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Jin Y, Lu Y. Syntrophic Propionate Oxidation: One of the Rate-Limiting Steps of Organic Matter Decomposition in Anoxic Environments. Appl Environ Microbiol 2023; 89:e0038423. [PMID: 37097179 PMCID: PMC10231205 DOI: 10.1128/aem.00384-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/26/2023] Open
Abstract
Syntrophic propionate oxidation is one of the rate-limiting steps during anaerobic decomposition of organic matter in anoxic environments. Syntrophic propionate-oxidizing bacteria (SPOB) are members of the "rare biosphere" living at the edge of the thermodynamic limit in most natural habitats. Hitherto, only 10 bacterial species capable of syntrophic propionate oxidization have been identified. SPOB employ different metabolisms for propionate oxidation (e.g., methylmalonyl-CoA pathway and C6 dismutation pathway) and show diverse life strategies (e.g., obligately and facultatively syntrophic lifestyle). The flavin-based electron bifurcation/confurcation (FBEB/C) systems have been proposed to help solve the thermodynamic dilemma during the formation of the low-potential products H2 and formate. Molecular ecological approaches, such as DNA stable isotope probing (DNA-SIP) and metagenomics, have been used to detect SPOB in natural environments. Furthermore, the biogeographical pattern of SPOB has been recently described in paddy soils. A comprehensive understanding of SPOB is essential for better predicting and managing organic matter decomposition and carbon cycling in anoxic environments. In this review, we described the critical role of syntrophic propionate oxidation in anaerobic decomposition of organic matter, phylogenetic and metabolic diversity, life strategies and ecophysiology, composition of syntrophic partners, and pattern of biogeographic distribution of SPOB in natural environments. We ended up with a few perspectives for future research.
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Affiliation(s)
- Yidan Jin
- College of Urban and Environmental Sciences, Peking University, Beijing, China
| | - Yahai Lu
- College of Urban and Environmental Sciences, Peking University, Beijing, China
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2
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Hashemi S, Solli L, Lien KM, Lamb JJ, Horn SJ. Culture adaptation for enhanced biogas production from birch wood applying stable carbon isotope analysis to monitor changes in the microbial community. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2023; 16:77. [PMID: 37149601 PMCID: PMC10163780 DOI: 10.1186/s13068-023-02328-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2022] [Accepted: 04/24/2023] [Indexed: 05/08/2023]
Abstract
Birch wood is a potential feedstock for biogas production in Northern Europe; however, the lignocellulosic matrix is recalcitrant preventing efficient conversion to methane. To improve digestibility, birch wood was thermally pre-treated using steam explosion at 220 °C for 10 min. The steam-exploded birch wood (SEBW) was co-digested with cow manure for a period of 120 days in continuously fed CSTRs where the microbial community adapted to the SEBW feedstock. Changes in the microbial community were tracked by stable carbon isotopes- and 16S r RNA analyses. The results showed that the adapted microbial culture could increase methane production up to 365 mL/g VS day, which is higher than previously reported methane production from pre-treated SEBW. This study also revealed that the microbial adaptation significantly increased the tolerance of the microbial community against the inhibitors furfural and HMF which were formed during pre-treatment of birch. The results of the microbial analysis indicated that the relative amount of cellulosic hydrolytic microorganisms (e.g. Actinobacteriota and Fibrobacterota) increased and replaced syntrophic acetate bacteria (e.g. Cloacimonadota, Dethiobacteraceae, and Syntrophomonadaceae) as a function of time. Moreover, the stable carbon isotope analysis indicated that the acetoclastic pathway became the main route for methane production after long-term adaptation. The shift in methane production pathway and change in microbial community shows that for anaerobic digestion of SEBW, the hydrolysis step is important. Although acetoclastic methanogens became dominant after 120 days, a potential route for methane production could also be a direct electron transfer among Sedimentibacter and methanogen archaea.
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Affiliation(s)
- Seyedbehnam Hashemi
- Department of Energy and Process Engineering, Norwegian University of Science and Technology (NTNU), 7034, Trondheim, Norway.
| | - Linn Solli
- Norwegian Institute of Bioeconomy Research (NIBIO), 1433, Ås, Norway
| | - Kristian M Lien
- Department of Energy and Process Engineering, Norwegian University of Science and Technology (NTNU), 7034, Trondheim, Norway
| | - Jacob J Lamb
- Department of Energy and Process Engineering, Norwegian University of Science and Technology (NTNU), 7034, Trondheim, Norway
| | - Svein Jarle Horn
- Norwegian Institute of Bioeconomy Research (NIBIO), 1433, Ås, Norway
- Faculty of Chemistry, Biotechnology, and Food Science, Norwegian University of Life Sciences (NMBU), 1432, Ås, Norway
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Chen J, Wang H, Yuan H, Hu N, Zou F, Li C, Shi L, Tan B, Zhang S. Effects of dietary Clostridium autoethanogenum protein on the growth, disease resistance, intestinal digestion, immunity and microbiota structure of Litopenaeus vannamei reared at different water salinities. Front Immunol 2022; 13:1034994. [PMID: 36275652 PMCID: PMC9585349 DOI: 10.3389/fimmu.2022.1034994] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Accepted: 09/21/2022] [Indexed: 12/04/2022] Open
Abstract
The shortage of fishmeal (FM) resources limits the healthy development of aquaculture. Developing new protein sources to replace FM in aquatic feeds is an effective measure to alleviate this situation. However, the application effect of new protein sources is greatly affected by water salinity, which is an important parameter of aquaculture. In this study, the growth, disease resistance, and intestinal digestion, immunity, and microbiota structure of Litopenaeus vannamei (initial weight: 0.38 ± 0.01 g) fed on Clostridium autoethanogenum protein (CAP) or not at three different water salinities (15 ‰, 30 ‰, and 45 ‰) were compared, aiming to explore the effects of dietary CAP on shrimp when suffering different salinity stresses. The results showed that the growth performance, feed utilization, and survival rate (SR) after pathogen challenge of L. vannamei could be significantly improved by dietary CAP when compared with the control at the same salinity and they were also significantly affected by salinity changes when L. vannamei was fed on the same protein source. With the increase in salinity, obvious upregulation was observed in the activities and gene expression of digestive enzymes both in L. vannamei fed on FM and CAP, with significantly higher levels in L. vannamei fed on CAP than in those fed on FM at the same salinity. Meanwhile, the expression levels of immune genes in the CAP group were significantly higher than those in the FM group at different salinities. The intestinal microbiota analysis showed that CAP could increase the relative abundance of beneficial bacteria and decrease the relative abundance of harmful bacteria in the intestine of L. vannamei at the phylum, family, and genus levels, and it was more affected by salinity changes when compared with FM. Besides, the changes in salinity and protein sources led to different changes in the intestinal microflora function of L. vannamei. In sum, this study indicated that CAP could improve the growth, disease resistance, digestive capacity, and intestinal microflora of L. vannamei with a much more intense immune response and enhance its ability to cope with salinity stress.
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Affiliation(s)
- Jian Chen
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
| | - Hongming Wang
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
| | - Hang Yuan
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
| | - Naijie Hu
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
| | - Fangqi Zou
- Technology R&D Department, Beijing Shoulang Bio-Technology Co., Ltd., Beijing, China
| | - Chongyang Li
- Technology R&D Department, Beijing Shoulang Bio-Technology Co., Ltd., Beijing, China
| | - Lili Shi
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
| | - Beiping Tan
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang, China
- Aquatic Animal Nutrition and Feed Laboratory, Aquatic Animals Precision Nutrition and High Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang, China
| | - Shuang Zhang
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
- Key Laboratory of Aquatic, Livestock and Poultry Feed Science and Technology in South China, Ministry of Agriculture, Zhanjiang, China
- Aquatic Animal Nutrition and Feed Laboratory, Aquatic Animals Precision Nutrition and High Efficiency Feed Engineering Research Center of Guangdong Province, Zhanjiang, China
- *Correspondence: Shuang Zhang,
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Li S, Qian Z, Yang J, Lin Y, Li H, Chen L. Seasonal variation in structure and function of gut microbiota in Pomacea canaliculata. Ecol Evol 2022; 12:e9162. [PMID: 35919391 PMCID: PMC9336170 DOI: 10.1002/ece3.9162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2022] [Revised: 07/06/2022] [Accepted: 07/11/2022] [Indexed: 11/12/2022] Open
Abstract
Gut microbiota is associated with host health and its environmental adaption, influenced by seasonal variation. Pomacea canaliculata is one of the world's 100 worst invasive alien species. Here, we used high-throughput sequencing of the 16S rRNA gene to analyze the seasonal variation of gut microbiota of P. canaliculata. The results suggested that the predominant gut microbial phyla of P. canaliculata included Firmicutes and Proteobacteria, which helped digest plant food and accumulate energy. The gut microbiota of P. canaliculata in summer group showed the highest diversity, whereas the winter group possessed the lowest, probably due to the shortage of food resources of P. canaliculata in winter. Principal coordinate analysis analysis based on unweighted unifrac and weighted unifrac indicated that the composition of gut microbiota of P. canaliculata significantly varied across seasons. Bacteroidetes tended to be enriched in summer by linear discriminant analysis effect size analysis. Actinobacteria and Cyanobacteria were extremely abundant in autumn, while Fusobacteria and Cetobacterium enriched in winter. In conclusion, the structure of the gut microbiota of P. canaliculata was significantly different among seasons, which was beneficial to the environment adaptation and the digestion and metabolism of food during different periods.
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Affiliation(s)
- Shuxian Li
- Jiangsu Key Laboratory for Biodiversity and BiotechnologyCollege of Life Sciences, Nanjing Normal UniversityNanjingChina
| | - Zijin Qian
- Jiangsu Key Laboratory for Biodiversity and BiotechnologyCollege of Life Sciences, Nanjing Normal UniversityNanjingChina
| | - Jiani Yang
- Jiangsu Key Laboratory for Biodiversity and BiotechnologyCollege of Life Sciences, Nanjing Normal UniversityNanjingChina
| | - Youfu Lin
- College of Biology and the Environment, Nanjing Forestry UniversityNanjingChina
| | - Hong Li
- Jiangsu Key Laboratory for Biodiversity and BiotechnologyCollege of Life Sciences, Nanjing Normal UniversityNanjingChina
| | - Lian Chen
- College of Biology and the Environment, Nanjing Forestry UniversityNanjingChina
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Wang C, Wang Y, Wang Y, Liu L, Wang D, Ju F, Xia Y, Zhang T. Impacts of food waste to sludge ratios on microbial dynamics and functional traits in thermophilic digesters. WATER RESEARCH 2022; 219:118590. [PMID: 35597218 DOI: 10.1016/j.watres.2022.118590] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2021] [Revised: 04/18/2022] [Accepted: 05/10/2022] [Indexed: 06/15/2023]
Abstract
A self-stabilizing microbial community lays the foundation of the efficient biochemical reactions of the anaerobic digestion (AD) process. Despite extensive profiling of microbial community dynamics under varying operating parameters, the effects of food waste (FW) to feeding sewage sludge (FSS) ratios on the microbial assembly, functional traits, and syntrophic interspecies interactions in thermophilic microbial consortia remain poorly understood. Here, we investigated the long-term impacts of the FW: FSS ratio on the thermophilic AD microbiome using genome-centric metagenomics. Both the short reads (SRs) assembly, and the iterative hybrid assembly (IHA) of SRs and nanopore long reads (LRs) were used to reconstruct metagenome-assembled genomes (MAGs) and four microbial clusters were identified, demonstrating different microbial dynamics patterns in response to varying FW:FSS ratios. Cluster C1-C3 were comprised of full functional members with genetic potentials in fulfilling empirical AD biochemical reactions, wherein, syntrophic decarboxylating acetogens could interact with methanogens, and some microbes could be energized by the electron bifurcation mechanism to drive thermodynamics unfavorable reactions. We found the co-existence of both acetogenic and hydrogenotrophic methanogens in the AD microbiome, and they altered their trophic groups to scavenge the methanogenic substrates in ensuring the methane generation in digesters with different FW:FSS ratios. Another interesting observation was that two phylogenetically close Thermotogota species showed a possible strong competition on carbon source inferred by the nearly complete genetic overlap of their relevant pathways.
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Affiliation(s)
- Chunxiao Wang
- Environmental Microbiome Engineering and Biotechnology Laboratory, Center for Environmental Engineering Research, Department of Civil Engineering, The University of Hong Kong, Hong Kong SAR, China
| | - Yulin Wang
- Environmental Microbiome Engineering and Biotechnology Laboratory, Center for Environmental Engineering Research, Department of Civil Engineering, The University of Hong Kong, Hong Kong SAR, China; State Key Laboratory of Microbial Biotechnology, Shandong University, Qingdao 266237, China
| | - Yubo Wang
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China
| | - Lei Liu
- Environmental Microbiome Engineering and Biotechnology Laboratory, Center for Environmental Engineering Research, Department of Civil Engineering, The University of Hong Kong, Hong Kong SAR, China
| | - Dou Wang
- Environmental Microbiome Engineering and Biotechnology Laboratory, Center for Environmental Engineering Research, Department of Civil Engineering, The University of Hong Kong, Hong Kong SAR, China
| | - Feng Ju
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, 18 Shilongshan Road, Hangzhou 310024, China
| | - Yu Xia
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen 518055, China
| | - Tong Zhang
- Environmental Microbiome Engineering and Biotechnology Laboratory, Center for Environmental Engineering Research, Department of Civil Engineering, The University of Hong Kong, Hong Kong SAR, China.
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Xue S, Chai F, Li L, Wang W. Conversion and speculated pathway of methane anaerobic oxidation co-driven by nitrite and sulfate. ENVIRONMENTAL RESEARCH 2022; 208:112662. [PMID: 34999025 DOI: 10.1016/j.envres.2021.112662] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Revised: 12/30/2021] [Accepted: 12/30/2021] [Indexed: 06/14/2023]
Abstract
Anaerobic sludge from sewage treatment was employed to derive a microbial colony that is capable of anaerobic oxidation of methane coupled with sulfate reduction and denitrification. Investigations revealed that methane can be oxidized with sulfate reduction and denitrification. When sulfate and nitrite acted as electron acceptors together, the rates and amount of methane conversion were higher than that when sulfate or nitrite alone was employed as an electron acceptor. The oxidation rate and amount of methane conversion reached 1.9 mg/(d•gVSS) and 22.24 mg, respectively. Methanotrophic bacteria, such as M. oxyfera, and Methylocystis sp., sulfate-reducing bacteria (SRB), e.g. Desulfosporosinus sp., and Desulfuromonas sp.; and denitrification bacteria, such as Hyphomicrobium sp., and Diaphorobacter sp., presented in the bacterial community. Anaerobic methanotrophic archaea (ANME), including Methanosaeta sp. and Methanobacterium sp. were found in the archaeal community. These findings indicate the coexistence of ANME, SRB and denitrification bacteria in the system. Nitrite reduction coupled with methane oxidation was performed independently by M. oxyfera during which limited oxygen generated. The oxygen released may be utilized by methanotrophic bacteria to produce organics, which could be used by denitrifying bacteria to reduce nitrite. Methanotrophic archaea could also oxidize methane to carbon dioxide or organics by reverse methanogenesis whereas sulfate was reduced to sulfide by SRB. This study opens possibility for biotechnological process of sulfate reduction and denitrification with methane as electron donor and provides a method for the synergistic treatment of wastewater containing sulfate/nitrite and waste gas containing methane.
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Affiliation(s)
- Song Xue
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, PR China; Environmental Simulation and Pollution Control State Key Joint Laboratory, State Environmental Protection Key Laboratory of Microorganism Application and Risk Control (SMARC), School of Environment, Tsinghua University, Beijing, 100084, PR China
| | - Fengguang Chai
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, PR China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Lin Li
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, PR China; University of Chinese Academy of Sciences, Beijing, 100049, PR China; National Engineering Laboratory for VOCs Pollution Control Material & Technology, University of Chinese Academy of Sciences, Beijing, 101408, PR China.
| | - Wenwen Wang
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, PR China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
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Westerholm M, Calusinska M, Dolfing J. Syntrophic propionate-oxidizing bacteria in methanogenic systems. FEMS Microbiol Rev 2022; 46:fuab057. [PMID: 34875063 PMCID: PMC8892533 DOI: 10.1093/femsre/fuab057] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Accepted: 12/03/2021] [Indexed: 12/04/2022] Open
Abstract
The mutual nutritional cooperation underpinning syntrophic propionate degradation provides a scant amount of energy for the microorganisms involved, so propionate degradation often acts as a bottleneck in methanogenic systems. Understanding the ecology, physiology and metabolic capacities of syntrophic propionate-oxidizing bacteria (SPOB) is of interest in both engineered and natural ecosystems, as it offers prospects to guide further development of technologies for biogas production and biomass-derived chemicals, and is important in forecasting contributions by biogenic methane emissions to climate change. SPOB are distributed across different phyla. They can exhibit broad metabolic capabilities in addition to syntrophy (e.g. fermentative, sulfidogenic and acetogenic metabolism) and demonstrate variations in interplay with cooperating partners, indicating nuances in their syntrophic lifestyle. In this review, we discuss distinctions in gene repertoire and organization for the methylmalonyl-CoA pathway, hydrogenases and formate dehydrogenases, and emerging facets of (formate/hydrogen/direct) electron transfer mechanisms. We also use information from cultivations, thermodynamic calculations and omic analyses as the basis for identifying environmental conditions governing propionate oxidation in various ecosystems. Overall, this review improves basic and applied understanding of SPOB and highlights knowledge gaps, hopefully encouraging future research and engineering on propionate metabolism in biotechnological processes.
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Affiliation(s)
- Maria Westerholm
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, BioCentre, Almas allé 5, SE-75007 Uppsala, Sweden
| | - Magdalena Calusinska
- Environmental Research and Innovation Department, Luxembourg Institute of Science and Technology, rue du Brill 41, L-4422 Belvaux, Luxembourg
| | - Jan Dolfing
- Faculty of Energy and Environment, Northumbria University, Wynne Jones 2.11, Ellison Place, Newcastle-upon-Tyne NE1 8QH, UK
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Chen Y, Zhang X, Chen Y. Propionic acid-rich fermentation (PARF) production from organic wastes: A review. BIORESOURCE TECHNOLOGY 2021; 339:125569. [PMID: 34303105 DOI: 10.1016/j.biortech.2021.125569] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2021] [Revised: 07/09/2021] [Accepted: 07/11/2021] [Indexed: 06/13/2023]
Abstract
Nowadays, increasing attention has been drawn to biological valorization of organic wastes. Wherein, propionic acid-rich fermentation (PARF) has become a focal point of research. The objective of this review is to make a thorough investigation on the potential of PARF production and give future outlook. By discussing the key factors affecting PARF including substrate types, pH, temperature, retention time, etc., and various improving methods to enhance PARF including different pretreatments, inoculation optimization and immobilization, a comprehensive summary on how to achieve PARF from organic waste is presented. Then, current application of PARF liquid is concluded, which is found to play an essential role in the efficient denitrification and phosphorus removal of wastewater and preparation of microbial lipids. Finally, the environmental performance of PARF production is reviewed through life cycle assessment studies, and environmentally sensitive sectors are summarized for process optimization, providing a reference for waste management in low carbon scenarios.
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Affiliation(s)
- Yuexi Chen
- State Key Laboratory of Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Xuemeng Zhang
- State Key Laboratory of Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Yinguang Chen
- State Key Laboratory of Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai 200092, PR China.
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Hashemi S, Hashemi SE, Lien KM, Lamb JJ. Molecular Microbial Community Analysis as an Analysis Tool for Optimal Biogas Production. Microorganisms 2021; 9:microorganisms9061162. [PMID: 34071282 PMCID: PMC8226781 DOI: 10.3390/microorganisms9061162] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Revised: 05/17/2021] [Accepted: 05/26/2021] [Indexed: 11/16/2022] Open
Abstract
The microbial diversity in anaerobic digestion (AD) is important because it affects process robustness. High-throughput sequencing offers high-resolution data regarding the microbial diversity and robustness of biological systems including AD; however, to understand the dynamics of microbial processes, knowing the microbial diversity is not adequate alone. Advanced meta-omic techniques have been established to determine the activity and interactions among organisms in biological processes like AD. Results of these methods can be used to identify biomarkers for AD states. This can aid a better understanding of system dynamics and be applied to producing comprehensive models for AD. The paper provides valuable knowledge regarding the possibility of integration of molecular methods in AD. Although meta-genomic methods are not suitable for on-line use due to long operating time and high costs, they provide extensive insight into the microbial phylogeny in AD. Meta-proteomics can also be explored in the demonstration projects for failure prediction. However, for these methods to be fully realised in AD, a biomarker database needs to be developed.
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Affiliation(s)
- Seyedbehnam Hashemi
- Department of Energy and Process Engineering & Enersense, Norwegian University of Science and Technology (NTNU), 7034 Trondheim, Norway; (S.H.); (S.E.H.); (K.M.L.)
| | - Sayed Ebrahim Hashemi
- Department of Energy and Process Engineering & Enersense, Norwegian University of Science and Technology (NTNU), 7034 Trondheim, Norway; (S.H.); (S.E.H.); (K.M.L.)
| | - Kristian M. Lien
- Department of Energy and Process Engineering & Enersense, Norwegian University of Science and Technology (NTNU), 7034 Trondheim, Norway; (S.H.); (S.E.H.); (K.M.L.)
| | - Jacob J. Lamb
- Department of Energy and Process Engineering & Enersense, Norwegian University of Science and Technology (NTNU), 7034 Trondheim, Norway; (S.H.); (S.E.H.); (K.M.L.)
- Department of Electronic Systems, Norwegian University of Science and Technology (NTNU), 7034 Trondheim, Norway
- Correspondence:
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Liu C, Ren L, Yan B, Luo L, Zhang J, Awasthi MK. Electron transfer and mechanism of energy production among syntrophic bacteria during acidogenic fermentation: A review. BIORESOURCE TECHNOLOGY 2021; 323:124637. [PMID: 33421831 DOI: 10.1016/j.biortech.2020.124637] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Revised: 12/25/2020] [Accepted: 12/26/2020] [Indexed: 06/12/2023]
Abstract
Volatile fatty acids (VFAs) production plays an important role in the process of anaerobic digestion (AD), which is often the critical factor determining the metabolic pathways and energy recovery efficiency. Fermenting bacteria and acetogenic bacteria are in syntrophic relations during AD. Thus, clear elucidation of the interspecies electron transfer and energetic mechanisms among syntrophic bacteria is essential for optimization of acidogenic. This review aims to discuss the electron transfer and energetic mechanism in syntrophic processes between fermenting bacteria and acetogenic bacteria during VFAs production. Homoacetogenesis also plays a role in the syntrophic system by converting H2 and CO2 to acetate. Potential applications of these syntrophic activities in bioelectrochemical system and value-added product recovery from AD of organic wastes are also discussed. The study of acidogenic syntrophic relations is in its early stages, and additional investigation is required to better understand the mechanism of syntrophic relations.
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Affiliation(s)
- Chao Liu
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, PR China
| | - Liheng Ren
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, PR China
| | - Binghua Yan
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, PR China
| | - Lin Luo
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, PR China
| | - Jiachao Zhang
- College of Resources and Environment, Hunan Agricultural University, Changsha 410128, PR China
| | - Mukesh Kumar Awasthi
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, PR China; Swedish Centre for Resource Recovery, University of Borås, 50190 Borås, Sweden.
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Xin X, Qiu W. Linking microbial mechanism with bioelectricity production in sludge matrix-fed microbial fuel cells: Freezing/thawing liquid versus fermentation liquor. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 752:141907. [PMID: 32890820 DOI: 10.1016/j.scitotenv.2020.141907] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2020] [Revised: 07/28/2020] [Accepted: 08/21/2020] [Indexed: 06/11/2023]
Abstract
This first-attempt study elucidated the microbial mechanism associated with bioelectricity output in microbial fuel cells (MFCs) fed with sludge matrices of freezing/thawing (F/T) liquid versus fermentation liquor, while a novel schematic elucidation for exploring cooperative interactions in anodic microbial consortia of MFCs supplied with such two feeds toward electrogenesis was put forward. Moreover, the F/T liquid cultivated main genera of Azospira, Povalibacter, Thauera, Terrimonas, Alicycliphilus, Dokdonella and Simplicispira for dual organics degradation and electrogenesis with power density of 0.152 mW/m2 and electrogenesis efficiency of 1.152 kWh/kg COD, while the fermentation liquor fostered higher diversity and medium evenness with the enrichment of Phenylobacterium, Cellulomonas, Edaphobacter, Burkholderia, Clostridium, Sphingomonas, Leifsonia and Microbacterium in anodic biofilm and causing larger power density of 0.182 mW/m2 and 1.418 kWh/kg COD-electrogenesis efficiency. Comparative analysis results indicated that the anodic fermentative bacteria exert considerable influence on concurrent organics degradation and electricity production through the synergistic interactions with exoelectrogens toward stable running of MFCs. Besides, the higher anodic microbial diversity, relatively middling community evenness and larger abundance of functional genes associated with electrogenesis together played contributive roles on more power generation through MFCs for treating WAS matrix. This study was conducive to bring about some new microbial mechanism understanding on maximizing bioenergy recovery via MFCs in future sludge management.
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Affiliation(s)
- Xiaodong Xin
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology (SKLUWRE, HIT), Harbin 150090, China; Department of Environmental Science and Engineering, Huaqiao University, Xiamen 361021, China
| | - Wei Qiu
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology (SKLUWRE, HIT), Harbin 150090, China.
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12
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Jung JH, Sim YB, Baik JH, Park JH, Kim SH. High-rate mesophilic hydrogen production from food waste using hybrid immobilized microbiome. BIORESOURCE TECHNOLOGY 2021; 320:124279. [PMID: 33152682 DOI: 10.1016/j.biortech.2020.124279] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/28/2020] [Revised: 10/11/2020] [Accepted: 10/13/2020] [Indexed: 06/11/2023]
Abstract
This study examined the feasibility of dark fermentative biohydrogen production from food waste using hybrid immobilization in mesophilic condition. Among four different organic loading rates (OLRs), the highest average hydrogen production rate (HPR) of 9.82 ± 0.30 L/L-d was found at an OLR of 74.7 g hexose/L-d, which was higher than reported values from particulate feedstock in mesophilic condition. The average hydrogen yield (HY) at the condition was 1.25 ± 0.04 mol H2/mol hexoseconsumed. Whereas the average HPR and HY at an OLR 80 g hexose/L-d were 5.82 ± 0.12 L/L-d and 0.64 ± 0.02 mol H2/mol hexoseconsumed, respectively. Metabolic flux analysis showed the low HY was concurrent with the highest propionic acid and homoacetogenis. Bacterial population was shift from Clostridium sp. to non-hydrogen producers including Bifidobacterium, Bacteriodes, Olsenella, Dysgonomonas, and Dialister sp.
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Affiliation(s)
- Ju-Hyeong Jung
- School of Civil and Environmental Engineering, Yonsei University, Seoul 03722, Republic of Korea
| | - Young-Bo Sim
- School of Civil and Environmental Engineering, Yonsei University, Seoul 03722, Republic of Korea
| | - Jong-Hyun Baik
- School of Civil and Environmental Engineering, Yonsei University, Seoul 03722, Republic of Korea
| | - Jong-Hun Park
- School of Civil and Environmental Engineering, Yonsei University, Seoul 03722, Republic of Korea
| | - Sang-Hyoun Kim
- School of Civil and Environmental Engineering, Yonsei University, Seoul 03722, Republic of Korea.
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13
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Zhao J, Li Y, Marandola C, Krooneman J, Euverink GJW. Comparison of the microbial communities in anaerobic digesters treating high alkalinity synthetic wastewater at atmospheric and high-pressure (11 bar). BIORESOURCE TECHNOLOGY 2020; 318:124101. [PMID: 32947140 DOI: 10.1016/j.biortech.2020.124101] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2020] [Revised: 09/01/2020] [Accepted: 09/03/2020] [Indexed: 06/11/2023]
Abstract
High-pressure anaerobic digestion is an appealing concept since it can upgrade biogas directly within the reactor. However, the decline of pH caused by the dissolution of CO2 is the main barrier that prevents a good operating high-pressure anaerobic digestion process. Therefore, in this study, a high-pressure anaerobic digestion was studied to treat high alkalinity synthetic wastewater, which could not be treated in a normal-pressure anaerobic digester. In the high-pressure reactor, the pH value was 7.5 ~ 7.8, and the CH4 content reached 88% at 11 bar. Unlike its normal-pressure counterpart (2285 mg/L acetic acid), the high-pressure reactor ran steadily (without volatile fatty acids inhibition). Furthermore, the microbial community changed in the high-pressure reactor. Specifically, key microbial guilds (Syntrophus (11.2%), Methanosaeta concilii (50.9%), and Methanobrevibacter (26.8%)) were dominant in the high-pressure reactor at 11 bar, indicating their fundamental roles under high-pressure treating high alkalinity synthetic wastewater.
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Affiliation(s)
- Jing Zhao
- Faculty of Science and Engineering, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Yu Li
- Faculty of Science and Engineering, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Clara Marandola
- Faculty of Science and Engineering, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Janneke Krooneman
- Faculty of Science and Engineering, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands; Carbohydrate Competence Center, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands
| | - Gert Jan Willem Euverink
- Faculty of Science and Engineering, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands; Carbohydrate Competence Center, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.
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14
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Hosseini Taleghani A, Lim TT, Lin CH, Ericsson AC, Vo PH. Degradation of Veterinary Antibiotics in Swine Manure via Anaerobic Digestion. Bioengineering (Basel) 2020; 7:E123. [PMID: 33050352 PMCID: PMC7712989 DOI: 10.3390/bioengineering7040123] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Revised: 10/02/2020] [Accepted: 10/02/2020] [Indexed: 02/01/2023] Open
Abstract
Antibiotic-resistant microorganisms are drawing a lot of attention due to their severe and irreversible consequences on human health. The animal industry is considered responsible in part because of the enormous volume of antibiotics used annually. In the current research, veterinary antibiotic (VA) degradation, finding the threshold of removal and recognizing the joint effects of chlortetracycline (CTC) and Tylosin combination on the digestion process were studied. Laboratory scale anaerobic digesters were utilized to investigate potential mitigation of VA in swine manure. The digesters had a working volume of 1.38 L (in 1.89-L glass jar), with a hydraulic retention time (HRT) of 21 days and a loading rate of 1.0 g-VS L-1 d-1. Digesters were kept at 39 ± 2 °C in incubators and loaded every two days, produced biogas every 4 days and digester pH were measured weekly. The anaerobic digestion (AD) process was allowed 1.5 to 2 HRT to stabilize before adding the VAs. Tests were conducted to compare the effects of VAs onto manure nutrients, volatile solid removal, VA degradation, and biogas production. Concentrations of VA added to the manure samples were 263 to 298 mg/L of CTC, and 88 to 263 mg/L of Tylosin, respectively. Analysis of VA concentrations before and after the AD process was conducted to determine the VA degradation. Additional tests were also conducted to confirm the degradation of both VAs dissolved in water under room temperature and digester temperature. Some fluctuations of biogas production and operating variables were observed because of the VA addition. All CTC was found degraded even only after 6 days of storage in water solution; thus, there was no baseline to estimate the effects of AD. As for Tylosin, 100% degradation was observed due to the AD (removal was 100%, compared with 24-40% degradation observed in the 12-day water solution storage). Besides, complete Tylosin degradation was also observed in the digestate samples treated with a mixture of the two VAs. Lastly, amplicon sequencing was performed on each group by using the 50 most variable operational taxonomic units (OTUs)s and perfect discriminations were detected between groups. The effect of administration period and dosage of VAs on Phyla Firmicutes Proteobacteria, Synergistetes and Phylum Bacteroides was investigated. These biomarkers' abundance can be employed to predict the sample's treatment group.
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Affiliation(s)
- Ali Hosseini Taleghani
- Division of Food Systems and Bioengineering, University of Missouri, Columbia, MO 65211, USA;
| | - Teng-Teeh Lim
- Division of Food Systems and Bioengineering, University of Missouri, Columbia, MO 65211, USA;
| | - Chung-Ho Lin
- School of Natural Resources, University of Missouri, Columbia, MO 65211, USA; (C.-H.L.); (P.H.V.)
| | - Aaron C. Ericsson
- Department of Veterinary Pathobiology, University of Missouri, Columbia, MO 65201, USA;
| | - Phuc H. Vo
- School of Natural Resources, University of Missouri, Columbia, MO 65211, USA; (C.-H.L.); (P.H.V.)
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15
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Lv X, Ma B, Lee K, Ulrich A. Potential syntrophic associations in anaerobic naphthenic acids biodegrading consortia inferred with microbial interactome networks. JOURNAL OF HAZARDOUS MATERIALS 2020; 397:122678. [PMID: 32497975 DOI: 10.1016/j.jhazmat.2020.122678] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/01/2020] [Revised: 03/18/2020] [Accepted: 04/07/2020] [Indexed: 06/11/2023]
Abstract
Naphthenic acids (NAs) can be syntrophically metabolized by indigenous microbial communities in pristine sediments beneath oil sands tailings ponds. Syntrophy is an essential determinant of the microbial interactome, however, the interactome network in anaerobic NAs-degrading consortia has not been previously addressed due to complexity and resistance of NAs. To evaluate the impact of electron acceptors on topology of interactome networks, we inferred two microbial interactome networks for anaerobic NAs-degrading consortia under nitrate- and sulfate-reducing conditions. The complexity of the network was higher under sulfate-reducing conditions than nitrate-reducing conditions. Differences in the taxonomic composition between the two modules implies that different potential syntrophic interactions exist in each network. We inferred the presence of the same syntrophic microorganisms, from genera Bellilinea, Longilinea, and Litorilinea, initiating the metabolism in both networks, but within each network, we predicted unique syntrophic associations that have not been reported. Electron acceptor has a large effect on the interactome networks for anaerobic NAs-degrading consortia, offers insight into an unrecognized dimension of these consortia. These results provide a novel approach for exploring potential syntrophic relationships in biodegrading processes to help cost-effectively remove NAs in oil sands tailings ponds.
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Affiliation(s)
- Xiaofei Lv
- Department of Environmental Engineering, China Jiliang University, Hangzhou, 310018, China
| | - Bin Ma
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China.
| | - Korris Lee
- Department of Civil and Environmental Engineering, University of Alberta, Edmonton, Alberta, T6G 2W2, Canada
| | - Ania Ulrich
- Department of Civil and Environmental Engineering, University of Alberta, Edmonton, Alberta, T6G 2W2, Canada
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16
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Chen J, Liu YF, Zhou L, Irfan M, Hou ZW, Li W, Mbadinga SM, Liu JF, Yang SZ, Wu XL, Gu JD, Mu BZ. Long-chain n-alkane biodegradation coupling to methane production in an enriched culture from production water of a high-temperature oil reservoir. AMB Express 2020; 10:63. [PMID: 32266503 PMCID: PMC7138878 DOI: 10.1186/s13568-020-00998-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2020] [Accepted: 03/21/2020] [Indexed: 11/18/2022] Open
Abstract
Paraffinic n-alkanes (C22–C30), crucial portions of residual oil, are generally considered to be difficult to be biodegraded owing to their general solidity at ambient temperatures and low water solubility, rendering relatively little known about metabolic processes in different methanogenic hydrocarbon-contaminated environments. Here, we established a methanogenic C22–C30 n-alkane-degrading enrichment culture derived from a high-temperature oil reservoir production water. During two-year incubation (736 days), unexpectedly significant methane production was observed. The measured maximum methane yield rate (164.40 μmol L−1 d−1) occurred during the incubation period from day 351 to 513. The nearly complete consumption (> 97%) of paraffinic n-alkanes and the detection of dicarboxylic acids in n-alkane-amended cultures indicated the biotransformation of paraffin to methane under anoxic condition. 16S rRNA gene analysis suggested that the dominant methanogen in n-alkane-degrading cultures shifted from Methanothermobacter on day 322 to Thermoplasmatales on day 736. Bacterial community analysis based on high-throughput sequencing revealed that members of Proteobacteria and Firmicutes exhibiting predominant in control cultures, while microorganisms affiliated with Actinobacteria turned into the most dominant phylum in n-alkane-dependent cultures. Additionally, the relative abundance of mcrA gene based on genomic DNA significantly increased over the incubation time, suggesting an important role of methanogens in these consortia. This work extends our understanding of methanogenic paraffinic n-alkanes conversion and has biotechnological implications for microbial enhanced recovery of residual hydrocarbons and effective bioremediation of hydrocarbon-containing biospheres.
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17
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Dynamic shifts within volatile fatty acid-degrading microbial communities indicate process imbalance in anaerobic digesters. Appl Microbiol Biotechnol 2020; 104:4563-4575. [PMID: 32219463 DOI: 10.1007/s00253-020-10552-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2019] [Revised: 03/04/2020] [Accepted: 03/15/2020] [Indexed: 10/24/2022]
Abstract
Buildup of volatile fatty acids (VFAs) in anaerobic digesters (ADs) often results in acidification and process failure. Understanding the dynamics of microbial communities involved in VFA degradation under stable and overload conditions may help optimize anaerobic digestion processes. In this study, five triplicate mesophilic completely mixed AD sets were operated at different organic loading rates (OLRs; 1-6 g chemical oxygen demand [COD] LR-1day-1), and changes in the composition and abundance of VFA-degrading microbial communities were monitored using amplicon sequencing and taxon-specific quantitative PCRs, respectively. AD sets operated at OLRs of 1-4 g COD LR-1day-1 were functionally stable throughout the operational period (120 days) whereas process instability (characterized by VFA buildup, pH decline, and decreased methane production rate) occurred in digesters operated at ≥ 5 g COD LR-1day-1. Though microbial taxa involved in propionate (Syntrophobacter and Pelotomaculum) and butyrate (Syntrophomonas) degradation were detected across all ADs, their abundance decreased with increasing OLR. The overload conditions also inhibited the proliferation of the acetoclastic methanogen, Methanosaeta, and caused a microbial community shift to acetate oxidizers (Tepidanaerobacter acetatoxydans) and hydrogenotrophic methanogens (Methanoculleus). This study's results highlight the importance of operating ADs with conditions that promote the maintenance of microbial communities involved in VFA degradation.
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18
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Xin X, Chen BY, Hong J. Unraveling interactive characteristics of microbial community associated with bioelectric energy production in sludge fermentation fluid-fed microbial fuel cells. BIORESOURCE TECHNOLOGY 2019; 289:121652. [PMID: 31252317 DOI: 10.1016/j.biortech.2019.121652] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Revised: 06/11/2019] [Accepted: 06/12/2019] [Indexed: 06/09/2023]
Abstract
This first-attempt study deciphered the interactive characteristics of anodophilic microbial community-associated bioelectricity production in waste activated sludge (WAS) fermentation fluid-fed microbial fuel cells (MFCs). A novel schematic elucidation for illustrating synergistic interactions in anodic microbial consortia towards electrogenesis was proposed. Moreover, the specific genera of Pseudomonas, Desulfovibrio, Phyllobacterium, Desulfuromonas, Chelatococcus and Aminivibrio were dominant in anodic biofilms, leading to an electrogenesis efficiency of 1.254 kWh/kg COD and peak power density of 0.182 W/m2 (at feeding level of 1.20 g COD/L). It was apparently higher than those MFCs fed with glucose/acetate. The fermentative species contributed positively in reorganizing microbial community structure in anodic biofilms, positively relating to electrogenesis via interactions with exoeletrogens in MFCs. Finally, a more electrogenesis was positively associated to larger anodic microbial diversity, relatively medium anodic community evenness, together with higher abundance of functional genes related to electrogenesis in functional species in MFCs fed with WAS fermentation fluid.
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Affiliation(s)
- Xiaodong Xin
- Department of Environmental Science and Engineering, Huaqiao University, Xiamen 361021, PR China
| | - Bor-Yann Chen
- Department of Environmental Science and Engineering, Huaqiao University, Xiamen 361021, PR China; Department of Chemical and Materials Engineering, National I-Lan University, I-Lan 26047, Taiwan
| | - Junming Hong
- Department of Environmental Science and Engineering, Huaqiao University, Xiamen 361021, PR China.
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19
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Dyksma S, Gallert C. Candidatus Syntrophosphaera thermopropionivorans: a novel player in syntrophic propionate oxidation during anaerobic digestion. ENVIRONMENTAL MICROBIOLOGY REPORTS 2019; 11:558-570. [PMID: 30985964 DOI: 10.1111/1758-2229.12759] [Citation(s) in RCA: 46] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2018] [Accepted: 04/12/2019] [Indexed: 06/09/2023]
Abstract
Propionate is an important intermediate in the anaerobic mineralization of organic matter. In methanogenic environments, its degradation relies on syntrophic associations between syntrophic propionate-oxidizing bacteria (SPOB) and Archaea. However, only 10 isolated species have been identified as SPOB so far. We report syntrophic propionate oxidation in thermophilic enrichments of Candidatus Syntrophosphaera thermopropionivorans, a novel representative of the candidate phylum Cloacimonetes. In enrichment culture, methane was produced from propionate, while Ca. S. thermopropionivorans contributed 63% to total bacterial cells. The draft genome of Ca. S. thermopropionivorans encodes genes for propionate oxidation via methymalonyl-CoA. Phylogenetically, Ca. S. thermopropionivorans affiliates with the uncultured Cloacimonadaceae W5 and is more distantly related (86.4% 16S rRNA gene identity) to Ca. Cloacimonas acidaminovorans. Although Ca. S. thermopropionivorans was enriched from a thermophilic biogas reactor, Ca. Syntrophosphaera was in particular associated with mesophilic anaerobic digestion systems. 16S rRNA gene amplicon sequencng and a novel genus-specific quantitative PCR assay consistently identified Ca. Syntrophosphaera/Cloacimonadaceae W5 in 9 of 12 tested full-scale biogas reactors thereby outnumbering other SPOB such as Pelotomaculum, Smithella and Syntrophobacter. Taken together the ubiquity and abundance of Ca. Syntrophosphaera, those SPOB might be key players for syntrophic propionate metabolism that have been overlooked before.
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Affiliation(s)
- Stefan Dyksma
- Faculty of Technology, Microbiology - Biotechnology, University of Applied Sciences Emden/Leer, Emden, Germany
| | - Claudia Gallert
- Faculty of Technology, Microbiology - Biotechnology, University of Applied Sciences Emden/Leer, Emden, Germany
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20
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Xin X, Hong J, Liu Y. Insights into microbial community profiles associated with electric energy production in microbial fuel cells fed with food waste hydrolysate. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 670:50-58. [PMID: 30903902 DOI: 10.1016/j.scitotenv.2019.03.213] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2018] [Revised: 03/14/2019] [Accepted: 03/14/2019] [Indexed: 06/09/2023]
Abstract
Insights of microbial community profiles associated with electric energy production in microbial fuel cells (MFCs) fed with food waste hydrolysate (FWH) were investigated in this study. High power density of 0.173 W/m2 was obtained from FWH which was produced from food waste after the pretreatment with fungal mash at an influent COD concentration of 1.2 g/L. The main genera in the MFCs fed with FWH were found to be Rummeliibacillus, Burkholderia, Enterococcus and Clostridium in anodic biofilms, leading to an electrogenesis efficiency of 0.977 kWh/kg COD higher than those obtained in MFCs with single carbon source feed. The key members in the anodic community responsible for electrogenesis were conceptually identified with their metabolic interactions in MFCs fed with FWH. It appeared that the syntrophic cooperation of fermentative species with exoelectrogens played an essential role in the generation of electric energy via specific microbes in anodic biofilm. The power produced from FWH was positively associated with microbial diversity, intermediate community evenness and abundance of functional genes for bioelectrogenesis.
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Affiliation(s)
- Xiaodong Xin
- Department of Environmental Science and Engineering, Huaqiao University, Xiamen 361021, PR China; Advanced Environmental Biotechnology Centre, Nanyang Environment & Water Research Institute, Nanyang Technological University, 1 Cleantech Loop, Singapore 637141, Singapore
| | - Junming Hong
- Department of Environmental Science and Engineering, Huaqiao University, Xiamen 361021, PR China
| | - Yu Liu
- Advanced Environmental Biotechnology Centre, Nanyang Environment & Water Research Institute, Nanyang Technological University, 1 Cleantech Loop, Singapore 637141, Singapore; School of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
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21
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Fan L, Wang Z, Chen M, Qu Y, Li J, Zhou A, Xie S, Zeng F, Zou J. Microbiota comparison of Pacific white shrimp intestine and sediment at freshwater and marine cultured environment. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 657:1194-1204. [PMID: 30677886 DOI: 10.1016/j.scitotenv.2018.12.069] [Citation(s) in RCA: 60] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2018] [Revised: 12/04/2018] [Accepted: 12/05/2018] [Indexed: 06/09/2023]
Abstract
Environmental microbiota plays important roles in the intestinal microbiota of aquatic animals. The Pacific white shrimp with high commercial value and euryhaline property has become the most important commercial species of shrimp in the world. However, the association between shrimp intestine and sediment at freshwater and marine cultured environment should be investigated to reveal the microbiota differences. In the present study, Miseq sequencing technology and bioinformatics were used to comprehensively compare the bacterial communities and all samples' V3-V4 regions of 16S rRNA gene were sequenced. Results showed that 55 phyla and 789 genera were identified due to the classifiable sequence. Sequencing data demonstrated statistically significant diverse microbiota compositions in the shrimp intestine and sediment at freshwater and marine cultured environment at the phylum and genus level. At the phylum level, the dominant phyla in all groups were Proteobacteria, Chloroflexi, Actinobacteria, Firmicutes, Cyanobacteria, Bacteroidetes, Acidobacteria, Verrucomicrobia, Saccharibacteria. Proteobacteria were the most abundant and largest phylum except in the intestine of marine cultured shrimp and Actinobacteria may be enriched in the shrimp intestine from sediment. At the genus level, nine out of the twelve dominant genera exhibited statistically significant differences among all groups. Moreover, Lactobacillus tend to be enriched in the freshwater cultured shrimp intestine, while Synechococcus and Vibrio extremely abundance in the marine cultured shrimp intestine. These results showed that the bacterial compositions are mostly the same in shrimp intestine and sediment, while with different relative abundances of the bacterial communities. In conclusion, this study may greatly enhance our understanding of the microbiota characteristics between shrimp and sediment. Moreover, it provided guidance for the healthy aquaculture at freshwater and marine cultured environment.
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Affiliation(s)
- Lanfen Fan
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China; Joint Laboratory of Guangdong Province and Hong Kong Region on Marine Bioresource Conservation and Exploitation, South China Agricultural University, Guangzhou 510642, PR China.
| | - Zhenlu Wang
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China
| | - Miaoshan Chen
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China
| | - Yuexin Qu
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China
| | - Junyi Li
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China
| | - Aiguo Zhou
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China
| | - Shaolin Xie
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China
| | - Fang Zeng
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China
| | - Jixing Zou
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, PR China.
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22
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Zhu X, Campanaro S, Treu L, Kougias PG, Angelidaki I. Novel ecological insights and functional roles during anaerobic digestion of saccharides unveiled by genome-centric metagenomics. WATER RESEARCH 2019; 151:271-279. [PMID: 30612083 DOI: 10.1016/j.watres.2018.12.041] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2018] [Revised: 11/26/2018] [Accepted: 12/05/2018] [Indexed: 05/10/2023]
Abstract
In typical anaerobic digestion (AD) systems, the microbial functional assertion is hampered by synchronised versatile metabolism required for heterogeneous substrates degradation. Thus, the intricate methanogenic process from organic compounds remains an enigma after decades of empirical operation. In this study, simplified AD microbial communities were obtained with substrate specifications and continuous reactor operation. Genome-centric metagenomic approach was followed to holistically investigate the metabolic pathways of the AD and the microbial synergistic networks. In total, 63 metagenome assembled genomes (MAGs) were assembled from 8 metagenomes acquired in specific methanogenic niches. The metabolic pathways were reconstructed from the annotated genes and their dynamicity under experimental conditions. The results show that the methanogenic niches nourish unique metabolism beyond current knowledge acquired from cultivation-based methods. A novel glucose mineralization model without acetate formation was proposed and asserted in a pair of syntrophs: Clostridiaceae sp. and Methanoculleus thermophilus. Moreover, the catabolic pathway was elucidated in uncharacterized syntrophic acetate oxidizers, Synergistaceae spp. A remarkable evolutionary insight is the discovery that electron transport and energy conservation mechanisms impose selective pressure on syntrophic partners. Overall, the functional roles of the individual microbes tightly rely on the catabolic pathways and cannot always be physiologically defined in accordance with conventional four-step AD concept. The substrate-specific systems provided a traceable microbial community to dissecting the AD process. The genome-centric metagenomics successfully constructed genomes of microbes that have not been previously isolated and illustrated metabolic pathways that beyond the current knowledge of AD process. This study provides new perspectives to unravel the AD microbial ecology and suggests more attention should be paid on uncharacterized metabolism specifically harboured by AD microbial communities.
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Affiliation(s)
- Xinyu Zhu
- Department of Environmental Engineering, Technical University of Denmark, Kgs. Lyngby, DK-2800, Denmark
| | - Stefano Campanaro
- Department of Biology, University of Padova, Via U. Bassi 58/b, 35121, Padova, Italy
| | - Laura Treu
- Department of Environmental Engineering, Technical University of Denmark, Kgs. Lyngby, DK-2800, Denmark; Department of Biology, University of Padova, Via U. Bassi 58/b, 35121, Padova, Italy
| | - Panagiotis G Kougias
- Department of Environmental Engineering, Technical University of Denmark, Kgs. Lyngby, DK-2800, Denmark.
| | - Irini Angelidaki
- Department of Environmental Engineering, Technical University of Denmark, Kgs. Lyngby, DK-2800, Denmark
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23
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Gu Y, Wei Y, Xiang Q, Zhao K, Yu X, Zhang X, Li C, Chen Q, Xiao H, Zhang X. C:N ratio shaped both taxonomic and functional structure of microbial communities in livestock and poultry breeding wastewater treatment reactor. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 651:625-633. [PMID: 30245418 DOI: 10.1016/j.scitotenv.2018.09.234] [Citation(s) in RCA: 45] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2018] [Revised: 09/17/2018] [Accepted: 09/18/2018] [Indexed: 06/08/2023]
Abstract
C:N ratios play critical roles in determining the stability and performance of the wastewater treatment reactor. Here, we investigated bacterial and archaeal community composition, diversity, association networks, and functional profiles in livestock and poultry breeding wastewater (LPBW) with C:N gradients from 7.8 to 18.9 using 16S rRNA gene amplicon sequencing. Highest total nitrogen (TN) and total phosphorous (TP) removal rates were detected in the wastewater with high C:N ratios, while bacterial and archaeal communities in the wastewater varied across the four C:N ratios. Proteobacteria, Acidobacteria, and Bacteroides were generally the dominant phyla in the wastewater across treatments, with Candidatus Saccharibacteria being more enriched in the wastewater with high C:N ratios. Association network analysis showed that specific bacterial and archaeal taxa likely have similar metabolic activities allowing them to respond similarly to different C:N ratios. Bacteroidetes, Actinobacteria, Verrucomicrobia, Candidatus Saccharibacteria, and Proteobacteria were the keystone species found in the networks. Most dominant bacterial functions in the wastewater were chemoheterotrophy and aerobic chemoheterotrophy. Nitrite respiration, nitrous oxide denitrification, nitrate denitrification and nitrite denitrification were up-regulated with increased C:N ratios. Our findings provide new insights into our understanding of the compositions, potential associations, and predicted functional profiles of the microbial community in LPBW treated with different C:N ratios.
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Affiliation(s)
- Yunfu Gu
- Department of Microbiology, College of Resource Sciences and Technology, Sichuan Agricultural University, Chengdu 611130, China.
| | - Ye Wei
- Department of Environmental Science, College of Environmental Sciences, Sichuan Agricultural University, Chengdu 611130, China
| | - Quanju Xiang
- Department of Microbiology, College of Resource Sciences and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Ke Zhao
- Department of Microbiology, College of Resource Sciences and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiumei Yu
- Department of Microbiology, College of Resource Sciences and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiaoping Zhang
- Department of Microbiology, College of Resource Sciences and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Chaonan Li
- Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, China
| | - Qiang Chen
- Department of Microbiology, College of Resource Sciences and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Hong Xiao
- Department of Environmental Science, College of Environmental Sciences, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiaohong Zhang
- Department of Environmental Science, College of Environmental Sciences, Sichuan Agricultural University, Chengdu 611130, China
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Li L, Xue S, Xi J. Anaerobic oxidation of methane coupled to sulfate reduction: Consortium characteristics and application in co-removal of H 2S and methane. J Environ Sci (China) 2019; 76:238-248. [PMID: 30528014 DOI: 10.1016/j.jes.2018.05.006] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Revised: 05/09/2018] [Accepted: 05/09/2018] [Indexed: 06/09/2023]
Abstract
Anaerobic sludge from a sewage treatment plant was used to acclimatize microbial colonies capable of anaerobic oxidation of methane (AOM) coupled to sulfate reduction. Clone libraries and fluorescence in situ hybridization were used to investigate the microbial population. Sulfate-reducing bacteria (SRB) (e.g., Desulfotomaculum arcticum and Desulfobulbus propionicus) and anaerobic methanotrophic archaea (ANME) (e.g., Methanosaeta sp. and Methanolinea sp.) coexisted in the enrichment. The archaeal and bacterial cells were randomly or evenly distributed throughout the consortia. Accompanied by sulfate reduction, methane was oxidized anaerobically by the consortia of methane-oxidizing archaea and SRB. Moreover, CH4 and SO42- were consumed by methanotrophs and sulfate reducers with CO2 and H2S as products. The H3CSH produced by methanotrophy was an intermediate product during the process. The methanotrophic enrichment was inoculated in a down-flow biofilter for the treatment of methane and H2S from a landfill site. On average, 93.33% of H2S and 10.71% of methane was successfully reduced in the biofilter. This study tries to provide effective method for the synergistic treatment of waste gas containing sulfur compounds and CH4.
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Affiliation(s)
- Lin Li
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; National Engineering Laboratory for VOCs Pollution Control Material & Technology, University of Chinese Academy of Sciences, Beijing 101408, China.
| | - Song Xue
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; National Engineering Laboratory for VOCs Pollution Control Material & Technology, University of Chinese Academy of Sciences, Beijing 101408, China
| | - Jingru Xi
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; State Key Laboratory of Applied Microbiology Southern China, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou 510070, China; National Engineering Laboratory for VOCs Pollution Control Material & Technology, University of Chinese Academy of Sciences, Beijing 101408, China
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25
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Quintero M, Alzate M, Patiño F, Arboleda A, Pinzón Y, Mantilla A, Escalante H. Physicochemical and microbiological monitoring of anaerobic digestion at laboratory and low cost tubular digester. BIORESOURCE TECHNOLOGY 2019; 274:321-328. [PMID: 30529479 DOI: 10.1016/j.biortech.2018.11.091] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2018] [Revised: 11/22/2018] [Accepted: 11/25/2018] [Indexed: 06/09/2023]
Abstract
The aim of this work was to use an inexpensive technique, such as the most probable number, MPN to quantitatively and qualitatively examine microbial groups in anaerobic digestion, AD of cattle manure, CM. Different diluents and mixing ratios were evaluated in 100 mL reactors using biomethane potential, BMP, as output variable. MPN tests were performed to samples from a 23 L tank and 6.5 m3 low-cost tubular digester, LCTD. To monitor LCTD stability, volatile solids, VS, specific methanogenic activity, SMA, pH, volatile fatty acids, VFA, and chemical oxygen demand, COD were measured. Microbial characterization highlighted the optimal population essential to initiate the anaerobic digestion process. Bacteria domain were predominant over Archaea, with average abundance values of 78% and 22%, respectively. SMA of 0.0486 g COD g-1 SV d-1 was obtained at laboratory-scale and LCTD reached 83% of this value. Conditions selected are cost-effective to establish a biodigester in rural areas.
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Affiliation(s)
- M Quintero
- Grupo de Investigación en Tecnologías de Valorización de Residuos y Fuentes Agrícolas e Industriales para la Sustentabilidad Energética (INTERFASE), Escuela de Ingeniería Química, Universidad Industrial de Santander, Carrera 27, Calle 9 Ciudad Universitaria, AA 678 Bucaramanga, Colombia.
| | - M Alzate
- Escuela de Microbiología y Bioanálisis, Universidad Industrial de Santander, Carrera 27, Calle 9 Ciudad Universitaria, AA 678 Bucaramanga, Colombia
| | - F Patiño
- Grupo de Investigación en Medio Ambiente y Energías Renovables (GIEMA), Escuela de Ingeniería Mecánica, Universidad Industrial de Santander, Carrera 27, Calle 9 Ciudad Universitaria, AA 678 Bucaramanga, Colombia
| | - A Arboleda
- Escuela de Microbiología y Bioanálisis, Universidad Industrial de Santander, Carrera 27, Calle 9 Ciudad Universitaria, AA 678 Bucaramanga, Colombia
| | - Y Pinzón
- Escuela de Microbiología y Bioanálisis, Universidad Industrial de Santander, Carrera 27, Calle 9 Ciudad Universitaria, AA 678 Bucaramanga, Colombia
| | - A Mantilla
- Escuela de Microbiología y Bioanálisis, Universidad Industrial de Santander, Carrera 27, Calle 9 Ciudad Universitaria, AA 678 Bucaramanga, Colombia
| | - H Escalante
- Grupo de Investigación en Tecnologías de Valorización de Residuos y Fuentes Agrícolas e Industriales para la Sustentabilidad Energética (INTERFASE), Escuela de Ingeniería Química, Universidad Industrial de Santander, Carrera 27, Calle 9 Ciudad Universitaria, AA 678 Bucaramanga, Colombia
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Narihiro T, Nobu MK, Bocher BTW, Mei R, Liu WT. Co-occurrence network analysis reveals thermodynamics-driven microbial interactions in methanogenic bioreactors. ENVIRONMENTAL MICROBIOLOGY REPORTS 2018; 10:673-685. [PMID: 30136425 DOI: 10.1111/1758-2229.12689] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2018] [Revised: 08/13/2018] [Accepted: 08/15/2018] [Indexed: 06/08/2023]
Abstract
Methanogenic bioreactors have been applied to treat purified terephthalic acid (PTA) wastewater containing complex aromatic compounds, such as terephthalic acid, para-toluic acid and benzoic acid. This study characterized the interaction of microbial populations in 42 samples obtained from 10 PTA-degrading methanogenic bioreactors. Approximately, 54 dominant populations (11 methanogens, 8 syntrophs and 35 functionally unknown clades) that represented 73.9% of total 16S rRNA gene iTag sequence reads were identified. Co-occurrence analysis based on the abundance of dominant OTUs showed two non-overlapping networks centred around aromatic compound- (group AR: Syntrophorhabdaceae, Syntrophus and Pelotomaculum) and fatty acid- (group FA: Smithella and Syntrophobacter) degrading syntrophs. Group AR syntrophs have no direct correlation with hydrogenotrophic methanogens, while those from group FA do. As degradation of aromatic compounds has a wider thermodynamic window than fatty acids, Group AR syntrophs may be less influenced by fluctuations in hydrogenotrophic methanogen abundance or may non-specifically interact with diverse methanogens. In both groups, network analysis reveals full-scale- and lab-scale-specific uncultivated taxa that may mediate interactions between syntrophs and methanogens, suggesting that those uncultivated taxa may support the degradation of aromatic compounds through uncharted ecophysiological traits. These observations suggest that organisms from multiple niches orchestrate their metabolic capacity in multiple interaction networks to effectively degrade PTA wastewater.
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Affiliation(s)
- Takashi Narihiro
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Ibaraki, 305-8566, Japan
| | - Masaru K Nobu
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Ben T W Bocher
- Petrochemicals Technology, BP America, Naperville, IL, 60563, USA
| | - Ran Mei
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Wen-Tso Liu
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
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Dhoble AS, Lahiri P, Bhalerao KD. Machine learning analysis of microbial flow cytometry data from nanoparticles, antibiotics and carbon sources perturbed anaerobic microbiomes. J Biol Eng 2018; 12:19. [PMID: 30220912 PMCID: PMC6134764 DOI: 10.1186/s13036-018-0112-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2018] [Accepted: 08/23/2018] [Indexed: 11/19/2022] Open
Abstract
BACKGROUND Flow cytometry, with its high throughput nature, combined with the ability to measure an increasing number of cell parameters at once can surpass the throughput of prevalent genomic and metagenomic approaches in the study of microbiomes. Novel computational approaches to analyze flow cytometry data will result in greater insights and actionability as compared to traditional tools used in the analysis of microbiomes. This paper is a demonstration of the fruitfulness of machine learning in analyzing microbial flow cytometry data generated in anaerobic microbiome perturbation experiments. RESULTS Autoencoders were found to be powerful in detecting anomalies in flow cytometry data from nanoparticles and carbon sources perturbed anaerobic microbiomes but was marginal in predicting perturbations due to antibiotics. A comparison between different algorithms based on predictive capabilities suggested that gradient boosting (GB) and deep learning, i.e. feed forward artificial neural network with three hidden layers (DL) were marginally better under tested conditions at predicting overall community structure while distributed random forests (DRF) worked better for predicting the most important putative microbial group(s) in the anaerobic digesters viz. methanogens, and it can be optimized with better parameter tuning. Predictive classification patterns with DL (feed forward artificial neural network with three hidden layers) were found to be comparable to previously demonstrated multivariate analysis. The potential applications of this approach have been demonstrated for monitoring the syntrophic resilience of the anaerobic microbiomes perturbed by synthetic nanoparticles as well as antibiotics. CONCLUSION Machine learning can benefit the microbial flow cytometry research community by providing rapid screening and characterization tools to discover patterns in the dynamic response of microbiomes to several stimuli.
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Affiliation(s)
- Abhishek S. Dhoble
- Department of Agricultural and Biological Engineering, University of Illinois at Urbana-Champaign, 1304 W. Pennsylvania, Urbana, 61801 USA
| | - Pratik Lahiri
- Department of Agricultural and Biological Engineering, University of Illinois at Urbana-Champaign, 1304 W. Pennsylvania, Urbana, 61801 USA
| | - Kaustubh D. Bhalerao
- Department of Agricultural and Biological Engineering, University of Illinois at Urbana-Champaign, 1304 W. Pennsylvania, Urbana, 61801 USA
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Xin X, Ma Y, Liu Y. Electric energy production from food waste: Microbial fuel cells versus anaerobic digestion. BIORESOURCE TECHNOLOGY 2018; 255:281-287. [PMID: 29428783 DOI: 10.1016/j.biortech.2018.01.099] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2017] [Revised: 01/18/2018] [Accepted: 01/19/2018] [Indexed: 06/08/2023]
Abstract
A food waste resourceful process was developed by integrating the ultra-fast hydrolysis and microbial fuel cells (MFCs) for energy and resource recovery. Food waste was first ultra-fast hydrolyzed by fungal mash rich in hydrolytic enzymes in-situ produced from food waste. After which, the separated solids were readily converted to biofertilizer, while the liquid was fed to MFCs for direct electricity generation with a conversion efficiency of 0.245 kWh/kg food waste. It was estimated that about 192.5 million kWh of electricity could be produced from the food waste annually generated in Singapore, together with 74,390 tonnes of dry biofertilizer. Compared to anaerobic digestion, the proposed approach was more environmentally friendly and economically viable in terms of both electricity conversion and process cost. It is expected that this study may lead to the paradigm shift in food waste management towards ultra-fast concurrent recovery of resource and electricity with zero-solid discharge.
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Affiliation(s)
- Xiaodong Xin
- School of Environment, Harbin Institute of Technology, Harbin 150090, PR China; Advanced Environmental Biotechnology Centre, Nanyang Environment & Water Research Institute, Nanyang Technological University, 1 Cleantech Loop, Singapore 637141, Singapore
| | - Yingqun Ma
- Advanced Environmental Biotechnology Centre, Nanyang Environment & Water Research Institute, Nanyang Technological University, 1 Cleantech Loop, Singapore 637141, Singapore
| | - Yu Liu
- Advanced Environmental Biotechnology Centre, Nanyang Environment & Water Research Institute, Nanyang Technological University, 1 Cleantech Loop, Singapore 637141, Singapore; School of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
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29
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Amha YM, Anwar MZ, Brower A, Jacobsen CS, Stadler LB, Webster TM, Smith AL. Inhibition of anaerobic digestion processes: Applications of molecular tools. BIORESOURCE TECHNOLOGY 2018; 247:999-1014. [PMID: 28918349 DOI: 10.1016/j.biortech.2017.08.210] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2017] [Revised: 08/30/2017] [Accepted: 08/31/2017] [Indexed: 05/25/2023]
Abstract
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.
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Affiliation(s)
- Yamrot M Amha
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA
| | - Muhammad Zohaib Anwar
- mBioInform ApS, Ole Maaloes Vej 3, 2200 Copenhagen N, Denmark; Department of Environmental Sciences, Aarhus University, Frederiksborgvej, 399, 4000 Roskilde, Denmark
| | - Andrew Brower
- Department of Civil and Environmental Engineering, Rice University, 6100 Main Street, TX 77005, USA
| | - Carsten S Jacobsen
- mBioInform ApS, Ole Maaloes Vej 3, 2200 Copenhagen N, Denmark; Department of Environmental Sciences, Aarhus University, Frederiksborgvej, 399, 4000 Roskilde, Denmark
| | - Lauren B Stadler
- Department of Civil and Environmental Engineering, Rice University, 6100 Main Street, TX 77005, USA
| | - Tara M Webster
- Soil and Crop Sciences Section, Cornell University, 306 Tower Road, Ithaca, NY 14853, USA
| | - Adam L Smith
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA.
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30
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Lee JTE, He J, Tong YW. Acclimatization of a mixed-animal manure inoculum to the anaerobic digestion of Axonopus compressus reveals the putative importance of Mesotoga infera and Methanosaeta concilii as elucidated by DGGE and Illumina MiSeq. BIORESOURCE TECHNOLOGY 2017; 245:1148-1154. [PMID: 28869126 DOI: 10.1016/j.biortech.2017.08.123] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2017] [Revised: 08/18/2017] [Accepted: 08/20/2017] [Indexed: 06/07/2023]
Abstract
In this study, a multifarious microbial mix from different sources is acclimatized over a period of three months to digesting cowgrass, and the changes in the community structure are examined with both a traditional denaturing gradient gel electrophoresis method as well as a next generation sequencing MiSeq method. It is shown that the much more in depth analysis by Illumina gives more information about the relative abundance and thus putative importance of the role of various microbes, in particular the bacterium Mesotoga infera and the archaeon Methanosaeta concilii.
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Affiliation(s)
- Jonathan T E Lee
- Environmental Research Institute, National University of Singapore, Singapore; Department of Civil and Environmental Engineering, NUS, Singapore
| | - Jianzhong He
- Department of Civil and Environmental Engineering, NUS, Singapore
| | - Yen Wah Tong
- Environmental Research Institute, National University of Singapore, Singapore; Department of Chemical & Biomolecular Engineering, NUS, Singapore.
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31
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Han Z, Chen F, Zhong C, Zhou J, Wu X, Yong X, Zhou H, Jiang M, Jia H, Wei P. Effects of different carriers on biogas production and microbial community structure during anaerobic digestion of cassava ethanol wastewater. ENVIRONMENTAL TECHNOLOGY 2017; 38:2253-2262. [PMID: 27804789 DOI: 10.1080/09593330.2016.1255666] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2016] [Accepted: 10/27/2016] [Indexed: 06/06/2023]
Abstract
In this study, an anaerobic bioreactor (AB) with no added fillers (ABWF), a packed-bed bioreactor with a porous ceramic filler (ABCF), and another packed-bed bioreactor filled with graphite felt (ABGF) were established for anaerobic digestion of cassava ethanol wastewater. The results showed that ABCF exhibited excellent wastewater treatment performance in a stable process that was superior to ABWF and ABGF, with the following characteristics: a high chemical oxygen demand removal efficiency of 98.06% and maximum biogas production of 3200 mL/d at a total reactor volume of 3.46 L. Illumina MiSeq sequencing analysis revealed that differences existed among the microbial communities of the three ABs that were in accordance with the operational characteristics. The ABCF system displayed maximum bacterial diversity, whereas the ABWF system exhibited moderate richness and the ABGF system possessed the lowest species richness. The ABCF system was more stable than the ABWF and ABGF systems during anaerobic digestion of cassava ethanol wastewater. Different functional microbial communities that are responsible for the degradation of certain compounds were also identified in the ABCF and ABGF systems. Our results demonstrate that ceramic materials should be considered an appropriate support for the immobilization of cells.
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Affiliation(s)
- Zhou Han
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
- b Bioenergy Research Institute , Nanjing Tech University , Nanjing , People's Republic of China
| | - Feier Chen
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
- b Bioenergy Research Institute , Nanjing Tech University , Nanjing , People's Republic of China
| | - Chao Zhong
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
- b Bioenergy Research Institute , Nanjing Tech University , Nanjing , People's Republic of China
| | - Jun Zhou
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
- b Bioenergy Research Institute , Nanjing Tech University , Nanjing , People's Republic of China
| | - Xiayuan Wu
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
- b Bioenergy Research Institute , Nanjing Tech University , Nanjing , People's Republic of China
| | - Xiaoyu Yong
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
- b Bioenergy Research Institute , Nanjing Tech University , Nanjing , People's Republic of China
| | - Hua Zhou
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
| | - Min Jiang
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
| | - Honghua Jia
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
- b Bioenergy Research Institute , Nanjing Tech University , Nanjing , People's Republic of China
| | - Ping Wei
- a College of Biotechnology and Pharmaceutical Engineering , Nanjing Tech University , Nanjing , People's Republic of China
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Park Y, Cho H, Yu J, Min B, Kim HS, Kim BG, Lee T. Response of microbial community structure to pre-acclimation strategies in microbial fuel cells for domestic wastewater treatment. BIORESOURCE TECHNOLOGY 2017; 233:176-183. [PMID: 28279910 DOI: 10.1016/j.biortech.2017.02.101] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2016] [Revised: 02/21/2017] [Accepted: 02/22/2017] [Indexed: 06/06/2023]
Abstract
Microbial community structures and performance of air-cathode microbial fuel cells (MFCs) inoculated with activated sludge from domestic wastewater were investigated to evaluate the effects of three substrate pre-acclimation strategies: 1, serial pre-acclimation with acetate and glucose before supplying domestic wastewater; 2, one step pre-acclimation with acetate before supplying domestic wastewater; and 3, direct supply of domestic wastewater without any pre-acclimation. Strategy 1 showed much higher current generation (1.4mA) and Coulombic efficiency (33.5%) than strategies 2 (0.7mA and 9.4%) and 3 (0.9mA and 10.3%). Pyrosequencing showed that microbial communities were significantly affected by pre-acclimation strategy. Although Proteobacteria was the dominant phylum with all strategies, Actinobacteria was abundant when MFCs were pre-acclimated with glucose after acetate. Not only anode-respiring bacteria (ARB) in the genus Geobacter but also non-ARB belonging to the family Anaerolinaceae seemed to play important roles in air-cathode MFCs to produce electricity from domestic wastewater.
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Affiliation(s)
- Younghyun Park
- Department of Civil and Environmental Engineering, Pusan National University, Busan 609-735, Republic of Korea
| | - Hyunwoo Cho
- Department of Civil and Environmental Engineering, Pusan National University, Busan 609-735, Republic of Korea
| | - Jaechul Yu
- Department of Civil and Environmental Engineering, Pusan National University, Busan 609-735, Republic of Korea
| | - Booki Min
- Department of Environmental Science and Engineering, Kyung Hee University, 1 Seocheon-dong, Yongin-si, Gyeonggi-do 446-701, Republic of Korea
| | - Hong Suck Kim
- The MFC Research and Business Development (R&BD) Center, K-water Institute, Jeonmin-Dong, Yuseong-Gu, Daejeon 305-730, Republic of Korea
| | - Byung Goon Kim
- The MFC Research and Business Development (R&BD) Center, K-water Institute, Jeonmin-Dong, Yuseong-Gu, Daejeon 305-730, Republic of Korea
| | - Taeho Lee
- Department of Civil and Environmental Engineering, Pusan National University, Busan 609-735, Republic of Korea.
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Liu Q, Singh VP, Fu Z, Wang J, Hu L. An anoxic-aerobic system for simultaneous biodegradation of phenol and ammonia in a sequencing batch reactor. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:11789-11799. [PMID: 28342078 DOI: 10.1007/s11356-017-8840-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2016] [Accepted: 03/15/2017] [Indexed: 06/06/2023]
Abstract
A laboratory-scale sequencing batch reactor (SBR) was investigated to treat artificial pretreated coal gasification wastewater that was mainly contained of ammonia and phenol. The efficiency of SBR fed with increasing phenol concentrations (from 150 to 300 mg l-1) and the relationship among phenol, nitrogen removal, and the microbial community structure were evaluated. When the phenol feeding concentration was increased to about 300 mg l-1, the removal efficiency was above 99.0%, demonstrating the robustness of phenol removal capacity. The study showed that most phenol was degraded in anoxic stage. The average removal efficiencies of ammonia and total nitrogen were 98.4 and 81.9%, respectively, with average NH4+-N concentration of 107.5 mg l-1 and COD/N 7.5. Low temperature caused sludge loss that led to the decreased performance. Increasing the temperature could not recover the performance effectively. The data from bacterial analysis revealed that Delftia, Hydrogenophaga, and unclassified Xanthomonadaceae played a significant role in phenol degradation before the temperature increase, while uncultured Syntrophococcus sp. and unclassified Rhodocyclaceae were responsible for phenol degradation after the temperature increase. These results imply that the SBR holds potential for the simultaneous removal of phenolic compounds and nitrogen through aerobic ammonia oxidation and anoxic denitrification with phenol as the co-organic carbon source.
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Affiliation(s)
- Qifeng Liu
- School of Ecology and Environment, Inner Mongolia University, Hohhot, 010021, People's Republic of China
- Inner Mongolia Coal Chemical Industry Wastewater Treatment and Reuse Engineering Technology Research Center, Inner Mongolia University, Hohhot, 010021, People's Republic of China
| | - Vijay P Singh
- Departments of Biological and Agricultural Engineering and Zachry Department of Civil Engineering, Texas A&M University, College Station, TX, 77840, USA
| | - Zhimin Fu
- School of Ecology and Environment, Inner Mongolia University, Hohhot, 010021, People's Republic of China.
- Inner Mongolia Coal Chemical Industry Wastewater Treatment and Reuse Engineering Technology Research Center, Inner Mongolia University, Hohhot, 010021, People's Republic of China.
- Departments of Biological and Agricultural Engineering and Zachry Department of Civil Engineering, Texas A&M University, College Station, TX, 77840, USA.
| | - Jing Wang
- School of Ecology and Environment, Inner Mongolia University, Hohhot, 010021, People's Republic of China
- Inner Mongolia Coal Chemical Industry Wastewater Treatment and Reuse Engineering Technology Research Center, Inner Mongolia University, Hohhot, 010021, People's Republic of China
| | - La Hu
- School of Ecology and Environment, Inner Mongolia University, Hohhot, 010021, People's Republic of China
- Inner Mongolia Coal Chemical Industry Wastewater Treatment and Reuse Engineering Technology Research Center, Inner Mongolia University, Hohhot, 010021, People's Republic of China
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Wu QL, Guo WQ, Bao X, Zheng HS, Yin RL, Feng XC, Luo HC, Ren NQ. Enhanced volatile fatty acid production from excess sludge by combined free nitrous acid and rhamnolipid treatment. BIORESOURCE TECHNOLOGY 2017; 224:727-732. [PMID: 27865665 DOI: 10.1016/j.biortech.2016.10.086] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2016] [Revised: 10/26/2016] [Accepted: 10/27/2016] [Indexed: 05/28/2023]
Abstract
VFA production from excess sludge (ES) was greatly enhanced by a low-cost and high-efficient treatment: 0.67mg/L free nitrous acid (FNA) pretreatment combined with 0.04g/g TSS rhamnolipid (RL) addition (FNA+RL), which significantly shortened fermentation time to 3days and increased VFA production to 352.26mgCOD/g VSS (5.42 times higher than raw ES). Propionic and acetic acids were the two leading components (71.86% of the total VFA). Mechanism investigation manifested FNA+RL improved the biodegradability of ES, achieved positive synergetic effect on solubilization, hydrolysis and acidification efficiencies, and inhibited methanation. Microbial community distribution further explained the above phenomena. The bacteria related to polysaccharides/protein utilization and VFA generation, including Clostridium, Megasphaera and Proteiniborus, were mainly observed in FNA+RL, whereas gas-forming bacteria Anaerolineae and acid-consuming bacteria Proteobacteria were assuredly suppressed. Besides, Propionibacterineae associated with propionic acid generation was exclusively enriched in sole RL and FNA+RL.
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Affiliation(s)
- Qing-Lian Wu
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
| | - Wan-Qian Guo
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China.
| | - Xian Bao
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
| | - He-Shan Zheng
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
| | - Ren-Li Yin
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
| | - Xiao-Chi Feng
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
| | - Hai-Chao Luo
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
| | - Nan-Qi Ren
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
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Yuan M, Zhu J, Wang C, Wu M, Sun F, Han X, He Y, Wu W. Latitudinal distribution of microbial communities in anaerobic biological stabilization ponds: effect of the mean annual temperature. Microb Biotechnol 2016; 9:834-845. [PMID: 27562316 PMCID: PMC5072199 DOI: 10.1111/1751-7915.12407] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2016] [Revised: 06/28/2016] [Accepted: 08/01/2016] [Indexed: 11/30/2022] Open
Abstract
Considering wide utilization and high methane fluxes from anaerobic biological stabilization ponds (ABSPs), understanding the methanogenesis in ABSPs is of fundamental importance. Here we investigated the variation and impact factors of methanogenesis in seven ABSPs that spanned from the north to the south of China. Results showed that methanogen abundance (7.7 × 109 -8.7 × 1010 copies g-1 dry sediment) and methanogenic activities (2.2-21.2 μmol CH4 g-1 dry sediment h-1 ) were considerable for all sediments. Statistical analysis demonstrated that compared with other factors (ammonium, pH, COD and TOC), mean annual temperature (MAT) showed the lowest P value and thus was the most important influencing factor for the methanogenic process. Besides, with the increasing MAT, methanogenic activity was enhanced mainly due to the shift of the dominant methanogenic pathway from acetoclastic (49.8-70.7%) in low MAT areas to hydrogenotrophic (42.0-54.6%) in high MAT areas. This shift of methanogenic pathway was also paralleled with changes in composition of bacterial communities. These results suggested that future global warming may reshape the composition of methanogen communities and lead to an increasing methane emission from ABSPs. Therefore, further research is urgently needed to globally estimate methane emissions from ABSPs and re-examine the role of ABSPs in wastewater treatment.
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Affiliation(s)
- Mengdong Yuan
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China
| | - Jing Zhu
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China
| | - Cheng Wang
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China
| | - Mengxiong Wu
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China
| | - Faqian Sun
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China
| | - Xingguo Han
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China
| | - Yangyang He
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China
| | - Weixiang Wu
- Institute of Environmental Science and Technology, Zhejiang University, Hangzhou, 310058, China.
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Lueders T, Dumont MG, Bradford L, Manefield M. RNA-stable isotope probing: from carbon flow within key microbiota to targeted transcriptomes. Curr Opin Biotechnol 2016; 41:83-89. [PMID: 27269505 DOI: 10.1016/j.copbio.2016.05.001] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2016] [Revised: 04/27/2016] [Accepted: 05/05/2016] [Indexed: 10/21/2022]
Abstract
Stable isotope probing of RNA has enthused researchers right from its first introduction in 2002. The concept of a labelling-based detection of process-targeted microbes independent of cellular replication or growth has allowed for a much more direct handle on functionally relevant microbiota than by labelling of other biomarkers. This has led to a widespread application of the technology, and breakthroughs in our understanding of carbon flow in natural microbiomes, autotrophic and heterotrophic physiologies, microbial food webs, host-microbe interactions and environmental biotechnology. Recent studies detecting labelled mRNA demonstrate that RNA-SIP is not limited to the analysis of rRNA, but is currently developing towards an approach for accessing targeted transcriptomes. In combination with next-generation sequencing and other methodological advances, RNA-SIP will continue to deliver invaluable insights into the functioning of microbial communities.
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Affiliation(s)
- Tillmann Lueders
- Helmholtz Zentrum München - German Research Center for Environmental Health, Institute for Groundwater Ecology, Neuherberg, Germany.
| | - Marc G Dumont
- Centre for Biological Sciences (CfBS), University of Southampton, Southampton, United Kingdom
| | - Lauren Bradford
- Helmholtz Zentrum München - German Research Center for Environmental Health, Institute for Groundwater Ecology, Neuherberg, Germany
| | - Mike Manefield
- Centre for Marine Bioinnovation, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia
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Miura T, Kita A, Okamura Y, Aki T, Matsumura Y, Tajima T, Kato J, Nakashimada Y. Semi-continuous methane production from undiluted brown algae using a halophilic marine microbial community. BIORESOURCE TECHNOLOGY 2016; 200:616-23. [PMID: 26547811 DOI: 10.1016/j.biortech.2015.10.090] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2015] [Revised: 10/15/2015] [Accepted: 10/27/2015] [Indexed: 06/05/2023]
Abstract
Acclimated marine sediment-derived culture was used for semi-continuous methane production from materials equivalent to raw brown algae, without dilution of salinity and without nutrient supply, under 3 consecutive conditions of varying organic loading rates (OLRs) and hydraulic retention time (HRT). Methane production was stable at 2.0gVS/kg/day (39-day HRT); however, it became unstable at 2.9gVS/kg/day (28-day HRT) due to acetate and propionate accumulation. OLR subsequently decreased to 1.7gVS/kg/day (46-day HRT), stabilizing methane production beyond steady state. Methane yield was above 300mL/g VS at all OLRs. These results indicated that the acclimated marine sediment culture was able to produce methane semi-continuously from raw brown algae without dilution and nutrient supply under steady state. Microbial community analysis suggested that hydrogenotrophic methanogens predominated among archaea during unstable methane production, implying a partial shift of the methanogenic pathway from acetoclastic methanogenesis to acetate oxidation.
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Affiliation(s)
- Toyokazu Miura
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Akihisa Kita
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Yoshiko Okamura
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Tsunehiro Aki
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Yukihiko Matsumura
- Division of Energy and Environmental Engineering, Institute of Engineering, Hiroshima University, 1-4-1 Kagamiyama, Higashi-Hiroshima 739-8527, Japan; CREST, JST, Japan
| | - Takahisa Tajima
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Junichi Kato
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan
| | - Yutaka Nakashimada
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan.
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Wang X, Zhang Y, Zhang T, Zhou J. Effect of dissolved oxygen on elemental sulfur generation in sulfide and nitrate removal process: characterization, pathway, and microbial community analysis. Appl Microbiol Biotechnol 2015; 100:2895-905. [PMID: 26603764 DOI: 10.1007/s00253-015-7146-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2015] [Revised: 11/01/2015] [Accepted: 11/04/2015] [Indexed: 11/30/2022]
Abstract
Microaerobic bioreactor treatment for enriched sulfide and nitrate has been demonstrated as an effective strategy to improve the efficiencies of elemental sulfur (S(0)) generation, sulfide oxidation, and nitrate reduction. However, there is little detailed information for the effect and mechanism of dissolved oxygen (DO) on the variations of microbial community in sulfur generation, sulfide oxidation, and nitrate reduction systems. Polymerase chain reaction denaturing gradient gel electrophoresis (PCR-DGGE) was employed to evaluate the variations of microbial community structures in a sulfide oxidation and nitrate reduction reactor under different DO conditions (DO 0-0.7 mg · L(-1)). Experimental results revealed that the activity of sulfide-oxidizing bacteria (SOB) and nitrate-reducing bacteria (NRB) could be greatly stimulated in 0.1-0.3 mg-DO · L(-1). However, when the DO concentration was further elevated to more than 0.5 mg · L(-1), the abundance of NRB was markedly decreased, while the heterotrophic microorganisms, especially carbon degradation species, were enriched. The reaction pathways for sulfide and nitrate removal under microaerobic conditions were also deduced by combining batch experiments with functional species analysis. It was likely that the oxidation of sulfide to sulfur could be performed by both aerobic heterotrophic SOB and sulfur-based autotrophic denitrification bacteria with oxygen and nitrate as terminal electron acceptor, respectively. The nitrate could be reduced to nitrite by both autotrophic and heterotrophic denitrification, and then the generated nitrite could be completely converted to nitrogen gas via heterotrophic denitrification. This study provides new insights into the impacts of microaerobic conditions on the microbial community functional structures of sulfide-oxidizing, nitrate-reducing, and sulfur-producing bioreactors, which revealing the potential linkage between functional microbial communities and reactor performance.
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Affiliation(s)
- Xiaowei Wang
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Linggong Road 2, Dalian, 116024, People's Republic of China
| | - Yu Zhang
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Linggong Road 2, Dalian, 116024, People's Republic of China.
| | - Tingting Zhang
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Linggong Road 2, Dalian, 116024, People's Republic of China
| | - Jiti Zhou
- Key Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Linggong Road 2, Dalian, 116024, People's Republic of China
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Miura T, Kita A, Okamura Y, Aki T, Matsumura Y, Tajima T, Kato J, Nakashimada Y. Effect of salinity on methanogenic propionate degradation by acclimated marine sediment-derived culture. Appl Biochem Biotechnol 2015; 177:1541-52. [PMID: 26364311 DOI: 10.1007/s12010-015-1834-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2015] [Accepted: 09/03/2015] [Indexed: 11/25/2022]
Abstract
Degradation of propionate under high salinity is needed for biomethane production from salt-containing feedstocks. In this study, marine sediment-derived culture was evaluated to determine the effect of salinity on methanogenic propionate degradation. Microbes in marine sediments were subjected to fed-batch cultivation on propionate for developing acclimatized cultures. The rate of propionate degradation increased eightfold during 10 rounds of cultivation. Microbial community composition was determined through pyrosequencing of 16S rRNA gene amplicons after 10 rounds of cultivation. Taxa analysis was conducted for the reads obtained by pyrosequencing. Known propionate degraders were undetectable in the acclimated culture. Comparison of bacterial taxa in the original sediment with those in the acclimated culture revealed that the populations of four bacterial taxa were significantly increased during acclimation. Methanolobus was the predominant archaea genus in the acclimated culture. The propionate degradation rate of the acclimated culture was not affected by salinity of up to equivalent of 1.9 % NaCl. The rate decreased at higher salinity levels and was more than 50 % of the maximum rate even at equivalent of 4.3 % NaCl.
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Affiliation(s)
- Toyokazu Miura
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi, Hiroshima, 739-8530, Japan
- CREST, JST, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan
| | - Akihisa Kita
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi, Hiroshima, 739-8530, Japan
- CREST, JST, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan
| | - Yoshiko Okamura
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi, Hiroshima, 739-8530, Japan
- CREST, JST, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan
| | - Tsunehiro Aki
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi, Hiroshima, 739-8530, Japan
- CREST, JST, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan
| | - Yukihiko Matsumura
- Division of Energy and Environmental Engineering, Institute of Engineering, Hiroshima University, 1-4-1 Kagamiyama, Higashi, Hiroshima, 739-8527, Japan
- CREST, JST, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan
| | - Takahisa Tajima
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi, Hiroshima, 739-8530, Japan
- CREST, JST, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan
| | - Junichi Kato
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi, Hiroshima, 739-8530, Japan
| | - Yutaka Nakashimada
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi, Hiroshima, 739-8530, Japan.
- CREST, JST, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan.
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40
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Mathai PP, Zitomer DH, Maki JS. Quantitative detection of syntrophic fatty acid-degrading bacterial communities in methanogenic environments. Microbiology (Reading) 2015; 161:1189-97. [DOI: 10.1099/mic.0.000085] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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41
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Carballa M, Regueiro L, Lema JM. Microbial management of anaerobic digestion: exploiting the microbiome-functionality nexus. Curr Opin Biotechnol 2015; 33:103-11. [DOI: 10.1016/j.copbio.2015.01.008] [Citation(s) in RCA: 181] [Impact Index Per Article: 20.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2014] [Revised: 01/24/2015] [Accepted: 01/26/2015] [Indexed: 02/04/2023]
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42
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Luo J, Feng L, Chen Y, Sun H, Shen Q, Li X, Chen H. Alkyl polyglucose enhancing propionic acid enriched short-chain fatty acids production during anaerobic treatment of waste activated sludge and mechanisms. WATER RESEARCH 2015; 73:332-41. [PMID: 25697695 DOI: 10.1016/j.watres.2015.01.041] [Citation(s) in RCA: 90] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2014] [Revised: 01/01/2015] [Accepted: 01/28/2015] [Indexed: 05/16/2023]
Abstract
Adding alkyl polyglucose (APG) into an anaerobic treatment system of waste activated sludge (WAS) was reported to remarkably improve the production of short-chain fatty acids (SCFAs), especially propionic acid via simultaneously accelerating solubilization and hydrolysis, enhancing acidification, inhibiting methanogenesis and balancing carbon to nitrogen (C/N) ratio of substrate. Not only the production of SCFAs, especially propionic acid, was significantly improved by APG, but also the feasible operation time was shortened. The SCFAs yield at 0.3 g APG per gram of total suspended solids (TSS) within 4 d was 2988 ± 60 mg chemical oxygen demand (COD) per liter, much higher than that those from sole WAS or sole WAS plus sole APG. The corresponding yield of propionic acid was 1312 ± 25 mg COD/L, 7.9-fold of sole WAS. Mechanism investigation showed that during anaerobic treatment of WAS in the presence of APG both the solubilization and hydrolysis were accelerated and the acidification was enhanced, while the methanogenesis was inhibited. Moreover, the activities of key enzymes involved in WAS hydrolysis and acidification were improved through the adjustment of C/N ratio of substrates with APG. The abundance of microorganisms responsible for organic compounds hydrolysis and SCFAs production was also observed to be greatly enhanced with APG via 454 high-throughput pyrosequencing analysis.
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Affiliation(s)
- Jingyang Luo
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Leiyu Feng
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China; Research & Service Center for Environmental Industry, Yancheng 224051, Jiangsu Province, China.
| | - Yinguang Chen
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China.
| | - Han Sun
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Qiuting Shen
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Xiang Li
- School of Environmental Science and Engineering, Donghua University, 2999 North Renmin Road, Shanghai, 201620, China
| | - Hong Chen
- School of Environmental Science and Engineering, Donghua University, 2999 North Renmin Road, Shanghai, 201620, China
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Miura T, Kita A, Okamura Y, Aki T, Matsumura Y, Tajima T, Kato J, Nakashimada Y. Improved methane production from brown algae under high salinity by fed-batch acclimation. BIORESOURCE TECHNOLOGY 2015; 187:275-281. [PMID: 25863204 DOI: 10.1016/j.biortech.2015.03.142] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2015] [Revised: 03/27/2015] [Accepted: 03/29/2015] [Indexed: 06/04/2023]
Abstract
Here, a methanogenic microbial community was developed from marine sediments to have improved methane productivity from brown algae under high salinity. Fed-batch cultivation was conducted by adding dry seaweed at 1wt% total solid (TS) based on the liquid weight of the NaCl-containing sediment per round of cultivation. The methane production rate and level of salinity increased 8-fold and 1.6-fold, respectively, at the 10th round of cultivation. Moreover, the rate of methane production remained high, even at the 10th round of cultivation, with accumulation of salts derived from 10wt% TS of seaweed. The salinity of the 10th-round culture was equivalent to 5% NaCl. The improved methane production was attributed to enhanced acetoclastic methanogenesis because acetate became rapidly converted to methane during cultivation. The family Fusobacteriaceae and the genus Methanosaeta, the acetoclastic methanogen, predominated in bacteria and archaea, respectively, after the cultivation.
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Affiliation(s)
- Toyokazu Miura
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Akihisa Kita
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Yoshiko Okamura
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Tsunehiro Aki
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Yukihiko Matsumura
- Division of Energy and Environmental Engineering, Institute of Engineering, Hiroshima University, 1-4-1 Kagamiyama, Higashi-Hiroshima 739-8527, Japan; CREST, JST, Japan
| | - Takahisa Tajima
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan
| | - Junichi Kato
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan
| | - Yutaka Nakashimada
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima 739-8530, Japan; CREST, JST, Japan.
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Aida AA, Kuroda K, Yamamoto M, Nakamura A, Hatamoto M, Yamaguchi T. Diversity Profile of Microbes Associated with Anaerobic Sulfur Oxidation in an Upflow Anaerobic Sludge Blanket Reactor Treating Municipal Sewage. Microbes Environ 2015; 30:157-63. [PMID: 25817585 PMCID: PMC4462926 DOI: 10.1264/jsme2.me14105] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
We herein analyzed the diversity of microbes involved in anaerobic sulfur oxidation in an upflow anaerobic sludge blanket (UASB) reactor used for treating municipal sewage under low-temperature conditions. Anaerobic sulfur oxidation occurred in the absence of oxygen, with nitrite and nitrate as electron acceptors; however, reactor performance parameters demonstrated that anaerobic conditions were maintained. In order to gain insights into the underlying basis of anaerobic sulfur oxidation, the microbial diversity that exists in the UASB sludge was analyzed comprehensively to determine their identities and contribution to sulfur oxidation. Sludge samples were collected from the UASB reactor over a period of 2 years and used for bacterial 16S rRNA gene-based terminal restriction fragment length polymorphism (T-RFLP) and next-generation sequencing analyses. T-RFLP and sequencing results both showed that microbial community patterns changed markedly from day 537 onwards. Bacteria belonging to the genus Desulforhabdus within the phylum Proteobacteria and uncultured bacteria within the phylum Fusobacteria were the main groups observed during the period of anaerobic sulfur oxidation. Their abundance correlated with temperature, suggesting that these bacterial groups played roles in anaerobic sulfur oxidation in UASB reactors.
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Affiliation(s)
- Azrina A Aida
- Department of Environmental Systems Engineering, Nagaoka University of Technology
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45
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Narihiro T, Kim NK, Mei R, Nobu MK, Liu WT. Microbial community analysis of anaerobic reactors treating soft drink wastewater. PLoS One 2015; 10:e0119131. [PMID: 25748027 PMCID: PMC4352018 DOI: 10.1371/journal.pone.0119131] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2014] [Accepted: 01/10/2015] [Indexed: 11/19/2022] Open
Abstract
The anaerobic packed-bed (AP) and hybrid packed-bed (HP) reactors containing methanogenic microbial consortia were applied to treat synthetic soft drink wastewater, which contains polyethylene glycol (PEG) and fructose as the primary constituents. The AP and HP reactors achieved high COD removal efficiency (>95%) after 80 and 33 days of the operation, respectively, and operated stably over 2 years. 16S rRNA gene pyrotag analyses on a total of 25 biofilm samples generated 98,057 reads, which were clustered into 2,882 operational taxonomic units (OTUs). Both AP and HP communities were predominated by Bacteroidetes, Chloroflexi, Firmicutes, and candidate phylum KSB3 that may degrade organic compound in wastewater treatment processes. Other OTUs related to uncharacterized Geobacter and Spirochaetes clades and candidate phylum GN04 were also detected at high abundance; however, their relationship to wastewater treatment has remained unclear. In particular, KSB3, GN04, Bacteroidetes, and Chloroflexi are consistently associated with the organic loading rate (OLR) increase to 1.5 g COD/L-d. Interestingly, KSB3 and GN04 dramatically decrease in both reactors after further OLR increase to 2.0 g COD/L-d. These results indicate that OLR strongly influences microbial community composition. This suggests that specific uncultivated taxa may take central roles in COD removal from soft drink wastewater depending on OLR.
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Affiliation(s)
- Takashi Narihiro
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 North Mathews Ave, Urbana, IL 61801, United States of America
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Central 6, Higashi, Tsukuba, Ibaraki 305-8566, Japan
| | - Na-Kyung Kim
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 North Mathews Ave, Urbana, IL 61801, United States of America
| | - Ran Mei
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 North Mathews Ave, Urbana, IL 61801, United States of America
| | - Masaru K. Nobu
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 North Mathews Ave, Urbana, IL 61801, United States of America
| | - Wen-Tso Liu
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 North Mathews Ave, Urbana, IL 61801, United States of America
- * E-mail:
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46
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Bocher BTW, Cherukuri K, Maki JS, Johnson M, Zitomer DH. Relating methanogen community structure and anaerobic digester function. WATER RESEARCH 2015; 70:425-435. [PMID: 25562581 DOI: 10.1016/j.watres.2014.12.018] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2014] [Revised: 11/13/2014] [Accepted: 12/08/2014] [Indexed: 06/04/2023]
Abstract
Much remains unknown about the relationships between microbial community structure and anaerobic digester function. However, knowledge of links between community structure and function, such as specific methanogenic activity (SMA) and COD removal rate, are valuable to improve anaerobic bioprocesses. In this work, quantitative structure-activity relationships (QSARs) were developed using multiple linear regression (MLR) to predict SMA using methanogen community structure descriptors for 49 cultures. Community descriptors were DGGE demeaned standardized band intensities for amplicons of a methanogen functional gene (mcrA). First, predictive accuracy of MLR QSARs was assessed using cross validation with training (n = 30) and test sets (n = 19) for glucose and propionate SMA data. MLR equations correlating band intensities and SMA demonstrated good predictability for glucose (q(2) = 0.54) and propionate (q(2) = 0.53). Subsequently, data from all 49 cultures were used to develop QSARs to predict SMA values. Higher intensities of two bands were correlated with higher SMA values; high abundance of methanogens associated with these two bands should be encouraged to attain high SMA values. QSARs are helpful tools to identify key microorganisms or to study and improve many bioprocesses. Development of new, more robust QSARs is encouraged for anaerobic digestion or other bioprocesses, including nitrification, nitritation, denitrification, anaerobic ammonium oxidation, and enhanced biological phosphorus removal.
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Affiliation(s)
- B T W Bocher
- BP Americas Inc., Petrochemicals Technology: Water Treatment, 150 Warrenville Rd., Naperville, IL, United States
| | - K Cherukuri
- Marquette University, Department of Biological Sciences, P.O. Box 1881, Milwaukee, WI 53201-1881, United states
| | - J S Maki
- Marquette University, Department of Biological Sciences, P.O. Box 1881, Milwaukee, WI 53201-1881, United states
| | - M Johnson
- Marquette University, Department of Electrical and Computer Engineering, P.O. Box 1881, Milwaukee, WI 53201-1881, United States
| | - D H Zitomer
- Marquette University, Department of Civil, Construction and Environmental Engineering, P.O. Box 1881, Milwaukee, WI 53201-1881, United States.
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Klang J, Theuerl S, Szewzyk U, Huth M, Tölle R, Klocke M. Dynamic variation of the microbial community structure during the long-time mono-fermentation of maize and sugar beet silage. Microb Biotechnol 2015; 8:764-75. [PMID: 25712194 PMCID: PMC4554465 DOI: 10.1111/1751-7915.12263] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2014] [Revised: 12/15/2014] [Accepted: 12/30/2014] [Indexed: 02/04/2023] Open
Abstract
This study investigated the development of the microbial community during a long-term (337 days) anaerobic digestion of maize and sugar beet silage, two feedstocks that significantly differ in their chemical composition. For the characterization of the microbial dynamics, the community profiling method terminal restriction fragment length polymorphism (TRFLP) in combination with a cloning-sequencing approach was applied. Our results revealed a specific adaptation of the microbial community to the supplied feedstocks. Based on the high amount of complex compounds, the anaerobic conversion rate of maize silage was slightly lower compared with the sugar beet silage. It was demonstrated that members from the phylum Bacteroidetes are mainly involved in the degradation of low molecular weight substances such as sugar, ethanol and acetate, the main compounds of the sugar beet silage. It was further shown that species of the genus Methanosaeta are highly sensitive against sudden stress situations such as a strong decrease in the ammonium nitrogen (NH4+-N) concentration or a drop of the pH value. In both cases, a functional compensation by members of the genera Methanoculleus and/or Methanosarcina was detected. However, the overall biomass conversion of both feedstocks proceeded efficiently as a steady state between acid production and consumption was recorded, which further resulted in an equal biogas yield.
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Affiliation(s)
- Johanna Klang
- Department Bioengineering, Leibniz Institute for Agricultural Engineering, Max Eyth Allee 100, Potsdam, 14469, Germany.,Department of Environmental Microbiology, Technische Universität Berlin, Ernst-Reuter-Platz 1, Berlin, 10587, Germany
| | - Susanne Theuerl
- Department Bioengineering, Leibniz Institute for Agricultural Engineering, Max Eyth Allee 100, Potsdam, 14469, Germany
| | - Ulrich Szewzyk
- Department of Environmental Microbiology, Technische Universität Berlin, Ernst-Reuter-Platz 1, Berlin, 10587, Germany
| | - Markus Huth
- Department of Crop and Animal Sciences, Humboldt-Universtät zu Berlin, Unter den Linden 6, Berlin, 10099, Germany
| | - Rainer Tölle
- Department of Crop and Animal Sciences, Humboldt-Universtät zu Berlin, Unter den Linden 6, Berlin, 10099, Germany
| | - Michael Klocke
- Department Bioengineering, Leibniz Institute for Agricultural Engineering, Max Eyth Allee 100, Potsdam, 14469, Germany
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Lebuhn M, Weiß S, Munk B, Guebitz GM. Microbiology and Molecular Biology Tools for Biogas Process Analysis, Diagnosis and Control. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2015; 151:1-40. [PMID: 26337842 DOI: 10.1007/978-3-319-21993-6_1] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Many biotechnological processes such as biogas production or defined biotransformations are carried out by microorganisms or tightly cooperating microbial communities. Process breakdown is the maximum credible accident for the operator. Any time savings that can be provided by suitable early-warning systems and allow for specific countermeasures are of great value. Process disturbance, frequently due to nutritional shortcomings, malfunction or operational deficits, is evidenced conventionally by process chemistry parameters. However, knowledge on systems microbiology and its function has essentially increased in the last two decades, and molecular biology tools, most of which are directed against nucleic acids, have been developed to analyze and diagnose the process. Some of these systems have been shown to indicate changes of the process status considerably earlier than the conventionally applied process chemistry parameters. This is reasonable because the triggering catalyst is determined, activity changes of the microbes that perform the reaction. These molecular biology tools have thus the potential to add to and improve the established process diagnosis system. This chapter is dealing with the actual state of the art of biogas process analysis in practice, and introduces molecular biology tools that have been shown to be of particular value in complementing the current systems of process monitoring and diagnosis, with emphasis on nucleic acid targeted molecular biology systems.
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Affiliation(s)
- Michael Lebuhn
- Department for Quality Assurance and Analytics, Bavarian State Research Center for Agriculture (LfL), Lange Point 6, 85354, Freising, Germany
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49
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Narihiro T, Nobu MK, Kim NK, Kamagata Y, Liu WT. The nexus of syntrophy-associated microbiota in anaerobic digestion revealed by long-term enrichment and community survey. Environ Microbiol 2014; 17:1707-20. [PMID: 25186254 DOI: 10.1111/1462-2920.12616] [Citation(s) in RCA: 102] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2014] [Accepted: 08/31/2014] [Indexed: 11/26/2022]
Abstract
Anaerobic digestion (AD) processes are known to effectively convert organic waste to CO2 and CH4 , but much of the microbial ecology remains unclear. Specifically, we have limited insights into symbiotic syntroph and methanogen ('syntrophy') acid degradation, although they are essential for preventing process deterioration. Also, we often observed many uncharacterized or uncultivated organisms, but poorly understood their role(s) in relation to syntrophy. To define syntrophy-associated populations, this study enriched methanogenic communities with propionate, butyrate, benzoate, acetate, formate and H2 from two different inocula over 3 years. 16S pyrotag analysis revealed core populations of known syntrophs (six clades) and methanogens (nine clades) associated with acid degradation, and evidence for substrate- and/or inoculum-dependent specificity in syntrophic partnerships. Based on comprehensive re-evaluation of publically available microbial community data for AD, the known syntrophs and methanogens identified were clearly representatives of the AD-associated syntrophs and methanogens. In addition, uncultivated clades related to Bacteroidetes, Firmicutes, Actinobacteria and Chloroflexi were ubiquitously found in AD and enrichments. These organisms may be universally involved in AD syntrophic degradation, but only represented <23% of the yet-to-be-cultivated organisms (89 of 390 clades). Thus, the contribution of these uncultured organisms in AD remains unclear and warrants further investigation.
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Affiliation(s)
- Takashi Narihiro
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, 205 North Mathews Ave, Urbana, IL, 61801, USA; Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Central 6, Higashi, Tsukuba, Ibaraki, 305-8566, Japan
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50
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Lebuhn M, Hanreich A, Klocke M, Schlüter A, Bauer C, Pérez CM. Towards molecular biomarkers for biogas production from lignocellulose-rich substrates. Anaerobe 2014; 29:10-21. [PMID: 24785351 DOI: 10.1016/j.anaerobe.2014.04.006] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2013] [Revised: 04/10/2014] [Accepted: 04/11/2014] [Indexed: 12/01/2022]
Abstract
Biogas production from lignocellulose-rich agricultural residues is gaining increasingly importance in sustainable energy production. Hydrolysis/acidogenesis (H/A) of lignocellulose as the initial rate-limiting step deserves particular optimization. A mixture of straw/hay was methanized applying two-phase digester systems with an initial H/A reactor and a one-stage system at different, meso- and thermophilic temperatures. H/A was intensified with increasing pH values and increasing temperature. H/A fermenters, however, were prone to switch to methanogenic systems at these conditions. Substrate turnover was accelerated in the bi-phasic process but did not reach the methanation efficiency of the single-stage digestion. There was no indication that two different cellulolytic inocula could establish in the given process. Bacterial communities were analyzed applying conventional amplicon clone sequencing targeting the hypervariable 16S rRNA gene region V6-V8 and by metagenome analyses applying direct DNA pyrosequencing without a PCR step. Corresponding results suggested that PCR did not introduce a bias but offered better phylogenetic resolution. Certain Clostridium IV and Prevotella members were most abundant in the H/A system operated at 38 °C, certain Clostridium III and Lachnospiraceae bacteria in the 45 °C, and certain Clostridium IV and Thermohydrogenium/Thermoanaerobacterium members in the 55 °C H/A system. Clostridium III representatives, Lachnospiraceae and Thermotogae dominated in the thermophilic single-stage system, in which also a higher portion of known syntrophic acetate oxidizers was found. Specific (RT-)qPCR systems were designed and applied for the most significant and abundant populations to assess their activity in the different digestion systems. The RT-qPCR results agreed with the DNA based community profiles obtained at the different temperatures. Up to 10(12) 16S rRNA copies mL(-1) were determined in H/A fermenters with prevalence of rRNA of a Ruminococcaceae subgroup. Besides, Thermohydrogenium/Thermoanaerobacterium rRNA prevailed at thermophilic and Prevotellaceae rRNA at mesophilic conditions. The developed (RT)-qPCR systems can be used as biomarkers to optimize biogas production from straw/hay and possibly other lignocellulosic substrates.
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Affiliation(s)
- Michael Lebuhn
- Bavarian State Research Center for Agriculture, Central Department for Quality Assurance and Analytics, Lange Point 6, D-85354 Freising, Germany.
| | - Angelika Hanreich
- Leibniz-Institut für Agrartechnik Potsdam-Bornim e.V., Abt. Bioverfahrenstechnik - AG Mikrobielle Systemökologie, Max-Eyth-Allee 100, D-14469 Potsdam, Germany
| | - Michael Klocke
- Leibniz-Institut für Agrartechnik Potsdam-Bornim e.V., Abt. Bioverfahrenstechnik - AG Mikrobielle Systemökologie, Max-Eyth-Allee 100, D-14469 Potsdam, Germany
| | - Andreas Schlüter
- Institute for Genome Research and Systems Biology, CeBiTec, Bielefeld University, Universitätsstraße 27, 33615 Bielefeld, Germany
| | - Christoph Bauer
- Bavarian State Research Center for Agriculture, Central Department for Quality Assurance and Analytics, Lange Point 6, D-85354 Freising, Germany
| | - Carmen Marín Pérez
- Bavarian State Research Center for Agriculture, Institute for Agricultural Engineering and Animal Husbandry, Vöttinger Str. 36, D-85354 Freising, Germany
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