Characterization of microbial compositions in a thermophilic chemostat of mixed culture fermentation

Enhanced bioelectricity generation in thermophilic microbial fuel cell with lignocellulose as an electron donor by resazurin-mediated electron transfer

Microbial fuel cell (MFC) with lignocellulose as an electron donor is considered a sustainable biorefinery. However, low lignocellulose degradation and energy output restrict the scale of application. Herein, the extracellular electron transfer (EET) capacity of Acetivibrio thermocellus DSM 1313 with lignocellulose as substrate was shown to be mediated by the self-produced flavin, and its intracellular electron transfer went through the whole respiratory chain. Thermophilic MFC with resazurin exhibited an increase in the open circuit voltage by 37.78%, and a 2.60 folds increase in power density of 77.85 mW/m2, respectively. Differential pulse voltammetry and electrochemical impedance spectroscopy analysis indicated that resazurin decreased the solution and anode charge transfer resistance, and enhanced the extracellular electrochemical activity. Furthermore, resazurin resulted in a lower redox potential, allowing preferential electron transfer to resazurin rather than flavin. This research establishes a resazurin-mediated thermophilic MFC with lignocellulose as substrate, which provides novel idea on the biomass refinery.

Identification of Extracellular Key Enzyme and Intracellular Metabolic Pathway in Alginate-Degrading Consortia via an Integrated Metaproteomic/Metagenomic Analysis

Uronic acid in extracellular polymeric substances is a primary but often ignored factor related to the difficult hydrolysis of waste-activated sludge (WAS), with alginate as a typical polymer. Previously, we enriched alginate-degrading consortia (ADC) in batch reactors that can enhance methane production from WAS, but the enzymes and metabolic pathway are not well documented. In this work, two chemostats in series were operated to enrich ADC, in which 10 g/L alginate was wholly consumed. Based on it, the extracellular alginate lyase (∼130 kD, EC 4.2.2.3) in the cultures was identified by metaproteomic analysis. This enzyme offers a high specificity to convert alginate to disaccharides over other mentioned hydrolases. Genus Bacteroides (>60%) was revealed as the key bacterium for alginate conversion. A new Entner-Doudoroff pathway of alginate via 5-dehydro-4-deoxy-d-glucuronate (DDG) and 3-deoxy-d-glycerol-2,5-hexdiulosonate (DGH) as the intermediates to 2-keto-3-deoxy-gluconate (KDG) was constructed based on the metagenomic and metaproteomic analysis. In summary, this work documented the core enzymes and metabolic pathway for alginate degradation, which provides a good paradigm when analyzing the degrading mechanism of unacquainted substrates. The outcome will further contribute to the application of Bacteroides-dominated ADC on WAS methanogenesis in the future.

Particle electrode materials dependent tetrabromobisphenol A degradation in three-dimensional biofilm electrode reactors

The completely biological degradation of Tetrabromobisphenol A (TBBPA) contaminant is challenging. Bio-electrochemical systems are efficient to promote electrons transfer between microbes and pollutants to improve the degradation of refractory contaminants. In particular, three-dimensional biofilm electrode reactors (3DBERs), integrating the biofilm with particle electrodes, represent a novel bio-electrochemical technology with superior treatment performances. In this study, the electroactive biofilm is cultured and acclimated on two types of particle electrodes, granular activated carbon (GAC) and granular zeolite (GZ), to degrade the target pollutant TBBPA in 3DBERs. Compared to GZ, GAC materials are more favorable for biofilm formation in terms of high specific surface area and good conductivity. The genus of Thauera is efficiently enriched on both GAC and GZ particles, whose growth is promoted by the electricity. By applying 5 V voltage, TBBPA can be removed by over 95% in 120 min whether packing GAC or GZ particle electrodes in 3DBERs. The synergy of electricity and biofilm in TBBPA degradation was more significant in GAC packed 3DBER, because the improved microbial activity by electrical stimulation accelerates debromination rate and hence the decomposition of TBBPA. Applying electricity also promotes TBBPA degradation in GZ packed 3DBER mainly due to the enhanced electrochemical effects. Roles of particle electrode materials in TBBPA removal are distinguished in this work, bringing new insights into refractory wastewater treatment by 3DBERs.

Synergetic alginate conversion by a microbial consortium of hydrolytic bacteria and methanogens

Sludge, of which alginate-like biomaterial is a major organic component, is an increasing environmental problem. Thus, efficient anaerobic degradation of alginate provides a new method for sludge utilization. In this study, anaerobic alginate hydrolytic bacteria (AHB) were proposed to enrich with methanogens synergetically to reduce the inhibition of intermediate metabolites. The COD of produced methane reached 80.7 ± 1.9% (n = 4) of initial alginate COD. After considering the microbial growth (8%-18% of COD), a good COD balance indicated that alginate was fully consumed and the main final metabolites were methane and CO₂. Methanogenesis could promote alginate conversion by AHB. The enriched bacteria for alginate degradation in this study were different from that of former known AHB. The metabolic pathway of alginate degradation was revealed by metagenomics, in which oligo-alginate lyase was detected in twelve bacteria, and typical carbon metabolic pathways to convert alginate to methane were identified. More studies of bacterial isolation and biofuel production are still needed in the future.

Metagenomic Insights Into the Taxonomic and Functional Features of Kinema, a Traditional Fermented Soybean Product of Sikkim Himalaya

Kinema is an ethnic, naturally fermented soybean product consumed in the Sikkim Himalayan region of India. In the present study, the whole metagenome sequencing approach was adopted to examine the microbial diversity and related functional potential of Kinema, consumed in different seasons. Firmicutes was the abundant phylum in Kinema, ranging from 82.31 to 93.99% in different seasons, followed by Actinobacteria and Proteobacteria. At the species level, the prevalent microorganisms were Bacillus subtilis, Bacillus amyloliquefaciens, Bacillus licheniformis, Corynebacterium glutamicum, Bacillus pumilus, and Lactococcus lactis. The abundance of microbial species varied significantly in different seasons. Further, the genomic presence of some undesirable microbes like Bacillus cereus, Proteus mirabilis, Staphylococcus aureus, Proteus penneri, Enterococcus faecalis, and Staphylococcus saprophyticus, were also detected in the specific season. The metagenomic analysis also revealed the existence of bacteriophages belonging to the family Siphoviridae, Myoviridae, and Podoviridae. Examination of the metabolic potential of the Kinema metagenome depicted information about the biocatalysts, presumably involved in the transformation of protein and carbohydrate polymers into bioactive molecules of health-beneficial effects. The genomic resource of several desirable enzymes was identified, such as β-galactosidase, β-glucosidase, β-xylosidase, and glutamate decarboxylase, etc. The catalytic function of a novel glutamate decarboxylase gene was validated for the biosynthesis of γ-aminobutyric acid (GABA). The results of the present study highlight the microbial and genomic resources associated with Kinema, and its importance in functional food industry.

Inhibitory effects of free propionic and butyric acids on the activities of hydrogenotrophic methanogens in mesophilic mixed culture fermentation

The aim of this work was to study the inhibitory of free propionic acid (FPA) and free butyric acid (FBA) on enriched hydrogenotrophic methanogens. It demonstrated that concentrations of FPA and FBA were correlated well with the specific methanogenic activity. Coenzyme M concentrations also agreed well with the trends of FPA and FBA. Two fators of C_50% (concentration at 50% inhibition) and C_RC (recoverable concentration from inhibition) were used to quantitively analyze the inhibitory order using the former result of free acetic acid (FAA) and the results of FBA and FPA. The order according to C_50% was FAA (5.2 mM) > FBA (8.3 mM) > FPA (8.5 mM), while for C_RC it was FPA (9.3 mM) > FAA = FBA (13.5 mM). After comparing with literatue, it suggests that the toxicities of these three organic acids are similar. Thus, accumulating free organic acid offers a cost-effective method to inhibit methanogenesis.

Fermentation liquor of CaO2 treated chemically enhanced primary sedimentation (CEPS) sludge for bioplastic biosynthesis

Chemically enhanced primary sedimentation (CEPS) technology has been widely applied in Hong Kong, exhibiting excellent performance in contaminants removal from sewage. The generated CEPS sludge contains abundance of organics which could be recovered as volatile fatty acids (VFAs) by fermentation for further utilization. In this work, the effect of calcium peroxide (CaO₂) on the fermentation of FeCl₃ based CEPS sludge was investigated. The feasibility of utilizing the fermentation liquor as substrate for polyhydroxyalkanoates (PHAs) biosynthesis was also evaluated. Results demonstrated that CaO₂ addition facilitated the disintegration of CEPS sludge and enhanced VFAs production. The maximum VFAs yield of 455.8 mg COD/g VSS was obtained with the dosage of 0.1 g CaO₂/g SS, improving by 44.7% compared with the control sludge. Acetic and propionic acid were the predominant components of the VFAs. Microbial analysis indicated that CaO₂ induced microbial reduction of Fe(III), accelerating the initial disintegration of FeCl₃ based CEPS sludge. Microbial communities with hydrolysis and acidogenesis functions were enriched effectively. CaO₂ treatment had no significant influence on the release of ammonia nitrogen (NH₄⁺-N), while reduced the concentration of orthophosphate (PO₄^3--P) and ferrous (Fe²⁺) in fermentation liquor, that was beneficial to the further utilization as substrate for PHAs biosynthesis. The VFA-rich fermentation liquor was proved to be a suitable substrate for PHAs biosynthesis. After cultivation, the PHAs content in activated sludge reached 22.3%, which was comparable to those obtained using waste materials as carbon source. This integrated technology could be a superior alternative of realizing sludge disposal and bioplastic production simultaneously.

Hydrogen production from a thermophilic alkaline waste activated sludge fermenter: Effects of solid retention time (SRT)

This study aims to investigate the effects of solid retention times (SRTs) on hydrogen production via thermophilic alkaline fermentation of waste activated sludge. The reactor was subjected to a SRT from 10 to 6 days during approximately 82 days of operation. The results revealed that SRT had minor influence on hydrolysis and hydrolysis efficiency in different phases were from 48.11% to 50.55%. Nevertheless, the efficiency of acidogenesis process was highly related to SRT and longer SRT could enhance the acidogenesis. On the other hand, acidogenesis efficiency was also related to H₂ partial pressure and high H₂ partial pressure negatively affected the acidogenesis. Thus, the maximum acidification was achieved in phase 1 (21.29%) resulting in the maximum H₂ yield in phase 1 (95.94 mL/g VSS; SRT = 10 days; H₂ partial pressure = 0-18%). Phyla Actinobacteria and Proteobacteria, who are highly related to hydrolytic microbial population, were abundant in all phases that resulted in high hydrolysis extent. H₂ production was attributed to the relative high abundance of Clostridia. Thus, this study suggested that longer SRT and lower H₂ partial pressure was necessary to improve the H₂ yield under alkaline pH condition.

Galacturonate Metabolism in Anaerobic Chemostat Enrichment Cultures: Combined Fermentation and Acetogenesis by the Dominant sp. nov. "Candidatus Galacturonibacter soehngenii"

Agricultural residues such as sugar beet pulp and citrus peel are rich in pectin, which contains galacturonic acid as a main monomer. Pectin-rich residues are underexploited as feedstocks for production of bulk chemicals or biofuels. The anaerobic, fermentative conversion of d-galacturonate in anaerobic chemostat enrichment cultures provides valuable information toward valorization of these pectin-rich feedstocks. Replicate anaerobic chemostat enrichments, with d-galacturonate as the sole limiting carbon source and inoculum from cow rumen content and rotting orange peels, yielded stable microbial communities, which were dominated by a novel Lachnospiraceae species, for which the name "Candidatus Galacturonibacter soehngenii" was proposed. Acetate was the dominant catabolic product, with formate and H₂ as coproducts. The observed molar ratio of acetate and the combined amounts of H₂ and formate deviated significantly from 1, which suggested that some of the hydrogen and CO₂ formed during d-galacturonate fermentation was converted into acetate via the Wood-Ljungdahl acetogenesis pathway. Indeed, metagenomic analysis of the enrichment cultures indicated that the genome of "Candidatus G. soehngenii" encoded enzymes of the adapted Entner-Doudoroff pathway for d-galacturonate metabolism as well as enzymes of the Wood-Ljungdahl pathway. The simultaneous operation of these pathways may provide a selective advantage under d-galacturonate-limited conditions by enabling a higher specific ATP production rate and lower residual d-galacturonate concentration than would be possible with a strictly fermentative metabolism of this carbon and energy source.IMPORTANCE This study on d-galacturonate metabolism by open, mixed-culture enrichments under anaerobic, d-galacturonate-limited chemostat conditions shows a stable and efficient fermentation of d-galacturonate into acetate as the dominant organic fermentation product. This fermentation stoichiometry and population analyses provide a valuable baseline for interpretation of the conversion of pectin-rich agricultural feedstocks by mixed microbial cultures. Moreover, the results of this study provide a reference for studies on the microbial metabolism of d-galacturonate under different cultivation regimes.

Changes in the microbial consortium during dark hydrogen fermentation in a bioelectrochemical system increases methane production during a two-stage process

BACKGROUND

Bioelectrochemical systems (BESs) are an innovative technology developed to influence conventional anaerobic digestion. We examined the feasibility of applying a BES to dark hydrogen fermentation and its effects on a two-stage fermentation process comprising hydrogen and methane production. The BES used low-cost, low-reactivity carbon sheets as the cathode and anode, and the cathodic potential was controlled at - 1.0 V (vs. Ag/AgCl) with a potentiostat. The operation used 10 g/L glucose as the major carbon source.

RESULTS

The electric current density was low throughout (0.30-0.88 A/m² per electrode corresponding to 0.5-1.5 mM/day of hydrogen production) and water electrolysis was prevented. At a hydraulic retention time of 2 days with a substrate pH of 6.5, the BES decreased gas production (hydrogen and carbon dioxide contents: 52.1 and 47.1%, respectively), compared to the non-bioelectrochemical system (NBES), although they had similar gas compositions. In addition, a methane fermenter (MF) was applied after the BES, which increased gas production (methane and carbon dioxide contents: 85.1 and 14.9%, respectively) compared to the case when the MF was applied after the NBES. Meta 16S rRNA sequencing revealed that the BES accelerated the growth of Ruminococcus sp. and Veillonellaceae sp. and decreased Clostridium sp. and Thermoanaerobacterium sp., resulting in increased propionate and ethanol generation and decreased butyrate generation; however, unknowingly, acetate generation was increased in the BES.

CONCLUSIONS

The altered redox potential in the BES likely transformed the structure of the microbial consortium and metabolic pattern to increase methane production and decrease carbon dioxide production in the two-stage process. This study showed the utility of the BES to act on the microbial consortium, resulting in improved gas production from carbohydrate compounds.

Extremophiles for microbial-electrochemistry applications: A critical review

Extremophiles, notably archaea and bacteria, offer a good platform for treating industrial waste streams that were previously perceived as hostile to the model organisms in microbial electrochemical systems (MESs). Here we present a critical overview of the fundamental and applied biology aspects of halophiles and thermophiles in MESs. The current study suggests that extremophiles enable the MES operations under a seemingly harsh conditions imposed by the physical (pressure, radiation, and temperature) and geochemical extremes (oxygen levels, pH, and salinity). We highlight a need to identify the underpinning mechanisms that define the exceptional electrocatalytic performance of extremophiles in MESs.

Hydrogen and carbon dioxide mixed culture fermentation in a hollow-fiber membrane biofilm reactor at 25 °C

There have been no reports of H₂ and CO₂ mixed-culture fermentation (MCF) at 25 °C in a hollow-fiber membrane biofilm reactor (HfMBR). In this study, H₂ and CO₂ MCF were conducted in an HfMBR at 25 °C producing metabolites including acetate, ethanol, butyrate, and caproate. Compared to pure culture fermentation (i.e., Clostridium carboxidivorans P7), the MCF in HfMBR at 25 °C produced a higher concentration of caproate in this study (3.4 g/L in batch 1 and 5.7 g/L in batch 2). The dominant genera were Clostridium_sensu_stricto_12 and Prevotella_7. The caproate was more likely formed from the pathway of acetate and ethanol rather than via butyrate and ethanol. Since caproate is more valuable than acetate and low temperature fermentation consumes less energy, this process of H₂ and CO₂ MCF at 25 °C is appropriate for industrial application.

Impact of zero-valent iron nanoparticles on the activity of anaerobic granular sludge: From macroscopic to microcosmic investigation

The study aimed at evaluating the influence of nano zero-valent iron (nZVI) on the activity of anaerobic granular sludge (AGS) from both macroscopic and microcosmic aspects using different methodologies. The tolerance response of AGS to nZVI was firstly investigated using short-term and long-term experiments, and also compared with anaerobic flocs. The Fe fate and distribution, the change of contents/structure of extracellular polymeric substances (EPS), and the variation of microbial community in the AGS after exposure to nZVI were further explored. Contrary to the anaerobic floc, insignificant inhibition of nZVI at dosage lower than 30 mmoL/L on the activity of AGS was observed. Additionally, the extra hydrogen gas released from the oxidation of nZVI was presumably suggested to stimulate the hydrogenotrophic methanogenesis process, resulting in 30% methane production enhancement when exposure to 30 mmoL/L nZVI. The microscopic analysis indicated that nZVI particles were mainly adsorbed on the surface of AGS in the form of iron oxides aggregation without entering into the interior of the granule, protecting most cells from contact damage. Moreover, surrounded EPS located outer surface of anaerobic granule could react with nZVI to accelerate the corrosion of nZVI and slow down H₂ release from nZVI dissolution, thus further weakening the toxicity of nZVI to anaerobic microorganisms. The decrease in bacteria involved in glucose degradation and aceticlastic methanogens as well as the increase of hydrogenotrophic methanogens indicated a H₂ mediated shift toward the hydrogenotrophic pathway enhancing the CH₄ production.

Electricity production and microbial characterization of thermophilic microbial fuel cells

Thermophilic microbial fuel cell (TMFC) offers many benefits, but the investigations on the diversity of exoelectrogenic bacteria are scarce. In this study, a two-chamber TMFC was constructed using ethanol as an electron donor, and the microbial dynamics were analyzed by high-throughput sequencing and 16S rRNA clone-library sequencing. The open-circuit potential of TMFC was approximately 650mV, while the maximum voltage was around 550mV. The maximum power density was 437mW/m², and the columbic efficiency in this work was 20.5±6.0%. The Firmicutes bacteria, related to the uncultured bacterium clone A55_D21_H_B_C01 with a similarity of 99%, accounted for 90.9% of all bacteria in the TMFC biofilm. This unknown bacterium has the potential to become a new thermophilic exoelectrogenic bacterium that is yet to be cultured. The development of TMFC-involved biotechnologies will be beneficial for the production of valuable chemicals and generation of energy in the future.

In-situ sludge pretreatment in a single-stage anaerobic digester

This study aimed to develop an in-situ sludge pretreatment method by increasing the temperature from thermophilic to extreme thermophilic condition in a single-stage anaerobic digester. The results revealed that a stable performance was obtained within the temperature range of 55-65°C, and the maximum methane yield of 208.51±13.66mL/g VS was obtained at 65°C. Moreover, the maximum extent of hydrolysis (33%) and acidification (27.1%) was also observed at 65°C. However, further increase of temperature to 70°C did not improve the organic conversion efficiency. Microbial community analysis revealed that Coprothermobacter, highly related to acetate oxidisers, appeared to be the abundant bacterial group at higher temperature. A progressive shift in methanogenic members from Methanosarcina to Methanothermobacter was observed upon increasing the temperature. This work demonstrated single-stage sludge digestion system can be successfully established at high temperature (65°C) with stable performance, which can eliminate the need of conventional thermophilic pretreatment step.

Genomics and prevalence of bacterial and archaeal isolates from biogas-producing microbiomes

BACKGROUND

To elucidate biogas microbial communities and processes, the application of high-throughput DNA analysis approaches is becoming increasingly important. Unfortunately, generated data can only partialy be interpreted rudimentary since databases lack reference sequences.

RESULTS

Novel cellulolytic, hydrolytic, and acidogenic/acetogenic Bacteria as well as methanogenic Archaea originating from different anaerobic digestion communities were analyzed on the genomic level to assess their role in biomass decomposition and biogas production. Some of the analyzed bacterial strains were recently described as new species and even genera, namely Herbinix hemicellulosilytica T3/55^T, Herbinix luporum SD1D^T, Clostridium bornimense M2/40^T, Proteiniphilum saccharofermentans M3/6^T, Fermentimonas caenicola ING2-E5B^T, and Petrimonas mucosa ING2-E5A^T. High-throughput genome sequencing of 22 anaerobic digestion isolates enabled functional genome interpretation, metabolic reconstruction, and prediction of microbial traits regarding their abilities to utilize complex bio-polymers and to perform specific fermentation pathways. To determine the prevalence of the isolates included in this study in different biogas systems, corresponding metagenome fragment mappings were done. Methanoculleus bourgensis was found to be abundant in three mesophilic biogas plants studied and slightly less abundant in a thermophilic biogas plant, whereas Defluviitoga tunisiensis was only prominent in the thermophilic system. Moreover, several of the analyzed species were clearly detectable in the mesophilic biogas plants, but appeared to be only moderately abundant. Among the species for which genome sequence information was publicly available prior to this study, only the species Amphibacillus xylanus, Clostridium clariflavum, and Lactobacillus acidophilus are of importance for the biogas microbiomes analyzed, but did not reach the level of abundance as determined for M. bourgensis and D. tunisiensis.

CONCLUSIONS

Isolation of key anaerobic digestion microorganisms and their functional interpretation was achieved by application of elaborated cultivation techniques and subsequent genome analyses. New isolates and their genome information extend the repository covering anaerobic digestion community members.

Hydraulic retention time affects stable acetate production from tofu processing wastewater in extreme-thermophilic (70°C) mixed culture fermentation

Acetate is an important industrial chemical and its production from wastes via mixed culture fermentation (MCF) is economic. In this work, the effect of hydraulic retention time (HRT) on acetate production from tofu processing wastewater (TPW) in extreme-thermophilic (70°C) MCF was first investigated. It was found that long HRT (>3days) could lead to less acetate production while stable acetate production was achieved at short HRT (3days) with the yield of 0.57g-COD/g-CODTPW. The microbial community analysis showed that hydrogenotrophic methanogens (mainly Methanothermobacter) occupied up to 90% of archaea at both HRTs of 3 and 5days. However, Coprothermobacter, the main acetate-degraders, decreased from 35.74% to 10.58% of bacteria when HRT decreased from 5 to 3days, supporting the aggravation of syntrophic acetate oxidation in long HRT. This work demonstrated that HRT was a crucial factor to maintain stable acetate production from TPW in extreme-thermophilic MCF.