CH₄ exchange between the hypolimnion (dominated by methanotrophy and methanogenesis) and the epilimnion (dominated by methane lateral transport and/or oxic production), resulting in a vertically segregated lake internal CH₄ cycle.

Methane oxidation in anoxic lake water stimulated by nitrate and sulfate addition

Methanotrophic bacteria play a key role in limiting methane emissions from lakes. It is generally assumed that methanotrophic bacteria are mostly active at the oxic-anoxic transition zone in stratified lakes, where they use oxygen to oxidize methane. Here, we describe a methanotroph of the genera Methylobacter that is performing high-rate (up to 72 μM day-1 ) methane oxidation in the anoxic hypolimnion of the temperate Lacamas Lake (Washington, USA), stimulated by both nitrate and sulfate addition. Oxic and anoxic incubations both showed active methane oxidation by a Methylobacter species, with anoxic rates being threefold higher. In anoxic incubations, Methylobacter cell numbers increased almost two orders of magnitude within 3 days, suggesting that this specific Methylobacter species is a facultative anaerobe with a rapid response capability. Genomic analysis revealed adaptations to oxygen-limitation as well as pathways for mixed-acid fermentation and H2 production. The denitrification pathway was incomplete, lacking the genes narG/napA and nosZ, allowing only for methane oxidation coupled to nitrite-reduction. Our data suggest that Methylobacter can be an important driver of the conversion of methane in oxygen-limited lake systems and potentially use alternative electron acceptors or fermentation to remain active under oxygen-depleted conditions.

Humic substances as electron acceptors for anaerobic oxidation of methane driven by ANME-2d

Humic substances (humics) are ubiquitous in terrestrial and aquatic environments where they can serve as electron acceptors for anaerobic oxidation of organic compounds. Methane is a powerful greenhouse gas, as well as the least reactive organic molecule. Anaerobic oxidation of methane (AOM) coupled to microbial reduction of various electron acceptors plays a crucial role in mitigating methane emissions. Here, we reported that humics could serve as terminal electron acceptors for AOM using enriched nitrate-reducing AOM microorganisms. AOM coupled to the reduction of humics was demonstrated based on the production of ¹³C-labelled carbon dioxide, and AOM activity was evaluated with different methane partial pressures and electron acceptor concentrations. After three-cycle reduction, both AOM activity and copy numbers of the archaea 16S rRNA and mcrA genes were the highest when anthraquinone-2,6-disulfonic acid and anthraquinone-2-sulfonic acid were electron acceptors. The high-throughput sequencing results suggested that ANME-2d were the dominant methane oxidation archaea after humics reduction, although the partner bacteria NC10 trended downward, other reported humics reduction bacteria (Geobactor and Anammox) appeared. The potential electron transfer models from ANME-2d to humics were proposed. These results enable a better understanding of available electron acceptors for AOM in natural environments and broaden our insight into the significant role of ANME-2d.

Electron shuttles enhance anaerobic oxidation of methane coupled to iron(III) reduction

Anaerobic oxidation of methane (AOM) has recently been coupled with the reduction of insoluble electron acceptors such as iron minerals. However, effects of electron shuttles (ESs) on this process and the underlying coupling mechanisms remain not well understood. Here, we evaluated AOM-coupled ferrihydrite reduction by a mixed culture in the absence and presence of ESs. The results showed that ESs (AQS, flavin, HA and AQDS) significantly enhanced the rate (up to 7.4 times) of AOM-dependent ferrihydrite reduction compared with the control. The enhancements were linearly related with the electron transfer capacity of ESs. Illumina high-throughput sequencing and DNA-based stable isotope probing revealed that the AOM-coupled iron reduction depended on the syntrophic interaction of Methanobacterium and the partner bacteria. Methanobacterium as the dominant microorganism, did not assimilate methane into its biomasses. However, it played a crucial role in the partial oxidation of methane into an intermediate (i.e. propionate), which was then assimilated by the partner bacteria (e.g. Cellulomonas, Desulfovibrio, Actinotalea, etc.) for ferrihydrite reduction. This work suggests that ESs in natural environments can mitigate the methane emissions by facilitating the AOM process and biogeochemical cycles of iron.

Contrasting Effects of Sediment Microbial Fuel Cells (SMFCs) on the Degradation of Macrophyte Litter in Sediments from Different Areas of a Shallow Eutrophic Lake

Eutrophication is one of the major ecological problems of our era. It accelerates the growth of aquatic plant and algae, eventually leading to ecological deterioration. Based on a 700-day lab experiment, this paper investigated the contrasting effects of sediment microbial fuel cells (SMFCs) on the removal of macrophyte litter in a macrophyte-dominated area and an algae-dominated area from two bay areas of a shallow eutrophic lake. The results revealed that the removal efficiencies of total organic carbon increased by 14.4% in the macrophyte-dominated area and 7.8% in the algae-dominated area. Moreover, it was found that sediment samples from the macrophyte-dominated area became more humified and had a higher electricity generation compared to the sediment samples from the algae-dominated area. Pyrosequencing analysis further determined that SMFC promoted more aromatic compound-degrading bacteria growth in sediments from the macrophyte-dominated area than from the algae-dominated area. Our study demonstrated that SMFC could enhance organic matter degradation, especially plant litter degradation, but this influence showed different from sediment sources. Thus, SMFC is capable of providing a useful strategy for delaying the terrestrialization of lakes areas suffering from eutrophication.

Evaluation and correction on quinones' quantification errors: Derived from the coexistence of different quinone species and pH-sensitive feature

Quinones are becoming an essential tool for refractory organics treatment, while their quantification may be not well-considered. In this paper, two kinds of potential errors in quantification were evaluated in multiple pH conditions. They were derived from the coexistence of oxidized/reduced quinone species (Type I) and pH-sensitive feature (Type II), respectively. These errors would remarkably influence the accuracy of quantification while they haven't been emphasized. Thus, to elaborate the relationship between the two types of errors and the absorbance or pH conditions, three typical quinones [Anthraquinone-1-sulfonate (α-AQS), anthraquinone-2,6-disulfonate (AQDS) and lawsone] were selected and their acid dissociation coefficients (pKa) as well as UV-Vis spectra were determined. Results revealed that, for Type I, the relative error (RE) of α-AQS concentration would exceed the limit (5%) when reduced α-AQS was below 48% of total α-AQS. Similar results were found for lawsone. However, the RE can be eliminated by the equation established in this paper. For Type II, the pH-sensitive feature was related to the pKa values of quinones. Absorbances of α-AQS and lawsone would change remarkably with pH variation. Therefore, a model for correction was established. Analog data showed high consistency with experimental data [r = 0.995 (n = 25, p < 0.01) and r = 0.997 (n = 36, p < 0.01), for lawsone and α-AQS respectively]. Especially, the determination of AQDS concentrations was noticed to be pH-independent at 437 nm under pH 4.00 to 9.18 conditions. Based on these features, a comprehensive data solution was proposed for handling these errors.

Reducing capacities in continuously released low molecular weight fractions from bulk humic acids

Humic substances are important redox-active organic compounds with various kinds of functional groups in different molecular sizes and connections. They can be formed during the degradation of biomass and biowaste in the environment. In soil environments, insoluble heavy metals and large size organic pollutants trapped in soil micropores (under 2.5 nm) are hard to be removed by bulk HS or microorganisms poorly accessible to pollutants. Recently, low molecular weight fractions (LMWF) of humic acids (HA) obtained from dialysis demonstrate a stronger reducing capacity than bulk HA, and the reducing capacity is found out to be related to the relative fluorescence intensity of LMWF HA by a fluorescence spectra method. The continuous disaggregation of LMWF HA from bulk HA molecules in rapid groundwater flow area provides a possibility by LMWF HA to influence the transformation and transport of the pollutants trapped in soil micropores. Therefore, the objective of this study is to explore the mathematical relationship between reducing capacity of LMWF HA and relative fluorescence intensity of quinone moieties in LMWF HA. We found that Leonardite humic acids (LHA) 3500-LMWF (under 1.25 nm) only account for 0.40%-1.53% of the total organic carbon of bulk HA. However, the reducing capacity of LMWF HA per gram carbon were up to 206 times greater than bulk LHA. Similar trends were found for other two standard LMWF HA samples. Fluorescence spectroscopy was used to characterize the changes in fluorophores of LMWF HA stripped in process. We found that an excitation/emission (E_x/E_m) position representing a quinone-like fluorophore in all native LMWF HA state samples was located at 260-270/455-495 nm. The quinone-like fluorophore in native LMWF HA can be further reduced into a fluorophore A and a fluorophore B (E_x/E_m at 300-305/420-430 nm and 215-225/415-430 nm) related to the quinonoid π-π* transition and benzenoid π-π* transition, respectively. Moreover, the relative fluorescence intensities of these two fluorophores (A and B) have strong correlations with reducing capacities of LMWF HA, confirming a significant role of quinone-like fluorophores in redox properties of HA. LMWF HA can enter micropores to react with pollutants, the application of biomass will have a constant benefit in remediation of contaminated soil site especially in a long time scale.

Growth kinetics of Candidatus 'Methanoperedens nitroreducens' enriched in a laboratory reactor

Recently it has been shown that Candidatus 'Methanoperedens nitroreducens', an anaerobic methanotrophic archaea (ANME), can reduce nitrate to nitrite using electrons derived from anaerobic oxidation of methane. In this study, the growth kinetics of 'M. nitroreducens' enriched in a laboratory reactor were studied. In the experimental concentration range (up to 16 mg CH₄ L^-1), anaerobic oxidation of methane by 'M. nitroreducens' was found to comply with first order kinetic model with a rate constant of 0.019 ± 0.006 h^-1 and a biomass-specific rate constant of 0.04-0.14 L h^-1 g^-1VSS. Meanwhile, the nitrate reduction to nitrite was well described by the Monod-type kinetic model with an affinity constant for nitrate of 2.1 ± 0.4 mg N L^-1, which is slightly higher than, but comparable to, that of most known denitrifying bacteria. This is the first time that the growth kinetics of 'M. nitroreducens' have been experimentally studied. The applicability of the kinetic model reported herein to this organism or similar organisms in natural or engineering systems requires further investigation.