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Gao Z, Zheng Y, Li Z, Ruan A. Effects of 17β-Estradiol Pollution on Microbial Communities and Methane Emissions in Aerobic Water Bodies. TOXICS 2024; 12:373. [PMID: 38787152 PMCID: PMC11126138 DOI: 10.3390/toxics12050373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2024] [Revised: 05/16/2024] [Accepted: 05/17/2024] [Indexed: 05/25/2024]
Abstract
17β-Estradiol (E2) is a widely present trace pollutant in aquatic environments. However, its impact on microbial communities in aerobic lake waters, which are crucial for methane (CH4) production, remains unclear. This study conducted an E2 contamination experiment by constructing laboratory-simulated aerobic microecosystems. Using 16S rRNA high-throughput sequencing, the effects of E2 on bacterial and archaeal communities were systematically examined. Combined with gas chromatography, the patterns and mechanisms of E2's impact on CH4 emissions in aerobic aquatic systems were uncovered for the first time. Generally, E2 contamination increased the randomness of bacterial and archaeal community assemblies and weakened microbial interactions. Furthermore, changes occurred in the composition and ecological functions of bacterial and archaeal communities under E2 pollution. Specifically, two days after exposure to E2, the relative abundance of Proteobacteria in the low-concentration (L) and high-concentration (H) groups decreased by 6.99% and 4.01%, respectively, compared to the control group (C). Conversely, the relative abundance of Planctomycetota was 1.81% and 1.60% higher in the L and H groups, respectively. E2 contamination led to an increase in the relative abundance of the methanogenesis functional group and a decrease in that of the methanotrophy functional group. These changes led to an increase in CH4 emissions. This study comprehensively investigated the ecotoxicological effects of E2 pollution on microbial communities in aerobic water bodies and filled the knowledge gap regarding aerobic methane production under E2 contamination.
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Affiliation(s)
- Zihao Gao
- The National Key Laboratory of Water Disaster Prevention, Hohai University, Nanjing 210098, China; (Z.G.); (Y.Z.); (Z.L.)
- College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Yu Zheng
- The National Key Laboratory of Water Disaster Prevention, Hohai University, Nanjing 210098, China; (Z.G.); (Y.Z.); (Z.L.)
- College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Zhendong Li
- The National Key Laboratory of Water Disaster Prevention, Hohai University, Nanjing 210098, China; (Z.G.); (Y.Z.); (Z.L.)
- College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Aidong Ruan
- The National Key Laboratory of Water Disaster Prevention, Hohai University, Nanjing 210098, China; (Z.G.); (Y.Z.); (Z.L.)
- College of Geography and Remote Sensing, Hohai University, Nanjing 210098, China
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2
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Zhang B, Zhao Z, Ma R, Chen N, Kong Z, Lei Z, Zhang Z. Unveiling the mechanisms of Fe(III)-loaded chitosan composite (CTS-Fe) in enhancing anaerobic digestion of waste activated sludge. J Environ Sci (China) 2024; 138:200-211. [PMID: 38135389 DOI: 10.1016/j.jes.2023.04.001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2023] [Revised: 03/22/2023] [Accepted: 04/03/2023] [Indexed: 12/24/2023]
Abstract
Anaerobic digestion (AD) of waste activated sludge (WAS) is usually limited by the low generation efficiency of methane. Fe(III)-loaded chitosan composite (CTS-Fe) have been reported to effectively enhanced the digestion of WAS, but its role in promoting anaerobic sludge digestion remains unclear. In present study, the effects of CTS-Fe on the hydrolysis and methanogenesis stages of WAS anaerobic digestion were investigated. The addition of CTS-Fe increased methane production potential by 8%-23% under the tested conditions with the addition of 5-20 g/L CTS-Fe. Besides, the results demonstrate that the addition of CTS-Fe could effectively promote the hydrolysis of WAS, evidenced by lower protein or polysaccharides concentration, higher soluble organic carbon in rector adding CTS-Fe, as well as the increased activity of extracellular hydrolase with higher CTS-Fe concentration. Meanwhile, the enrichment of Clostridia abundance (iron-reducing bacteria (IRBs)) was observed in CTS-Fe adding reactor (8.9%-13.8%), which was higher than that in the control reactor (7.9%). The observation further suggesting the acceleration of hydrolysis through dissimilatory iron reduction (DIR) process, thus providing abundant substrates for methanogenesis. However, the presence of CTS-Fe was inhibited the acetoclastic and hydrogenotrophic methanogenesis process, which could be ascribed to the Fe(III) act as electron acceptor coupled to methane for anaerobic oxidation. Furthermore, coenzyme F420 activity in the CTS-Fe added reactor was 34.9% lower than in the blank, also abundance of microorganisms involved in hydrogenotrophic methanogenesis was decreased. Results from this study could provide theoretical support for the practical applications of CTS-Fe.
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Affiliation(s)
- Boaiqi Zhang
- Graduate School of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan; The Key Laboratory of Water and Sediment Sciences, Ministry of Education; State Environmental Protection Key Laboratory of All Material Fluxes in River Ecosystems; College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China
| | - Ziwen Zhao
- South China Institute of Environmental Sciences, Ministry of Ecology and Environment, Guangzhou 510345, China
| | - Rui Ma
- Graduate School of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan
| | - Nan Chen
- School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing 100083, China
| | - Zhe Kong
- School of Environmental Science and Engineering, Suzhou University of Science and Technology, Suzhou 215009, China
| | - Zhongfang Lei
- Graduate School of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan
| | - Zhenya Zhang
- Graduate School of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8572, Japan.
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3
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Qin Y, Wang N, Zheng L, Li Q, Wang L, Xu X, Yin X. Study of Archaeal Diversity in the Arctic Meltwater Lake Region. BIOLOGY 2023; 12:1023. [PMID: 37508452 PMCID: PMC10376139 DOI: 10.3390/biology12071023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Revised: 07/04/2023] [Accepted: 07/16/2023] [Indexed: 07/30/2023]
Abstract
Two typical lakes formed from meltwater in the Ny-Ålesund area were taken as the study subjects in 2018. To investigate the archaeal community compositions of the two lakes, 16S rRNA genes from soil samples from the intertidal and subtidal zones of the two lakes were sequenced with high throughput. At the phylum level, the intertidal zone was dominated by Crenarchaeota and the subtidal zone was dominated by Halobacter; at the genus level, the intertidal zone was dominated by Nitrososphaeraceae_unclassified and Candidatus_Nitrocosmicus, while the subtidal zone was dominated by Methanoregula. The soil physicochemical factors pH, moisture content (MC), total organic carbon (TOC), total organic nitrogen (TON), nitrite nitrogen (NO2--N), and nitrate nitrogen (NO3--N) were significantly different in the intertidal and subtidal zones of the lake. By redundancy analysis, the results indicated that NH4+-N, SiO32--Si, MC, NO3--N, and NO2--N have had highly significant effects on the archaeal diversity and distribution. A weighted gene co-expression network analysis (WGCNA) was used to search for hub archaea associated with physicochemical factors. The results suggested that these physicochemical factors play important roles in the diversity and structure of the archaeal community at different sites by altering the abundance of certain hub archaea. In addition, Woesearchaeales was found to be the hub archaea genus at every site.
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Affiliation(s)
- Yiling Qin
- First Institute of Oceanography, Ministry of Natural Resources, Qingdao 266061, China
| | - Nengfei Wang
- School of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, China
| | - Li Zheng
- First Institute of Oceanography, Ministry of Natural Resources, Qingdao 266061, China
| | - Qinxin Li
- College of Chemistry and Chemical Engineering, Qingdao University, Qingdao 266071, China
| | - Long Wang
- Department of Bioengineering, College of Marine Sciences and Biological Engineering, Qingdao University of Science & Technology, Qingdao 266042, China
| | - Xiaoyu Xu
- School of Chemistry and Chemical Engineering, Linyi University, Linyi 276000, China
| | - Xiaofei Yin
- First Institute of Oceanography, Ministry of Natural Resources, Qingdao 266061, China
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4
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Lee M, Yoo K, Kim H, Song KG, Kim D, Tiedje JM, Lee PH, Park J. Metatranscriptional characterization of metabolic dynamics in anaerobic membrane bioreactor producing methane from low-strength wastewater. BIORESOURCE TECHNOLOGY 2023; 370:128532. [PMID: 36574886 DOI: 10.1016/j.biortech.2022.128532] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2022] [Revised: 12/19/2022] [Accepted: 12/22/2022] [Indexed: 06/17/2023]
Abstract
An anaerobic membrane bioreactor (AnMBR) with media is an emerging carbon-neutral biotechnology for low-strength wastewater (LSWW) treatment and methane recovery. Understanding metabolic dynamics among methanogens and syntrophic bacteria is important in optimizing the design and operation of AnMBR. However, little is known about it, especially in media-attached microbial communities. This study explored metabolic dynamics to compare media-attached and suspended conditions. Accordingly, metagenomes and metatranscriptomes from AnMBRs with polymeric media and fed with different influent concentrations (350 and 700 mg-COD/L) were analyzed. Metabolic dynamics were profoundly influenced by the different growth habitats and influent conditions, although the applied influent concentrations are within the range of typical LSWW. Metabolic dynamics prediction results suggest that media-attached-growth habitats may have provided a more favorable microenvironment for methanogens to grow and produce methane, especially under low influent conditions. These findings provide significant implications for optimizing floating media design and operation of AnMBR-producing methane from LSWW.
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Affiliation(s)
- Minjoo Lee
- School of Civil and Environmental Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-Gu, Seoul 03722, Republic of Korea
| | - Keunje Yoo
- Department of Environmental Engineering, Korea Maritime & Ocean University, 727 Taejong-ro, Yeongdo-Gu, Busan 49112, Republic of Korea
| | - Hyemin Kim
- School of Civil and Environmental Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-Gu, Seoul 03722, Republic of Korea; Center for Water Cycle Research, Korea Institute of Science and Technology (KIST), 5 Hwarang-ro 14-gil, Seongbuk-gu, Seoul 02792, Republic of Korea
| | - Kyung Guen Song
- Center for Water Cycle Research, Korea Institute of Science and Technology (KIST), 5 Hwarang-ro 14-gil, Seongbuk-gu, Seoul 02792, Republic of Korea
| | - Dajung Kim
- School of Civil and Environmental Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-Gu, Seoul 03722, Republic of Korea
| | - James M Tiedje
- Center for Microbial Ecology, Department of Plant, Soil and Microbial Sciences, Michigan State University, East Lansing, MI 48824, USA
| | - Po-Heng Lee
- Department of Civil and Environmental Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, UK
| | - Joonhong Park
- School of Civil and Environmental Engineering, Yonsei University, 50 Yonsei-ro, Seodaemun-Gu, Seoul 03722, Republic of Korea.
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5
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Zhang C, Chen Z, Zhang M, Jia S. KEGG_Extractor: An Effective Extraction Tool for KEGG Orthologs. Genes (Basel) 2023; 14:genes14020386. [PMID: 36833314 PMCID: PMC9956942 DOI: 10.3390/genes14020386] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2022] [Revised: 01/23/2023] [Accepted: 01/28/2023] [Indexed: 02/04/2023] Open
Abstract
The KEGG Orthology (KO) database is a widely used molecular function reference database which can be used to conduct functional annotation of most microorganisms. At present, there are many KEGG tools based on the KO entries for annotating functional orthologs. However, determining how to efficiently extract and sort the annotation results of KEGG still hinders the subsequent genome analysis. There is a lack of effective measures used to quickly extract and classify the gene sequences and species information of the KEGG annotations. Here, we present a supporting tool: KEGG_Extractor for species-specific genes extraction and classification, which can output the results through an iterative keyword matching algorithm. It can not only extract and classify the amino acid sequences, but also the nucleotide sequences, and it has proved to be fast and efficient for microbial analysis. Analysis of the ancient Wood Ljungdahl (WL) pathway through the KEGG_Extractor reveals that ~226 archaeal strains contained the WL pathway-related genes. Most of them were Methanococcus maripaludis, Methanosarcina mazei and members of the Methanobacterium, Thermococcus and Methanosarcina genus. Using the KEGG_Extractor, the ARWL database was constructed, which had a high accuracy and complement. This tool helps to link genes with the KEGG pathway and promote the reconstruction of molecular networks. Availability and implementation: KEGG_Extractor is freely available from the GitHub.
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Affiliation(s)
- Chao Zhang
- Marine Sustainable Development Research Center, Third Institute of Oceanography, Xiamen 361102, China
| | - Zhongwei Chen
- Nantong Marine Environmental Monitoring Center, Ministry of Natural Resources, Nantong 226002, China
| | - Miming Zhang
- Third Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, China
| | - Shulei Jia
- Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
- Correspondence:
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6
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Chen R, Bao Y, Zhang Y. A Review of Biogenic Coalbed Methane Experimental Studies in China. Microorganisms 2023; 11:microorganisms11020304. [PMID: 36838269 PMCID: PMC9959753 DOI: 10.3390/microorganisms11020304] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Revised: 01/12/2023] [Accepted: 01/19/2023] [Indexed: 01/26/2023] Open
Abstract
Biogenic coalbed methane (CBM) is an important alternative energy that can help achieve carbon neutrality. Accordingly, its exploration and development have become a research hotspot in the field of fossil energy. In this review, the latest detection technologies for and experimental research on biogenic CBM in China in recent decades are summarized. The factors influencing the generation of biogenic CBM and the identification method of biogenic CBM are systematically analyzed. The technologies to detect biogas and the research methods to study microbial diversity are summarized. The literature shows that biogenic CBM is easily produced in the presence of highly abundant organic matter of low maturity, and the organic matter reaching a certain thickness can compensate for the limitation of biogenic CBM gas production due to the small abundance of organic matter to a certain extent. Biogenic CBM production could be increased in an environment with low salinity, medium alkalinity, and rich Fe2+ and Ni2+ sources. Furthermore, biogenic CBM can be identified by considering three aspects: (1) the presence of gas composition indicators; (2) the content of heavy hydrocarbon; and (3) variation in the abundance of biomarkers. In recent years, research methods to study the microbial community and diversity of CBM-producing environments in China have mainly included 16S rRNA gene library, fluorescence in situ hybridization, and high-throughput sequencing, and the dominant microorganisms have been determined in various basins in China. The results of numerous studies show that the dominant bacterial phyla are commonly Firmicutes and Proteobacteria, while the archaeal fraction mainly includes Methanoculleus, Methanobacterium, Methanocorpusculum, and Methanothrix. This review summarizes and discusses the advances in biogenic CBM production and the associated microbial community in order to promote further development of coal biotransformation and CO2 bio-utilization to meet energy demands under carbon neutrality.
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Affiliation(s)
- Run Chen
- Jiangsu Key Laboratory of Coal-Based Greenhouse Gas Control and Utilization, Carbon Neutrality Institute, CUMT, Xuzhou 221008, China
- Key Laboratory of Coalbed Methane Resource & Reservoir Formation History, Ministry of Education, School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221008, China
- Correspondence: ; Tel.: +86-158-0520-3840
| | - Yunxia Bao
- Jiangsu Key Laboratory of Coal-Based Greenhouse Gas Control and Utilization, Carbon Neutrality Institute, CUMT, Xuzhou 221008, China
- Key Laboratory of Coalbed Methane Resource & Reservoir Formation History, Ministry of Education, School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221008, China
| | - Yajun Zhang
- Jiangsu Key Laboratory of Coal-Based Greenhouse Gas Control and Utilization, Carbon Neutrality Institute, CUMT, Xuzhou 221008, China
- Key Laboratory of Coalbed Methane Resource & Reservoir Formation History, Ministry of Education, School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221008, China
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7
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Ross DE, Lipus D, Gulliver D. Predominance of Methanomicrobiales and diverse hydrocarbon-degrading taxa in the Appalachian coalbed biosphere revealed through metagenomics and genome-resolved metabolisms. Environ Microbiol 2022; 24:5984-5997. [PMID: 36251278 DOI: 10.1111/1462-2920.16251] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Accepted: 10/13/2022] [Indexed: 01/12/2023]
Abstract
Coalbed deposits are a unique subsurface environment and represent an underutilized resource for methane generation. Microbial communities extant in coalbed deposits are responsible for key subsurface biogeochemical cycling and could be utilized to enhance methane production in areas where existing gas wells have depleted methane stores, or in coalbeds that are unmined, or conversely be utilized for mitigation of methane release. Here we utilize metagenomics and metagenome-assembled genomes (MAGs) to identify extant microbial lineages and genome-resolved microbial metabolisms of coalbed produced water, which has not yet been explored in the Appalachian Basin (AppB). Our analyses resulted in the recovery of over 40 MAGs from 8 coalbed methane wells. The most commonly identified taxa among samples were hydrogenotrophic methanogens from the order Methanomicrobiales and these dominant MAGs were highly similar to one another. Conversely, low-abundance coalbed bacterial populations were taxonomically and functionally diverse, mostly belonging to a variety of Proteobacteria classes, and encoding various hydrocarbon solubilization and degradation pathways. The data presented herein provides novel insights into AppB coalbed microbial ecology, and our findings provide new perspectives on underrepresented Methanocalculus species and low-relative abundance bacterial assemblages in coalbed environments, and their potential roles in stimulation or mitigation of methane release.
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Affiliation(s)
- Daniel E Ross
- Research and Innovation Center, National Energy Technology Laboratory, Pittsburgh, Pennsylvania, USA.,Leidos Research Support Team (LRST), NETL Support Contractor, Pittsburgh, Pennsylvania, USA
| | - Daniel Lipus
- Research and Innovation Center, National Energy Technology Laboratory, Pittsburgh, Pennsylvania, USA.,Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, Tennessee, United States.,Section Geomicrobiology, GFZ Geoforschungszentrum Potsdam, Potsdam, Brandenburg, Germany
| | - Djuna Gulliver
- Research and Innovation Center, National Energy Technology Laboratory, Pittsburgh, Pennsylvania, USA
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Malik PK, Trivedi S, Kolte AP, Mohapatra A, Bhatta R, Rahman H. Effect of an anti-methanogenic supplement on enteric methane emission, fermentation, and whole rumen metagenome in sheep. Front Microbiol 2022; 13:1048288. [PMID: 36478863 PMCID: PMC9719938 DOI: 10.3389/fmicb.2022.1048288] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Accepted: 11/04/2022] [Indexed: 11/22/2022] Open
Abstract
A study was conducted to investigate the impact of an anti-methanogenic product supplementation on enteric methane emissions, whole rumen metagenome and ruminal fermentation in sheep. Twelve adult male sheep were randomly divided into two groups of six animals each. Animals were fed ad libitum on a total mixed ration either without (CON) or with an anti-methanogenic supplement (Harit Dhara-HD). The anti-methanogenic supplement contained 22.1% tannic acid in a 3: 1 ratio of condensed and hydrolysable tannins. The supplementation of product revealed a significant reduction in daily enteric methane emission (21.9 vs. 17.2 g/d) and methane yield (23.2 vs. 18.2) without affecting the nutrient intake and digestibility. However, the propionate concentration in the HD treatment group was significantly higher than in the CON group. On the contrary, the ammonia nitrogen concentration was lower. The anti-methanogenic supplement significantly decreased the ruminal protozoa in the HD treatment group. Whole rumen metagenome analysis revealed that the core bacterial (Bacteroidetes and Firmicutes) and archaeal communities (Methanobrevibacter and Methanosarcina) were comparable between the CON and HD treatment groups. However, the supplementation of anti-methanogenic product led to a considerable reduction in the abundance of Proteobacteria, whereas the abundance of Lentisphaerae was greater. The supplementation significantly decreased the abundance of Methanocaldococcus, Methanococcoides, Methanocella, and Methanoregula methanogens. A total of 36 KO related to methanogenesis were identified in this study. The activities of formate dehydrogenase (EC 1.8.98.6) and tetrahydromethanopterin S-methyltransferase (EC 2.1.1.86) were significantly lowered by the anti-methanogenic product supplementation in sheep. In conclusion, the anti-methanogenic supplement has the potential to decrease enteric methane emission (~22%) at the recommended level (5% of DM) of supplementation. The contribution of minor methanogens vulnerable to supplementation to rumen methanogenesis is not known; hence, the culturing of these archaea should be taken on priority for determining the impact on overall rumen methanogenesis.
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Affiliation(s)
- Pradeep Kumar Malik
- ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, India
| | | | - Atul Purushottam Kolte
- ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, India,*Correspondence: Atul Purushottam Kolte,
| | - Archit Mohapatra
- ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, India
| | - Raghavendra Bhatta
- ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, India
| | - Habibar Rahman
- International Livestock Research Institute, New Delhi, India
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9
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Characterization of archaeal and bacterial communities thriving in methane-seeping on-land mud volcanoes, Niigata, Japan. Int Microbiol 2022; 26:191-204. [PMID: 36329310 DOI: 10.1007/s10123-022-00288-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2021] [Revised: 09/08/2022] [Accepted: 10/20/2022] [Indexed: 11/06/2022]
Abstract
Submarine mud volcanoes (MVs) have attracted significant interest in the scientific community for obtaining clues on the subsurface biosphere. On-land MVs, which are much less focused in this context, are equally important, and they may even provide insights also for astrobiology of extraterrestrial mud volcanism. Hereby, we characterized microbial communities of two active methane-seeping on-land MVs, Murono and Kamou, in central Japan. 16S rRNA gene profiling of those sites recovered the dominant archaeal sequences affiliated with methanogens. Anaerobic methanotrophs (ANME), with the subgroups ANME-1b and ANME-3, were recovered only from the Murono site albeit a greatly reduced relative abundance in the community compared to those of typical submarine MVs. The bacterial sequences affiliated to Caldatribacteriota JS1 were recovered from both sites; on the other hand, sulfate-reducing bacteria (SRB) of Desulfobulbaceae was recovered only from the Murono site. The major difference of on-land MVs from submarine MVs is that the high concentrations of sulfate are not always introduced to the subsurface from above. In addition, the XRD analysis of Murono shows the absence of sulfate-, sulfur-related mineral. Therefore, we hypothesize one scenario of ANME-1b and ANME-3 thriving at the depth of the Murono site independently from SRB, which is similar to the situations reported in some other methane-seeping sites with a sulfate-depleted condition. We note that previous investigations speculate that the erupted materials from Murono and Kamou originate from the Miocene marine strata. The fact that SRB (Desulfobulbaceae) capable of associating with ANME-3 was recovered from the Murono site presents an alternative scenario: the old sea-related juvenile water somehow worked as the source of additional sulfur-related components for the SRB-ANME syntrophic consortium forming at a deeper zone of the site. However, the reason for the differences between Murono and Kamou is still unknown, and this requires further investigation.
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10
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Takemura Y, Aoki M, Danshita T, Iguchi A, Ikeda S, Miyaoka Y, Sumino H, Syutsubo K. Effects of sulfate concentration on anaerobic treatment of wastewater containing monoethanolamine using an up-flow anaerobic sludge blanket reactor. JOURNAL OF HAZARDOUS MATERIALS 2022; 440:129764. [PMID: 35986941 DOI: 10.1016/j.jhazmat.2022.129764] [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: 06/03/2022] [Revised: 08/04/2022] [Accepted: 08/09/2022] [Indexed: 06/15/2023]
Abstract
Monoethanolamine (MEA), a toxic organic chemical, is widely used in industries and is found in their wastewater. Anaerobic MEA degradation is an appropriate strategy to reduce energy and cost for treatment. Industry wastewaters also contain sulfate, but information on the effects of sulfate on MEA degradation is limited. Here, an up-flow anaerobic sludge blanket (UASB) for MEA-containing wastewater treatment was operated under psychrophilic conditions (18-20 ºC) to investigate the effects of sulfate on the microbial characteristics of the retained sludge. To acclimatize the sludge, the proportion of MEA in the influent (containing sucrose, acetate, and propionate) was increased from 15% to 100% of total COD (1500 mg L-1); sulfate was then added to the influent. The COD removal efficiency remained above 95% despite the increase in MEA and sulfate. However, granular sludge disintegration was observed when sulfate was increased from 20 to 330 mg L-1. Batch tests revealed that propionate and acetate were produced as the metabolites of MEA degradation. In response to sulfate acclimation, methane-producing activities for propionate and hydrogen declined, while sulfate-reducing activities for MEA, propionate, and hydrogen increased. Accordingly, acclimation and changes in dominant microbial groups promoted the acetogenic reaction of propionate by sulfate reduction.
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Affiliation(s)
- Yasuyuki Takemura
- Regional Environment Conservation Division, National Institute for Environmental Studies (NIES), 16-2 Onogawa, Tsukuba, Ibaraki 305-8506, Japan
| | - Masataka Aoki
- Regional Environment Conservation Division, National Institute for Environmental Studies (NIES), 16-2 Onogawa, Tsukuba, Ibaraki 305-8506, Japan
| | - Tsuyoshi Danshita
- Department of Civil Engineering and Architecture, National Institute for Technology, Tokuyama College, 3538 Gakuendai, Shunan, Yamaguchi 745-8585, Japan
| | - Akinori Iguchi
- Faculty of Applied Life Sciences, Niigata University of Pharmacy and Applied Life Sciences, 265-1 Higashizima, Akihaku, Niigata 956-8603, Japan
| | - Shoji Ikeda
- Department of Urban Environmental Design and Engineering, National Institute of Technology, Kagoshima College, 1460-1 Shinko, Hayato, Kirishima, Kagoshima 899-5193, Japan
| | - Yuma Miyaoka
- Regional Environment Conservation Division, National Institute for Environmental Studies (NIES), 16-2 Onogawa, Tsukuba, Ibaraki 305-8506, Japan
| | - Haruhiko Sumino
- Department of Civil Engineering, National Institute of Technology, Gifu College, 2236-2 Kamimakuwa, Motosu, Gifu 501-0495, Japan
| | - Kazuaki Syutsubo
- Regional Environment Conservation Division, National Institute for Environmental Studies (NIES), 16-2 Onogawa, Tsukuba, Ibaraki 305-8506, Japan; Research Center of Water Environment Technology, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan.
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11
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Abdallah M, Greige S, Beyenal H, Harb M, Wazne M. Investigating microbial dynamics and potential advantages of anaerobic co-digestion of cheese whey and poultry slaughterhouse wastewaters. Sci Rep 2022; 12:10529. [PMID: 35732864 PMCID: PMC9217800 DOI: 10.1038/s41598-022-14425-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2022] [Accepted: 06/07/2022] [Indexed: 11/10/2022] Open
Abstract
Resource recovery and prevention of environmental pollution are key goals for sustainable development. It is widely reported that agro-industrial activities are responsible for the discharge of billions of liters of wastewater to the environment. Anaerobic digestion of these energy rich agro-industrial wastewaters can simultaneously mitigate environmental pollution and recover embedded energy as methane gas. In this study, an assessment of mono- and co-digestion of cheese whey wastewater (CWW) and poultry slaughterhouse wastewater (PSW) was conducted in 2.25-L lab-scale anaerobic digesters. Treatment combinations evaluated included CWW (R1), PSW (R2), 75:25 CWW:PSW (R3), 25:75 CWW:PSW (R4), and 50:50 CWW:PSW (R5). The digestion efficiencies of the mixed wastewaters were compared to the weighted efficiencies of the corresponding combined mono-digested samples. R4, with a mixture of 25% CWW and 75% PSW, achieved the greatest treatment efficiency. This corresponded with an average biodegradability of 84%, which was greater than for R1 and R2 at 68.5 and 71.9%, respectively. Similarly, R4 produced the highest average cumulative methane value compared to R1 and R2 at 1.22× and 1.39× for similar COD loading, respectively. The modified Gompertz model provided the best fit for the obtained methane production data, with lag time decreasing over progressive treatment cycles. PCoA and heatmap analysis of relative microbial abundances indicated a divergence of microbial communities based on feed type over the treatment cycles. Microbial community analysis showed that genus Petrimonas attained the highest relative abundance (RA) at up to 38.9% in the first two cycles, then subsequently decreased to near 0% for all reactors. Syntrophomonas was highly abundant in PSW reactors, reaching up to 36% RA. Acinetobacter was present mostly in CWW reactors with a RA reaching 56.5%. The methanogenic community was dominated by Methanothrix (84.3–99.9% of archaea). The presence of phosphate and Acinetobacter in CWW feed appeared to reduce the treatment efficiency of associated reactors. Despite Acinetobacter being strictly aerobic, previous and current results indicate its survival under anaerobic conditions, with the storage of phosphate likely playing a key role in its ability to scavenge acetate during the digestion process.
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Affiliation(s)
- M Abdallah
- Civil Engineering, Lebanese American University, 301 Bassil Building, Byblos, Lebanon
| | - S Greige
- Civil Engineering, Lebanese American University, 301 Bassil Building, Byblos, Lebanon
| | - H Beyenal
- The Gene and Linda Voiland School of Chemical Engineering and Bioengineering, Washington State University, Pullman, WA, USA
| | - M Harb
- Civil Engineering, Lebanese American University, 301 Bassil Building, Byblos, Lebanon
| | - M Wazne
- Civil Engineering, Lebanese American University, 301 Bassil Building, Byblos, Lebanon.
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12
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Kang X, Liu Y. Performance and mechanism of conductive magnetite particle-enhanced excess sludge anaerobic digestion for biogas recovery. RSC Adv 2021; 11:35559-35566. [PMID: 35493163 PMCID: PMC9043222 DOI: 10.1039/d1ra06236k] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Accepted: 10/13/2021] [Indexed: 01/01/2023] Open
Abstract
The aim of this study was to evaluate the effect of magnetite particles on the anaerobic digestion of excess sludge. The results showed that methane production increased with the increase in magnetite dosage in the range of 0–5 g L−1, and the cumulative methane production increased by 50.1% at a magnetite dosage of 5 g L−1 compared with the blank reactor after 20 days. Simultaneously, numerous volatile fatty acids (VFAs) were produced at high magnetite dosages, providing the required substrates for methanogenesis. The concentration of magnetite addition was positively correlated with methane production, which proved that magnetite was beneficial for the promotion of the conversion of VFAs to methane. Moreover, the degradation efficiencies of proteins and carbohydrates reached 64% and 52.6% at the magnetite dosage of 5 g L−1, respectively, and corresponding activities of protease and coenzyme F420 were 9.03 IU L−1 and 1.652 μmol L−1. In addition, the Methanosaeta and Methanoregula genus were enriched by magnetite, which often participate in direct interspecies electron transfer as electron acceptors. Magnetite particles were applied to excess sludge anaerobic digestion. The methane production and sludge reduction were related to magnetite particle dosage, and the Methanosaeta and Methanoregula involved in the electron transfer were enriched.![]()
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Affiliation(s)
- Xiaorong Kang
- School of Environmental Engineering, Nanjing Institute of Technology Nanjing 211167 PR China +86-18795465873
| | - Yali Liu
- School of Civil Engineering, Nanjing Forestry University Nanjing 210037 PR China
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13
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Kwon MJ, Tripathi BM, Göckede M, Shin SC, Myeong NR, Lee YK, Kim M. Disproportionate microbial responses to decadal drainage on a Siberian floodplain. GLOBAL CHANGE BIOLOGY 2021; 27:5124-5140. [PMID: 34216067 DOI: 10.1111/gcb.15785] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 06/11/2021] [Indexed: 06/13/2023]
Abstract
Permafrost thaw induces soil hydrological changes which in turn affects carbon cycle processes in the Arctic terrestrial ecosystems. However, hydrological impacts of thawing permafrost on microbial processes and greenhouse gas (GHG) dynamics are poorly understood. This study examined changes in microbial communities using gene and genome-centric metagenomics on an Arctic floodplain subject to decadal drainage, and linked them to CO2 and CH4 flux and soil chemistry. Decadal drainage led to significant changes in the abundance, taxonomy, and functional potential of microbial communities, and these modifications well explained the changes in CO2 and CH4 fluxes between ecosystem and atmosphere-increased fungal abundances potentially increased net CO2 emission rates and highly reduced CH4 emissions in drained sites corroborated the marked decrease in the abundance of methanogens and methanotrophs. Interestingly, various microbial taxa disproportionately responded to drainage: Methanoregula, one of the key players in methanogenesis under saturated conditions, almost disappeared, and also Methylococcales methanotrophs were markedly reduced in response to drainage. Seven novel methanogen population genomes were recovered, and the metabolic reconstruction of highly correlated population genomes revealed novel syntrophic relationships between methanogenic archaea and syntrophic partners. These results provide a mechanistic view of microbial processes regulating GHG dynamics in the terrestrial carbon cycle, and disproportionate microbial responses to long-term drainage provide key information for understanding the effects of warming-induced soil drying on microbial processes in Arctic wetland ecosystems.
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Affiliation(s)
- Min Jung Kwon
- Korea Polar Research Institute, Incheon, Republic of Korea
| | | | | | | | - Nu Ri Myeong
- Korea Polar Research Institute, Incheon, Republic of Korea
| | - Yoo Kyung Lee
- Korea Polar Research Institute, Incheon, Republic of Korea
| | - Mincheol Kim
- Korea Polar Research Institute, Incheon, Republic of Korea
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14
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Owusu-Agyeman I, Plaza E, Cetecioglu Z. A pilot-scale study of granule-based anaerobic reactors for biogas recovery from municipal wastewater under sub-mesophilic conditions. BIORESOURCE TECHNOLOGY 2021; 337:125431. [PMID: 34198242 DOI: 10.1016/j.biortech.2021.125431] [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: 04/29/2021] [Revised: 06/11/2021] [Accepted: 06/16/2021] [Indexed: 06/13/2023]
Abstract
The influence of hydraulic retention time (HRT of 3-5 h) and temperature (20-25 °C) on performance and microbial dynamics of two pilot-scale upflow anaerobic sludge blanket (UASB) reactors with different granule size distribution (UASB1 = 3-4 mm and UASB2 = 1-2 mm) were investigated for 217 days. Increasing the HRT to 5 h even at a lower temperature of 20 °C enhanced COD removal and biogas production with average of 59 ± 16% (up to 85%) and 73 ± 9 L/(m3·d) (up to 102 L/(m3·d)) for UASB1; 63 ± 16% (up to 85%) and 75 ± 9 L/(m3·d) (up to 90 L/(m3·d)) for UASB2, respectively. This is explained by sufficient contact time between microorganisms and substrate. Acetoclastic methanogenic activity was higher in UASB1 because Methanosaetaceae (produces methane from acetate) dominated (64 ± 4%). However, Methanoregulaceae (29 ± 3%) and Methanomicrobiales_unassigned (20 ± 6%) which produce methane from H2/CO2 and formate were significant in UASB2. The extent of change in the microbial dynamics with HRT and temperature was more obvious in the smaller granule reactor.
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Affiliation(s)
- Isaac Owusu-Agyeman
- Department of Chemical Engineering, KTH Royal Institute of Technology, SE-100 44, Stockholm, Sweden.
| | - Elzbieta Plaza
- Department of Sustainable Development, Environmental Science and Engineering, KTH Royal Institute of Technology, SE-100 44, Stockholm, Sweden
| | - Zeynep Cetecioglu
- Department of Chemical Engineering, KTH Royal Institute of Technology, SE-100 44, Stockholm, Sweden
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15
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Lavergne C, Aguilar-Muñoz P, Calle N, Thalasso F, Astorga-España MS, Sepulveda-Jauregui A, Martinez-Cruz K, Gandois L, Mansilla A, Chamy R, Barret M, Cabrol L. Temperature differently affected methanogenic pathways and microbial communities in sub-Antarctic freshwater ecosystems. ENVIRONMENT INTERNATIONAL 2021; 154:106575. [PMID: 33901975 DOI: 10.1016/j.envint.2021.106575] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2021] [Revised: 04/07/2021] [Accepted: 04/08/2021] [Indexed: 06/12/2023]
Abstract
Freshwater ecosystems are responsible for an important part of the methane (CH4) emissions which are likely to change with global warming. This study aims to evaluate temperature-induced (from 5 to 20 °C) changes on microbial community structure and methanogenic pathways in five sub-Antarctic lake sediments from Magallanes strait to Cape Horn, Chile. We combined in situ CH4 flux measurements, CH4 production rates (MPRs), gene abundance quantification and microbial community structure analysis (metabarcoding of the 16S rRNA gene). Under unamended conditions, a temperature increase of 5 °C doubled MPR while microbial community structure was not affected. Stimulation of methanogenesis by methanogenic precursors as acetate and H2/CO2, resulted in an increase of MPRs up to 127-fold and 19-fold, respectively, as well as an enrichment of mcrA-carriers strikingly stronger under acetate amendment. At low temperatures, H2/CO2-derived MPRs were considerably lower (down to 160-fold lower) than the acetate-derived MPRs, but the contribution of hydrogenotrophic methanogenesis increased with temperature. Temperature dependence of MPRs was significantly higher in incubations spiked with H2/CO2 (c. 1.9 eV) compared to incubations spiked with acetate or unamended (c. 0.8 eV). Temperature was not found to shape the total microbial community structure, that rather exhibited a site-specific variability among the studied lakes. However, the methanogenic archaeal community structure was driven by amended methanogenic precursors with a dominance of Methanobacterium in H2/CO2-based incubations and Methanosarcina in acetate-based incubations. We also suggested the importance of acetogenic H2-production outcompeting hydrogenotrohic methanogenesis especially at low temperatures, further supported by homoacetogen proportion in the microcosm communities. The combination of in situ-, and laboratory-based measurements and molecular approaches indicates that the hydrogenotrophic pathway may become more important with increasing temperatures than the acetoclastic pathway. In a continuously warming environment driven by climate change, such issues are crucial and may receive more attention.
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Affiliation(s)
- Céline Lavergne
- HUB AMBIENTAL UPLA, Laboratory of Aquatic Environmental Research, Centro de Estudios Avanzados, Universidad de Playa Ancha, Valparaíso, Chile; Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, 2340950 Valparaíso, Chile.
| | - Polette Aguilar-Muñoz
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, 2340950 Valparaíso, Chile
| | - Natalia Calle
- Departamento de Química, Universidad Técnica Federico Santa María, Valparaíso, Chile
| | - Frédéric Thalasso
- Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional (Cinvestav-IPN), Departamento de Biotecnología y Bioingeniería, México, DF, Mexico
| | - Maria Soledad Astorga-España
- Departamento de Ciencias y Recursos Naturales, Universidad de Magallanes, Punta Arenas, Chile; ENBEELAB, University of Magallanes, Punta Arenas, Chile
| | - Armando Sepulveda-Jauregui
- ENBEELAB, University of Magallanes, Punta Arenas, Chile; Center for Climate and Resilience Research (CR)(2), Santiago, Chile
| | - Karla Martinez-Cruz
- Departamento de Ciencias y Recursos Naturales, Universidad de Magallanes, Punta Arenas, Chile; ENBEELAB, University of Magallanes, Punta Arenas, Chile
| | - Laure Gandois
- Laboratoire Écologie Fonctionnelle et Environnement, Université de Toulouse, CNRS, Toulouse, France
| | - Andrés Mansilla
- Departamento de Ciencias y Recursos Naturales, Universidad de Magallanes, Punta Arenas, Chile
| | - Rolando Chamy
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, 2340950 Valparaíso, Chile
| | - Maialen Barret
- Laboratoire Écologie Fonctionnelle et Environnement, Université de Toulouse, CNRS, Toulouse, France
| | - Léa Cabrol
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, 2340950 Valparaíso, Chile; Aix-Marseille University, Univ Toulon, CNRS, IRD, M.I.O. UM 110, Mediterranean Institute of Oceanography, Marseille, France; Institute of Ecology and Biodiversity IEB, Faculty of Sciences, Universidad de Chile, Santiago, Chile.
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16
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Beraud-Martínez LK, Gómez-Gil B, Franco-Nava MÁ, Almazán-Rueda P, Betancourt-Lozano M. A metagenomic assessment of microbial communities in anaerobic bioreactors and sediments: Taxonomic and functional relationships. Anaerobe 2020; 68:102296. [PMID: 33207267 DOI: 10.1016/j.anaerobe.2020.102296] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Revised: 10/20/2020] [Accepted: 11/11/2020] [Indexed: 02/04/2023]
Abstract
The present study used metagenomic sequencing, metagenome assembly and physical-chemical analysis to describe taxonomically and functionally 3 anaerobic bioreactors treating manure (LI), brewery (BR) and cornmeal (CO) wastes, and an anaerobic estuarine sediment (ES). Proteobacteria, Firmicutes, Euryarchaeota and Bacteroidetes were the most abundant Phyla in all metagenomes. A bacteria/archaea ratio of 3.4 was found in the industrial full-scale anaerobic bioreactors BR and CO, while ratios greater than 10 were found for LI and ES. Canonical correspondence analysis showed that environmental variables such as chemical oxygen demand, lipid content, and ammonium nitrogen influenced the ordination of taxonomic groups. Mesotoga prima was linked to high-temperature conditions, particularly in the BR bioreactor, along with the presence of heat shock proteins genes. Likewise, the hydrogenotrophic methanogen, Methanoregula formicica, was associated with high ammonium concentration in LI bioreactor. The interactions of microbes with specific methanogenic pathways were identified using Clusters of Orthologous Groups (COG) functions, while metagenome-assembled genomes (MAGs) further confirmed relationships between taxa and functions. Our results provide valuable information to understand microbial processes in anaerobic environments.
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Affiliation(s)
- Liov Karel Beraud-Martínez
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico
| | - Bruno Gómez-Gil
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico
| | - Miguel Ángel Franco-Nava
- Tecnológico Nacional de México, Campus Mazatlán. Calle Corsario 1 No. 203 Col. Urías, A.P. 757, Mazatlán, Sinaloa, 82070, Mexico
| | - Pablo Almazán-Rueda
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico
| | - Miguel Betancourt-Lozano
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico.
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17
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Zhang CJ, Chen YL, Pan J, Wang YM, Li M. Spatial and seasonal variation of methanogenic community in a river-bay system in South China. Appl Microbiol Biotechnol 2020; 104:4593-4603. [PMID: 32306050 DOI: 10.1007/s00253-020-10613-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2020] [Revised: 04/01/2020] [Accepted: 04/05/2020] [Indexed: 10/24/2022]
Abstract
River-bay system is a transitional zone connecting land and ocean and an important natural source for methane emission. Methanogens play important roles in the global greenhouse gas budget and carbon cycle since they produce methane. The abundance and community assemblage of methanogens in such a dynamic system are not well understood. Here, we used quantitative PCR and high-throughput sequencing of the mcrA gene to investigate the abundance and community composition of methanogens in the Shenzhen River-Bay system, a typical subtropical river-bay system in Southern of China, during the wet and dry seasons. Results showed that mcrA gene abundance was significantly higher in the sediments of river than those of estuary, and was higher in wet season than dry season. Sequences of mcrA gene were mostly assigned to three orders, including Methanosarcinales, Methanomicrobiales, and Methanobacteriales. Specifically, Methanosarcina, Methanosaeta, and Methanobacterium were the most abundant and ubiquitous genera. Methanogenic communities generally clustered according to habitat (river vs. estuary), and salinity was the major factor driving the methanogenic community assemblage. Furthermore, the indicator groups for two habitats were identified. For example, Methanococcoides, Methanoculleus, and Methanogenium preferentially existed in estuarine sediments, whereas Methanomethylovorans, Methanolinea, Methanoregula, and Methanomassiliicoccales were more abundant in riverine sediments, indicating distinct ecological niches. Overall, these findings reveal the distribution patterns of methanogens and expand our understanding of methanogenic community assemblage in the river-bay system. Key Points • Abundance of methanogens was relatively higher in riverine sediments. • Methanogenic community in estuarine habitat separated from that in riverine habitat. • Salinity played a vital role in regulating methanogenic community assemblage.
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Affiliation(s)
- Cui-Jing Zhang
- Shenzhen Key Laboratory of Marine Microbiome Engineering, Institute for Advanced Study, Shenzhen University, Shenzhen, 518060, China.,Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen, 518060, China
| | - Yu-Lian Chen
- Shenzhen Key Laboratory of Marine Microbiome Engineering, Institute for Advanced Study, Shenzhen University, Shenzhen, 518060, China.,College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China
| | - Jie Pan
- Shenzhen Key Laboratory of Marine Microbiome Engineering, Institute for Advanced Study, Shenzhen University, Shenzhen, 518060, China
| | - Yong-Ming Wang
- Shenzhen Key Laboratory of Marine Microbiome Engineering, Institute for Advanced Study, Shenzhen University, Shenzhen, 518060, China
| | - Meng Li
- Shenzhen Key Laboratory of Marine Microbiome Engineering, Institute for Advanced Study, Shenzhen University, Shenzhen, 518060, China.
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18
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Chen H, Wei Y, Xie C, Wang H, Chang S, Xiong Y, Du C, Xiao B, Yu G. Anaerobic treatment of glutamate-rich wastewater in a continuous UASB reactor: Effect of hydraulic retention time and methanogenic degradation pathway. CHEMOSPHERE 2020; 245:125672. [PMID: 31877455 DOI: 10.1016/j.chemosphere.2019.125672] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Revised: 11/27/2019] [Accepted: 12/14/2019] [Indexed: 06/10/2023]
Abstract
To investigate the anaerobic treatment efficiency and degradation pathways of glutamate-rich wastewater under various hydraulic retention times (HRTs), a lab-scale upflow anaerobic sludge blanket (UASB) reactor was operated continuously for 180 days. Results showed that high chemical oxygen demand (COD) removal efficiencies of 95.5%-96.5% were achieved at HRTs of 4.5 h-6 h with a maximum methane yield of 0.31 L-CH4/g-COD. When the HRT was shortened to less than 3 h, the removal performance of the reactor declined. There also was an excessive accumulation of volatile fatty acids, which implies that an appropriately small HRT is applicable to the UASB reactor treating glutamate-rich wastewater. Methanogenic degradation of glutamate in the UASB reactor depended on the HRT applied, and the typical methane-producing capability of the sludge at an HRT of 3 h, in descending order, was acetate > glutamate > butyrate > H2/CO2 > valerate > propionate. Clostridium and Methanosaeta were predominant in the glutamate-degrading sludge. At least three degradation pathways most likely existed in the UASB reactor, and the pathway via 3-methlaspartate by Clostridium pascui was expected to be dominant.
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Affiliation(s)
- Hong Chen
- Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha, 410004, China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China; Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, Sendai, 980-8579, Japan
| | - Yanxiao Wei
- Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha, 410004, China
| | - Chenglei Xie
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, Sendai, 980-8579, Japan
| | - Hong Wang
- Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha, 410004, China
| | - Sheng Chang
- School of Engineering, University of Guelph, Guelph N1G 2W1, Ontario, Canada
| | - Ying Xiong
- Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha, 410004, China
| | - Chunyan Du
- Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha, 410004, China
| | - Benyi Xiao
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.
| | - Guanlong Yu
- Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha, 410004, China
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19
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Diverse Microbial Community Profiles of Propionate-Degrading Cultures Derived from Different Sludge Sources of Anaerobic Wastewater Treatment Plants. Microorganisms 2020; 8:microorganisms8020277. [PMID: 32085468 PMCID: PMC7074800 DOI: 10.3390/microorganisms8020277] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 02/13/2020] [Accepted: 02/16/2020] [Indexed: 11/16/2022] Open
Abstract
Anaerobic digestion (AD) has been used for wastewater treatment and production of renewable energy or biogas. Propionate accumulation is one of the important problems leading to an unstable system and low methane production. Revealing propionate-degrading microbiome is necessary to gain a better knowledge for alleviation of the problem. Herein, we systematically investigated the propionate-degrading cultures enriched from various anaerobic sludge sources of agro-industrial wastewater treatment plants using 16S rRNA gene sequencing. Different microbial profiles were shown even though the methanogenic activities of all cultures were similar. Interestingly, non-classical propionate-degrading key players Smithella, Syntrophomonas, and Methanosaeta were observed as common prevalent taxa in our enriched cultures. Moreover, different hydrogenotrophic methanogens were found specifically to the different sludge sources. The enriched culture of high salinity sludge showed a distinct microbial profile compared to the others, containing mainly Thermovirga, Anaerolinaceae, Methanosaeta, Syntrophobactor, and Methanospirillum. Our microbiome analysis revealed different propionate-degrading community profiles via mainly the Smithella pathway and offers inside information for microbiome manipulation in AD systems to increase biogas production corresponding to their specific microbial communities.
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20
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Wang XT, Xu XJ, Chen C, Xing DF, Zhang RC, Zhou X, Yuan Y, Wang AJ, Ren NQ, Lee DJ. The microbial zonation of SRB and soNRB enhanced the performance of SR-DSR process under the micro-aerobic condition. ENVIRONMENT INTERNATIONAL 2019; 132:105096. [PMID: 31465952 DOI: 10.1016/j.envint.2019.105096] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2019] [Revised: 08/11/2019] [Accepted: 08/11/2019] [Indexed: 06/10/2023]
Abstract
The micro-aerobic condition has proven to effectively enhance the COD removal and elemental sulfur (S0) transformation rate in the sulfate reduction-denitrifying sulfide removal (SR-DSR) process. However, the mechanisms of how micro-aerobic condition enhances S0 transformation remain largely unknown. Therefore in this work an integrated investigation was performed to document the mechanisms and the effect of different startup modes (micro-aerobic startup (termed as mSR-DSR) and anaerobic startup (termed as aSR-DSR)) on bioreactor performance and microbial community dynamics. The results showed that micro-aerobic startup achieved a shorter period to reach a stable performance for SR-DSR, which could be one of the factors affecting the choice of the bioreactor startup mode considering engineering application. For all the tested conditions, removal of nitrate, sulfate and lactate were 100%, >80% and 100%, respectively. The maximum transformation rate of elemental sulfur in mSR-DSR was 57%, which was higher than that in aSR-DSR. The mechanism explorations revealed that micro-aerobic condition not only particularly enriched the sulfide-oxidizing, nitrate-reducing bacteria (soNRB) but also promoted the microbial zonation of sulfate-reducing bacteria (SRB) and soNRB, thereby achieving more S0 transformation in the effluent. Under micro-aerobic condition, SRB were mainly distributed in the bottom and middle part of the reactor, while soNRB were assembled in the top. The relative abundance of soNRB in both aSR-DSR and mSR-DSR notably increased to 41.5% and 23.7% at the top when 5 mL air min-1 Lreactor-1 was applied. Furthermore, the degradation of organic carbon was also accelerated under micro-aerobic condition, possibly due to the enrichment of organic compounds degrading bacteria Bacteroidetes_vadin HA17.
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Affiliation(s)
- Xue-Ting Wang
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, HeiLongjiang Province 150090, China
| | - Xi-Jun Xu
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, HeiLongjiang Province 150090, China
| | - Chuan Chen
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, HeiLongjiang Province 150090, China.
| | - De-Feng Xing
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, HeiLongjiang Province 150090, China
| | - Ruo-Chen Zhang
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, HeiLongjiang Province 150090, China
| | - Xu Zhou
- Engineering Laboratory of Microalgal Bioenergy, Shenzhen Graduate School, Harbin Institute of Technology, Shenzhen 518055, China
| | - Yuan Yuan
- Department of Biotechnology, Beijing Polytechnic, Beijing 100029, China
| | - Ai-Jie Wang
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, HeiLongjiang Province 150090, China
| | - Nan-Qi Ren
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, HeiLongjiang Province 150090, China
| | - Duu-Jong Lee
- Department of Chemical Engineering, National Taiwan University, Taipei 106, Taiwan; Department of Chemical Engineering, National Taiwan University of Science and Technology, Taipei 106, Taiwan
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21
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Guermazi-Toumi S, Chouari R, Sghir A. Molecular analysis of methanogen populations and their interactions within anaerobic sludge digesters. ENVIRONMENTAL TECHNOLOGY 2019; 40:2864-2879. [PMID: 29560816 DOI: 10.1080/09593330.2018.1455747] [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: 12/01/2017] [Accepted: 03/15/2018] [Indexed: 06/08/2023]
Abstract
Knowledge of archaeal population structure, function and interactions is of great interest for a deeper understanding of the anaerobic digestion step in wastewater treatment process, that represents a bottle neck in the optimization of digesters performance. Although culture-independent techniques have enabled the exploration of archaeal population in such systems, their population dynamics and interactions still require further investigation. In the present study, 2646 almost full archaeal 16S rRNA gene sequences retrieved from 22 anaerobic digesters located worldwide were analyzed and classified into 83 Operational Taxonomic Units (OTUs) for Euryarchaeotes and 2 OTUs for Crenarchaeotes. Among the Euryarchaeotes, Methanosarcinales represent the predominant archaeal population (47.5% of total sequences), followed by the ARC I (WSA2) lineage (25.3%), Methanomicrobiales (19.9%) and Methanobacteriales (1.9%). Theses lineages are predominant in nine, five, two and one digesters respectively. However, the remaining 5 digesters show no predominance of any methanogenic group. According to the predominance of theses lineages, 5 digester profiles were distinguished. This study revealed a clear interaction between the 4 methanogenic lineages. A core of 12 OTUs represented by five, four, two and one OTU for Methanosarcinales, Methanomicrobiales, ARC I and Methanobacteriales respectively were quantitatively abundant in at least 50% of the analyzed digesters. 16S rRNA targeted hybridization oligonucleotide probes targeting the predominant OTUs are being developed to follow their population dynamics under various parameters.
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Affiliation(s)
- Sonda Guermazi-Toumi
- a Faculté des Sciences de Gafsa, Université de Gafsa , Gafsa , Tunisie
- b Laboratoire de recherche Toxicologie-Microbiologie Environnementale et Santé (LR17ES06), Faculté des Sciences de Sfax, Université de Sfax , Sfax , Tunisie
| | - Rakia Chouari
- c Faculté des Sciences de Bizerte, UR11ES32 Plant Toxicology and Molecular Biology of Microorganims, Université de Carthage , Bizerte , Tunisie
| | - Abdelghani Sghir
- d Université d'Evry Val d'Essonne , Evry , France
- e CNRS-UMR 8030 , Evry , France
- f CEA, DRF, Institut de biologie François Jacob , Genoscope, Evry , France
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22
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Gulliver D, Lipus D, Ross D, Bibby K. Insights into microbial community structure and function from a shallow, simulated CO 2 -leakage aquifer demonstrate microbial selection and adaptation. ENVIRONMENTAL MICROBIOLOGY REPORTS 2019; 11:338-351. [PMID: 29984552 DOI: 10.1111/1758-2229.12675] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2018] [Revised: 05/30/2018] [Accepted: 07/02/2018] [Indexed: 06/08/2023]
Abstract
Geological carbon storage is likely to be a part of a comprehensive strategy to minimize the atmospheric release of carbon dioxide (CO2 ), raising concerns that injected CO2 will leak into overlying freshwater aquifers. CO2(aq) leakage may impact the dominant microbial community responsible for important ecosystem functions such as nutrient cycling, metal cycling and carbon conversion. Here, we examined the impact of an experimental in situ CO2 -leakage on a freshwater aquifer microbial community. High-throughput 16S rRNA gene sequencing demonstrated lower microbial diversity in freshwater wells with CO2 concentrations above 1.15 g l-1 . Metagenomic sequencing and population genome binning were used to evaluate the metabolic potential of microbial populations across four CO2 exposed samples and one control sample. Population genome binning resulted in the recovery and annotation of three metagenome assembled genomes (MAGs). Two of the MAGs, most closely related to Curvibacter and Sulfuricurvum, had the functional capacity for CO2 utilization via carbon fixation coupled to sulfur and iron oxidation. The third draft genome was an Archaea, most closely related to Methanoregula, characterized by the metabolic potential for methanogenesis. Together, these findings show that CO2 leakage in a freshwater aquifer poses a strong selection, driving both microbial community structure and metabolic function.
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Affiliation(s)
- Djuna Gulliver
- National Energy Technology Laboratory (NETL), Pittsburgh, PA, USA
| | - Daniel Lipus
- National Energy Technology Laboratory (NETL), Pittsburgh, PA, USA
- Oak Ridge Institute for Science and Education, Oak Ridge, TN, USA
| | - Daniel Ross
- National Energy Technology Laboratory (NETL), Pittsburgh, PA, USA
- AECOM, Pittsburgh, PA, USA
| | - Kyle Bibby
- Oak Ridge Institute for Science and Education, Oak Ridge, TN, USA
- Department of Civil & Environmental Engineering & Earth Sciences, University of Notre Dame, South Bend, IN, USA
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23
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Sakai S, Takaki Y, Miyazaki M, Ogawara M, Yanagawa K, Miyazaki J, Takai K. Methanofervidicoccus abyssi gen. nov., sp. nov., a hydrogenotrophic methanogen, isolated from a hydrothermal vent chimney in the Mid-Cayman Spreading Center, the Caribbean Sea. Int J Syst Evol Microbiol 2019; 69:1225-1230. [PMID: 30843780 DOI: 10.1099/ijsem.0.003297] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
A novel hydrogenotrophic methanogen, strain HHBT, was isolated from a deep-sea hydrothermal vent chimney sample collected from Beebe Vent Field at the Mid-Cayman Spreading Center, Caribbean Sea. The cells were non-motile regular to irregular cocci possessing several flagella. The novel isolate grew at 60-80 °C, pH 5.0-7.4 and with 1-4 % of NaCl (w/v). The isolate utilized H2/CO2 as the only substrates for growth and methane production. The results of phylogenetic analyses of both 16S rRNA and mcrA gene sequences and comparative genome analysis indicated that HHBT represented a member of the order Methanococcales, and was closely related to the members of the genera Methanothermococcus and Methanotorris. The most closely related species were Methanothermococcus okinawensis IH1T and Methanotorris igneus Kol 5T in comparison of 16S rRNA gene sequences (each with 93 % identity), and Methanotorris formicicus Mc-S-70T in the case of deduced amino acid sequence similarity of mcrA genes (92 % similarity). The ANI and AAI values between HHBT and the members of the genera Methanothermococcus and Methanotorris were 69-72 % and 66-70 %, respectively. Although many of the morphological and physiological characteristics were quite similar between HHBT and the species of the genera Methanothermococcus and Methanotorris, they were distinguishable by the differences in susceptibility to antibiotics, formate utilization, growth temperature and NaCl ranges. On the basis of these phenotypic, phylogenetic and genomic properties, we propose that strain HHBT represents a novel species, of a novel genus, Methanofervidicoccus abyssi gen. nov., sp. nov. The type strain is HHBT (=JCM 32161T=DSM 105918T).
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Affiliation(s)
- Sanae Sakai
- Department of Subsurface Geobiological Analysis and Research (D-SUGAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa 237-0061, Japan
| | - Yoshihiro Takaki
- Department of Subsurface Geobiological Analysis and Research (D-SUGAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa 237-0061, Japan
| | - Masayuki Miyazaki
- Department of Subsurface Geobiological Analysis and Research (D-SUGAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa 237-0061, Japan
| | - Miyuki Ogawara
- Department of Subsurface Geobiological Analysis and Research (D-SUGAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa 237-0061, Japan
| | - Katsunori Yanagawa
- Department of Life and Environmental Engineering, Faculty of Environmental Engineering, The University of Kitakyushu, 1-1 Hibikino, Wakamatsu-ku, Kitakyushu, Fukuoka 808-0135, Japan
| | - Junichi Miyazaki
- Department of Subsurface Geobiological Analysis and Research (D-SUGAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa 237-0061, Japan
| | - Ken Takai
- Department of Subsurface Geobiological Analysis and Research (D-SUGAR), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), 2-15 Natsushima-cho, Yokosuka, Kanagawa 237-0061, Japan
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Carson MA, Bräuer S, Basiliko N. Enrichment of peat yields novel methanogens: approaches for obtaining uncultured organisms in the age of rapid sequencing. FEMS Microbiol Ecol 2019; 95:5289378. [DOI: 10.1093/femsec/fiz001] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2018] [Accepted: 01/08/2019] [Indexed: 11/13/2022] Open
Affiliation(s)
- Michael A Carson
- Department of Biology, Laurentian University, Vale Living with Lakes Centre, 935 Ramsey Lake Road, Sudbury, ON P3E 2C6, Canada
| | - Suzanna Bräuer
- Department of Biology, Appalachian State University, 572 Rivers Street, Boone, NC 28608, USA
| | - Nathan Basiliko
- Department of Biology, Laurentian University, Vale Living with Lakes Centre, 935 Ramsey Lake Road, Sudbury, ON P3E 2C6, Canada
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25
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Ko JH, Wang N, Yuan T, Lü F, He P, Xu Q. Effect of nickel-containing activated carbon on food waste anaerobic digestion. BIORESOURCE TECHNOLOGY 2018; 266:516-523. [PMID: 30005414 DOI: 10.1016/j.biortech.2018.07.015] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2018] [Revised: 07/02/2018] [Accepted: 07/04/2018] [Indexed: 06/08/2023]
Abstract
Anaerobic digestion (AD) is frequently restricted with the long lag phase and low methane (CH4) production rate. Laboratory batch experiments were conducted to investigate the impact of different supplements on the performance of food waste AD, including AC-Ni, AC, and Ni. Results showed that the lag phase of AD was reduced with the addition of those supplementations. Compared with the control group without any supplementation, the AC-Ni could shorten the lag phase by 67% and increase the maximum CH4 production rate by 50%, respectively. The speciation analysis indicated that the environmental risks of the AC-Ni was reduced by 30% after digestion. Microbial community structure analysis revealed that the AC-Ni promoted the evolution and activity of the hydrolytic-fermentative bacteria (e.g. Firmicutes and Bacteroidetes) and methanogens (e.g. Methanobacterium, Methanoregula and Methanomassiliicoccus). This study suggested that the AC-Ni waste could be feasible to be applied to enhance the performance of AD.
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Affiliation(s)
- Jae Hac Ko
- Shenzhen Engineering Laboratory for Eco-efficient Polysilicate Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen 518055, PR China
| | - Ning Wang
- Shenzhen Engineering Laboratory for Eco-efficient Polysilicate Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen 518055, PR China
| | - Tugui Yuan
- Shenzhen Engineering Laboratory for Eco-efficient Polysilicate Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen 518055, PR China
| | - Fan Lü
- State Key Laboratory of Pollution Control and Resource Reuse, Tongji University, Shanghai 200092, PR China
| | - Pinjing He
- State Key Laboratory of Pollution Control and Resource Reuse, Tongji University, Shanghai 200092, PR China
| | - Qiyong Xu
- Shenzhen Engineering Laboratory for Eco-efficient Polysilicate Materials, School of Environment and Energy, Peking University Shenzhen Graduate School, University Town, Xili, Nanshan District, Shenzhen 518055, PR China.
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26
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Wu J, Niu Q, Li L, Hu Y, Mribet C, Hojo T, Li YY. A gradual change between methanogenesis and sulfidogenesis during a long-term UASB treatment of sulfate-rich chemical wastewater. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 636:168-176. [PMID: 29704712 DOI: 10.1016/j.scitotenv.2018.04.172] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2018] [Revised: 04/03/2018] [Accepted: 04/12/2018] [Indexed: 06/08/2023]
Abstract
The competition between methane-producing archaea and sulfate-reducing bacteria is an important topic in anaerobic wastewater treatment. In this study, an Up-flow Anaerobic Sludge Blanket Reactor (UASB) was operated for 330 days to evaluate the treatment performance of sulfate-rich wastewater. The effects of competition change between methane production and sulfate reduction on the organic removal efficiency, methane production, and electrons allocation were investigated. Synthetic wastewater was composed of ethanol and acetate with a chemical oxygen demand (COD)/SO42- of 1.0. As a result, the COD removal efficiency achieved in long-term treatment was higher than 90%. During the initial stage, methane production was the dominant reaction. Sulfate-reducing bacteria (SRB) could only partially oxidize ethanol to acetate, and methane-producing archaea (MPA) utilized acetate for methane production. Methane production declined gradually over the long-term operation, whereas the sulfate-reducing efficiency increased. However, UASB performed well throughout the experiment because there was no significant inhibition. After the complete reduction of the sulfate, MPA converted the remaining COD into methane.
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Affiliation(s)
- Jiang Wu
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan
| | - Qigui Niu
- School of Environmental Science and Engineering, Shandong University, 27# Shanda South Road, Jinan 250100, China
| | - Lu Li
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan
| | - Yong Hu
- National Institute for Environmental Studies, Onogawa 16-2, Tsukuba, Ibaraki 305-0053, Japan
| | - Chaimaa Mribet
- Graduate School of Environmental Studies, Tohoku University, 6-6-06 Aoba, Sendai 980-8579, Japan
| | - Toshimasa Hojo
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan
| | - Yu-You Li
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan.
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27
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Gilmour CC, Bullock AL, McBurney A, Podar M, Elias DA. Robust Mercury Methylation across Diverse Methanogenic Archaea. mBio 2018; 9:e02403-17. [PMID: 29636434 PMCID: PMC5893877 DOI: 10.1128/mbio.02403-17] [Citation(s) in RCA: 79] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2018] [Accepted: 03/13/2018] [Indexed: 11/30/2022] Open
Abstract
Methylmercury (MeHg) production was compared among nine cultured methanogenic archaea that contain hgcAB, a gene pair that codes for mercury (Hg) methylation. The methanogens tested produced MeHg at inherently different rates, even when normalized to growth rate and Hg availability. Eight of the nine tested were capable of MeHg production greater than that of spent- and uninoculated-medium controls during batch culture growth. Methanococcoides methylutens, an hgcAB+ strain with a fused gene pair, was unable to produce more MeHg than controls. Maximal conversion of Hg to MeHg through a full batch culture growth cycle for each species (except M. methylutens) ranged from 2 to >50% of the added Hg(II) or between 0.2 and 17 pmol of MeHg/mg of protein. Three of the species produced >10% MeHg. The ability to produce MeHg was confirmed in several hgcAB+ methanogens that had not previously been tested (Methanocella paludicola SANAE, Methanocorpusculum bavaricum, Methanofollis liminatans GKZPZ, and Methanosphaerula palustris E1-9c). Maximal methylation was observed at low sulfide concentrations (<100 μM) and in the presence of 0.5 to 5 mM cysteine. For M. hollandica, the addition of up to 5 mM cysteine enhanced MeHg production and cell growth in a concentration-dependent manner. As observed for bacterial Hg methylators, sulfide inhibited MeHg production. An initial evaluation of sulfide and thiol impacts on bioavailability showed methanogens responding to Hg complexation in the same way as do Deltaproteobacteria The mercury methylation rates of several methanogens rival those of the better-studied Hg-methylating sulfate- and iron-reducing DeltaproteobacteriaIMPORTANCEArchaea, specifically methanogenic organisms, play a role in mercury methylation in nature, but their global importance to MeHg production and the subsequent risk to ecosystems are not known. Methanogenesis has been linked to Hg methylation in several natural habitats where methylmercury production incurs risk to people and ecosystems, including rice paddies and permafrost. In this study, we confirm that most methanogens carrying the hgcAB gene pair are capable of Hg methylation. We found that methylation rates vary inherently among hgcAB+ methanogens but that several species are capable of MeHg production at rates that rival those of the better-know Hg-methylating sulfate- and iron-reducing bacteria. Methanogens may need to be considered equally with sulfate and iron reducers in evaluations of MeHg production in nature.
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Affiliation(s)
| | | | - Alyssa McBurney
- Smithsonian Environmental Research Center, Edgewater, Maryland, USA
| | - Mircea Podar
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA
| | - Dwayne A Elias
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA
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28
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Adam PS, Borrel G, Gribaldo S. Evolutionary history of carbon monoxide dehydrogenase/acetyl-CoA synthase, one of the oldest enzymatic complexes. Proc Natl Acad Sci U S A 2018; 115:E1166-E1173. [PMID: 29358391 PMCID: PMC5819426 DOI: 10.1073/pnas.1716667115] [Citation(s) in RCA: 118] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Carbon monoxide dehydrogenase/acetyl-CoA synthase (CODH/ACS) is a five-subunit enzyme complex responsible for the carbonyl branch of the Wood-Ljungdahl (WL) pathway, considered one of the most ancient metabolisms for anaerobic carbon fixation, but its origin and evolutionary history have been unclear. While traditionally associated with methanogens and acetogens, the presence of CODH/ACS homologs has been reported in a large number of uncultured anaerobic lineages. Here, we have carried out an exhaustive phylogenomic study of CODH/ACS in over 6,400 archaeal and bacterial genomes. The identification of complete and likely functional CODH/ACS complexes in these genomes significantly expands its distribution in microbial lineages. The CODH/ACS complex displays astounding conservation and vertical inheritance over geological times. Rare intradomain and interdomain transfer events might tie into important functional transitions, including the acquisition of CODH/ACS in some archaeal methanogens not known to fix carbon, the tinkering of the complex in a clade of model bacterial acetogens, or emergence of archaeal-bacterial hybrid complexes. Once these transfers were clearly identified, our results allowed us to infer the presence of a CODH/ACS complex with at least four subunits in the last universal common ancestor (LUCA). Different scenarios on the possible role of ancestral CODH/ACS are discussed. Despite common assumptions, all are equally compatible with an autotrophic, mixotrophic, or heterotrophic LUCA. Functional characterization of CODH/ACS from a larger spectrum of bacterial and archaeal lineages and detailed evolutionary analysis of the WL methyl branch will help resolve this issue.
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Affiliation(s)
- Panagiotis S Adam
- Unit Evolutionary Biology of the Microbial Cell, Department of Microbiology, Institut Pasteur, 75015 Paris, France
- Université Paris Diderot, Sorbonne Paris Cité, Paris, France
| | - Guillaume Borrel
- Unit Evolutionary Biology of the Microbial Cell, Department of Microbiology, Institut Pasteur, 75015 Paris, France
| | - Simonetta Gribaldo
- Unit Evolutionary Biology of the Microbial Cell, Department of Microbiology, Institut Pasteur, 75015 Paris, France;
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29
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Mei R, Nobu MK, Narihiro T, Kuroda K, Muñoz Sierra J, Wu Z, Ye L, Lee PKH, Lee PH, van Lier JB, McInerney MJ, Kamagata Y, Liu WT. Operation-driven heterogeneity and overlooked feed-associated populations in global anaerobic digester microbiome. WATER RESEARCH 2017; 124:77-84. [PMID: 28750287 DOI: 10.1016/j.watres.2017.07.050] [Citation(s) in RCA: 58] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2017] [Revised: 07/18/2017] [Accepted: 07/19/2017] [Indexed: 05/11/2023]
Abstract
Anaerobic digester (AD) microbiomes harbor complex, interacting microbial populations to achieve biomass reduction and biogas production, however how they are influenced by operating conditions and feed sludge microorganisms remain unclear. These were addressed by analyzing the microbial communities of 90 full-scale digesters at 51 municipal wastewater treatment plants from five countries. Heterogeneity detected in community structures suggested that no single AD microbiome could be defined. Instead, the AD microbiomes were classified into eight clusters driven by operating conditions (e.g., pretreatment, temperature range, and salinity), whereas geographic location of the digesters did not have significant impacts. Comparing digesters populations with those present in the corresponding feed sludge led to the identification of a hitherto overlooked feed-associated microbial group (i.e., the residue populations). They accounted for up to 21.4% of total sequences in ADs operated at low temperature, presumably due to ineffective digestion, and as low as 0.8% in ADs with pretreatment. Within each cluster, a core microbiome was defined, including methanogens, syntrophic metabolizers, fermenters, and the newly described residue populations. Our work provides insights into the key factors shaping full-scale AD microbiomes in a global scale, and draws attentions to the overlooked residue populations.
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Affiliation(s)
- Ran Mei
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Masaru K Nobu
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, USA; Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, Japan
| | - Takashi Narihiro
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, Japan
| | - Kyohei Kuroda
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, USA; Department of Environmental Systems Engineering, Nagaoka University of Technology, Kami-tomioka, Niigata, Japan
| | - Julian Muñoz Sierra
- Section Sanitary Engineering, Department of Water Management, Delft University of Technology, Delft, The Netherlands
| | - Zhuoying Wu
- Department of Civil and Environmental Engineering, The Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong
| | - Lin Ye
- School of the Environment, Nanjing University, Nanjing, Jiangsu, China
| | - Patrick K H Lee
- School of Energy and Environment, City University of Hong Kong, Kowloon, Hong Kong
| | - Po-Heng Lee
- Department of Civil and Environmental Engineering, The Hong Kong Polytechnic University, Hung Hom, Kowloon, Hong Kong
| | - Jules B van Lier
- Section Sanitary Engineering, Department of Water Management, Delft University of Technology, Delft, The Netherlands
| | - Michael J McInerney
- Department of Botany and Microbiology, University of Oklahoma, Norman, OK, USA
| | - Yoichi Kamagata
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, Japan
| | - Wen-Tso Liu
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
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30
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Tian T, Qiao S, Yu C, Tian Y, Yang Y, Zhou J. Distinct and diverse anaerobic respiration of methanogenic community in response to MnO 2 nanoparticles in anaerobic digester sludge. WATER RESEARCH 2017; 123:206-215. [PMID: 28668633 DOI: 10.1016/j.watres.2017.06.066] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2017] [Revised: 06/18/2017] [Accepted: 06/23/2017] [Indexed: 06/07/2023]
Abstract
Recently, the influence of metal oxide nanoparticles (NPs) on methanogenesis in anaerobic digestion has drawn much attention, however, the changes in NPs and functioning consortia within the methanogenic community are usually not investigated. Therefore, the methanogenesis performance, NPs transformation and methanogenic community development in anaerobic digester sludge under MnO2 NP supplementation were demonstrated in this study. MnO2 NPs (400 mg/gVSS) stimulated the methane (CH4) yield by 42% for a final CH4 proportion of 81.8% of the total gas production. Meanwhile, the coenzyme F420 and INT-electron transport system activities showed positive correlation with MnO2 concentration. Microbial Mn reduction and oxidation occurred in conjunction with methanogenesis, resulting in transformation of the shape of the MnO2 NPs from wire-like to globular particles. Microbial community analysis indicated that the relative abundances of genera Methanobacterium, Methanosaeta, and Methanosarcina were higher in the presence of MnO2 NPs. Moreover, a new and different crucial synergy within the methanogenic community was formed with low-abundance consortia driving Mn respiration coupled to methanogenesis in anaerobic digestion. To our knowledge, this is the first report on transformation of metal oxides NPs combined with syntrophic community development in studies focusing on methanogenesis in response to NPs.
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Affiliation(s)
- Tian Tian
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, PR China
| | - Sen Qiao
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, PR China.
| | - Cong Yu
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, PR China
| | - Yihui Tian
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, PR China
| | - Yue Yang
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, PR China
| | - Jiti Zhou
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, PR China
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31
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Efficacies of Various Anaerobic Starter Seeds for Biogas Production from Different Types of Wastewater. BIOMED RESEARCH INTERNATIONAL 2017; 2017:2782850. [PMID: 28932741 PMCID: PMC5592398 DOI: 10.1155/2017/2782850] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/30/2017] [Revised: 07/13/2017] [Accepted: 07/24/2017] [Indexed: 12/04/2022]
Abstract
Various anaerobic starter seeds from different sources were investigated for their efficacies in treatment of different types of wastewater. Six combinations of starter seeds and wastewaters were selected out of 25 combination batch experiments and operated in semicontinuous reactors. It was noticed that the efficacies of various anaerobic starter seeds for biogas production from different types of wastewater in terms of reactor performance and stability were depended on wastewater characteristics and F/M ratio affecting microbial community and their microbial activities. However, exogenous starter seed can be used across different types of wastewater with or without acclimatization. Four reactors reached the targeted OLR of 2 kg COD/m3·d with high performance and stability except for concentrated rubber wastewater (RBw), even using high active starter seeds of cassava starch (CSs) and palm oil (POs). The toxic compounds in RBw such as ammonia and sulfate might also adversely affect methanogenic activity in CSsRBw and POsRBw reactors. DGGE analysis showed that propionate utilizers, Smithella propionica strain LYP and Syntrophus sp., were detected in all samples. For Archaea domain, methylotrophic, hydrogenotrophic, and acetoclastic methanogens were also detected. Syntrophic relationships were assumed between propionate utilizers and methanogens as acetate/H2 producers and utilizers, respectively.
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De Vrieze J, Christiaens MER, Walraedt D, Devooght A, Ijaz UZ, Boon N. Microbial community redundancy in anaerobic digestion drives process recovery after salinity exposure. WATER RESEARCH 2017; 111:109-117. [PMID: 28063283 DOI: 10.1016/j.watres.2016.12.042] [Citation(s) in RCA: 66] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2016] [Revised: 12/23/2016] [Accepted: 12/24/2016] [Indexed: 05/08/2023]
Abstract
Anaerobic digestion of high-salinity wastewaters often results in process inhibition due to the susceptibility of the methanogenic archaea. The ability of the microbial community to deal with increased salinity levels is of high importance to ensure process perseverance or recovery after failure. The exact strategy of the microbial community to ensure process endurance is, however, often unknown. In this study, we investigated how the microbial community is able to recover process performance following a disturbance through the application of high-salinity molasses wastewater. After a stable start-up, methane production quickly decreased from 625 ± 17 to 232 ± 35 mL CH4 L-1 d-1 with a simultaneous accumulation in volatile fatty acids up to 20.5 ± 1.4 g COD L-1, indicating severe process disturbance. A shift in feedstock from molasses wastewater to waste activated sludge resulted in complete process recovery. However, the bacterial and archaeal communities did not return to their original composition as before the disturbance, despite similar process conditions. Microbial community diversity was recovered to similar levels as before disturbance, which indicates that the metabolic potential of the community was maintained. A mild increase in ammonia concentration after process recovery did not influence methane production, indicating a well-balanced microbial community. Hence, given the change in community composition following recovery after salinity disturbance, it can be assumed that microbial community redundancy was the major strategy to ensure the continuation of methane production, without loss of functionality or metabolic flexibility.
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Affiliation(s)
- Jo De Vrieze
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, B-9000, Gent, Belgium
| | - Marlies E R Christiaens
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, B-9000, Gent, Belgium
| | - Diego Walraedt
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, B-9000, Gent, Belgium
| | - Arno Devooght
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, B-9000, Gent, Belgium
| | - Umer Zeeshan Ijaz
- Infrastructure and Environment Research Division, School of Engineering, University of Glasgow, UK
| | - Nico Boon
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, B-9000, Gent, Belgium.
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Koo T, Shin SG, Lee J, Han G, Kim W, Cho K, Hwang S. Identifying methanogen community structures and their correlations with performance parameters in four full-scale anaerobic sludge digesters. BIORESOURCE TECHNOLOGY 2017; 228:368-373. [PMID: 28087103 DOI: 10.1016/j.biortech.2016.12.118] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2016] [Revised: 12/29/2016] [Accepted: 12/31/2016] [Indexed: 06/06/2023]
Abstract
Four full-scale mesophilic anaerobic digesters treating waste sludge were monitored to characterize methanogen communities and their relationship with process parameters. The performance of the four digesters were dissimilar with the average chemical oxygen demand removal efficiencies between 24 and 45% and differing pH. Real-time quantitative PCR showed that archaeal 16S rRNA gene concentration ([ARC]) and, more pronouncedly, its ratio to bacterial counterpart ([ARC]/[BAC]) correlated positively with the performance parameters, including the lipid removal efficiency. Pyrosequencing identified 12 methanogen genera, of which Methanolinea, Methansaeta, and Methanospirillum collectively accounted for 79.2% of total archaeal reads. However, Methanoculleus, a numerically minor (1.9±2.6%) taxa, was the most promising biomarker for positive performance, while Methanoregula was abundant in samples with poor performance. These results could be useful for the control and management of anaerobic sludge digestion.
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Affiliation(s)
- Taewoan Koo
- School of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea
| | - Seung Gu Shin
- School of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea
| | - Joonyeob Lee
- School of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea
| | - Gyuseong Han
- School of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea
| | - Woong Kim
- Department of Environmental Engineering, Kyungpook National University, Daegu, South Korea
| | - Kyungjin Cho
- Center for Water Resource Cycle Research, Korea Institute of Science and Technology, Seoul, South Korea
| | - Seokhwan Hwang
- School of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk, South Korea.
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Vanwonterghem I, Evans PN, Parks DH, Jensen PD, Woodcroft BJ, Hugenholtz P, Tyson GW. Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota. Nat Microbiol 2016; 1:16170. [PMID: 27694807 DOI: 10.1038/nmicrobiol.2016.170] [Citation(s) in RCA: 272] [Impact Index Per Article: 34.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2016] [Accepted: 08/12/2016] [Indexed: 11/09/2022]
Abstract
Methanogenesis is the primary biogenic source of methane in the atmosphere and a key contributor to climate change. The long-standing dogma that methanogenesis originated within the Euryarchaeota was recently challenged by the discovery of putative methane-metabolizing genes in members of the Bathyarchaeota, suggesting that methanogenesis may be more phylogenetically widespread than currently appreciated. Here, we present the discovery of divergent methyl-coenzyme M reductase genes in population genomes recovered from anoxic environments with high methane flux that belong to a new archaeal phylum, the Verstraetearchaeota. These archaea encode the genes required for methylotrophic methanogenesis, and may conserve energy using a mechanism similar to that proposed for the obligate H2-dependent methylotrophic Methanomassiliicoccales and recently described Candidatus 'Methanofastidiosa'. Our findings indicate that we are only beginning to understand methanogen diversity and support an ancient origin for methane metabolism in the Archaea, which is changing our understanding of the global carbon cycle.
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Affiliation(s)
- Inka Vanwonterghem
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072, Australia.,Advanced Water Management Centre, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Paul N Evans
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Donovan H Parks
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Paul D Jensen
- Advanced Water Management Centre, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Ben J Woodcroft
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Philip Hugenholtz
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Gene W Tyson
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072, Australia
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Wilson S, Li C, Ramos-Padrón E, Nesbø C, Soh J, Sensen C, Voordouw G, Foght J, Gieg L. Oil sands tailings ponds harbour a small core prokaryotic microbiome and diverse accessory communities. J Biotechnol 2016; 235:187-96. [DOI: 10.1016/j.jbiotec.2016.06.030] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2016] [Revised: 06/18/2016] [Accepted: 06/30/2016] [Indexed: 11/17/2022]
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Browne P, Tamaki H, Kyrpides N, Woyke T, Goodwin L, Imachi H, Bräuer S, Yavitt JB, Liu WT, Zinder S, Cadillo-Quiroz H. Genomic composition and dynamics among Methanomicrobiales predict adaptation to contrasting environments. ISME JOURNAL 2016; 11:87-99. [PMID: 27552639 DOI: 10.1038/ismej.2016.104] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2016] [Revised: 06/13/2016] [Accepted: 06/22/2016] [Indexed: 11/09/2022]
Abstract
Members of the order Methanomicrobiales are abundant, and sometimes dominant, hydrogenotrophic (H2-CO2 utilizing) methanoarchaea in a broad range of anoxic habitats. Despite their key roles in greenhouse gas emissions and waste conversion to methane, little is known about the physiological and genomic bases for their widespread distribution and abundance. In this study, we compared the genomes of nine diverse Methanomicrobiales strains, examined their pangenomes, reconstructed gene flow and identified genes putatively mediating their success across different habitats. Most strains slowly increased gene content whereas one, Methanocorpusculum labreanum, evidenced genome downsizing. Peat-dwelling Methanomicrobiales showed adaptations centered on improved transport of scarce inorganic nutrients and likely use H+ rather than Na+ transmembrane chemiosmotic gradients during energy conservation. In contrast, other Methanomicrobiales show the potential to concurrently use Na+ and H+ chemiosmotic gradients. Analyses also revealed that the Methanomicrobiales lack a canonical electron bifurcation system (MvhABGD) known to produce low potential electrons in other orders of hydrogenotrophic methanogens. Additional putative differences in anabolic metabolism suggest that the dynamics of interspecies electron transfer from Methanomicrobiales syntrophic partners can also differ considerably. Altogether, these findings suggest profound differences in electron trafficking in the Methanomicrobiales compared with other hydrogenotrophs, and warrant further functional evaluations.
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Affiliation(s)
- Patrick Browne
- School of Life Sciences, Arizona State University, Tempe, AZ, USA
| | - Hideyuki Tamaki
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Ibaraki, Japan
| | - Nikos Kyrpides
- Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
| | - Tanja Woyke
- Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
| | | | - Hiroyuki Imachi
- Department of Subsurface Geobiological Analysis and Research, Japan Agency for Marine-Earth Science and Technology, Yokosuka, Kanagawa, Japan
| | - Suzanna Bräuer
- Department of Biology, Appalachian State University, Boone, NC, USA
| | - Joseph B Yavitt
- Department of Natural Resources, Cornell University, Ithaca, NY, USA
| | - Wen-Tso Liu
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Stephen Zinder
- Department of Microbiology, Cornell University, Ithaca, NY, USA
| | - Hinsby Cadillo-Quiroz
- School of Life Sciences, Arizona State University, Tempe, AZ, USA.,Swette Center for Environmental Biotechnology at the Biodesign Institute, Arizona State University, Tempe, AZ, USA
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Shcherbakova V, Yoshimura Y, Ryzhmanova Y, Taguchi Y, Segawa T, Oshurkova V, Rivkina E. Archaeal communities of Arctic methane-containing permafrost. FEMS Microbiol Ecol 2016; 92:fiw135. [DOI: 10.1093/femsec/fiw135] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/10/2016] [Indexed: 01/06/2023] Open
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Hunger S, Schmidt O, Gößner AS, Drake HL. Formate-derived H2, a driver of hydrogenotrophic processes in the root-zone of a methane-emitting fen. Environ Microbiol 2016; 18:3106-19. [DOI: 10.1111/1462-2920.13301] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2016] [Accepted: 03/12/2016] [Indexed: 02/04/2023]
Affiliation(s)
- Sindy Hunger
- Department of Ecological Microbiology; University of Bayreuth; 95440 Bayreuth Germany
| | - Oliver Schmidt
- Department of Ecological Microbiology; University of Bayreuth; 95440 Bayreuth Germany
| | - Anita S. Gößner
- Department of Ecological Microbiology; University of Bayreuth; 95440 Bayreuth Germany
| | - Harold L. Drake
- Department of Ecological Microbiology; University of Bayreuth; 95440 Bayreuth Germany
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Holmes D, Smith J. Biologically Produced Methane as a Renewable Energy Source. ADVANCES IN APPLIED MICROBIOLOGY 2016; 97:1-61. [PMID: 27926429 DOI: 10.1016/bs.aambs.2016.09.001] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Methanogens are a unique group of strictly anaerobic archaea that are more metabolically diverse than previously thought. Traditionally, it was thought that methanogens could only generate methane by coupling the oxidation of products formed by fermentative bacteria with the reduction of CO2. However, it has recently been observed that many methanogens can also use electrons extruded from metal-respiring bacteria, biocathodes, or insoluble electron shuttles as energy sources. Methanogens are found in both human-made and natural environments and are responsible for the production of ∼71% of the global atmospheric methane. Their habitats range from the human digestive tract to hydrothermal vents. Although biologically produced methane can negatively impact the environment if released into the atmosphere, when captured, it can serve as a potent fuel source. The anaerobic digestion of wastes such as animal manure, human sewage, or food waste produces biogas which is composed of ∼60% methane. Methane from biogas can be cleaned to yield purified methane (biomethane) that can be readily incorporated into natural gas pipelines making it a promising renewable energy source. Conventional anaerobic digestion is limited by long retention times, low organics removal efficiencies, and low biogas production rates. Therefore, many studies are being conducted to improve the anaerobic digestion process. Researchers have found that addition of conductive materials and/or electrically active cathodes to anaerobic digesters can stimulate the digestion process and increase methane content of biogas. It is hoped that optimization of anaerobic digesters will make biogas more readily accessible to the average person.
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Thanh NT, Watari T, Thao TP, Hatamoto M, Tanikawa D, Syutsubo K, Fukuda M, Tan NM, Anh TK, Yamaguchi T, Huong NL. Impact of aluminum chloride on process performance and microbial community structure of granular sludge in an upflow anaerobic sludge blanket reactor for natural rubber processing wastewater treatment. WATER SCIENCE AND TECHNOLOGY : A JOURNAL OF THE INTERNATIONAL ASSOCIATION ON WATER POLLUTION RESEARCH 2016; 74:500-507. [PMID: 27438256 DOI: 10.2166/wst.2016.229] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
In this study, granular sludge formation was carried out using an aluminum chloride supplement in an upflow anaerobic sludge blanket (UASB) reactor treating natural rubber processing wastewater. Results show that during the first 75 days after the start-up of the UASB reactor with an organic loading rate (OLR) of 2.65 kg-COD·m(-3)·day(-1), it performed stably with a removal of 90% of the total chemical oxygen demand (COD) and sludge still remained in small dispersed flocs. However, after aluminum chloride was added at a concentration of 300 mg·L(-1) and the OLR range was increased up to 5.32 kg-COD·m(-3)·day(-1), the total COD removal efficiency rose to 96.5 ± 2.6%, with a methane recovery rate of 84.9 ± 13.4%, and the flocs began to form granules. Massively parallel 16S rRNA gene sequencing of the sludge retained in the UASB reactor showed that total sequence reads of Methanosaeta sp. and Methanosarcina sp., reported to be the key organisms for granulation, increased after 311 days of operation. This indicates that the microbial community structure of the retained sludge in the UASB reactor at the end of the experiment gave a good account of itself in not only COD removal, but also granule formation.
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Affiliation(s)
- Nguyen Thi Thanh
- School of Biotechnology and Food Technology, Hanoi University of Science and Technology, No.1, Dai Co Viet, Hai Ba Trung District, Hanoi, Vietnam E-mail: ;
| | - Takahiro Watari
- Department of Civil and Environmental Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Japan
| | - Tran Phuong Thao
- School of Biotechnology and Food Technology, Hanoi University of Science and Technology, No.1, Dai Co Viet, Hai Ba Trung District, Hanoi, Vietnam E-mail: ;
| | - Masashi Hatamoto
- Department of Civil and Environmental Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Japan
| | - Daisuke Tanikawa
- Department of Civil and Environmental Engineering, National Institute of Technology, Kure College, 1-2-11 Agaminami, Kure, Japan
| | - Kazuaki Syutsubo
- Center for Regional Environmental Research, National Institute for Environmental Studies, 6-2 Onogawa, Tsukuba, Japan
| | - Masao Fukuda
- Department of Bioengineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Japan
| | - Nguyen Minh Tan
- School of Chemical Engineering, Hanoi University of Science and Technology, No.1, Dai Co Viet, Hai Ba Trung District, Hanoi, Vietnam
| | - To Kim Anh
- School of Biotechnology and Food Technology, Hanoi University of Science and Technology, No.1, Dai Co Viet, Hai Ba Trung District, Hanoi, Vietnam E-mail: ;
| | - Takashi Yamaguchi
- Department of Civil and Environmental Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Japan
| | - Nguyen Lan Huong
- School of Biotechnology and Food Technology, Hanoi University of Science and Technology, No.1, Dai Co Viet, Hai Ba Trung District, Hanoi, Vietnam E-mail: ;
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Miettinen H, Kietäväinen R, Sohlberg E, Numminen M, Ahonen L, Itävaara M. Microbiome composition and geochemical characteristics of deep subsurface high-pressure environment, Pyhäsalmi mine Finland. Front Microbiol 2015; 6:1203. [PMID: 26579109 PMCID: PMC4626562 DOI: 10.3389/fmicb.2015.01203] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2015] [Accepted: 10/15/2015] [Indexed: 02/01/2023] Open
Abstract
Pyhäsalmi mine in central Finland provides an excellent opportunity to study microbial and geochemical processes in a deep subsurface crystalline rock environment through near-vertical drill holes that reach to a depth of more than two kilometers below the surface. However, microbial sampling was challenging in this high-pressure environment. Nucleic acid yields obtained were extremely low when compared to the cell counts detected (1.4 × 10(4) cells mL(-1)) in water. The water for nucleic acid analysis went through high decompression (60-130 bar) during sampling, whereas water samples for detection of cell counts by microscopy could be collected with slow decompression. No clear cells could be identified in water that went through high decompression. The high-pressure decompression may have damaged part of the cells and the nucleic acids escaped through the filter. The microbial diversity was analyzed from two drill holes by pyrosequencing amplicons of the bacterial and archaeal 16S rRNA genes and from the fungal ITS regions from both DNA and RNA fractions. The identified prokaryotic diversity was low, dominated by Firmicute, Beta- and Gammaproteobacteria species that are common in deep subsurface environments. The archaeal diversity consisted mainly of Methanobacteriales. Ascomycota dominated the fungal diversity and fungi were discovered to be active and to produce ribosomes in the deep oligotrophic biosphere. The deep fluids from the Pyhäsalmi mine shared several features with other deep Precambrian continental subsurface environments including saline, Ca-dominated water and stable isotope compositions positioning left from the meteoric water line. The dissolved gas phase was dominated by nitrogen but the gas composition clearly differed from that of atmospheric air. Despite carbon-poor conditions indicated by the lack of carbon-rich fracture fillings and only minor amounts of dissolved carbon detected in formation waters, some methane was found in the drill holes. No dramatic differences in gas compositions were observed between different gas sampling methods tested. For simple characterization of gas composition the most convenient way to collect samples is from free flowing fluid. However, compared to a pressurized method a relative decrease in the least soluble gases may appear.
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Affiliation(s)
- Hanna Miettinen
- Valtion Teknillinen Tutkimuskeskus Technical Research Centre of Finland Ltd.Espoo, Finland
| | | | - Elina Sohlberg
- Valtion Teknillinen Tutkimuskeskus Technical Research Centre of Finland Ltd.Espoo, Finland
| | - Mikko Numminen
- Pyhäsalmi Mine Oy, First Quantum Minerals Ltd.Pyhäsalmi, Finland
| | | | - Merja Itävaara
- Valtion Teknillinen Tutkimuskeskus Technical Research Centre of Finland Ltd.Espoo, Finland
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Spatiotemporal variation of bacterial and archaeal communities in a pilot-scale constructed wetland for surface water treatment. Appl Microbiol Biotechnol 2015; 100:1479-1488. [DOI: 10.1007/s00253-015-7072-5] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2015] [Revised: 09/30/2015] [Accepted: 10/06/2015] [Indexed: 01/29/2023]
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43
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Baek G, Kim J, Shin SG, Lee C. Bioaugmentation of anaerobic sludge digestion with iron-reducing bacteria: process and microbial responses to variations in hydraulic retention time. Appl Microbiol Biotechnol 2015; 100:927-37. [DOI: 10.1007/s00253-015-7018-y] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2015] [Revised: 09/07/2015] [Accepted: 09/17/2015] [Indexed: 10/23/2022]
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Leite AF, Janke L, Lv Z, Harms H, Richnow HH, Nikolausz M. Improved Monitoring of Semi-Continuous Anaerobic Digestion of Sugarcane Waste: Effects of Increasing Organic Loading Rate on Methanogenic Community Dynamics. Int J Mol Sci 2015; 16:23210-26. [PMID: 26404240 PMCID: PMC4632694 DOI: 10.3390/ijms161023210] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2015] [Revised: 09/18/2015] [Accepted: 09/22/2015] [Indexed: 01/17/2023] Open
Abstract
The anaerobic digestion of filter cake and its co-digestion with bagasse, and the effect of gradual increase of the organic loading rate (OLR) from start-up to overload were investigated. Understanding the influence of environmental and technical parameters on the development of particular methanogenic pathway in the biogas process was an important aim for the prediction and prevention of process failure. The rapid accumulation of volatile organic acids at high OLR of 3.0 to 4.0 gvs·L⁻¹·day⁻¹ indicated strong process inhibition. Methanogenic community dynamics of the reactors was monitored by stable isotope composition of biogas and molecular biological analysis. A potential shift toward the aceticlastic methanogenesis was observed along with the OLR increase under stable reactor operating conditions. Reactor overloading and process failure were indicated by the tendency to return to a predominance of hydrogenotrophic methanogenesis with rising abundances of the orders Methanobacteriales and Methanomicrobiales and drop of the genus Methanosarcina abundance.
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Affiliation(s)
- Athaydes Francisco Leite
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research-UFZ, Permoserstrasse 15, 04318 Leipzig, Germany.
| | - Leandro Janke
- Department of Biochemical Conversion, Deutsches Biomasseforschungszentrum Gemeinnützige GmbH, Torgauerstrasse 116, 04347 Leipzig, Germany.
| | - Zuopeng Lv
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research-UFZ, Permoserstrasse 15, 04318 Leipzig, Germany.
| | - Hauke Harms
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research-UFZ, Permoserstrasse 15, 04318 Leipzig, Germany.
| | - Hans-Hermann Richnow
- Department of Isotope Biogeochemistry, Helmholtz Centre for Environmental Research-UFZ, Permoserstrasse 15, 04318 Leipzig, Germany.
| | - Marcell Nikolausz
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research-UFZ, Permoserstrasse 15, 04318 Leipzig, Germany.
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Substrate sources regulate spatial variation of metabolically active methanogens from two contrasting freshwater wetlands. Appl Microbiol Biotechnol 2015; 99:10779-91. [DOI: 10.1007/s00253-015-6912-7] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2015] [Revised: 07/28/2015] [Accepted: 08/03/2015] [Indexed: 11/24/2022]
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Smith AL, Skerlos SJ, Raskin L. Membrane biofilm development improves COD removal in anaerobic membrane bioreactor wastewater treatment. Microb Biotechnol 2015; 8:883-94. [PMID: 26238293 PMCID: PMC4554476 DOI: 10.1111/1751-7915.12311] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2015] [Revised: 07/01/2015] [Accepted: 07/09/2015] [Indexed: 02/03/2023] Open
Abstract
Membrane biofilm development was evaluated to improve psychrophilic (15°C) anaerobic membrane bioreactor (AnMBR) treatment of domestic wastewater. An AnMBR containing three replicate submerged membrane housings with separate permeate collection was operated at three levels of membrane fouling by independently controlling biogas sparging for each membrane unit. High membrane fouling significantly improved permeate quality, but resulted in dissolved methane in the permeate at a concentration two to three times the equilibrium concentration predicted by Henry's law. Illumina sequencing of 16S rRNA targeting Bacteria and Archaea and reverse transcription-quantitative polymerase chain reaction targeting the methyl coenzyme-M reductase (mcrA) gene in methanogens indicated that the membrane biofilm was enriched in highly active methanogens and syntrophic bacteria. Restoring fouled membranes to a transmembrane pressure (TMP) near zero by increasing biogas sparging did not disrupt the biofilm's treatment performance, suggesting that microbes in the foulant layer were tightly adhered and did not significantly contribute to TMP. Dissolved methane oversaturation persisted without high TMP, implying that methanogenesis in the biofilm, rather than high TMP, was the primary driving force in methane oversaturation. The results describe an attractive operational strategy to improve treatment performance in low-temperature AnMBR by supporting syntrophy and methanogenesis in the membrane biofilm through controlled membrane fouling.
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Affiliation(s)
- Adam L Smith
- Department of Civil and Environmental Engineering, University of Michigan, 2350 Hayward Road, Ann Arbor, MI, 48109, USA
| | - Steven J Skerlos
- Department of Civil and Environmental Engineering, University of Michigan, 2350 Hayward Road, Ann Arbor, MI, 48109, USA.,Department of Mechanical Engineering, University of Michigan, 2350 Hayward Road, Ann Arbor, MI, 48109, USA
| | - Lutgarde Raskin
- Department of Civil and Environmental Engineering, University of Michigan, 2350 Hayward Road, Ann Arbor, MI, 48109, USA
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Schulz K, Hunger S, Brown GG, Tsai SM, Cerri CC, Conrad R, Drake HL. Methanogenic food web in the gut contents of methane-emitting earthworm Eudrilus eugeniae from Brazil. THE ISME JOURNAL 2015; 9:1778-92. [PMID: 25615437 PMCID: PMC4511933 DOI: 10.1038/ismej.2014.262] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2014] [Revised: 11/28/2014] [Accepted: 12/05/2014] [Indexed: 11/09/2022]
Abstract
The anoxic saccharide-rich conditions of the earthworm gut provide an ideal transient habitat for ingested microbes capable of anaerobiosis. It was recently discovered that the earthworm Eudrilus eugeniae from Brazil can emit methane (CH4) and that ingested methanogens might be associated with this emission. The objective of this study was to resolve trophic interactions of bacteria and methanogens in the methanogenic food web in the gut contents of E. eugeniae. RNA-based stable isotope probing of bacterial 16S rRNA as well as mcrA and mrtA (the alpha subunit of methyl-CoM reductase and its isoenzyme, respectively) of methanogens was performed with [(13)C]-glucose as a model saccharide in the gut contents. Concomitant fermentations were augmented by the rapid consumption of glucose, yielding numerous products, including molecular hydrogen (H2), carbon dioxide (CO2), formate, acetate, ethanol, lactate, succinate and propionate. Aeromonadaceae-affiliated facultative aerobes, and obligate anaerobes affiliated to Lachnospiraceae, Veillonellaceae and Ruminococcaceae were associated with the diverse fermentations. Methanogenesis was ongoing during incubations, and (13)C-labeling of CH4 verified that supplemental [(13)C]-glucose derived carbon was dissimilated to CH4. Hydrogenotrophic methanogens affiliated with Methanobacteriaceae and Methanoregulaceae were linked to methanogenesis, and acetogens related to Peptostreptoccocaceae were likewise found to be participants in the methanogenic food web. H2 rather than acetate stimulated methanogenesis in the methanogenic gut content enrichments, and acetogens appeared to dissimilate supplemental H2 to acetate in methanogenic enrichments. These findings provide insight on the processes and associated taxa potentially linked to methanogenesis and the turnover of organic carbon in the alimentary canal of methane-emitting E. eugeniae.
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Affiliation(s)
- Kristin Schulz
- Department of Ecological Microbiology, University of Bayreuth, Bayreuth, Germany
| | - Sindy Hunger
- Department of Ecological Microbiology, University of Bayreuth, Bayreuth, Germany
| | | | - Siu M Tsai
- CENA-USP, Center for Nuclear Energy in Agriculture, University of São Paulo, São Paulo, Brazil
| | - Carlos C Cerri
- CENA-USP, Center for Nuclear Energy in Agriculture, University of São Paulo, São Paulo, Brazil
| | - Ralf Conrad
- Max-Planck-Institute for Terrestrial Microbiology, Marburg, Germany
| | - Harold L Drake
- Department of Ecological Microbiology, University of Bayreuth, Bayreuth, Germany
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Blake LI, Tveit A, Øvreås L, Head IM, Gray ND. Response of Methanogens in Arctic Sediments to Temperature and Methanogenic Substrate Availability. PLoS One 2015; 10:e0129733. [PMID: 26083466 PMCID: PMC4471053 DOI: 10.1371/journal.pone.0129733] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2014] [Accepted: 05/12/2015] [Indexed: 01/06/2023] Open
Abstract
Although cold environments are major contributors to global biogeochemical cycles, comparatively little is known about their microbial community function, structure, and limits of activity. In this study a microcosm based approach was used to investigate the effects of temperature, and methanogenic substrate amendment, (acetate, methanol and H2/CO2) on methanogen activity and methanogen community structure in high Arctic wetlands (Solvatnet and Stuphallet, Svalbard). Methane production was not detected in Stuphallet sediment microcosms (over a 150 day period) and occurred within Solvatnet sediments microcosms (within 24 hours) at temperatures from 5 to 40°C, the maximum temperature being at far higher than in situ maximum temperatures (which range from air temperatures of -1.4 to 14.1°C during summer months). Distinct responses were observed in the Solvatnet methanogen community under different short term incubation conditions. Specifically, different communities were selected at higher and lower temperatures. At lower temperatures (5°C) addition of exogenous substrates (acetate, methanol or H2/CO2) had no stimulatory effect on the rate of methanogenesis or on methanogen community structure. The community in these incubations was dominated by members of the Methanoregulaceae/WCHA2-08 family-level group, which were most similar to the psychrotolerant hydrogenotrophic methanogen Methanosphaerula palustris strain E1-9c. In contrast, at higher temperatures, substrate amendment enhanced methane production in H2/CO2 amended microcosms, and played a clear role in structuring methanogen communities. Specifically, at 30°C members of the Methanoregulaceae/WCHA2-08 predominated following incubation with H2/CO2, and Methanosarcinaceaeand Methanosaetaceae were enriched in response to acetate addition. These results may indicate that in transiently cold environments, methanogen communities can rapidly respond to moderate short term increases in temperature, but not necessarily to the seasonal release of previously frozen organic carbon from thawing permafrost soils. However, as temperatures increase such inputs of carbon will likely have a greater influence on methane production and methanogen community structure. Understanding the action and limitations of anaerobic microorganisms within cold environments may provide information which can be used in defining region-specific differences in the microbial processes; which ultimately control methane flux to the atmosphere.
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Affiliation(s)
- Lynsay I. Blake
- Newcastle University, School of Civil engineering and Geosciences, Newcastle upon Tyne, United Kingdom
| | - Alexander Tveit
- Department of Arctic and Marine Biology, University of Tromsø, Tromsø, Norway
| | - Lise Øvreås
- Department of Biology and Centre for Geobiology, University of Bergen, Bergen, Norway
| | - Ian M. Head
- Newcastle University, School of Civil engineering and Geosciences, Newcastle upon Tyne, United Kingdom
| | - Neil D. Gray
- Newcastle University, School of Civil engineering and Geosciences, Newcastle upon Tyne, United Kingdom
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49
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Patterns in wetland microbial community composition and functional gene repertoire associated with methane emissions. mBio 2015; 6:e00066-15. [PMID: 25991679 PMCID: PMC4442139 DOI: 10.1128/mbio.00066-15] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Abstract
UNLABELLED Wetland restoration on peat islands previously drained for agriculture has potential to reverse land subsidence and sequester atmospheric carbon dioxide as peat accretes. However, the emission of methane could potentially offset the greenhouse gas benefits of captured carbon. As microbial communities play a key role in governing wetland greenhouse gas fluxes, we are interested in how microbial community composition and functions are associated with wetland hydrology, biogeochemistry, and methane emission, which is critical to modeling the microbial component in wetland methane fluxes and to managing restoration projects for maximal carbon sequestration. Here, we couple sequence-based methods with biogeochemical and greenhouse gas measurements to interrogate microbial communities from a pilot-scale restored wetland in the Sacramento-San Joaquin Delta of California, revealing considerable spatial heterogeneity even within this relatively small site. A number of microbial populations and functions showed strong correlations with electron acceptor availability and methane production; some also showed a preference for association with plant roots. Marker gene phylogenies revealed a diversity of major methane-producing and -consuming populations and suggested novel diversity within methanotrophs. Methanogenic archaea were observed in all samples, as were nitrate-, sulfate-, and metal-reducing bacteria, indicating that no single terminal electron acceptor was preferred despite differences in energetic favorability and suggesting spatial microheterogeneity and microniches. Notably, methanogens were negatively correlated with nitrate-, sulfate-, and metal-reducing bacteria and were most abundant at sampling sites with high peat accretion and low electron acceptor availability, where methane production was highest. IMPORTANCE Wetlands are the largest nonanthropogenic source of atmospheric methane but also a key global carbon reservoir. Characterizing belowground microbial communities that mediate carbon cycling in wetlands is critical to accurately predicting their responses to changes in land management and climate. Here, we studied a restored wetland and revealed substantial spatial heterogeneity in biogeochemistry, methane production, and microbial communities, largely associated with the wetland hydraulic design. We observed patterns in microbial community composition and functions correlated with biogeochemistry and methane production, including diverse microorganisms involved in methane production and consumption. We found that methanogenesis gene abundance is inversely correlated with genes from pathways exploiting other electron acceptors, yet the ubiquitous presence of genes from all these pathways suggests that diverse electron acceptors contribute to the energetic balance of the ecosystem. These investigations represent an important step toward effective management of wetlands to reduce methane flux to the atmosphere and enhance belowground carbon storage.
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50
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Hunger S, Gößner AS, Drake HL. Anaerobic trophic interactions of contrasting methane-emitting mire soils: processes versus taxa. FEMS Microbiol Ecol 2015; 91:fiv045. [PMID: 25877342 DOI: 10.1093/femsec/fiv045] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/03/2015] [Indexed: 11/13/2022] Open
Abstract
Natural wetlands such as mires contribute up to 33% to the global emission of methane. The emission of methane is driven by trophic interactions of anaerobes that collectively degrade biopolymers. The hypothesis of this study was that these interactions in contrasting methane-emitting mire soils are functionally similar but linked to dissimilar taxa. This hypothesis was addressed by evaluating anaerobic processes and microbial taxa of eutrophic, mesotrophic and oligotrophic mire soils. Glucose was fermented to various products (e.g. H2, CO2, butyrate, acetate). Acetoclastic methanogenesis occurred, and acetogenesis and methanogenesis transformed H2-CO2 to acetate and methane, respectively. Although product profiles, cultivable cell numbers and gene copy numbers [mcrA (encodes alpha-subunit of methyl-CoM reductase) and 16S rRNA genes] were similar for all mire soils, only approximately 15% of detected family-level bacteria and species-level methanogens were shared by all mire soils. Approximately, 40% of the detected family-level taxa of each mire soil have no cultured isolates. Acidic conditions appeared to restrict the number of dominant phylotypes. The results indicated (a) that microbial processes which drive methanogenesis are similar but facilitated by dissimilar microbial communities in contrasting mire soils and (b) that mire soils harbor a large number of taxa with no cultured isolates.
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Affiliation(s)
- Sindy Hunger
- Department of Ecological Microbiology, University of Bayreuth, 95440 Bayreuth, Germany
| | - Anita S Gößner
- Department of Ecological Microbiology, University of Bayreuth, 95440 Bayreuth, Germany
| | - Harold L Drake
- Department of Ecological Microbiology, University of Bayreuth, 95440 Bayreuth, Germany
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