Syntrophic Acetate-Oxidizing Microbial Consortia Enriched from Full-Scale Mesophilic Food Waste Anaerobic Digesters Showing High Biodiversity and Functional Redundancy

Li, Chao; Hao, Liping; Lü, Fan; Duan, Haowen; Zhang, Hua; He, Pinjing

doi:10.1128/msystems.00339-22

Cited by 26 publications

(10 citation statements)

References 60 publications

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“…Most of the Darwinibacteriaceae MAGs contained FolD , Fhs , and Fdh enzymes, which play vital roles in the acquisition of CO 2 and H 2 from formate. The absence of gene Pta and Acs could be justified by the presence of glycine reductase ( Grd ) in the glycine cleavage system, which facilitates the conversion of glycine for entry into the GCS (Li et al, 2022). Thus, the entire reverse WL-GCS pathway was encoded by members of Darwinibacteriaceae , with only two genes, namely Pta and Acs missing, which are in fact not necessary for the completion of the pathway, as in the GCS, CH3-CO-Pi is directly converted to glycine through the function of glycine reductase (Grd) (Li et al, 2022).…”

Section: Resultsmentioning

confidence: 99%

“…The absence of gene Pta and Acs could be justified by the presence of glycine reductase ( Grd ) in the glycine cleavage system, which facilitates the conversion of glycine for entry into the GCS (Li et al, 2022). Thus, the entire reverse WL-GCS pathway was encoded by members of Darwinibacteriaceae , with only two genes, namely Pta and Acs missing, which are in fact not necessary for the completion of the pathway, as in the GCS, CH3-CO-Pi is directly converted to glycine through the function of glycine reductase (Grd) (Li et al, 2022). The remaining enzymes were identified in more than 70% of the Darwinibacteriaceae MAGs, with the exception of Dld , which was present in only 60% of them.…”

Section: Resultsmentioning

confidence: 99%

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Unveiling the ecology, taxonomy and metabolic capabilities of MBA03, a potential key player in anaerobic digestion

Puchol-Royo,

Pascual,

Ortega-Legarreta

et al. 2023

Preprint

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Biogas, a mix of CO2, CH4 and small proportions of other gases, is a biofuel obtained by anaerobic digestion (AD). Biogas production is often considered a black box process, as the role and dynamics of some of the microorganisms involved remain undisclosed. Previous metataxonomic studies in the frame of the MICRO4BIOGAS project (www.micro4biogas.eu) revealed that MBA03, an uncharacterised and uncultured bacterial taxon, was very prevalent and abundant in industrial full-scale AD plants. Surprisingly, no culturable specimen or genome of this taxon has ever been reported, so its role in AD has remained unclear. In the present work, thirty samples derived from anaerobic digesters were sequenced, allowing the reconstruction of 108 metagenome-assembled genomes (MAGs) potentially belonging to MBA03. According to phylogenetic analyses and genomic similarity indices, MBA03 constitutes a new bacterial order, proposed as Darwinibacteriales ord. nov., which includes Darwinibacter acetoxidans gen. nov., sp. nov. of the family Darwinibacteriaceae fam. nov., along with Wallacebacter cryptica gen. nov., sp. nov. of the Wallacebacteriaceae fam. nov. Ecotaxonomic studies determined that AD processes are the main ecological niche of Darwinibacteriales. Moreover, metabolic predictions identified Darwinibacteraceae members as putative syntrophic acetate oxidising bacteria (SAOB), as they encode for the reversed Wood-Ljungdahl pathway coupled to the glycine cleavage system. This suggests that Darwinibacteraceae members work in collaboration with hydrogenotrophic archaea to produce methane in industrial biogas plants. Overall, our findings present Darwinibacteriales as a potential key player in anaerobic digestion and pave the way towards the complete characterisation of this newly described bacterial taxa.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Unveiling the ecology, taxonomy and metabolic capabilities of MBA03, a potential key player in anaerobic digestion

Puchol-Royo,

Pascual,

Ortega-Legarreta

et al. 2023

Preprint

View full text Add to dashboard Cite

show abstract

“…The V4 region of the 16S rRNA gene was amplified with the primer pair 515F (5′-GTGCCAGCMGCCGCGGTAA) and 806R (5′-GGACTACVSGGGTATCTAAT) . A detailed description of the sequencing procedure can be found in a previous study …”

Section: Methodsmentioning

confidence: 99%

“…67 Further evidence such as metatranscriptomics, metaproteomics, or metabolomics is required to confirm the exact role of the versatile G1. 25.…”

Section: Role Of Redundancy During Hydrolysis Of Carbohydrates Intomentioning

confidence: 99%

“…Besides, high species diversity of potential SAOB and the wide distribution of the reversed Wood−Ljungdahl pathway combined with a glycine cleavage system (WLP-GCS) were also observed (Figure 4e), which is consistent with previous findings. 25 Interestingly, in addition to the genetic potential for carbohydrate hydrolysis, the genome of G1.25 contains nearly complete gene catalogs for acetate-type glucose metabolism and syntrophic acetate oxidation. It should be noted that DNA-based metagenomic sequencing can only reflect the functional potential.…”

Section: Role Of Redundancy During Hydrolysis Of Carbohydrates Intomentioning

confidence: 99%

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Functional Redundant Microbiome Enhanced Anaerobic Digestion Efficiency under Ammonium Inhibition Conditions

Li,

Lü,

Peng

et al. 2024

Environ. Sci. Technol.

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Revealing the role of functional redundancy is of great importance considering its key role in maintaining the stability of microbial ecosystems in response to various disturbances. However, experimental evidence on this point is still lacking due to the difficulty in "manipulating" and depicting the degree of redundancy. In this study, manipulative experiments of functional redundancy were conducted by adopting the mixed inoculation strategy to evaluate its role in engineered anaerobic digestion systems under ammonium inhibition conditions. The results indicated that the functional redundancy gradient was successfully constructed and confirmed by evidence from pathway levels. All mixed inoculation groups exhibited higher methane production regardless of the ammonium level, indicating that functional redundancy is crucial in maintaining the system's efficiency. Further analysis of the metagenome-assembled genomes within different functional guilds revealed that the extent of redundancy decreased along the direction of the anaerobic digestion flow, and the role of functional redundancy appeared to be related to the stress level. The study also found that microbial diversity of key functional populations might play a more important role than their abundance on the system's performance under stress. The findings provide direct evidence and highlight the critical role of functional redundancy in enhancing the efficiency and stability of anaerobic digestion.

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Microbiome dynamics and products profiles of biowaste fermentation under different organic loads and additives

Zhu,

Li,

2023

Engineering in Life Sciences

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Biowaste fermentation is a promising technology for low‐carbon print bioenergy and biochemical production. Although it is believed that the microbiome determines both the fermentation efficiency and the product profiles of biowastes, the explicit mechanisms of how microbial activity controls fermentation processes remained to be unexplored. The current study investigated the microbiome dynamics and fermentation product profiles of biowaste fermentation under different organic loads (5, 20, and 40 g‐VS/L) and with additives that potentially modulate the fermentation process via methanogenesis inhibition (2‐bromoethanesulfonate) or electron transfer promotion (i.e., reduced iron, magnetite iron, and activated carbon). The overall fermentation products yields were 440, 373 and 208 CH4‐eq/g‐VS for low‐, medium‐ and high‐load fermentation. For low‐ and medium‐load fermentation, volatile fatty acids (VFAs) were first accumulated and were gradually converted to methane. For high‐load fermentation, VFAs were the main fermentation products during the entire fermentation period, accounting for 62% of all products. 16S rRNA‐based analyses showed that both 2‐bromoethanesulfonate addition and increase of organic loads inhibited the activity of methanogens and promoted the activity of distinct VFA‐producing bacterial microbiomes. Moreover, the addition of activated carbon promoted the activity of H2‐producing Bacteroides, homoacetogenic Eubacteriaceae and methanogenic Methanosarcinaceae, whose activity dynamics during the fermentation led to changes in acetate and methane production. The current results unveiled mechanisms of microbiome activity dynamics shaping the biowaste fermentation product profiles and provided the fundamental basis for the development of microbiome‐guided engineering approaches to modulate biowaste fermentation toward high‐value product recovery.

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Syntrophic Acetate-Oxidizing Microbial Consortia Enriched from Full-Scale Mesophilic Food Waste Anaerobic Digesters Showing High Biodiversity and Functional Redundancy

Cited by 26 publications

References 60 publications

Unveiling the ecology, taxonomy and metabolic capabilities of MBA03, a potential key player in anaerobic digestion

Unveiling the ecology, taxonomy and metabolic capabilities of MBA03, a potential key player in anaerobic digestion

Functional Redundant Microbiome Enhanced Anaerobic Digestion Efficiency under Ammonium Inhibition Conditions

Microbiome dynamics and products profiles of biowaste fermentation under different organic loads and additives

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