Microbial communities of biomethanization digesters fed with raw and heat pre-treated microalgae biomasses

Changes in microbial communities during high-rate microbial selenate reduction in an up-flow anaerobic fluidized bed reactor

Biological fluidized bed reactor (FBR) is a promising treatment option for removing selenium oxyanions from wastewater by converting them into elemental selenium. The process can achieve high rates and be efficiently operated at low hydraulic retention times (HRT). However, the effects of HRT on the changes in microbial community in the FBR process have not been previously explored. In this study, dynamic changes of microbial communities both on biofilm carrier and in suspension of a selenate-reducing FBR were explored at various HRTs (0.3-120 h). Based on partial 16S rRNA gene sequencing of the microbial communities, alpha diversity of microbial communities in suspension rather than in the biofilm were impacted by low HRTs (0.3 h-3 h). Members from genera Geobacter, Geoalkalibacter, and Geovibrio were the main selenate-reducing bacteria on carrier throughout the FBR process. Genus Geobacter was dominant in FBR carrier at HRT of 24 h-120 h, whereas Geoalkalibacter and Geovibrio dominated at low HRT of 0.3 h-6 h. Suspended microbial communities detected in the FBR effluent were more sensitive to HRT changes than that in biofilm. "Shock loading" at HRT of 0.3 h had a great impact on microbial community compositions both in the biofilm and effluent. Reactor operation in batch mode and long HRT of 24 h helped recover the community from "shock loading" and improved selenite reduction and ethanol oxidation. Redundancy analysis revealed that HRT, influent pH and selenate loading were key operational parameters impacting both the FBR performance and the composition of microbial communities associated with both the FBR carrier and effluent. Overall, the microbial communities in FBR biofilm flexibly responded to the changes of HRT and showed resilience to the temporary shock loading, enabling efficient selenate removal.

Insight into using hydrochar to alleviate ammonia nitrogen inhibition during anaerobic digestion of waste activated sludge: Performance, metagenomic and metabolomic signatures

In this study, hydrochar (HCR) was used to alleviate high ammonia inhibition to the anaerobic digestion (AD) of waste activated sludge (WAS) and to elucidate the inner microorganism mechanism. After HCR addition, the cumulative methane yield increased by 73.6 % and 35.6 % under ammonia inhibition levels of 3000 and 6000 mg/L, respectively. Metagenomic analysis showed that HCR enriched the diversity of hydrogenotrophic methanotrophs, and the relative abundances of functional microorganisms with electron transfer capabilities (Geobacteraceae bacterium etc.) were 1.5-7.8 times higher than those without HCR addition. Metabolomics analysis implied that metabolites related to fatty acid degradation, such as glutaric acid and hexadecanal, were downregulated (2.9-15.7 %) under ammonia inhibition conditions and that HCR regulates metabolites in the methane metabolic pathway. Moreover, HCR changed the methanogenic pathway from hydrogenotrophic methanogenesis to multiple pathways under ammonia inhibition conditions, especially methanolic and methylotrophic methanogenesis, which facilitated the methane yield. This study provides valuable information for understanding the inner microbial mechanism of HCR addition on alleviating high ammonia inhibition to AD of WAS, and gives basic knowledge for the application of AD of WAS under ammonia inhibition conditions.

Carbon, nitrogen, and phosphorus metabolic relationships and reaction mechanisms in SBBR processes in the plateau habitat

In this study, two laboratory-scale SBBR reactors were established in a plateau habitat. Using high flux sequencing, the SBBR process was compared by natural sediment and autotrophic sludge to characterize the functional modules and functional genes of carbon, nitrogen, and phosphorus metabolism under different working conditions and to analyze the reaction mechanism. The results showed that all the functional modules of carbon metabolism and nitrogen metabolism were found in the SBBR process, except for methane metabolism, which occurred at 25 °C in tank 2, the functional modules related to methane metabolism are enhanced at all working conditions. Except for methane metabolism, all functional genes in tank 2 are inhibited by different working conditions, whereas tank 1 shows a slight enhancement. The different working conditions in nitrogen metabolism demonstrate inhibition of functional modules and functional genes in both tanks. Oxidative phosphorylation was missing five functional modules, except for M00153, where only two genes, K00424 and K22501, are missing, all of the required genes are missing in the other four functional modules. Overall the different conditions demonstrated some inhibition in both reaction tanks of the SBBR process. It is preferable to use self-cultivated sludge for membrane acclimation when operating the SBBR process in a plateau habitat. The findings of this study can be used to further research microbial carbon, nitrogen, and phosphorus metabolism mechanisms in SBBR processes in plateau habitats.

Bioproducts generation from carboxylate platforms by the non-conventional yeast Yarrowia lipolytica

In recent years, there has been a growing interest in the use of renewable sources for bio-based production aiming at developing sustainable and feasible approaches towards a circular economy. Among these renewable sources, organic wastes (OWs) can be anaerobically digested to generate carboxylates like volatile fatty acids (VFAs), lactic acid, and longer-chain fatty acids that are regarded as novel building blocks for the synthesis of value-added compounds by yeasts. This review discusses on the processes that can be used to create valuable molecules from OW-derived VFAs; the pathways employed by the oleaginous yeast Yarrowia lipolytica to directly metabolize such molecules; and the relationship between OW composition, anaerobic digestion, and VFA profiles. The review also summarizes the current knowledge about VFA toxicity, the pathways by which VFAs are metabolized and the metabolic engineering strategies that can be employed in Y. lipolytica to produce value-added biobased compounds from VFAs.

An anaerobic dynamic membrane bioreactor for enhancing sludge digestion: Impact of solids retention time on digestion efficacy

An anaerobic dynamic membrane bioreactor (AnDMBR), which enabled the decoupling of hydraulic retention time (HRT) and solids retention time (SRT), was used for enhancing sludge digestion, with the associated mechanisms elucidated. With the increase of SRT, the biogas production and sludge reduction rate were both enhanced. The specific biogas production and volatile solids (VS) reduction rate were improved to 0.79 L/g VS and 55.9% under SRT 50 d, respectively. Microbial community analysis revealed that Chloroflexi, which is capable of degrading metabolites and dead cells, was enriched at longer SRT. Further analysis showed that both acetoclastic and hydrogenotrophic methanogenesis contributed to the enhanced biogas production under higher SRT compared to the dominance of acetoclastic methanogenesis under lower SRT. The enhanced utilization of organic matter and acetate at longer SRT further confirmed the mechanisms. The results highlighted the potential of AnDMBR for high-efficient sludge digestion.

Insights on the microbial communities developed during the anaerobic fermentation of raw and pretreated microalgae biomass

Short-chain fatty acids (SCFAs) are considered building blocks for bioproducts in the so-called carboxylate platform. These compounds can be sustainably produced via anaerobic fermentation (AF) of organic substrates, such as microalgae. However, SCFAs bioconversion efficiency is hampered by the hard cell wall of some microalgae. In this study, one thermal and two enzymatic pretreatments (carbohydrases and proteases) were employed to enhance Chlorella vulgaris biomass solubilization prior to AF. Pretreated and non-pretreated microalgae were assessed in continuous stirred tank reactors (CSTRs) for SCFAs production. Aiming to understand microorganisms' roles in AF depending on the employed substrate, not only bioconversion yields into SCFAs were evaluated but microbial communities were thoroughly characterized. Proteins were responsible for the inherent limitation of raw biomass conversion into SCFAs. Indeed, the proteolytic pretreatment resulted in the highest bioconversion (33.4% SCFAs-COD/CODin), displaying a 4-fold enhancement compared with raw biomass. Population dynamics revealed a microbial biodiversity loss along the AF regardless of the applied pretreatment, evidencing that the imposed operational conditions specialized the microbial community. In fact, a reduced abundance in Euryarchaeota phylum explained the low methanogenic activity, implying SCFAs accumulation. The bacterial community developed in the reactors fed with pretreated microalgae exhibited high acidogenic activities, being dominated by Firmicutes and Bacteroidetes. Firmicutes was by far the dominant phylum when using protease (65% relative abundance) while Bacteroidetes was prevailing in the reactor fed with carbohydrase-pretreated microalgae biomass (40% relative abundance). This fact indicated that the applied pretreatment and macromolecule solubilization have a strong effect on microbial distribution and therefore in SCFAs bioconversion yields.

Transitions of microbial communities in the solid and liquid phases during high-solids anaerobic digestion of organic fraction of municipal solid waste

This study presents a microbiological diagnosis of a mesophilic high-solids anaerobic digestion (HSAD) system with percolate recirculation. The results demonstrated a significant decrease in microbial diversity in both the solid digestate and the liquid percolate. Also, the digestate from the top and middle sections of the digester had similar diversity, whereas the digestate from the bottom of the tank had a slightly lower diversity. These results suggest that despite percolate recirculation, substrate gradients might have developed across the system. Archaeal communities showed shifts towards known hydrogenotrophic and ammonia-tolerant methanogens (genera Methanocelleus, Methanolinea, Methanosarcina, vadin CA11, etc.), which was a consequence of decreased volatile fatty acids and increased ammonia-nitrogen levels over time. Compared to initial solid and liquid inoculum, the relative abundances of some bacteria (phyla Proteobacteria and Firmicutes) and archaea of the genus Methanosarcina changed between two phases in the opposite direction, indicating a shift of microbes between two phases.

Unveiling microbial structures during raw microalgae digestion and co-digestion with primary sludge to produce biogas using semi-continuous AnMBR systems

Methane production from microalgae can be enhanced through anaerobic co-digestion with carbon-rich substrates and thus mitigate the inhibition risk associated with its low C:N ratio. Acclimated microbial communities for microalgae disruption can be used as a source of natural enzymes in bioenergy production. However, co-substrates with a certain microbial diversity such as primary sludge might shift the microbial structure. Substrates were generated in a Water Resource Recovery Facility (WRRF) and combined as follows: Scenedesmus or Chlorella digestion and microalgae co-digestion with primary sludge. The study was performed using two lab-scale Anaerobic Membrane Bioreactors (AnMBR). During three years, different feedstocks scenarios for methane production were evaluated with a special focus on the microbial diversity of the AnMBR. 57% of the population was shared between the different feedstock scenarios, revealing the importance of Anaerolineaceae members besides Smithella and Methanosaeta genera. The addition of primary sludge enhanced the microbial diversity of the system during both Chlorella and Scenedesmus co-digestion and promoted different microbial structures. Aceticlastic methanogen Methanosaeta was dominant in all the feedstock scenarios. A more remarkable role of syntrophic fatty acid degraders (Smithella, Syntrophobacteraceae) was observed during co-digestion when only microalgae were digested. However, no significant changes were observed in the microbial composition during anaerobic microalgae digestion when feeding only Chlorella or Scenedesmus. This is the first work revealing the composition of complex communities for semi-continuous bioenergy production from WRRF streams. The stability and maintenance of a microbial core over-time in semi-continuous AnMBRs is here shown supporting their future application in full-scale systems for raw microalgae digestion or co-digestion.

Volatile Fatty Acids Production from Microalgae Biomass: Anaerobic Digester Performance and Population Dynamics during Stable Conditions, Starvation, and Process Recovery

Disturbances in anaerobic digestion (AD) negatively impact the overall reactor performance. These adverse effects have been widely investigated for methane generation. However, AD recently appeared as a potential technology to obtain volatile fatty acids (VFAs) and thus, the impact of process disturbances must be evaluated. In this sense, microbial response towards a starvation period of two weeks was investigated resulting in a conversion of organic matter into VFAs of 0.39 ± 0.03 COD-VFAs/CODin. However, the lack of feeding reduced the yield to 0.30 ± 0.02 COD-VFAs/CODin. Microbial analysis revealed that the starvation period favored the syntrophic acetate-oxidizing bacteria coupled with hydrogenotrophic methanogens. Finally, the system was fed at 9 g COD/Ld resulting in process recovery (0.39 ± 0.04 COD-VFAs/CODin). The different microbiome obtained at the end of the process was proved to be functionally redundant, highlighting the AD robustness for VFAs production.

Acclimatised rumen culture for raw microalgae conversion into biogas: Linking microbial community structure and operational parameters in anaerobic membrane bioreactors (AnMBR)

Ruminal fluid was inoculated in an Anaerobic Membrane Reactor (AnMBR) to produce biogas from raw Scenedesmus. This work explores the microbial ecology of the system during stable operation at different solids retention times (SRT). The 16S rRNA amplicon analysis revealed that the acclimatised community was mainly composed of Anaerolineaceae, Spirochaetaceae, Lentimicrobiaceae and Cloacimonetes fermentative and hydrolytic members. During the highest biodegradability achieved in the AnMBR (62%) the dominant microorganisms were Fervidobacterium and Methanosaeta. Different microbial community clusters were observed at different SRT conditions. Interestingly, syntrophic bacteria Gelria and Smithella were enhanced after increasing 2-fold the organic loading rate, suggesting their importance in continuous systems producing biogas from raw microalgae.

Influence of Temperature on Biogas Production Efficiency and Microbial Community in a Two-Phase Anaerobic Digestion System

In this study, the influence of temperature on biogas production efficiency and the microbial community structure was investigated in a two-phase anaerobic digestion reactor for co-digestion of cow manure and corn straw. The results illustrated that the contents of solluted chemical oxygen demand (SCOD) and volatile fatty acid (VFA) in the acidogenic phase and biogas production in the methanogenic phase maintained relatively higher levels at temperatures ranging from 35–25 °C. The methane content of biogas production could be maintained higher than 50% at temperatures above 25 °C. The microbial community structure analysis indicated that the dominant functional bacteria were Acinetobacter, Acetitomaculum, and Bacillus in the acidogenic phase and Cenarchaeum in the methanogenic phase at 35–25 °C. However, the performances of the acidogenic phase and the methanogenic phase could be significantly decreased at a lower temperature of 20 °C, and microbial activity was inhibited obviously. Accordingly, a low temperature was adverse for the performance of the acidogenic and methanogenic phases, while moderate temperatures above 25 °C were more conducive to high biogas production efficiency.

Effect of long residence time and high temperature over anaerobic biodegradation of Scenedesmus microalgae grown in wastewater

Anaerobic digestion of indigenous Scenedesmus spp. microalgae was studied in continuous lab-scale anaerobic reactors at different temperatures (35 °C and 55 °C), and sludge retention time - SRT (50 and 70 days). Mesophilic digestion was performed in a continuous stirred-tank reactor (CSTR) and in an anaerobic membrane bioreactor (AnMBR). Mesophilic CSTR operated at 50 days SRT only achieved 11.9% of anaerobic biodegradability whereas in the AnMBR at 70 days SRT and 50 days HRT reached 39.5%, which is even higher than the biodegradability achieved in the thermophilic CSTR at 50 days SRT (30.4%). Microbial analysis revealed a high abundance of cellulose-degraders in both reactors, AnMBR (mainly composed of 9.4% Bacteroidetes, 10.1% Chloroflexi, 8.0% Firmicutes and 13.2% Thermotogae) and thermophilic CSTR (dominated by 23.8% Chloroflexi and 12.9% Firmicutes). However, higher microbial diversity was found in the AnMBR compared to the thermophilic CSTR which is related to the SRT. since high SRT promoted low growth-rate microorganisms, increasing the hydrolytic potential of the system. These results present the membrane technology as a promising approach to revalue microalgal biomass, suggesting that microalgae biodegradability and consequently the methane production could be improved operating at higher SRT.

Changes in microbial communities during volatile fatty acid production from cyanobacterial biomass harvested from a cyanobacterial bloom in a river

Volatile fatty acid (VFA) production, utilization of soluble organic compounds, and associated microbial consortia were investigated after different pretreatments (untreated, alkaline, and thermal-alkaline) using cyanobacterial biomass as a substrate. Compared to the untreated control, soluble carbohydrate concentrations were almost the same after alkaline and thermal-alkaline pretreatments, but soluble protein concentration was 1.58 times higher after alkaline pretreatment and 1.81 times higher after thermal-alkaline pretreatment. However, the highest degree of acidification was obtained after alkaline pretreatment (55.36 ± 3.00%). Microbial communities in the untreated control differed only slightly from those after thermal-alkaline pretreatment, but were clearly distinct from those after alkaline pretreatment. After alkaline pretreatment, protein-utilizing bacteria became relatively predominant. These results revealed the relationships between efficiency of VFA production and the shift in microbial community.

Biochemical methane potential of microalgae biomass using different microbial inocula

BACKGROUND

Microalgae biomass is regarded as a potential feedstock for bioenergy purposes through anaerobic digestion (AD). Even though AD is a well-proven technology, the use of new feedstocks requires in-depth studies. A lot of research has been conducted assessing methane yield without paying attention to the anaerobic microbiome and their activities. For such a goal, the present investigation was designed to link methane yield to those two later sludge characteristics. In this sense, different anaerobic sources were tested, namely adapted to microalgae biomass and adapted to sewage sludge.

RESULTS

Despite the registered differences for the anaerobic microbiome analysis and specific methane activities towards model substrates, sludge adapted to digest sewage sludge did not affect the methane yield of Chlorella sorokiniana and Scenedesmus sp. Opposite to that, sludge samples adapted to digest microalgae exhibited a concomitant increase in methane yield together with increasing digestion temperatures. More specifically, the values attained were 63.4 ± 1.5, 79.2 ± 3.1 and 108.2 ± 1.9 mL CH4 g COD in-1 for psychrophilic, mesophilic and thermophilic digestions, respectively. While psycro- and mesophilic digestion supported similar yields (most probably linked to their anaerobic microbiome resemblance), the values attained for thermophilic digestion evidenced the usefulness of having a highly specific microbiome. The relative abundance of Firmicutes, particularly Clostridia, and Proteobacteria together with an important abundance of hydrogenotrophic methanogens was highlighted in this inoculum.

CONCLUSION

Overall, this study showed that working with tailored anaerobic microbiome could help avoiding pretreatments devoted to methane yield enhancement.

Aerobic deterioration of corn stalk silage and its effect on methane production and microbial community dynamics in anaerobic digestion

Ensilage is a commonly used method of preserving energy crops for biogas production. However, aerobic deterioration of silage is an inevitable problem. This study investigated the effect of aerobic deterioration on methane production and microbial community dynamics through anaerobic digestion (AD) of maize stalk silage, following 9days air exposure of silage. After air exposure, hydrolytic activity and methanogenic archaea amount in AD were reduced, decreasing the specific methane yield (SMY); whereas lignocellulose decomposition during exposure improved the degradability of silage in AD and enhanced SMY, partially compensating the dry matter (DM) loss. 29.3% of the DM and 40.7% of methane yield were lost following 0-9days exposure. Metagenomic analysis showed a shift from Clostridia to Bacteroidia and Anaerolineae in AD after silage deterioration; Methanosaetaceae was the dominant methanogenic archaea.

Acclimation to extremely high ammonia levels in continuous biomethanation process and the associated microbial community dynamics

Acclimatized anaerobic communities to high ammonia levels can offer a solution to the ammonia toxicity problem in biogas reactors. In the current study, a stepwise acclimation strategy up to 10g NH₄⁺-N L^-1, was performed in mesophilic (37±1°C) continuously stirred tank reactors. The reactors were co-digesting (20/80 based on volatile solid) cattle slurry and microalgae, a protein-rich, 3rd generation biomass. Throughout the acclimation period, methane production was stable with more than 95% of the uninhibited yield. Next generation 16S rRNA gene sequencing revealed a dramatic microbiome change throughout the ammonia acclimation process. Clostridium ultunense, a syntrophic acetate oxidizing bacteria, increased significantly alongside with hydrogenotrophic methanogen Methanoculleus spp., indicating strong hydrogenotrophic methanogenic activity at extreme ammonia levels (>7g NH₄⁺-N L^-1). Overall, this study demonstrated for the first time that acclimation of methanogenic communities to extreme ammonia levels in continuous AD process is possible, by developing a specialised acclimation AD microbiome.

Qualitative Analysis of Microbial Dynamics during Anaerobic Digestion of Microalgal Biomass in a UASB Reactor

Anaerobic digestion (AD) is a microbiologically coordinated process with dynamic relationships between bacterial players. Current understanding of dynamic changes in the bacterial composition during the AD process is incomplete. The objective of this research was to assess changes in bacterial community composition that coordinates with anaerobic codigestion of microalgal biomass cultivated on municipal wastewater. An upflow anaerobic sludge blanket reactor was used to achieve high rates of microalgae decomposition and biogas production. Samples of the sludge were collected throughout AD and extracted DNA was subjected to next-generation sequencing using methanogen mcrA gene specific and universal bacterial primers. Analysis of the data revealed that samples taken at different stages of AD had varying bacterial composition. A group consisting of Bacteroidales, Pseudomonadales, and Enterobacteriales was identified to be putatively responsible for the hydrolysis of microalgal biomass. The methanogenesis phase was dominated by Methanosarcina mazei. Results of observed changes in the composition of microbial communities during AD can be used as a road map to stimulate key bacterial species identified at each phase of AD to increase yield of biogas and rate of substrate decomposition. This research demonstrates a successful exploitation of methane production from microalgae without any biomass pretreatment.