iTRAQ quantitative proteomic analysis reveals the pathways for methanation of propionate facilitated by magnetite

Integrated food waste and sewage treatment - A better approach than conventional food waste-sludge co-digestion for higher energy recovery via anaerobic digestion

This work proposes a new treatment approach involving both food waste disposal and sewerage treatment called MOWFAST i.e. Municipal Organic Waste management by combined Food waste disposal and Sewerage Treatment. MOWFAST involves mixing of food waste directly with raw sewage instead of separate addition to sludge and their combined anaerobic digestion (AD). Compared to conventional sludge digestion, MOWFAST exhibited better digestion capability and allowed a greater degradation of organic material along with higher production of methanogenic-favourable products from the beginning of digestion. This resulted in producing higher specific methane yields (7.86 LCH₄/kg VS_added versus 0.95 LCH₄/kg VS_added) and 1.4-fold higher cumulative methane yield over sludge AD. Furthermore, compared with conventional food waste-sludge co-digestion, MOWFAST gave higher solubilization of organic material (0.82 g sCOD/g VS_added versus 0.23 g sCOD/g VS_added) and specific methane yields (7.86 LCH₄/kg VS_added versus 3.2 LCH₄/kg VS_added). This proves its feasibility for digestion and methane generation potential.

Metagenomic analysis reveals that activated carbon aids anaerobic digestion of raw incineration leachate by promoting direct interspecies electron transfer

The raw fresh leachate from municipal solid waste (MSW) incineration plants contains high concentrations of volatile fatty acids (VFAs), ammonia and metals, all compounds that severely limit anaerobic digestion treatment efficiencies. These inhibitory compounds make reactor systems unstable, causing reactor start-up periods to take more than 100 days, even when the leachate is diluted significantly. In this study, granular activated carbon (GAC) was incorporated into a bioreactor fed with raw incineration leachate. Addition of GAC allowed direct treatment of raw incineration leachate without any start-up acclimation period, while the non-amended control reactor soured immediately and collapsed within 17 days. When hydraulic retention time (HRT) of the GAC-amended reactor was stepwise decreased to increase organic loading rates (OLR) to 25.0 kgCOD/(m³·d), COD removal efficiencies remained stable at >90%. Metagenomic analysis of the GAC-amended reactor revealed that Geobacter and Methanosarcina, species known to participate in direct interspecies electron transfer (DIET), were more abundant in the GAC-amended reactor than the seed sludge. In addition, the abundance of genes coding for proteins thought to be involved in DIET such as electrically conductive pili and the outer membrane c-type cytochrome, OmcS, increased significantly, while genes involved in fermentation, and nitrate (narG) and sulfate (dsrA) reduction dropped significantly as the experiment progressed. These results are significant because this is the first detailed investigation into the metabolic capabilities of microbial communities involved in efficient treatment of raw incineration leachate within biomethanogenic reactors that did not require a long start-up period.

Enhanced mesophilic anaerobic digestion of waste sludge with the iron nanoparticles addition and kinetic analysis

As the functional material, iron nanoparticles effectively promote anaerobic digestion (AD) process, including the hydrolysis-acidification process and the biogas production. In this study, nano zero-valent iron (nZVI) and Fe₃O₄ nanoparticles (Fe₃O₄ NPs) were added to AD reactors respectively. The AD process was evaluated by the reactors performances, including pH, biogas yields and compositions, as well as the removal ratio of total solids (TS), volatile solids (VS) and soluble chemical oxygen demand (sCOD). Three models (first-order kinetic model, transfer function model and Cone model) were used to explore the kinetics of AD biogas production. The results showed that adding appropriate dose of nZVI or Fe₃O₄ NPs enhanced anaerobic digestibility of sludge. The highest cumulative biogas yield of 140.34 L with 0.5 g L^-1 nZVI and 137.13 L with 1 g L^-1 Fe₃O₄ NPs were obtained by the 80 days of mesophilic operation, respectively. Cumulative biogas productions of these two reactors were significantly enhanced up to 15.70% and 13.44%. TS removal rates reached >70% in all AD reactors with iron nanoparticles, and the highest sCOD removal rates of nZVI and Fe₃O₄ NPs digesters on the 80th day were 88.22% and 77.63%, respectively. The results of the three-day fermentation experiment and the kinetic parameters showed that the nZVI or Fe₃O₄ NPs enhanced the hydrolysis-acidification process of the AD, which eventually promoted biogas production. The Cone model was satisfied with the experimental results, which could be used to evaluate the kinetics of AD with iron nanoparticles more reasonably.

Inhibition mitigation and ecological mechanism of mesophilic methanogenesis triggered by supplement of ferroferric oxide in sulfate-containing systems

Methanogenesis can be inhibited by volatile fatty acids (VFAs) accumulation and sulfate during anaerobic wastewater treatment. In this study, effects of ferroferric oxide (Fe₃O₄) on VFAs degradation and methanogenesis in sulfate-containing environment were investigated. Methanogenesis in reactors with or without sulfate were both favored through the addition of Fe₃O₄. In reactors without sulfate, the dosage of Fe₃O₄ increased the maximum methane production rate by 21.7% accompanied with faster acetate and propionate degradation. Metagenomic analysis showed that Fe₃O₄ mainly promoted electron exchange between Mesotoga, Syntrophobacter, Smithella and Methanosaeta without altering the syntrophic patterns. However, in the sulfate-containing reactor with low methanogenic efficiency, syntrophic ethanol users and Methanosaeta were replaced by sulfate-reducing bacteria and Methanosarcina, respectively. The supplement of Fe₃O₄ re-enriched the syntrophic partners inhibited by sulfate and rebuilt a new syntrophic interaction with high efficiency similar to that in sulfate-free environment, leading to better methanogenic performance in sulfate-containing environment.

Fructose as an additional co-metabolite promotes refractory dye degradation: Performance and mechanism

In this work, the performance and mechanism for the boosting effects of fructose as an additional co-metabolite towards the biological treatment of reactive black 5 were systematically investigated. A decolorization efficiency of 98% was obtained in sample FRU200 (with 3 g/L fructose added based on 3 g/L yeast extract), which was 21% higher than that without fructose. Several intermediates with low molecular weight generated in sample FRU200 and different metabolic pathways were deduced. The bacterial community structure significantly changed due to fructose addition. Label-free quantitative proteomic approach suggested that several up-regulated proteins in sample FRU200 might play essential roles during the degradation. Furthermore, the mechanisms of RB5 degradation by proteins/enzymes of the dominant species in flora DDMZ1 were proposed. This work deepens our understanding of the molecular and ecological mechanism of fructose as co-metabolite enhancing the biodegradation of refractory organic pollutants by a natural bacterial flora.

Stimulation of Smithella-dominating propionate oxidation in a sediment enrichment by magnetite and carbon nanotubes

Recent studies have shown that application of conductive materials including magnetite and carbon nanotubes (CNTs) can promote the methanogenic decomposition of short-chain fatty acids and even more complex organic matter in anaerobic digesters and natural habitats. The linkage to microbial identity and the mechanisms, however, remain poorly understood. Here, we evaluate the effects of nanoscale magnetite (nanoFe₃ O₄ ) and multiwalled CNTs on the syntrophic oxidation of propionate in an enrichment obtained from lake sediment. The microbial populations were composed mainly of Smithella, Syntrophomonas, Methanosaeta, Methanosarcina and Methanoregula. In addition to acetate, butyrate was transiently accumulated indicating that propionate was oxidized by Smithella via the dismutation pathway and part of the leaked butyrate was oxidized by Syntrophomonas. Propionate oxidation and CH₄ production were significantly accelerated in the presence of nanoFe₃ O₄ and CNTs. While propionate oxidation was suppressed upon H₂ application and suspended completely upon formate application in the control, this suppressive effect was substantially compromised in the presence of nanoFe₃ O₄ and CNTs. The tests on hydrogenotrophic methanogenesis of a pure culture methanogen and of the enrichment culture without propionate showed negative effect by both materials. The positive effect of nanoFe₃ O₄ disappeared when it was insulated by surface-coating with silica. Observations made with fluorescence in situ hybridization and scanning electron microscope indicated the extensive formation of microbial cell-conductive material mixture aggregates. Our results suggest that direct interspecies electron transfer is likely activated by the conductive materials and operates in concert with H₂ /formate-dependent electron transfer for syntrophic propionate oxidation in the sediment enrichment.

NanoFe3O4 as Solid Electron Shuttles to Accelerate Acetotrophic Methanogenesis by Methanosarcina barkeri

Magnetite nanoparticles (nanoFe₃O₄) have been reported to facilitate direct interspecies electron transfer (DIET) between syntrophic bacteria and methanogens thereby improving syntrophic methanogenesis. However, whether or how nanoFe₃O₄ affects acetotrophic methanogenesis remain unknown. Herein, we demonstrate the unique role of nanoFe₃O₄ in accelerating methane production from direct acetotrophic methanogenesis in Methanosarcina-enriched cultures, which was further confirmed by pure cultures of Methanosarcina barkeri. Compared with other nanomaterials of higher electrical conductivity such as carbon nanotubes and graphite, nanoFe₃O₄ with mixed valence Fe(II) and Fe(III) had the most significant stimulatory effect on methane production, suggesting its redox activity rather than electrical conductivity led to enhanced methanogenesis by M. barkeri. Cell morphology and spectroscopy analysis revealed that nanoFe₃O₄ penetrated into the cell membrane and cytoplasm of M. barkeri. These results provide the unprecedented possibility that nanoFe₃O₄ in the cell membrane of methanogens serve as electron shuttles to facilitate intracellular electron transfer and thus enhance methane production. This work has important implications not only for understanding the mechanisms of mineral-methanogen interaction but also for optimizing engineered methanogenic processes.

Effects of nano-sized MnO2 on methanogenic propionate and butyrate degradation in anaerobic digestion

The responses of methanogenic propionate and butyrate degradation to nano-sized MnO₂ exposure were explored. The results showed that supplementation with 50 mg/g volatile suspended solids (VSS) of nano-sized MnO₂ significantly enhanced the production rate of CH₄ in propionate and butyrate degradation by 25.6% and 21.7%, respectively. The stimulatory effects most likely resulted from enhancements in the microbial metabolic activity based on the observed increases in the extracellular polymeric substance (EPS) secretion and activity of the electron transport system. In contrast, the CH₄ yields obtained were irreversibly inhibited by the presence of 400 mg/g VSS of nano-sized MnO₂, in which just 62.8% and 6.5%, respectively, of the yield obtained from the control. Further investigations indicated that supplementation by nano-sized MnO₂ could cause oxidative stress in microbial cells, resulting in the release of reactive oxygen species (ROS). Compared with that of the control, the amount of intracellular ROS generated in the systems increased by 28.3% (fed with propionate) and 42.5% (fed with butyrate), corresponding to approximately 43.9% and 64.8% losses in cell viability, respectively; thus, ROS generation was suggested to be the main factor responsible for the inhibitory effects of nano-sized MnO₂ on methanogenic propionate and butyrate degradation.

Linking Exoproteome Function and Structure to Anammox Biofilm Development

Extracellular proteins are of paramount importance in the cell-cell interactions of anammox biofilms. However, the inherent aggregation mechanisms of anammox have largely remained elusive. Herein, using a quartz sand extraction protocol and follow-up iTRAQ-based quantitative proteomics, we identified 367 extracellular proteins from initial colonizers, mature biofilm, and detached biofilm. The extracellular proteins were mainly membrane-associated. Most of the recovered proteins (226, 72.5%) originated from the phylum Planctomycetes. In summary, 215 and 190 of the 367 proteins recovered were up- and/or downregulated at least 1.2-fold during the biofilm formation and detachment periods, respectively. These differentially expressed proteins were dominantly involved in metal ion binding, which was regarded as strong evidence for their abilities to enhance ionic bridges in extracellular polymeric substances (EPS). Scanning electron microscopy-energy-dispersive X-ray spectroscopy (SEM-EDX) analysis of the biofilms further showed substantial levels of calcium and iron minerals. Critically, representative Sec-dependent secretory proteins affiliated with coccoid Planctomycetes, rod-shaped Proteobacteria, and filamentous Chloroflexi (11, 4, and 2 with differential expression, respectively) were found to have typical and abundant inner β-sheet structures, wherein hydrophobic moieties can promote anammox aggregation. Overall, these findings highlight links between differentially expressed protein functions and morphologic traits of anammox consortia during biofilm development.

A novel bioaugmentation strategy to accelerate methanogenesis via adding Geobacter sulfurreducens PCA in anaerobic digestion system

Based on the new syntrophic methanogenesis route via direct interspecies electron transfer (DIET), a novel bioaugmentation method by adding exoelectrogenic Geobacter species to accelerate methanogenesis was developed in this study. Geobacter sulfurreducens PCA, type exoelectrogenic strain of Geobacter species was chosen for the research. To clarify the effect of G. sulfurreducens on methanogenesis, batch tests of CH₄ production were carried out. Acetate, the most typical precursor of methanogenesis was chosen as the substrate of batch tests. Amendment of G. sulfurreducens accelerated CH₄ production remarkably. The lag phase of CH₄ production was shortened, and the maximum CH₄ production rate was increased by 78%. Fluorescence in situ hybridization showed that G. sulfurreducens closely gathered with methanogens. For the archaeal communities, the high-throughput sequencing results demonstrated that Methanosaetaceae and Methanobacteriaceae were potential bioaugmented methanogens. We speculated that the accelerated methanogenesis by adding G. sulfurreducens may result from the syntrophic association between G. sulfurreducens and methanogens affiliated with Methanosaetaceae and Methanobacteriaceae. This research provides a new route to enhance methanogenesis through the utilization of G. sulfurreducens. Through this study, the role of Geobacter in the anaerobic engineering and carbon cycling of nature should be paid more attention.

Ferroferric Oxide Significantly Affected Production of Soluble Microbial Products and Extracellular Polymeric Substances in Anaerobic Methanogenesis Reactors

Conductive materials facilitate direct interspecies electron transfer between acidogens and methanogens during methane (CH₄) production. Soluble microbial products (SMP) and extracellular polymeric substances (EPS) produced by microorganisms might act as the electron shuttle between microorganisms and conductive materials. In this study, effects of conductive ferroferric oxide (Fe₃O₄) on anaerobic treatment process and the production of SMP and EPS were investigated. The maximum CH₄ production rate was enhanced by 23.3% with the dosage of Fe₃O₄. The concentrations of proteins, polysaccharides, and humic substances in tightly bound EPS (T-EPS) were promoted, suggesting that extracellular metabolisms were induced by conductive materials. Distribution of potential electron shuttles such as quinone-like substances, flavins, aromatic amino acids, and dipeptides in SMP and EPS phases were comprehensively investigated and these electron shuttles were significantly affected by Fe₃O₄. Dipeptides consisting of phenylalanine were widely detected in T-EPS of the Fe₃O₄ reactor, indicating a potential different extracellular electron exchange pattern with the addition of conductive materials.

Enhanced methanogenic co-degradation of propionate and butyrate by anaerobic microbiome enriched on conductive carbon fibers

Recent studies have shown that the addition of conductive materials can promote direct interspecies electron transfer (DIET) between bacteria and methanoarchaea. This study demonstrated that carbon fibers could significantly stimulate methanogenic conversion of propionate and butyrate as co-substrate, while only butyrate was completely degraded in the unamended control bioreactor. In the carbon fibers-amended bioreactor, specific methane production (mL-CH₄/g COD_Initial) and methanogenesis rate (d^-1) increased by around 2.4 and 6.7 times, respectively. Various electroactive bacteria were abundant in the carbon fibers-amended bioreactor, whereas different known fermentative bacteria were abundant in the control. Moreover, carbon fibers substantially increased the abundance of Methanosaeta species. These results suggest that electroactive bacteria could be involved in DIET with Methanosaeta species enabling co-degradation of propionate and butyrate. Additionally, electrical conductivities of the biomass were comparable in both configurations, indicating that carbon fibers were the primary route for DIET.

Recent achievements in enhancing anaerobic digestion with carbon- based functional materials

Carbon-based materials such as graphite, graphene, biochar, activated carbon, carbon cloth and nano-tube, and maghemite and magnetite carbons are capable for adsorbing chemicals onto their surfaces. Currently, this review is to highlight the relevance of carbons in enhancing hydrogen or methane production. Some key roles of carbons in improving cell growth, enrichment and activity, and accelerating their co-metabolisms were elaborated with regard to their effects on syntrophic communities, interspecies electron transfer, buffering capacity, biogas upgrading, and fertilizer nutrient retention and land application. Carbons can serve as a habitation for microbial immobilization, and a provision for bioelectrical connections among cells, and provide some essential elements for anaerobes. Besides, an outlook on the possible options towards the large scale and improvement solutions has been provided. Further studies in this area could be encouraged to intend and operate continuous mode by designing carbon-amended bioreactor with stability and reliability.

Methane Production and Conductive Materials: A Critical Review

Conductive materials (CM) have been extensively reported to enhance methane production in anaerobic digestion processes. The occurrence of direct interspecies electron transfer (DIET) in microbial communities, as an alternative or complementary to indirect electron transfer (via hydrogen or formate), is the main explanation given to justify the improvement of methane production. Not disregarding that DIET can be promoted in the presence of certain CM, it surely does not explain all the reported observations. In fact, in methanogenic environments DIET was only unequivocally demonstrated in cocultures of Geobacter metallireducens with Methanosaeta harundinacea or Methanosarcina barkeri and frequently Geobacter sp. are not detected in improved methane production driven systems. Furthermore, conductive carbon nanotubes were shown to accelerate the activity of methanogens growing in pure cultures, where DIET is not expected to occur, and hydrogenotrophic activity is ubiquitous in full-scale anaerobic digesters treating for example brewery wastewaters, indicating that interspecies hydrogen transfer is an important electron transfer mechanism in those systems. This paper presents an overview of the effect of several iron-based and carbon-based CM in bioengineered systems, focusing on the improvement in methane production and in microbial communities' changes. Control assays, as fundamental elements to support major conclusions in reported experiments, are critically revised and discussed.

Stimulation of carbon nanomaterials on syntrophic oxidation of butyrate in sediment enrichments and a defined coculture

It remains elusive if direct interspecies electron transfer (DIET) occurs in canonical syntrophy involving short-chain fatty acids oxidation. In the present study, we determined the effects of carbon nanomaterials on syntrophic oxidation of butyrate in two lake sediment enrichments and a defined coculture comprising Syntrophomonas wolfei and Methanococcus Maripaludis. After four continuous transfers of enrichment cultivation, Syntrophomonas dominated the bacterial populations in enrichments, and the dominated methanogens comprised Methanosarcina and Methanospirillum in one enrichment (from Weiming Lake) and Methanoregula and Methanospirillum in another (from Erhai Lake). Butyrate oxidation and CH4 production was significantly accelerated by carbon nanotubes (CNTs) in both enrichments. Replacement of CNTs by magnetite caused similar stimulating effect. For the defined coculture, two carbon nanomaterials, CNTs and reduced graphene oxide (rGO), were tested, both showed consistently stimulating effects on butyrate oxidation. Addition of kaolinite, an electric nonconductive clay mineral, however, revealed no effect. The test on M. maripaludis in pure culture showed no effect by rGO and a negative effect by CNTs (especially at a high concentration). Fluorescence in situ hybridization (FISH) and scanning electron microscopy (SEM) revealed that microbial cells were interwoven by CNTs forming cell-CNT mixture aggregates, and in case of rGO, cells were attached to surface or wrapped-up by rGO thin sheets. Collectively, our data suggest that the presence of conductive nanomaterials likely induces DIET in syntrophic butyrate oxidation.

Enhancing Biochemical Methane Potential and Enrichment of Specific Electroactive Communities from Nixtamalization Wastewater using Granular Activated Carbon as a Conductive Material

Nejayote (corn step liquor) production in Mexico is approximately 1.4 × 1010 m3 per year and anaerobic digestion is an effective process to transform this waste into green energy. The biochemical methane potential (BMP) test is one of the most important tests for evaluating the biodegradability and methane production capacity of any organic waste. Previous research confirms that the addition of conductive materials significantly enhances the methane production yield. This study concludes that the addition of granular activated carbon (GAC) increases methane yield by 34% in the first instance. Furthermore, results show that methane production is increased by 54% when a GAC biofilm is developed 10 days before undertaking the BMP test. In addition, the electroactive population was 30% higher when attached to the GAC than in control reactors. Moreover, results show that electroactive communities attached to the GAC increased by 38% when a GAC biofilm is developed 10 days before undertaking the BMP test, additionally only in these reactors Geobacter was identified. GAC has two main effects in anaerobic digestion; it promotes direct interspecies electron transfer (DIET) by developing an electro-active biofilm and simultaneously it reduces redox potential from −223 mV to −470 mV. These results suggest that the addition of GAC to biodigesters, improves the anaerobic digestion performance in industrial processed food waste.

Stimulatory Effect of Magnetite Nanoparticles on a Highly Enriched Butyrate-Oxidizing Consortium

Syntrophic oxidation of butyrate is catabolized by a few bacteria specialists in the presence of methanogens. In the present study, a highly enriched butyrate-oxidizing consortium was obtained from a wetland sediment in Tibetan Plateau. During continuous transfers of the enrichment, the addition of magnetite nanoparticles (nanoFe3O4) consistently enhanced butyrate oxidation and CH4 production. Molecular analysis revealed that all bacterial sequences from the consortium belonged to Syntrophomonas with the closest relative of Syntrophomonas wolfei and 96% of the archaeal sequences were related to Methanobacteria with the remaining sequences to Methanocella. Addition of graphite and carbon nanotubes for a replacement of nanoFe3O4 caused the similar stimulatory effect. Silica coating of nanoFe3O4 surface, however, completely eliminated the stimulatory effect. The control experiment with axenic cultivation of a Syntrophomonas strain and two methanogen strains showed no effect by nanoFe3O4. Together, the results in the present study support that syntrophic oxidation of butyrate is likely facilitated by direct interspecies electron transfer in the presence of conductive nanomaterials.

Magnetite Triggering Enhanced Direct Interspecies Electron Transfer: A Scavenger for the Blockage of Electron Transfer in Anaerobic Digestion of High-Solids Sewage Sludge

At present, high-solids anaerobic digestion of sewage sludge has drawn great attention due to the superiority of its small land area footprint and low energy consumption. However, a high organic loading rate may cause acids accumulation and ammonia inhibition, thus leading to an inhibited pseudo-steady state in which electron transfer through interspecies hydrogen transfer (IHT) between acetogens and methanogens is blocked. In this study, adding 50 mg/g TS (total solid) magnetite clearly reduced the accumulation of short-chain fatty acids and accelerated methane production by 26.6%. As demonstrated, the individual processes of anaerobic digestion could not be improved by magnetite when methanogenesis was interrupted. Analyzing stable carbon isotopes and investigating the methanogenesis pathways using acetate and H₂/CO₂ as substrates together proved that direct interspecies electron transfer (DIET) was enhanced by magnetite. Metatranscriptomic analysis and determination of key enzymes showed that IHT could be partially substituted by enhanced DIET, and acetate-dependent methanogenesis was improved after the blockage of electron transfer was scavenged. Additionally, the expression of both pili and c-type cytochromes was found to decrease, indicating that magnetite could replace their roles for efficient electron transfer between acetogens and methanogens; thus, a robust chain of electron transfer was established.

New insights into enhanced anaerobic degradation of Fischer-Tropsch wastewater with the assistance of magnetite

In this study, magnetite (Fe₃O₄), as the typical conductive material, was supplemented in anaerobic sequential batch reactor (ASBR) with the attempt to enhance pollutants removal and methane production during Fischer-Tropsch wastewater treatment. The results showed that COD removal efficiency and cumulative methane production with the addition of optimum magnetite dosage (0.4 g) were as high as 84.3 ± 2.0% and 7.46 ± 0.24 L, which were higher than other test groups (0, 0.2 and 0.6 g). Furthermore, the combination of high-throughput 16S rRNA gene pyrosequencing and metagenomic analysis in this study further confirmed that the Geobacter and Methanosaeta species were specially enriched in bacterial and archaeal community at the optimum magnetite dosage, suggesting that magnetite-mediated direct interspecies electron transfer (DIET) between Geobacter and Methanosaeta species was likely a crucial reason to promote syntrophic metabolism of propionic acid and butyric acid, and further enhance final methanogenesis.

Direct interspecies electron transfer via conductive materials: A perspective for anaerobic digestion applications

Anaerobic digestion (AD) is a microbial process that produces renewable energy in the form of methane by treating organic waste and high-strength wastewater. Recent studies have demonstrated that conductive materials can promote direct interspecies electron transfer (DIET) between exoelectrogenic bacteria and methanogenic archaea. DIET via conductive materials is more effective for methane production than interspecies electron transfer using electron carriers such as hydrogen, a principal route of methane production in conventional AD. This critical review presents the current understanding of DIET via conductive materials for methane production, summarizes the relevant studies published to date, and analyzes these studies with regard to conductive materials, substrates, inocula, performance, and microorganisms. Based on this analysis, possible future directions are suggested for practical DIET applications via conductive materials in AD.

Thermophilic Alkaline Fermentation Followed by Mesophilic Anaerobic Digestion for Efficient Hydrogen and Methane Production from Waste-Activated Sludge: Dynamics of Bacterial Pathogens as Revealed by the Combination of Metagenomic and Quantitative PCR Analyses

Thermophilic alkaline fermentation followed by mesophilic anaerobic digestion (TM) for hydrogen and methane production from waste-activated sludge (WAS) was investigated. The TM process was also compared to a process with mesophilic alkaline fermentation followed by a mesophilic anaerobic digestion (MM) and one-stage mesophilic anaerobic digestion (M) process. The results showed that both hydrogen yield (74.5 ml H₂/g volatile solids [VS]) and methane yield (150.7 ml CH₄/g VS) in the TM process were higher than those (6.7 ml H₂/g VS and 127.8 ml CH₄/g VS, respectively) in the MM process. The lowest methane yield (101.2 ml CH₄/g VS) was obtained with the M process. Taxonomic results obtained from metagenomic analysis showed that different microbial community compositions were established in the hydrogen reactors of the TM and MM processes, which also significantly changed the microbial community compositions in the following methane reactors compared to that with the M process. The dynamics of bacterial pathogens were also evaluated. For the TM process, the reduced diversity and total abundance of bacterial pathogens in WAS were observed in the hydrogen reactor and were further reduced in the methane reactor, as revealed by metagenomic analysis. The results also showed not all bacterial pathogens were reduced in the reactors. For example, Collinsella aerofaciens was enriched in the hydrogen reactor, which was also confirmed by quantitative PCR (qPCR) analysis. The study further showed that qPCR was more sensitive for detecting bacterial pathogens than metagenomic analysis. Although there were some differences in the relative abundances of bacterial pathogens calculated by metagenomic and qPCR approaches, both approaches demonstrated that the TM process was more efficient for the removal of bacterial pathogens than the MM and M processes.IMPORTANCE This study developed an efficient process for bioenergy (H₂ and CH₄) production from WAS and elucidates the dynamics of bacterial pathogens in the process, which is important for the utilization and safe application of WAS. The study also made an attempt to combine metagenomic and qPCR analyses to reveal the dynamics of bacterial pathogens in anaerobic processes, which could overcome the limitations of each method and provide new insights regarding bacterial pathogens in environmental samples.

Inhibition of anaerobic digestion processes: Applications of molecular tools

Inhibition of anaerobic digestion (AD) due to perturbation caused by substrate composition and/or operating conditions can significantly reduce performance. Such perturbations could be limited by elucidating microbial community response to inhibitors and devising strategies to increase community resilience. To this end, advanced molecular methods are increasingly being applied to study the AD microbiome, a diverse community of microbial populations with complex interactions. This literature review of AD inhibition studies indicates that inhibitory concentrations are highly variable, likely stemming from differences in community structure or activity profile and previous exposure to inhibitors. More recent molecular methods such as 'omics' tools, substrate mapping, and real-time sequencing are helping to unravel the complexity of AD inhibition by elucidating physiological and ecological significance of key microbial populations. The AD community must strive towards developing predictive abilities to avoid system failure (e.g., real-time tracking of an indicator species) to improve resilience of AD systems.

Enhancement of methanogenesis via direct interspecies electron transfer between Geobacteraceae and Methanosaetaceae conducted by granular activated carbon

To understand how granular activated carbon (GAC) promotes methanogenesis, batch tests of CH₄ production potential in anaerobic serum bottles with addition of GAC or not were conducted. Tests showed that GAC promoted methanogenesis remarkably, but the non-conductive zeolite did not. The qPCR demonstrated that the biomass on GAC contributed little to the promotion. High-throughput sequencing data implied that promotion was related with direct interspecies electron transfer between Geobacteraceae and Methanosaetaceae. According to the c-type cytochromes (c-Cyts) response to the supplement of GAC, it was speculated that GAC may play the role of c-Cyts' substitution. In the undefined cultures, the phenomenon that c-Cyts were repressed by GAC was first observed. This research provided new evidence to microbial mechanism of promoting methanogenesis via GAC.

Advances towards understanding and engineering direct interspecies electron transfer in anaerobic digestion

Direct interspecies electron transfer (DIET) is a recently discovered microbial syntrophy where cell-to-cell electron transfer occurs between syntrophic microbial species. DIET between bacteria and methanogenic archaea in anaerobic digestion can accelerate the syntrophic conversion of various reduced organic compounds to methane. DIET-based syntrophy can naturally occur in some anaerobic digester via conductive pili, however, can be engineered via the addition of various non-biological conductive materials. In recent years, research into understanding and engineering DIET-based syntrophy has emerged with the aim of improving methanogenesis kinetics in anaerobic digestion. This article presents a state-of-art review focusing on the fundamental mechanisms, key microbial players, the role of electrical conductivity, the effectiveness of various conductive additives, the significance of substrate characteristics and organic loading rates in promoting DIET in anaerobic digestion.

Effects of carbon source on methanogenic activities and pathways incorporating metagenomic analysis of microbial community

In this study, the effects of four types of organic compounds (tryptone, acetate/propionate, glucose and ethanol) on methanogenesis, electron transfer processes and microbial community structure were examined. When tryptone and acetate/propionate were used, the dominant methanogenic pathway was aceticlastic methanogenesis and Methanosarcina was the most abundant methanogen. When glucose or ethanol were provided as the external carbon source, the aceticlastic and hydrogenotrophic pathways were utilised simultaneously, and Methanosarcina and Methanobacterium were enriched. However, the reactor fed with glucose was prone to acidification because volatile fatty acids accumulated in the medium, which inhibited methane synthesis. Geobacter was dominant in the reactor fed with ethanol and 45% of genes encoding pili synthesis were attributable to Geobacter, indicating that direct interspecies electron transfer may be a possible mechanism during syntrophic methanogenesis.

Iron oxides alter methanogenic pathways of acetate in production water of high-temperature petroleum reservoir

Acetate is a key intermediate in anaerobic crude oil biodegradation and also a precursor for methanogenesis in petroleum reservoirs. The impact of iron oxides, viz. β-FeOOH (akaganéite) and magnetite (Fe₃O₄), on the methanogenic acetate metabolism in production water of a high-temperature petroleum reservoir was investigated. Methane production was observed in all the treatments amended with acetate. In the microcosms amended with acetate solely about 30% of the acetate utilized was converted to methane, whereas methane production was stimulated in the presence of magnetite (Fe₃O₄) resulting in a 48.34% conversion to methane. Methane production in acetate-amended, β-FeOOH (akaganéite)-supplemented microcosms was much faster and acetate consumption was greatly improved compared to the other conditions in which the stoichiometric expected amounts of methane were not produced. Microbial community analysis showed that Thermacetogenium spp. (known syntrophic acetate oxidizers) and hydrogenotrophic methanogens closely related to Methanothermobacter spp. were enriched in acetate and acetate/magnetite (Fe₃O₄) microcosms suggesting that methanogenic acetate metabolism was through hydrogenotrophic methanogenesis fueled by syntrophic acetate oxidizers. The acetate/β-FeOOH (akaganéite) microcosms, however, differed by the dominance of archaea closely related to the acetoclastic Methanosaeta thermophila. These observations suggest that supplementation of β-FeOOH (akaganéite) accelerated the production of methane further, driven the alteration of the methanogenic community, and changed the pathway of acetate methanogenesis from hydrogenotrophic methanogenesis fueled by syntrophic acetate oxidizers to acetoclastic.

Carbon nanotubes accelerate methane production in pure cultures of methanogens and in a syntrophic coculture

Carbon materials have been reported to facilitate direct interspecies electron transfer (DIET) between bacteria and methanogens improving methane production in anaerobic processes. In this work, the effect of increasing concentrations of carbon nanotubes (CNT) on the activity of pure cultures of methanogens and on typical fatty acid-degrading syntrophic methanogenic coculture was evaluated. CNT affected methane production by methanogenic cultures, although acceleration was higher for hydrogenotrophic methanogens than for acetoclastic methanogens or syntrophic coculture. Interestingly, the initial methane production rate (IMPR) by Methanobacterium formicicum cultures increased 17 times with 5 g·L^-1 CNT. Butyrate conversion to methane by Syntrophomonas wolfei and Methanospirillum hungatei was enhanced (∼1.5 times) in the presence of CNT (5 g·L^-1 ), but indications of DIET were not obtained. Increasing CNT concentrations resulted in more negative redox potentials in the anaerobic microcosms. Remarkably, without a reducing agent but in the presence of CNT, the IMPR was higher than in incubations with reducing agent. No growth was observed without reducing agent and without CNT. This finding is important to re-frame discussions and re-interpret data on the role of conductive materials as mediators of DIET in anaerobic communities. It also opens new challenges to improve methane production in engineered methanogenic processes.

In vitro fermentation of key dietary compounds with rumen fluid: A genome-centric perspective

The anaerobic decomposition of organic substrates leads to the generation of gases, such as methane, which can either be a valuable energy carrier in industrial applications or can be considered as a main greenhouse gas when it is naturally emitted. In this study we investigated in vitro the effect of dietary compounds, such as starch and proteins, on the microbial community present in the rumen fluid. High throughput shotgun sequencing, followed by metagenomic assembly and binning allowed the extraction of 18 genome bins. A composite bioinformatic analysis led to the prediction of metabolic pathways involved in the degradation of dietary compounds and in the biosynthesis of crucial products like propionate, methane and ammonia. The identification of genomes belonging to poorly characterized phyla such as Thermoplasmata and Elusimicrobia shed light on their putative role. The high abundance of methylotrophic archaea in the inoculum suggests a relevant role in methane production.