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Ren Z, Li Y, Yin J, Zhao Z, Hu N, Zhao M, Wang Y, Wang L, Wu L. Regulation of nitrite-dependent anaerobic methane oxidation bacteria by available phosphorus and microbial communities in lake sediments of cold and arid regions. Sci Total Environ 2024; 926:172065. [PMID: 38556008 DOI: 10.1016/j.scitotenv.2024.172065] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Revised: 03/11/2024] [Accepted: 03/26/2024] [Indexed: 04/02/2024]
Abstract
As global anthropogenic nitrogen inputs continue to rise, nitrite-dependent anaerobic methane oxidation (N-DAMO) plays an increasingly significant role in CH4 consumption in lake sediments. However, there is a dearth of knowledge regarding the effects of anthropogenic activities on N-DAMO bacteria in lakes in the cold and arid regions. Sediment samples were collected from five sampling areas in Lake Ulansuhai at varying depth ranges (0-20, 20-40, and 40-60 cm). The ecological characterization and niche differentiation of N-DAMO bacteria were investigated using bioinformatics and molecular biology techniques. Quantitative PCR confirmed the presence of N-DAMO bacteria in Lake Ulansuhai sediments, with 16S rRNA gene abundances ranging from 1.72 × 104 to 5.75 × 105 copies·g-1 dry sediment. The highest abundance was observed at the farmland drainage outlet with high available phosphorus (AP). Anthropogenic disturbances led to a significant increase in the abundance of N-DAMO bacteria, though their diversity remained unaffected. The heterogeneous community of N-DAMO bacteria was affected by interactions among various environmental characteristics, with AP and oxidation-reduction potential identified as the key drivers in this study. The Mantel test indicated that the N-DAMO bacterial abundance was more readily influenced by the presence of the denitrification genes (nirS and nirK). Network analysis revealed that the community structure of N-DAMO bacteria generated numerous links (especially positive links) with microbial taxa involved in carbon and nitrogen cycles, such as methanogens and nitrifying bacteria. In summary, N-DAMO bacteria exhibited sensitivity to both environmental and microbial factors under various human disturbances. This study provides valuable insights into the distribution patterns of N-DAMO bacteria and their roles in nitrogen and carbon cycling within lake ecosystems.
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Affiliation(s)
- Zixuan Ren
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Yingnan Li
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Jiahui Yin
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Ziwen Zhao
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Nan Hu
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Manping Zhao
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Yongman Wang
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Lixin Wang
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Linhui Wu
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China; Inner Mongolia Key Laboratory of Environmental Pollution Prevention and Waste Resource Recycle, Hohhot 010021, China.
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2
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Li R, Xi B, Wang X, Li Y, Yuan Y, Tan W. Anaerobic oxidation of methane in landfill and adjacent groundwater environments: Occurrence, mechanisms, and potential applications. Water Res 2024; 255:121498. [PMID: 38522398 DOI: 10.1016/j.watres.2024.121498] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Revised: 02/08/2024] [Accepted: 03/19/2024] [Indexed: 03/26/2024]
Abstract
Landfills remain the predominant means of solid waste management worldwide. Widespread distribution and significant stockpiles of waste in landfills make them a significant source of methane emissions, exacerbating climate change. Anaerobic oxidation of methane (AOM) has been shown to play a critical role in mitigating methane emissions on a global scale. The rich methane and electron acceptor environment in landfills provide the necessary reaction conditions for AOM, making it a potentially low-cost and effective strategy for reducing methane emissions in landfills. However, compared to other anaerobic habitats, research on AOM in landfill environments is scarce, and there is a lack of analysis on the potential application of AOM in different zones of landfills. Therefore, this review summarizes the existing knowledge on AOM and its occurrence in landfills, analyzes the possibility of AOM occurrence in different zones of landfills, discusses its potential applications, and explores the challenges and future research directions for AOM in landfill management. The identification of research gaps and future directions outlined in this review encourages further investigation and advancement in the field of AOM, paving the way for more effective waste stabilization, greenhouse gas reduction, and pollutant mitigation strategies in landfills.
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Affiliation(s)
- Renfei Li
- State Key Laboratory of Environmental Criteria and Risk Assessment, and State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China; School of Environment, Tsinghua University, Beijing 100084, PR China
| | - Beidou Xi
- State Key Laboratory of Environmental Criteria and Risk Assessment, and State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China; School of Environment, Tsinghua University, Beijing 100084, PR China.
| | - Xiaowei Wang
- Department of Environmental Science and Engineering, Beijing Technology and Business University, Beijing 100048, PR China
| | - Yanjiao Li
- State Key Laboratory of Environmental Criteria and Risk Assessment, and State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China
| | - Ying Yuan
- State Key Laboratory of Environmental Criteria and Risk Assessment, and State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China
| | - Wenbing Tan
- State Key Laboratory of Environmental Criteria and Risk Assessment, and State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China
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3
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Bai Y, Wang Y, Shen L, Shang B, Ji Y, Ren B, Yang W, Yang Y, Ma Z, Feng Z. Equal importance of humic acids and nitrate in driving anaerobic oxidation of methane in paddy soils. Sci Total Environ 2024; 912:169311. [PMID: 38103608 DOI: 10.1016/j.scitotenv.2023.169311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2023] [Revised: 12/08/2023] [Accepted: 12/10/2023] [Indexed: 12/19/2023]
Abstract
Methane (CH4) is both generated and consumed in paddy soils, where anaerobic oxidation of methane (AOM) serves as a crucial process for mitigating CH4 emissions. Although the participation of humic acids (HA) and nitrate in AOM has been recognized, their relative roles and significance in paddy soils remain insufficiently investigated. In this study, we explored the potential activity of AOM driven by HA and nitrate, as well as the composition of archaeal communities in paddy soils across different rice growth periods and fertilization treatments. AOM activity ranged from 0.81 to 1.33 and 1.26 to 2.38 nmol of 13CO2 g-1 (dry soil) day-1 with HA and nitrate, respectively. No significant differences (p < 0.05) were observed between the AOM activity driven by HA and nitrate across the three fertilization treatments. According to AOM activity, the annual consumption of CH4 was estimated at approximately 0.49 ± 0.06 and 0.83 ± 0.19 Tg for AOM processes driven by HA and nitrate in Chinese paddy soils. Nitrate-driven AOM activity exhibited a positive (p < 0.05) correlation with the abundance of the ANME-2d mcrA gene but a negative (p < 0.05) correlation with the content of dissolved organic carbon. Intriguingly, HA-driven AOM activity was only correlated positively with the nitrate-driven AOM activity. Soil water content, soil organic carbon, nitrate and nitrite contents were significantly correlated with the relative abundance of methanogenic and methanotrophic archaea. These results identified the potential importance of HA and nitrate in driving AOM processes within paddy soils, providing a comprehensive understanding of the complex microbial processes regulating greenhouse gas emissions from paddy soils.
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Affiliation(s)
- Yanan Bai
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Yanping Wang
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Lidong Shen
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China.
| | - Bo Shang
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Yang Ji
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Bingjie Ren
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Wangting Yang
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Yuling Yang
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Zhiguo Ma
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
| | - Zhaozhong Feng
- Key Laboratory of Ecosystem Carbon Source and Sink, China Meteorological Administration (ECSS-CMA), School of Ecology and Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing 210044, China
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Zhu K, Liu J, Zhao M, Fu L, Du Z, Meng F, Gu L, Liu P, Liu Y, Zhang C, Zhang X, Li J. An intrusion and environmental effects of man-made silver nanoparticles in cold seeps. Sci Total Environ 2024; 912:168890. [PMID: 38016565 DOI: 10.1016/j.scitotenv.2023.168890] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2023] [Revised: 11/14/2023] [Accepted: 11/23/2023] [Indexed: 11/30/2023]
Abstract
Silver nanoparticles (AgNPs) are among the most widely used metal-based engineered nanomaterials in biomedicine and nanotechnology, and account for >50 % of global nanomaterial consumer products. The increasing use of AgNPs potentially causes marine ecosystem changes; however, the environmental impacts of man-made AgNPs are still poorly studied. This study reports for the first time that man-made AgNPs intruded into cold seeps, which are important marine ecosystems where hydrogen sulfide, methane, and other hydrocarbon-rich fluid seepage occur. Using a combination of electron microscopy, geochemical and metagenomic analyses, we found that in the cold seeps with high AgNPs concentrations, the relative abundance of genes associated with anaerobic oxidation of methane (AOM) was lower, while those related to the sulfide oxidizing and sulfate reducing were higher. This suggests that AgNPs can stimulate the proliferation of sulfate-reducing and sulfide-oxidizing bacteria, likely due to the effects of activating repair mechanisms of the cells against the toxicant. A reaction of AgNPs with hydrogen sulfide to form silver sulfide could also effectively reduce the amount of available sulfate in local ecosystems, which is generally used as the AOM oxidant. These novel findings indicate that man-made AgNPs may be involved in the biogeochemical cycles of sulfur and carbon in nature, and their potential effects on the releasing of methane from the marine methane seeps should not be ignored in both scientific and environmental aspects.
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Affiliation(s)
- Kelei Zhu
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Innovation Academy for Earth Sciences, Chinese Academy of Sciences, Beijing 100029, China; Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266061, China; Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China; College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jiawei Liu
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Innovation Academy for Earth Sciences, Chinese Academy of Sciences, Beijing 100029, China; Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266061, China; College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Mingyu Zhao
- Key Laboratory of Cenozoic Geology and Environment, Institute of Geology and Geophysics, Chinese Academy of Sciences, Beijing 100029, China
| | - Lulu Fu
- Key Laboratory of Marine Geology and Environment & Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Zengfeng Du
- Key Laboratory of Marine Geology and Environment & Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Fanqi Meng
- Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
| | - Lin Gu
- Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
| | - Peiyu Liu
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Innovation Academy for Earth Sciences, Chinese Academy of Sciences, Beijing 100029, China; Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266061, China; Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China; College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yan Liu
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Innovation Academy for Earth Sciences, Chinese Academy of Sciences, Beijing 100029, China; Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266061, China; Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China; College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Chaoqun Zhang
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Innovation Academy for Earth Sciences, Chinese Academy of Sciences, Beijing 100029, China; Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266061, China; Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China; College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xin Zhang
- Key Laboratory of Marine Geology and Environment & Center of Deep Sea Research, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Jinhua Li
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Innovation Academy for Earth Sciences, Chinese Academy of Sciences, Beijing 100029, China; Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266061, China; College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
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5
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Ota Y, Iguchi A, Nishijima M, Mukai R, Suzumura M, Yoshioka H, Suzuki A, Tsukasaki A, Aoyagi T, Hori T. Methane diffusion affects characteristics of benthic communities in and around microbial mat-covered sediments in the northeastern Japan sea. Chemosphere 2024; 349:140964. [PMID: 38128741 DOI: 10.1016/j.chemosphere.2023.140964] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Revised: 11/17/2023] [Accepted: 12/12/2023] [Indexed: 12/23/2023]
Abstract
We investigated relationships between features of benthic macrofaunal communities and geochemical parameters in and around microbial mat-covered sediments associated with a methane seepage on Sakata Knoll in the eastern Japan Sea. A depression on top of the knoll corresponds to a gas-hydrate-bearing area with seepage of methane-rich fluid, and microbial mats cover the seafloor sediments. Sediment cores were collected at three sites for this study: one within a microbial mat, a second a few meters outside of the microbial mat, and a third from a reference site outside the gas-hydrate-bearing areas. Morphological analysis showed that the site inside the microbial mat had higher macrofaunal density and biomass compared with the other sites. 18S rRNA gene analysis showed that annelids were dominant in the surface sediment inside the microbial mat with the possible occurrence of microbial anaerobic oxidation of methane (AOM), whereas in the surface sediments outside the microbial mat and at the reference site the predominant species belonged to phylum Cercozoa. Morphological analysis also showed that the surface sediment inside the microbial mat noticeably favored annelids, with dorvilleid Ophryotrocha sp. and ampharetid Neosabellides sp. identified as major constituents. Statistical analysis showed that sulfidic sediment conditions with concentrations of H2S up to 121 μM resulting from AOM likely resulted in the predominance of annelids with tolerance to sulfide. Both the 18S rRNA genes and macrofaunal characteristics showed that benthic biodiversity among the three sites was greatest outside the microbial mat. The site outside the microbial mat may represent geochemical transition conditions, including a lower rate of upward methane gas-flow compared with the site inside the microbial mat. The high biodiversity there might result from the presence of species specifically suited to the transition zone as well as species also found in photosynthesis-based communities of the background environment.
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Affiliation(s)
- Yuki Ota
- Environmental Management Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Onogawa 16-1, Tsukuba, Ibaraki, 305-8561, Japan.
| | - Akira Iguchi
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology (AIST), Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan; Research Laboratory on Environmentally-Conscious Developments and Technologies [E-code], National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, 305-8567, Japan
| | - Miyuki Nishijima
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology (AIST), Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan
| | - Ryo Mukai
- Marine Biological Research Institute of Japan Co., Ltd, Yutaka-cho 4-3-16, Shinagawa, Tokyo, 142-0042, Japan
| | - Masahiro Suzumura
- Environmental Management Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Onogawa 16-1, Tsukuba, Ibaraki, 305-8561, Japan
| | - Hideyoshi Yoshioka
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology (AIST), Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan
| | - Atsushi Suzuki
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology (AIST), Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan; Research Laboratory on Environmentally-Conscious Developments and Technologies [E-code], National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, 305-8567, Japan
| | - Ayumi Tsukasaki
- Environmental Management Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Onogawa 16-1, Tsukuba, Ibaraki, 305-8561, Japan
| | - Tomo Aoyagi
- Environmental Management Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Onogawa 16-1, Tsukuba, Ibaraki, 305-8561, Japan
| | - Tomoyuki Hori
- Environmental Management Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Onogawa 16-1, Tsukuba, Ibaraki, 305-8561, Japan
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Zhang C, He P, Liu J, Zhou X, Li X, Lu J, Hou B. Study on performance and mechanisms of anaerobic oxidation of methane-microbial fuel cells (AOM-MFCs) with acetate-acclimatizing or formate-acclimatizing electroactive culture. Bioelectrochemistry 2023; 151:108404. [PMID: 36842363 DOI: 10.1016/j.bioelechem.2023.108404] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2022] [Revised: 01/18/2023] [Accepted: 02/18/2023] [Indexed: 02/25/2023]
Abstract
Anaerobic oxidation of methane-microbial fuel cells with acetate-acclimatizing or formate-acclimatizing electroactive culture (A-AOM-MFC and F-AOM-MFC) were designed and operated at room temperature in this study to evaluate and explore the electrochemical performance and mechanisms of methane conversion and electricity generation. The results indicated that A-AOM-MFC output a higher voltage (0.526 ± 0.001 V) and F-AOM-MFC started up in a shorter time (51 d), resulting from different mechanisms of methane-electrogen caused by discrepant microbial alliances. Specifically, in A-AOM-MFC, acetoclastic methanogens (e.g., Methanosaeta) converted methane into intermediates (e.g., acetate) through reversing methanogenesis and carried out the direct interspecific electron transfer (DIET) with Geobacter-predominated electricigens which can oxidize the intermediates to carbon dioxide and transfer electrons to the electrodes. Differently, the intermediate-dependent extracellular electron transfer (EET) existed in F-AOM-MFC between hydro-methanogens (e.g., Methanobacterium) and electricigens (e.g., Geothrix), which was more difficult than DIET. Additionally, hydro-methanogens metabolized methane to produce formate-dominant intermediates more quickly.
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Affiliation(s)
- Chao Zhang
- School of the Environment and Safety Engineering, North University of China, Taiyuan 030051, China.
| | - Pan He
- School of the Environment and Safety Engineering, North University of China, Taiyuan 030051, China.
| | - Jiaxin Liu
- School of the Environment and Safety Engineering, North University of China, Taiyuan 030051, China.
| | - Xiaolong Zhou
- School of the Environment and Safety Engineering, North University of China, Taiyuan 030051, China.
| | - Xinfeng Li
- School of the Environment and Safety Engineering, North University of China, Taiyuan 030051, China.
| | - Jing Lu
- School of the Environment and Safety Engineering, North University of China, Taiyuan 030051, China.
| | - Bin Hou
- School of the Environment and Safety Engineering, North University of China, Taiyuan 030051, China.
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Wang Z, Li K, Yan F, Xiang Q, Zhao X, Ji L, Xin Y, Sun J, Liu C, Xu X, Zhang Y, Shen X, Xu X, Chen Q. Soil nitrogen content and key functional microorganisms influence the response of wetland anaerobic oxidation of methane to trivalent iron input. Chemosphere 2023; 322:138183. [PMID: 36828110 DOI: 10.1016/j.chemosphere.2023.138183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2022] [Revised: 02/05/2023] [Accepted: 02/17/2023] [Indexed: 06/18/2023]
Abstract
Trivalent iron (Fe3+)-dependent anaerobic oxidation of methane (Fe-AOM), which is mediated by metal-reducing bacteria, is widely recognized as a major sink for the greenhouse gas methane (CH4), and is a key driver of the carbon (C) biogeochemical cycle. However, the effect of Fe3+ addition on AOM in the present investigation is still ambiguous, and the mechanism is vague. In this study, we investigated the mechanism of changes in AOM response to Fe3+ input at different wetlands by using laboratory incubation methods combined with molecular biology techniques. Results indicated that Fe3+ input did not always lead to promoted AOM rates, which may be mediated by complex environmental factors, while lower soil total nitrogen (TN) had a positive effect on the response of AOM subjected to Fe3+ input. Notably, the promoted response of AOM was regulated by higher soil microbial diversity, of which the Shannon index was a key indicator leading to variation in the AOM response. Additionally, several biomarkers, including Planctomycetota and Burkholderiaceae, were key microorganisms responsible for alterations in AOM response. Our results suggest that the capacity of Fe3+ cycling-mediated AOM may gradually decrease in light of increasing anthropogenic N and Fe inputs to global estuarine wetlands, while its reaction processes will become more complex and more strongly coupled with multiple environmental factors. This finding contributes to the enhanced understanding and prediction of the wetland CH4-related C with Fe cycles, as well as provides theoretical support for the underlying mechanisms.
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Affiliation(s)
- Zihao Wang
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Kun Li
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Feifei Yan
- College of Chemistry and Chemical Engineering, Ocean University of China, Qingdao, 266100, PR China
| | - Qingyue Xiang
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Xinkun Zhao
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Linhui Ji
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Yu Xin
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Jingyu Sun
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Chenmiao Liu
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Xinyi Xu
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Ying Zhang
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Xiaoyan Shen
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China
| | - Xiaoya Xu
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China.
| | - Qingfeng Chen
- College of Geography and Environment, Shandong Normal University, Jinan, 250014, PR China.
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Wang Z, Li K, Shen X, Yan F, Zhao X, Xin Y, Ji L, Xiang Q, Xu X, Li D, Ran J, Xu X, Chen Q. Soil nitrogen substances and denitrifying communities regulate the anaerobic oxidation of methane in wetlands of Yellow River Delta, China. Sci Total Environ 2023; 857:159439. [PMID: 36252671 DOI: 10.1016/j.scitotenv.2022.159439] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2022] [Revised: 09/23/2022] [Accepted: 10/10/2022] [Indexed: 06/16/2023]
Abstract
Anaerobic oxidation of methane (AOM) in wetland soils is widely recognized as a key sink for the greenhouse gas methane (CH4). The occurrence of this reaction is influenced by several factors, but the exact process and related mechanism of this reaction remain unclear, due to the complex interactions between multiple influencing factors in nature. Therefore, we investigated how environmental and microbial factors affect AOM in wetlands using laboratory incubation methods combined with molecular biology techniques. The results showed that wetland AOM was associated with a variety of environmental factors and microbial factors. The environmental factors include such as vegetation, depth, hydrogen ion concentration (pH), oxidation-reduction potential (ORP), electrical conductivity (EC), total nitrogen (TN), nitrate (NO3-), sulfate (SO42-), and nitrous oxide (N2O) flux, among them, soil N substances (TN, NO3-, N2O) have essential regulatory roles in the AOM process, while NO3- and N2O may be the key electron acceptors driving the AOM process under the coexistence of multiple electron acceptors. Moreover, denitrification communities (narG, nirS, nirK, nosZI, nosZII) and anaerobic methanotrophic (ANME-2d) were identified as important functional microorganisms affecting the AOM process, which is largely regulated by the former. In the environmental context of growing global anthropogenic N inputs to wetlands, these findings imply that N cycle-mediated AOM processes are a more important CH4 sink for controlling global climate change. This studying contributes to the knowledge and prediction of wetland CH4 biogeochemical cycling and provides a microbial ecology viewpoint on the AOM response to global environmental change.
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Affiliation(s)
- Zihao Wang
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Kun Li
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Xiaoyan Shen
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Feifei Yan
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China; College of Chemistry and Chemical Engineering, Ocean University of China, Qingdao 266100, PR China
| | - Xinkun Zhao
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Yu Xin
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Linhui Ji
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Qingyue Xiang
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Xinyi Xu
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Daijia Li
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Junhao Ran
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China
| | - Xiaoya Xu
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China.
| | - Qingfeng Chen
- College of Geography and Environment, Shandong Normal University, Jinan 250014, PR China.
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9
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Jiang L, Chu YX, Zhang X, Wang J, He X, Liu CY, Chen T, He R. Characterization of anaerobic oxidation of methane and microbial community in landfills with aeration. Environ Res 2022; 214:114102. [PMID: 35973464 DOI: 10.1016/j.envres.2022.114102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2022] [Revised: 08/04/2022] [Accepted: 08/09/2022] [Indexed: 06/15/2023]
Abstract
Landfills are the third largest source of anthropogenic CH4 emissions. Anaerobic oxidation of methane (AOM) activity and communities of methane-oxidizing bacteria were investigated in three informal landfills in this study, namely, BJ, CH and SZ landfills, among which BJ and CH represent traditional anaerobic landfills, while the SZ landfill was subjected to aeration to accelerate waste stabilization. The AOM rates of the investigated landfilled wastes ranged from 3.66 to 23.91 nmol g-1 h-1. Among the three landfills, the AOM rate was highest in the SZ-1-Top sample, which was closest to the aeration pipe. Among the possible electron acceptors for AOM, including NO3-, NO2-, SO42- and Fe3+, the NO2--N content was the only variable that was positively correlated with the AOM rate. Compared with α-Proteobacteria methanotrophs, γ-Proteobacteria methanotrophs were more abundant in the landfilled waste, especially Methylobacter, which was detected in nearly all samples. Members of the family Methylomirabilaceae, including Candidatus Methylomirabilis, were also detected in the SZ-1 and SZ-2-Bot samples. The relative abundance of the main methanotrophs in the families Methylomonadaceae, Methylococcaceae, Rokubacteriales and Methylomirabilaceae, the genus Methylocystis and the phylum NC10 were all positive correlations with the contents of NO2--N in the landfilled waste samples. Additionally, significantly positive correlations were observed between the AOM rates and the relative abundance of the main methanotrophs except for the family Methylococcaceae. This indicated that aeration could enhance the conversion of nitrogen compounds in the landfilled waste, in which the high contents of NO2--N could stimulate the growth of methanotrophs and increase AOM rate. These findings are helpful for understanding the mechanisms of CH4 oxidation in landfills and for taking effective measures to mitigate CH4 emissions from landfills.
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Affiliation(s)
- Lei Jiang
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou, 310012, China
| | - Yi-Xuan Chu
- Department of Environmental Engineering, Zhejiang University, Hangzhou, 310058, China
| | - Xuan Zhang
- Eco-Environmental Science and Research Institute of Zhejiang Province, Hangzhou, 310061, China
| | - Jing Wang
- Department of Environmental Engineering, Zhejiang University, Hangzhou, 310058, China
| | - Xiaosong He
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Chen-Yang Liu
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou, 310012, China
| | - Ting Chen
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou, 310012, China
| | - Ruo He
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, School of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou, 310012, China.
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10
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Xu S, Zhang H. First evidence for anaerobic oxidation of methane process in landfill cover soils: Activity and responsible microorganisms. Sci Total Environ 2022; 841:156790. [PMID: 35724792 DOI: 10.1016/j.scitotenv.2022.156790] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2022] [Revised: 06/14/2022] [Accepted: 06/14/2022] [Indexed: 06/15/2023]
Abstract
Landfill cover soils (LCS) play important roles in mitigating methane emissions from landfills. Anaerobic oxidation of methane (AOM) has been demonstrated as a potential methane removal process in aquatic ecosystems. However, whether AOM could occur in LCS is largely unknown. Here, microcosm incubations with 13CH4 were applied to track the potential activities of AOM and quantitative PCR was used to identify the responsible microorganisms. AOM was found to be active in the bottom and middle layers of LCS. In the bottom layer, sulfate-AOM was the most active process, mainly dominated by ANME archaea (without ANME-2d). Meanwhile, in the middle layer, nitrate and nitrite were the major electron acceptors involved in AOM with high abundances of ANME-2d archaea and NC10 bacteria. Our results implied a spatial segregation of methane oxidizing microbes in LCS and might be helpful for future control of methane emissions by the enhancement of AOM.
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Affiliation(s)
- Sai Xu
- Jiangsu Key Laboratory of Chemical Pollution Control and Resources Reuse, School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing 210094, China; Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, College of Environmental Science and Engineering, Zhejiang Gongshang University, Hangzhou 310012, China.
| | - Houhu Zhang
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment, Nanjing 210042, China
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11
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Chen W, Yu X, Huang J, Zhao W, Ju J, Ye J, Qin H, Long Y. The synergy of Fe(III) and NO 2- drives the anaerobic oxidation of methane. Sci Total Environ 2022; 837:155766. [PMID: 35533860 DOI: 10.1016/j.scitotenv.2022.155766] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2022] [Revised: 04/06/2022] [Accepted: 05/03/2022] [Indexed: 06/14/2023]
Abstract
The anaerobic oxidation of methane (AOM) driven by NO2- or Fe(III) alone was limited by slow electron delivery and ineffective enrichment of microbes. The flexible coupling between Fe(III) and NO2- potentially cooperated to accelerate AOM. One negative control was fed CH4 and NO2-, and four treatment reactors were supplemented with CH4, NO2- and ferric citrate (FC)/ferric chloride (FCH)/ chelate iron (FCI)/ferric hydroxide (FH) and were anaerobically operated for 1200 days to verify the synergy and promicrobial roles of Fe(III) and NO2- in improving AOM. The changes in gas and ion profiles were observed in the reactors, and microbial development was studied using 16S rRNA gene sequencing with the Illumina platform. The results indicated that the combined Fe(III) and NO2- treatment improved AOM, and their synergy followed the order of FC > FCI > FCH > FH. The biochemical reaction of Fe3+ with NO2- and its secondary process accelerated electron transfer to microbial cells and subsequently enhanced AOM in the reactors. The total organic carbon (TOC) content, NH4+ content, NO3- content, and pH value altered the dominant bacteria the most in the FC reactor, FCI, FCH, and FH groups, respectively. Several dominant bacterial species were enriched, whereas only two archaea were highly concentrated in the FC and FCI groups. Only bacteria were detected in the FCH group, and archaea contributed substantially to the FH group. These findings contribute to an improved understanding of the interactions among nitrogen, iron and CH4 that are paramount to accelerating the process of AOM for engineering applications.
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Affiliation(s)
- Weiqi Chen
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China
| | - Xiuling Yu
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China
| | - Juan Huang
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China
| | - Wurong Zhao
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China
| | - Jinwei Ju
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China
| | - Jinshao Ye
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China
| | - Huaming Qin
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China
| | - Yan Long
- Key Laboratory of Environmental Exposure and Health of Guangdong Province, School of Environment, Jinan University, Guangzhou 510632, China.
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12
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Cheng C, He Q, Zhang J, Chen B, Pavlostathis SG. Is the role of aerobic methanotrophs underestimated in methane oxidation under hypoxic conditions? Sci Total Environ 2022; 833:155244. [PMID: 35427622 DOI: 10.1016/j.scitotenv.2022.155244] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Revised: 03/21/2022] [Accepted: 04/08/2022] [Indexed: 06/14/2023]
Abstract
Microbial methane oxidation is the major biological methane (CH4) sink in the carbon cycle. Methanotrophs can use various electron acceptors in addition to oxygen; understanding the role and contribution of methanotrophs is thus an important topic. However, anaerobic oxidation of methane (AOM) mediated by methanotrophs is poorly explored and understood. This article summarizes the role aerobic methanotrophic bacteria play in AOM. Though AOM was originally considered to be mediated by anaerobic methanotrophic archaea, intra-aerobic methane-oxidizing bacteria (Candidatus Methylomirabilis oxyfera) appear to be involved in nitrite-dependent AOM. In addition, aerobic methanotrophs of the Methylomonadaceae and Methylocystaceae, are more versatile than previously assumed and can also be involved in nitrate/nitrite- or mineral oxide-dependent AOM under oxygen-limitation. Furthermore, the simultaneous reduction of nitrous oxide and oxidation of CH4 may be another new metabolic trait of aerobic methanotrophs. We discuss the potential metabolic pathways of CH4 oxidation under hypoxic conditions. It is of great ecological importance not only for the quantification of CH4 oxidation and emissions, but also for the definition of a new function of aerobic methanotrophs in anaerobic/hypoxic environments.
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Affiliation(s)
- Cheng Cheng
- College of Environment and Ecology, Chongqing University, Chongqing 400045, PR China.
| | - Qiang He
- College of Environment and Ecology, Chongqing University, Chongqing 400045, PR China
| | - Jian Zhang
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao 266590, PR China; Shandong Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science & Engineering, Shandong University, Qingdao, Shandong 266237, PR China
| | - Bowen Chen
- College of Environment and Ecology, Chongqing University, Chongqing 400045, PR China
| | - Spyros G Pavlostathis
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA 30332, USA
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13
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La W, Han X, Liu CQ, Ding H, Liu M, Sun F, Li S, Lang Y. Sulfate concentrations affect sulfate reduction pathways and methane consumption in coastal wetlands. Water Res 2022; 217:118441. [PMID: 35430469 DOI: 10.1016/j.watres.2022.118441] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2022] [Revised: 03/24/2022] [Accepted: 04/07/2022] [Indexed: 06/14/2023]
Abstract
Coastal wetlands are an important source of methane emissions, and understanding the mechanisms that control methane emissions from coastal wetlands is of great significance to global warming. Anaerobic oxidation of methane driven by sulfate is an important process to prevent methane emissions from coastal wetlands. The effects of environmental changes on this process and the function of the sulfate-methane transition zone (SMTZ) are poorly understood. In this study, spatiotemporal variations in pore-water geochemistry (concentrations of SO42-, CH4 and DIC as well as δ13C-DIC and δ13C-CH4) in the Beidagang wetland, Tianjin, China, were investigated to unravel factors controlling the role of anaerobic oxidation of methane in coastal wetlands. Results show that the geochemical profile of pore-water is characterized by significant spatial and temporal variability, which may be related to changes in sulfate concentration, temperature and dissolved oxygen. The carbon isotope fractionation factors (εC) during methane oxidation range from 8.9‰ to 12.5‰, indicating that the sulfate-driven anaerobic oxidation of methane (S-AOM) dominates the methane oxidation in the Beidagang coastal wetland in both winter and summer, in both high and low salinity wetlands, and in both open water and littoral areas. However, sulfate concentration has a strong influence on the sulfate reduction pathways and methane consumption. The consumption of methane and sulfate by S-AOM is more significant in coastal wetlands with high sulfate concentrations, with S-AOM consuming nearly all of the upward-diffusing methane (96%) and downward-diffusing sulfate (96%). In addition, the dissolved inorganic carbon (DIC) produced in the pore-water mainly comes from methanogenesis, accounting for more than 80% of the total DIC pool, but in the areas with high sulfate concentrations in water column, the contribution of S-AOM to the DIC pool is greater, although only a small fraction of the total DIC pool (9%). The depth and width of the SMTZ show a clear spatial and temporal pattern, with active methanogenesis activity and upward high methane flux shoaling the SMTZ and increasing the risk of high methane emissions from coastal wetlands with low sulfate concentrations. Our findings highlight the importance of sulfate-driven anaerobic oxidation of methane in coastal wetlands and the effect of sulfate concentration on it. It contributes to our understanding of the mechanism of methane production and emissions from the coastal wetland system, particularly in light of the increased demand for coastal wetland restoration under global warming.
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Affiliation(s)
- Wei La
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China
| | - Xiaokun Han
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China; Tianjin Key Laboratory of Earth Critical Zone Science and Sustainable Development in Bohai Rim, Tianjin University, Tianjin 300072, China; Critical Zone Observatory of Bohai Coastal Region, Tianjin University, Tianjin 300072, China
| | - Cong-Qiang Liu
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China; Tianjin Key Laboratory of Earth Critical Zone Science and Sustainable Development in Bohai Rim, Tianjin University, Tianjin 300072, China; Critical Zone Observatory of Bohai Coastal Region, Tianjin University, Tianjin 300072, China
| | - Hu Ding
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China; Tianjin Key Laboratory of Earth Critical Zone Science and Sustainable Development in Bohai Rim, Tianjin University, Tianjin 300072, China; Critical Zone Observatory of Bohai Coastal Region, Tianjin University, Tianjin 300072, China
| | - Mingxuan Liu
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China
| | - Fusheng Sun
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China; Tianjin Key Laboratory of Earth Critical Zone Science and Sustainable Development in Bohai Rim, Tianjin University, Tianjin 300072, China; Critical Zone Observatory of Bohai Coastal Region, Tianjin University, Tianjin 300072, China
| | - Siliang Li
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China; Tianjin Key Laboratory of Earth Critical Zone Science and Sustainable Development in Bohai Rim, Tianjin University, Tianjin 300072, China; Critical Zone Observatory of Bohai Coastal Region, Tianjin University, Tianjin 300072, China
| | - Yunchao Lang
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China; Tianjin Key Laboratory of Earth Critical Zone Science and Sustainable Development in Bohai Rim, Tianjin University, Tianjin 300072, China; Critical Zone Observatory of Bohai Coastal Region, Tianjin University, Tianjin 300072, China.
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14
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Carrizo D, de Dios-Cubillas A, Sánchez-García L, López I, Prieto-Ballesteros O. Interpreting Molecular and Isotopic Biosignatures in Methane-Derived Authigenic Carbonates in the Light of a Potential Carbon Cycle in the Icy Moons. Astrobiology 2022; 22:552-567. [PMID: 35325553 DOI: 10.1089/ast.2021.0036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Finding evidence of life beyond Earth is the aim of future space missions to icy moons. Icy worlds with an ocean underlying the icy crust and in contact with a rocky subsurface have great astrobiological interest due to the potential for water-rock interactions that may provide a source of nutrients necessary to sustain life. Such water-rock interactions in icy moons can be indirectly investigated using analogous environments on the deep seafloor on Earth. Here, we investigate the presence of molecular and isotopic biomarkers in two submarine cold seep systems with intense rock-fluid interactions and carbon sink as carbonates with the aim of gaining understanding of potential carbon cycles in the icy worlds' oceans. Authigenic carbonates associated to cold seeps (a chimney from the Gulf of Cádiz and a clathrite from the Pacific Hydrate Ridge) were investigated for their mineralogical composition and lipid biomarker distribution. Molecular and compound-specific isotopic composition of lipid biomarkers allowed us to infer different carbonate origins in both carbonate scenarios: biogenic methane (clathrite) versus thermogenic methane together with allochthonous carbon (chimney). In the Pacific cold seep, carbonate precipitation of the clathrite was deduced to result from the anaerobic oxidation of methane by syntrophic action of methanotrophic archaea with sulfate-reducing bacteria. The distinct carbon sources (thermogenic methane, pelagic biomass, etc.) and sinks (gas clathrates, clathrite, chimney carbonates) were discussed in the light of potentially similar carbon cycling pathways in analogous icy-moon oceans. We show how the isotopic analysis of carbon may be crucial for detecting biosignatures in icy-world carbon sinks. These considerations may affect the strategy of searching for biosignatures in future space missions to the icy worlds.
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Affiliation(s)
- D Carrizo
- Centro de Astrobiología (CSIC-INTA), Torrejón de Ardoz, Madrid, Spain
| | - A de Dios-Cubillas
- Centro de Astrobiología (CSIC-INTA), Torrejón de Ardoz, Madrid, Spain
- Department of Biology, Geology, Physics and Inorganic Chemistry, King Juan Carlos University, Móstoles, Madrid, Spain
| | - L Sánchez-García
- Centro de Astrobiología (CSIC-INTA), Torrejón de Ardoz, Madrid, Spain
| | - I López
- Department of Biology, Geology, Physics and Inorganic Chemistry, King Juan Carlos University, Móstoles, Madrid, Spain
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15
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Iasakov TR, Kanapatskiy TA, Toshchakov SV, Korzhenkov AA, Ulyanova MO, Pimenov NV. The Baltic Sea methane pockmark microbiome: The new insights into the patterns of relative abundance and ANME niche separation. Mar Environ Res 2022; 173:105533. [PMID: 34875513 DOI: 10.1016/j.marenvres.2021.105533] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Revised: 10/11/2021] [Accepted: 11/21/2021] [Indexed: 05/20/2023]
Abstract
Pockmarks are important "pumps", which are believed to play a significant role in the global methane cycling and harboring a unique assemblage of very diverse prokaryotes. This study reports the results of massive sequencing of the 16S rRNA gene V4 hypervariable regions for the samples from thirteen pockmark horizons (the Baltic Sea) collected at depths from 0 to 280 cm below seafloor (cmbsf) and the rates of microbially mediated anaerobic oxidation of methane (AOM) and sulfate reduction (SR). Altogether, 76 bacterial and 12 archaeal phyla were identified, 23 of which were candidate divisions. Of the total obtained in the pockmark sequences, 84.3% of them were classified as Bacteria and 12.4% as Archaea; 3.3% of the sequences were assigned to unknown operational taxonomic units (OTUs). Members of the phyla Planctomycetota, Chloroflexota, Desulfobacterota, Caldatribacteriota, Acidobacteriota and Proteobacteria predominated across all horizons, comprising 58.5% of the total prokaryotic community. These phyla showed different types of patterns of relative abundance. Analysis of AOM-SR-mediated prokaryotes abundance and biogeochemical measurements revealed that ANME-2a-2b subcluster was predominant in sulfate-rich upper horizons (including sulfate-methane transition zone (SMTZ)) and together with sulfate-reducing bacterial group SEEP-SRB1 had a primary role in AOM coupled to SR. At deeper sulfate-depleted horizons ANME-2a-2b shifted to ANME-1a and ANME-1b which alone mediated AOM or switch to methanogenic metabolism. Shifting of the ANME subclusters depending on depth reflect a tendency for niche separation in these groups. It was shown that the abundance of Caldatribacteriota and organohalide-respiring Dehalococcoidia (Chloroflexota) exhibited a strong correlation with AOM rates. This is the first detailed study of depth profiles of prokaryotic diversity, patterns of relative abundance, and ANME niche separation in the Baltic Sea pockmark microbiomes sheds light on assembly of prokaryotes in a pockmark.
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Affiliation(s)
- Timur R Iasakov
- Ufa Institute of Biology, Ufa Federal Research Centre, Russian Academy of Sciences, Prospekt Oktyabrya, 69, 450054, Ufa, Russia.
| | - Timur A Kanapatskiy
- Winogradsky Institute of Microbiology, Research Center of Biotechnology RAS, Leninsky prospect 33/2, 119071, Moscow, Russia
| | - Stepan V Toshchakov
- Kurchatov Center for Genome Research, NRC "Kurchatov Institute", Ac. Kurchatov square, 1, 123098, Moscow, Russia
| | - Aleksei A Korzhenkov
- Kurchatov Center for Genome Research, NRC "Kurchatov Institute", Ac. Kurchatov square, 1, 123098, Moscow, Russia
| | - Marina O Ulyanova
- Shirshov Institute of Oceanology, Russian Academy of Sciences, 36, Nahimovskiy prospekt, Moscow, 117997, Russia; Immanuel Kant Baltic Federal University, 14, Nevskogo str., Kaliningrad, 236016, Russia
| | - Nikolay V Pimenov
- Winogradsky Institute of Microbiology, Research Center of Biotechnology RAS, Leninsky prospect 33/2, 119071, Moscow, Russia
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16
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Luo D, Meng X, Zheng N, Li Y, Yao H, Chapman SJ. The anaerobic oxidation of methane in paddy soil by ferric iron and nitrate, and the microbial communities involved. Sci Total Environ 2021; 788:147773. [PMID: 34029806 DOI: 10.1016/j.scitotenv.2021.147773] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 05/11/2021] [Accepted: 05/12/2021] [Indexed: 06/12/2023]
Abstract
The anaerobic oxidation of methane (AOM) mediated by microorganisms is a key process in the reduction of methane emissions, and AOM-coupled electron acceptors have been shown to regulate methane emissions into the atmosphere in marine systems. Paddy fields are a significant source of methane and account for 20% of global methane emissions, but the effect of electron acceptors on the methane emission process in flooded paddy fields has been poorly characterized. This study aimed to determine whether the electron acceptors ferric iron and nitrate, and biochar, acting as an electron shuttle, can regulate the AOM process in paddy soil, with or without interaction between biochar and these two electron acceptors. We also aimed to characterize which microorganisms are actively involved. Here, we added 13C-labeled CH4 (13CH4) into anaerobic microcosms to evaluate the role of electron acceptors by measuring the methane oxidation rate and the enrichment of 13C-labeled CO2 (13CO2). We then combined DNA-stable isotope probing with amplicon sequencing to study the active microorganisms. We found for the first time that, in addition to nitrate, ferric iron can also effectively promote AOM in paddy soil. However, there was no significant effect of biochar. Ferric iron-dependent AOM was mainly carried out by iron-reducing bacteria (Geobacter, Ammoniphilus and Clostridium), and nitrate-dependent AOM was mainly by nitrate-reducing bacteria (Rhodanobacter, Paenibacillus and Planococcus). Our results demonstrate that the AOM process, regulated by the electron acceptors ferric iron and nitrate, can alleviate methane emission from paddy soil. The potentially active microorganisms related to electron acceptor reduction may be crucial for this methane sink and deserve further research.
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Affiliation(s)
- Dan Luo
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, People's Republic of China; Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control, Ningbo Urban Environment Observation and Research Station-NUEORS, Institute of Urban Environment, Chinese Academy of Sciences, Ningbo 315800, People's Republic of China; University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China
| | - Xiangtian Meng
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, People's Republic of China; Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control, Ningbo Urban Environment Observation and Research Station-NUEORS, Institute of Urban Environment, Chinese Academy of Sciences, Ningbo 315800, People's Republic of China; University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China
| | - Ningguo Zheng
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, People's Republic of China; Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control, Ningbo Urban Environment Observation and Research Station-NUEORS, Institute of Urban Environment, Chinese Academy of Sciences, Ningbo 315800, People's Republic of China; University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China
| | - Yaying Li
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, People's Republic of China; Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control, Ningbo Urban Environment Observation and Research Station-NUEORS, Institute of Urban Environment, Chinese Academy of Sciences, Ningbo 315800, People's Republic of China
| | - Huaiying Yao
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, People's Republic of China; Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control, Ningbo Urban Environment Observation and Research Station-NUEORS, Institute of Urban Environment, Chinese Academy of Sciences, Ningbo 315800, People's Republic of China; Research Center for Environmental Ecology and Engineering, School of Environmental Ecology and Biological Engineering, Wuhan Institute of Technology, Wuhan 430073, People's Republic of China.
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17
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Zhang K, Wu X, Chen J, Wang W, Luo H, Chen W, Ma D, An X, Wei Z. The role and related microbial processes of Mn-dependent anaerobic methane oxidation in reducing methane emissions from constructed wetland-microbial fuel cell. J Environ Manage 2021; 294:112935. [PMID: 34119986 DOI: 10.1016/j.jenvman.2021.112935] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2021] [Revised: 04/26/2021] [Accepted: 05/07/2021] [Indexed: 06/12/2023]
Abstract
Anaerobic oxidation of methane (AOM) plays an important role in global carbon cycle and greenhouse gas emission reduction. In this study, an effective green technology to reduce methane emissions was proposed by introducing Mn-dependent anaerobic oxidation of methane (Mn-AOM) and microbial fuel cell (MFC) technology into constructed wetland (CW). The results indicate that the combination of biological methods and bioelectrochemical methods can more effectively control the methane emission from CW than the reported methods. The role of dissimilated metal reduction in methane control in CW and the biochemical process associated with Mn-AOM were also investigated. The results demonstrated that using Mn ore as the matrix and operating MFC effectively reduced methane emissions from CW, and higher COD removal rate was obtained in CW-MFC (Mn) during the 200 days of operation. Methane emission from CW-MFC (Mn) (53.76 mg/m2/h) was 55.61% lower than that of CW (121.12 mg/m2/h). The highest COD removal rate (99.85%) in CW-MFC (Mn) was obtained. As the dissimilative metal-reducing microorganisms, Geobacter (5.10%) was found enriched in CW-MFC (Mn). The results also showed that the presence of Mn ore was beneficial to the biodiversity of CW-MFCs and the growth of electrochemically active bacteria (EAB) including Proteobacteria (35.32%), Actinobacteria (2.38%) and Acidobacteria (2.06%), while the growth of hydrogenotrophic methanogens Methanobacterium was effectively inhibited. This study proposed an effective way to reduce methane from CW. It also provided reference for low carbon technology of wastewater treatment.
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Affiliation(s)
- Ke Zhang
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China; School of Environment, Harbin Institute of Technology, Harbin, 150090, Heilongjiang, PR China.
| | - Xiangling Wu
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China
| | - Jia Chen
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China
| | - Wei Wang
- School of Environment, Harbin Institute of Technology, Harbin, 150090, Heilongjiang, PR China
| | - Hongbing Luo
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China
| | - Wei Chen
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China
| | - Dandan Ma
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China
| | - Xiaochan An
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China
| | - Zhaolan Wei
- College of Civil Engineering, Sichuan Agricultural University, Dujiangyan, 611830, PR China
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18
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Valenzuela EI, Ortiz-Zúñiga MF, Carrillo-Reyes J, Moreno-Andrade I, Quijano G. Continuous anaerobic oxidation of methane: Impact of semi-continuous liquid operation and nitrate load on N 2O production and microbial community. Chemosphere 2021; 278:130441. [PMID: 33838410 DOI: 10.1016/j.chemosphere.2021.130441] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2020] [Revised: 03/22/2021] [Accepted: 03/28/2021] [Indexed: 06/12/2023]
Abstract
This work proves the feasibility of employing regular secondary activated sludge for the enrichment of a microbial community able to perform the anaerobic oxidation of methane coupled to nitrate reduction (N-AOM). After 96 days of activated sludge enrichment, a clear N-AOM activity was observed in the resulting microbial community. The methane removal potential of the enriched N-AOM culture was then studied in a stirred tank reactor (STR) operated in continuous mode for methane supply and semi-continuous mode for the liquid phase. The effect of applying nitrate loads of ∼22, 44, 66, and 88 g NO3- m-3 h-1 on (i) STR methane and nitrate removal performance, (ii) N2O emission, and (iii) microbial composition was investigated. Methane elimination capacities from 21 ± 13.3 to 55 ± 12 g CH4 m-3 h-1 were recorded, coupled to nitrate removal rates ranging from 6 ± 3.2 to 43 ± 14.9 g NO3- m-3 h-1. N2O production was not detected under the three nitrate loading rates applied for the assessment of potential N2O emission in the continuous N-AOM process (i.e. ∼22-66 g NO-3 m-3 h-1). The lack of N2O emissions during the process was attributed to the N2O reducing capacity of the bacterial taxa identified and the rigorous control of dissolved O2 and pH implemented (dissolved O2 values ≤ 0.07 g m-3 and pH of 7.6 ± 0.4). Microbial characterization showed that the N-AOM process was performed in absence of putative N-AOM archaea and bacteria (ANME-2d, M. oxyfera). Instead, microbial activity was driven by methane-oxidizing bacteria and denitrifying bacteria (Bacteroidetes, α-, and γ-proteobacteria).
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Affiliation(s)
- Edgardo I Valenzuela
- Laboratory for Research on Advanced Processes for Water Treatment, Instituto de Ingeniería, Unidad Académica Juriquilla, Universidad Nacional Autónoma de México, Blvd. Juriquilla 3001, Querétaro, 76230, Mexico
| | - María F Ortiz-Zúñiga
- Laboratory for Research on Advanced Processes for Water Treatment, Instituto de Ingeniería, Unidad Académica Juriquilla, Universidad Nacional Autónoma de México, Blvd. Juriquilla 3001, Querétaro, 76230, Mexico
| | - Julián Carrillo-Reyes
- Laboratory for Research on Advanced Processes for Water Treatment, Instituto de Ingeniería, Unidad Académica Juriquilla, Universidad Nacional Autónoma de México, Blvd. Juriquilla 3001, Querétaro, 76230, Mexico
| | - Iván Moreno-Andrade
- Laboratory for Research on Advanced Processes for Water Treatment, Instituto de Ingeniería, Unidad Académica Juriquilla, Universidad Nacional Autónoma de México, Blvd. Juriquilla 3001, Querétaro, 76230, Mexico
| | - Guillermo Quijano
- Laboratory for Research on Advanced Processes for Water Treatment, Instituto de Ingeniería, Unidad Académica Juriquilla, Universidad Nacional Autónoma de México, Blvd. Juriquilla 3001, Querétaro, 76230, Mexico.
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19
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Kong Y, Lei H, Zhang Z, Cheng W, Wang B, Pan F, Huang F, Huang F, Li W. Depth profiles of geochemical features, geochemical activities and biodiversity of microbial communities in marine sediments from the Shenhu area, the northern South China Sea. Sci Total Environ 2021; 779:146233. [PMID: 34030248 DOI: 10.1016/j.scitotenv.2021.146233] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 02/25/2021] [Accepted: 02/26/2021] [Indexed: 06/12/2023]
Abstract
The biogeochemical processes, anaerobic oxidation of methane (AOM) and methanogenesis, control methane emission and create distinct geochemical profiles with depth in marine sediments. Correlating the capacities and biodiversity of the microbial communities in marine sediments remains challenging. We therefore investigated the geochemical constituents and the capabilities and diversity of microbial communities in sediments at different depths in two cores from the Shenhu area in the northern South China Sea, which is characterized by underlying gas hydrates. The geochemical features, sulfate concentration decreased linearly and the acid volatile sulfur accumulated from 4 m below the seafloor (mbsf) to the bottom, indicating significant sulfate reduction. However, the methane concentration was relatively low and showed irregular trends, indicating that our study cores did not reach the sulfate-methane transition zone (SMTZ). Nevertheless, incubation experiments showed that the microbial groups in sediments performed AOM and methanogenesis in the region where sulfate decreased linearly above the SMTZ. We mapped the diversity and abundance of microbial communities in sediments with depth using high-throughput sequencing. A small proportion of known methanogens (<0.3%) may have been responsible for the methanogenesis during incubation. No classical archaeal anaerobic methanotroph (ANME) sequences were detected across all samples; only a small amount of SEEP-SRB1 were detected, and their abundance did not increase with increasing depth. Thus, unknown or unconventional phylotypes may have participated in AOM during the incubation, and the dominant phylum Bathyarchaeota or the small number of detected methanogens are the most likely performers of AOM.
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Affiliation(s)
- Yuan Kong
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China
| | - Huaiyan Lei
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China.
| | - Zilian Zhang
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China
| | - Weidong Cheng
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China
| | - Bin Wang
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China
| | - Fulong Pan
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China
| | - Fanfan Huang
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China
| | - Fanli Huang
- Department of Geological Oceanography, College of Ocean & Earth Science, Xiamen University, Xiamen 361102, PR China
| | - Wenqing Li
- Key Laboratory of Mineral Resources Evaluation in Northeast China, Ministry of Land and Resources, Changchun 130061, PR China
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20
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Cheng S, Qin C, Xie H, Wang W, Hu Z, Liang S, Feng K. A new insight on the effects of iron oxides and dissimilated metal-reducing bacteria on CH 4 emissions in constructed wetland matrix systems. Bioresour Technol 2021; 320:124296. [PMID: 33129094 DOI: 10.1016/j.biortech.2020.124296] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2020] [Revised: 10/13/2020] [Accepted: 10/17/2020] [Indexed: 06/11/2023]
Abstract
Iron oxides and dissimilated metal-reducing bacteria (DMRB) have been reported to result in a reduction in methane (CH4) emissions in constructed wetlands (CWs), but their mechanisms on CH4 production and oxidation remains unclear. Here, a set of CW matrix systems (Control, Fe-CWs, and FeB-CWs) was established to analyze the CH4 emission reduction from various angles, including the valencies of iron, microbial community structure and enzyme activity. The results revealed that the addition of iron oxides promoted the electron transfer between methanogens and Geobacter to promote CH4 production, but it was interesting that iron oxides also reduced the enzymes involved in the carbon dioxide (CO2) reduction pathway and promoted the enzymes that participated in anaerobic oxidation of methane (AOM) thereby leading to the overall reduction in CH4 emissions. Moreover, DMRB could promote iron reduction thereby further reducing CH4 emissions by promoting AOM and competing with methanogens for organic substrates.
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Affiliation(s)
- Shiyi Cheng
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Congli Qin
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Huijun Xie
- Environment Research Institute, Shandong University, Qingdao 266237, PR China.
| | - Wenxing Wang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Zhen Hu
- Shandong Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China
| | - Shuang Liang
- Shandong Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China
| | - Kuishuang Feng
- Institute of Blue and Green Development, Weihai Institute of Interdisciplinary Research, Shandong University, Weihai, 264209, China
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21
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Li X, Lai DYF, Gao D. Anaerobic oxidation of methane with denitrification in sediments of a subtropical estuary: Rates, controlling factors and environmental implications. J Environ Manage 2020; 273:111151. [PMID: 32758912 DOI: 10.1016/j.jenvman.2020.111151] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Revised: 06/11/2020] [Accepted: 07/28/2020] [Indexed: 06/11/2023]
Abstract
Anaerobic oxidation of methane with denitrification (DAMO), as an important microbial process regulating methane emission, has been widely reported in freshwater ecosystems. However, the DAMO process and associated biogeochemical controls in estuaries remain poorly understood. Here, we used 13C- and 15N-labelling experiments to quantify the potential rates of DAMO and determined the crucial factors controlling the DAMO rates in the sediment of Yangtze Estuary. Potential rates of DAMO varied greatly across the estuary, ranging from 0.07 to 0.28 nmol CO2 g-1 d-1. Salinity negatively affected the DAMO and also showed an indirectly negative influence on DAMO process by high salinity inhibition on NO3- availability and denitrification. Nitrate concentrations were significantly correlated with the DAMO rates. Denitrification rates showed positive correlation with DAMO rates, implying that nitrate reduction drives the DAMO process. Sediment total organic carbon and NH4+ had important effects on DAMO rates. These results together indicate that DAMO process can occur and the DAMO rates were mainly controlled by sediment NO3- and denitrification in estuary. We further conclude that increasing NO3- load can drive the DAMO process with more important implications on methane sink in estuarine ecosystems.
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Affiliation(s)
- Xiaofei Li
- Key Laboratory for Humid Subtropical Eco-geographical Processes of the Ministry of Education, Fujian Normal University, Fuzhou, 350007, China; School of Geographical Sciences, Fujian Normal University, Fuzhou, 350007, China.
| | - Derrick Y F Lai
- Department of Geography and Resource Management, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong SAR, China
| | - Dengzhou Gao
- Key Laboratory of Geographic Information Science of the Ministry of Education, School of Geographic Sciences, East China Normal University, Shanghai, 200241, China
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22
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Cabrol L, Thalasso F, Gandois L, Sepulveda-Jauregui A, Martinez-Cruz K, Teisserenc R, Tananaev N, Tveit A, Svenning MM, Barret M. Anaerobic oxidation of methane and associated microbiome in anoxic water of Northwestern Siberian lakes. Sci Total Environ 2020; 736:139588. [PMID: 32497884 DOI: 10.1016/j.scitotenv.2020.139588] [Citation(s) in RCA: 47] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2020] [Revised: 05/07/2020] [Accepted: 05/19/2020] [Indexed: 05/16/2023]
Abstract
Arctic lakes emit methane (CH4) to the atmosphere. The magnitude of this flux could increase with permafrost thaw but might also be mitigated by microbial CH4 oxidation. Methane oxidation in oxic water has been extensively studied, while the contribution of anaerobic oxidation of methane (AOM) to CH4 mitigation is not fully understood. We have investigated four Northern Siberian stratified lakes in an area of discontinuous permafrost nearby Igarka, Russia. Analyses of CH4 concentrations in the water column demonstrated that 60 to 100% of upward diffusing CH4 was oxidized in the anoxic layers of the four lakes. A combination of pmoA and mcrA gene qPCR and 16S rRNA gene metabarcoding showed that the same taxa, all within Methylomonadaceae and including the predominant genus Methylobacter as well as Crenothrix, could be the major methane-oxidizing bacteria (MOB) in the anoxic water of the four lakes. Correlation between Methylomonadaceae and OTUs within Methylotenera, Geothrix and Geobacter genera indicated that AOM might occur in an interaction between MOB, denitrifiers and iron-cycling partners. We conclude that MOB within Methylomonadaceae could have a crucial impact on CH4 cycling in these Siberian Arctic lakes by mitigating the majority of produced CH4 before it leaves the anoxic zone. This finding emphasizes the importance of AOM by Methylomonadaceae and extends our knowledge about CH4 cycle in lakes, a crucial component of the global CH4 cycle.
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Affiliation(s)
- Léa Cabrol
- 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; Escuela de Ingeniería Bioquímica, Pontificia Universidad de Valparaiso, Av Brasil 2085, Valparaiso, Chile
| | - Frédéric Thalasso
- Biotechnology and Bioengineering Department, Center for Research and Advanced Studies (Cinvestav), Mexico City, Mexico
| | - Laure Gandois
- Laboratory of Functional Ecology and Environment, Université de Toulouse, CNRS, Toulouse, France
| | - Armando Sepulveda-Jauregui
- ENBEELAB, University of Magallanes, Punta Arenas, Chile; Center for Climate and Resilience Research (CR)2, Santiago, Chile
| | | | - Roman Teisserenc
- Laboratory of Functional Ecology and Environment, Université de Toulouse, CNRS, Toulouse, France
| | | | - Alexander Tveit
- Department of Arctic and Marine Biology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Mette M Svenning
- Department of Arctic and Marine Biology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Maialen Barret
- Laboratory of Functional Ecology and Environment, Université de Toulouse, CNRS, Toulouse, France.
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23
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Shen LD, Tian MH, Cheng HX, Liu X, Yang YL, Liu JQ, Xu JB, Kong Y, Li JH, Liu Y. Different responses of nitrite- and nitrate-dependent anaerobic methanotrophs to increasing nitrogen loading in a freshwater reservoir. Environ Pollut 2020; 263:114623. [PMID: 33618455 DOI: 10.1016/j.envpol.2020.114623] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2020] [Revised: 04/13/2020] [Accepted: 04/15/2020] [Indexed: 06/12/2023]
Abstract
Nitrite (NO2-)- and nitrate (NO3-)-dependent anaerobic oxidation of methane (AOM) are two new additions in microbial methane cycle, which potentially act as important methane sinks in freshwater aquatic systems. Here, we investigated spatial variations of community composition, abundance and potential activity of NO2-- and NO3--dependent anaerobic methanotrophs in the sediment of Jiulonghu Reservoir (Zhejiang Province, China), a freshwater reservoir having a gradient of increasing nitrogen loading from upstream to downstream regions. High-throughput sequencing of total bacterial and archaeal 16S rRNA genes showed the cooccurrence of Candidatus Methylomirabilis oxyfera (M. oxyfera)-like and Candidatus Methanoperedens nitroreducens (M. nitroreducens)-like anaerobic methanotrophs in the examined reservoir sediments. The community structures of these methanotrophs differed substantially between the sediments of upstream and downstream regions. Quantitative PCR suggested higher M. oxyfera-like bacterial abundance in the downstream (8.6 × 107 to 2.8 × 108 copies g-1 dry sediment) than upstream sediments (2.4 × 107 to 3.5 × 107 copies g-1 dry sediment), but there was no obvious difference in M. nitroreducens-like archaeal abundance between these sediments (3.7 × 105 to 4.8 × 105 copies g-1 dry sediment). The 13CH4 tracer experiments suggested the occurrence of NO2-- and NO3--dependent AOM activities, and their rates were 4.7-14.1 and 0.8-2.6 nmol CO2 g-1 (dry sediment) d-1, respectively. Further, the rates of NO2--dependent AOM in downstream sediment were significantly higher than those in upstream sediment. The NO3- concentration was the key factor affecting the spatial variations of abundance and activity of NO2--dependent anaerobic methanotrophs. Overall, our results showed different responses of NO2-- and NO3--dependent anaerobic methanotrophs to increasing nitrogen loading in a freshwater reservoir.
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Affiliation(s)
- Li-Dong Shen
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Institute of Ecology, School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China.
| | - Mao-Hui Tian
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Institute of Ecology, School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Hai-Xiang Cheng
- College of Chemistry and Materials Engineering, Quzhou University, Quzhou, 324000, China
| | - Xin Liu
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Institute of Ecology, School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Yu-Ling Yang
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Institute of Ecology, School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Jia-Qi Liu
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Institute of Ecology, School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Jiang-Bing Xu
- Collaborative Innovation Center on Forecast and Evaluation of Meteorological Disasters, Institute of Ecology, School of Applied Meteorology, Nanjing University of Information Science and Technology, Nanjing, 210044, China
| | - Yun Kong
- College of Resources and Environment, Yangtze University, Hubei, Wuhan, 430100, China
| | - Jian-Hui Li
- College of Chemistry and Materials Engineering, Quzhou University, Quzhou, 324000, China
| | - Yan Liu
- Wuxijiang National Wetland Park Service, Quzhou, 324000, China
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Gabriel GVM, Oliveira LC, Barros DJ, Bento MS, Neu V, Toppa RH, Carmo JB, Navarrete AA. Methane emission suppression in flooded soil from Amazonia. Chemosphere 2020; 250:126263. [PMID: 32088616 DOI: 10.1016/j.chemosphere.2020.126263] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2019] [Revised: 02/07/2020] [Accepted: 02/17/2020] [Indexed: 06/10/2023]
Abstract
The coupling between ferrous iron and methane production has important global implications, with iron ions acting as electron acceptors for anaerobic oxidation of methane (AOM) and inhibitors of methanogenesis in different environments, including floodplain soils. In this sense, we analyzed the relationship between Fe(II) concentration and methane production in soil layers collected at 0-15 cm and 15-30 cm from flooded-forest and -agroforestry in Amazonian clear water floodplain incubated in anaerobic batch reactors using acetate, formate and glucose as organic sources. High throughput sequencing of archaeal and bacterial 16S rRNA genes was employed to assess the abundance and composition of the active methanogenic and methanotrophic microbial groups potentially involved in Fe(III)-dependent AOM in the soil used as inoculum. Positive correlation was revealed between Fe(II) concentration and methane production, with higher accumulation of Fe(II) in incubated soil layer collected at 0-15 cm in both forest and agroforestry sites for all the three organic sources. The accumulation of Fe(II) in the incubated soil evidenced the oxidation of Fe(III) potentially by Methanobacterium, Desulfobulbus and 'Candidatus methanoperedens nitroreducens' living in anaerobic condition at this soil layer. The results point out to the microbial ferric iron reduction as an important potential pathway for anaerobic organic matter decomposition in Amazonian floodplain, evidencing methanogenesis suppression by Fe(III) reduction in flooded-forest and -agroforestry in Amazonian clear water river floodplain.
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Affiliation(s)
- Gabriele V M Gabriel
- Federal University of São Carlos (UFSCar), Graduate School of Biotechnology and Environmental Monitoring, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil; Federal University of São Carlos (UFSCar), Department of Physics, Chemistry and Mathematics, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil.
| | - Luciana C Oliveira
- Federal University of São Carlos (UFSCar), Graduate School of Biotechnology and Environmental Monitoring, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil; Federal University of São Carlos (UFSCar), Department of Physics, Chemistry and Mathematics, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil
| | - Dayane J Barros
- Federal University of Tocantins (UFT), Graduate School of Biodiversity and Biotechnology - BIONORTE, Quadra 109 Norte, Avenida NS-15, ALCNO-14, Palmas, Tocantins, 77001-090, Brazil
| | - Marília S Bento
- Federal University of São Carlos (UFSCar), Graduate School of Biotechnology and Environmental Monitoring, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil
| | - Vania Neu
- Federal Rural University of Amazonia (UFRA), Socio-Environmental and Water Resources Institute, Belém, Pará, 66077-530, Brazil
| | - Rogério H Toppa
- Federal University of São Carlos (UFSCar), Department of Environmental Sciences, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil
| | - Janaina B Carmo
- Federal University of São Carlos (UFSCar), Graduate School of Biotechnology and Environmental Monitoring, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil; Federal University of São Carlos (UFSCar), Department of Environmental Sciences, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil
| | - Acacio A Navarrete
- Federal University of São Carlos (UFSCar), Graduate School of Biotechnology and Environmental Monitoring, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil; Federal University of São Carlos (UFSCar), Department of Environmental Sciences, Rodovia João Leme dos Santos, SP-264, km 110, Sorocaba, São Paulo, 18052-780, Brazil
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25
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Stultiens K, van Kessel MAHJ, Frank J, Fischer P, Pelzer C, van Alen TA, Kartal B, Op den Camp HJM, Jetten MSM. Diversity, enrichment, and genomic potential of anaerobic methane- and ammonium-oxidizing microorganisms from a brewery wastewater treatment plant. Appl Microbiol Biotechnol 2020; 104:7201-12. [PMID: 32607646 DOI: 10.1007/s00253-020-10748-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2020] [Revised: 06/11/2020] [Accepted: 06/16/2020] [Indexed: 10/29/2022]
Abstract
Anaerobic wastewater treatment offers several advantages; however, the effluent of anaerobic digesters still contains high levels of ammonium and dissolved methane that need to be removed before these effluents can be discharged to surface waters. The simultaneous anaerobic removal of methane and ammonium by denitrifying (N-damo) methanotrophs in combination with anaerobic ammonium-oxidizing (anammox) bacteria could be a potential solution to this challenge. After a molecular survey of a wastewater plant treating brewery effluent, indicating the presence of both N-damo and anammox bacteria, we started an anaerobic bioreactor with a continuous supply of methane, ammonium, and nitrite to enrich these anaerobic microorganisms. After 14 months of operation, a stable enrichment culture containing two types of 'Candidatus Methylomirabilis oxyfera' bacteria and two strains of 'Ca. Brocadia'-like anammox bacteria was achieved. In this community, anammox bacteria converted 80% of the nitrite with ammonium, while 'Ca. Methylomirabilis' contributed to 20% of the nitrite consumption. The analysis of metagenomic 16S rRNA reads and fluorescence in situ hybridization (FISH) correlated well and showed that, after 14 months, 'Ca. Methylomirabilis' and anammox bacteria constituted approximately 30 and 20% of the total microbial community. In addition, a substantial part (10%) of the community consisted of Phycisphaera-related planctomycetes. Assembly and binning of the metagenomic sequences resulted in high-quality draft genome of two 'Ca. Methylomirabilis' species containing the marker genes pmoCAB, xoxF, and nirS and putative NO dismutase genes. The anammox draft genomes most closely related to 'Ca. Brocadia fulgida' included the marker genes hzsABC, hao, and hdh. Whole-reactor and batch anaerobic activity measurements with methane, ammonium, nitrite, and nitrate revealed an average anaerobic methane oxidation rate of 0.12 mmol h-1 L-1 and ammonium oxidation rate of 0.5 mmol h-1 L-1. Together, this study describes the enrichment and draft genomes of anaerobic methanotrophs from a brewery wastewater treatment plant, where these organisms together with anammox bacteria can contribute significantly to the removal of methane and ammonium in a more sustainable way. KEY POINTS: • An enrichment culture containing both N-damo and anammox bacteria was obtained. • Simultaneous consumption of ammonia, nitrite, and methane under anoxic conditions. • In-depth metagenomic biodiversity analysis of inoculum and enrichment culture.
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Parsaeifard N, Sattler M, Nasirian B, Chen VCP. Enhancing anaerobic oxidation of methane in municipal solid waste landfill cover soil. Waste Manag 2020; 106:44-54. [PMID: 32182561 DOI: 10.1016/j.wasman.2020.03.009] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2019] [Revised: 03/07/2020] [Accepted: 03/09/2020] [Indexed: 06/10/2023]
Abstract
Landfills are the third largest anthropogenic source of the greenhouse gas methane worldwide. In the upper portions of landfill covers, methane is oxidized aerobically by microorganisms to form the less-potent greenhouse gas carbon dioxide; however, because of the low permeability of oxygen, no aerobic oxidation occurs in deeper portions of the cover. Therefore, the goal of this study was to enhance anaerobic oxidation of methane (AOM) in the deeper parts of landfill covers, to increase overall methane removal, via addition of electron acceptors besides oxygen. In batch tests, landfill cover soil was amended using five alternate electron acceptors: iron(III), nitrate, nitrite, sulfate, and manganese. AOM was then measured via column tests, which included realistic conditions of gas flow, cover thickness, and compaction. In the batch tests, soils amended with nitrate, sulfate, and the combination of sulfate + hematite removed more methane compared to control soil. Methane generation inhibitor had no impact on net methane removal. Adding nutrients to the soil significantly enhanced methane removal only for the case of soil without electron acceptors. Greater methane removal was observed for reactors with higher initial methane concentration. Results of the column tests showed that soil amended with sulfate + iron had the highest (around 10%) removal of methane in the anoxic zone, followed by soil amended with sulfate. Hydrogen sulfide (H2S) gas was measured in the headspace of these two columns, which indicated that sulfate-reducing bacteria were likely responsible for methane removal.
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Affiliation(s)
- Niloofar Parsaeifard
- Department of Civil Engineering, University of Texas at Arlington, Box 19308, Arlington, TX 76019, United States.
| | - Melanie Sattler
- Department of Civil Engineering, University of Texas at Arlington, Box 19308, Arlington, TX 76019, United States
| | - Bahareh Nasirian
- Department of Industrial, Manufacturing, and Systems Engineering, University of Texas at Arlington, Box 19017, Arlington, TX 76019, United States
| | - Victoria C P Chen
- Department of Industrial, Manufacturing, and Systems Engineering, University of Texas at Arlington, Box 19017, Arlington, TX 76019, United States
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Hao Q, Liu F, Zhang Y, Wang O, Xiao L. Methylobacter accounts for strong aerobic methane oxidation in the Yellow River Delta with characteristics of a methane sink during the dry season. Sci Total Environ 2020; 704:135383. [PMID: 31810682 DOI: 10.1016/j.scitotenv.2019.135383] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2019] [Revised: 11/03/2019] [Accepted: 11/03/2019] [Indexed: 06/10/2023]
Abstract
Recent investigations demonstrate that some coastal wetlands are atmospheric methane sinks, but the regulatory mechanisms are not clear. Here, the main pathway and operator of methane oxidation in the Yellow River Delta (YRD) wetland, a methane source in the wet season but a methane sink in the dry season, were investigated. The anaerobic oxidation of methane (AOM) and aerobic methane oxidation (AMO) abilities of wetland soil were measured, and the microbial community structure was analyzed. The experimental results showed that AMO was active throughout the year. In contrast, AOM was weak and even undetected. The microbial community analysis indicated that Methylomicrobium and Methylobacter potentially scavenged methane in oxic environments. A representative strain of Methylobacter, which was isolated from the soil, presented a strong AMO ability at high concentrations of methane and air. Overall, this study showed that active AMO performing by Methylobacter may account for methane sink in the YRD wetland during the dry season. Our research not only has determined the way in which methane sinks are formed but also identified the potential functional microbes. In particular, we confirmed the function of potential methanotroph by pure culture. Our research provides biological evidence for why some wetlands have methane sink characteristics, which may help to understand the global methane change mechanism.
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Affiliation(s)
- Qinqin Hao
- Key Laboratory of Coastal Biology and Biological Resources Utilization, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, 264003, PR China; Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao, 266237, PR China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Fanghua Liu
- Key Laboratory of Coastal Biology and Biological Resources Utilization, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, 264003, PR China; Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao, 266237, PR China; Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao, 266071, PR China.
| | - Yuechao Zhang
- Key Laboratory of Coastal Biology and Biological Resources Utilization, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, 264003, PR China; Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao, 266237, PR China; University of Chinese Academy of Sciences, Beijing, 100049, PR China
| | - Oumei Wang
- Binzhou Medical University, Yantai, 264003, PR China
| | - Leilei Xiao
- Key Laboratory of Coastal Biology and Biological Resources Utilization, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, 264003, PR China; Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao, 266071, PR China.
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Cassarini C, Rene ER, Bhattarai S, Vogt C, Musat N, Lens PNL. Anaerobic methane oxidation coupled to sulfate reduction in a biotrickling filter: Reactor performance and microbial community analysis. Chemosphere 2019; 236:124290. [PMID: 31310977 DOI: 10.1016/j.chemosphere.2019.07.021] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Revised: 06/28/2019] [Accepted: 07/02/2019] [Indexed: 06/10/2023]
Abstract
The aim of this work was to evaluate the performance of a biotrickling filter (BTF) packed with polyurethane foam and pall rings for the enrichment of microorganisms mediating anaerobic oxidation of methane (AOM) coupled to sulfate reduction (SR) by activity tests and microbial community analysis. A BTF was inoculated with microorganisms from a known AOM active deep sea sediment collected at a depth of 528 m below the sea level (Alpha Mound, Gulf of Cadiz). The microbial community analysis was performed by catalyzed reporter deposition - fluorescence in situ hybridization (CARD-FISH) and 16S rRNA sequence analysis. The AOM occurrence and rates in the BTF were assessed by performing batch activity assays using 13C-labelled methane (13CH4). After an estimated start-up time of ∼20 days, AOM rates of ∼0.3 mmol l-1 day-1 were observed in the BTF, values almost 20 times higher than previously reported in a polyurethane foam packed BTF. The microbial community consisted mainly of anaerobic methanotrophs (ANME-2, 22% of the total number of cells) and sulfate reducing bacteria (SRB, 47% of the total number of cells). This study showed that the BTF is a suitable reactor configuration for the enrichment of microbial communities involved in AOM coupled to SR at ambient pressure and temperature with a relatively short start-up time.
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Affiliation(s)
- Chiara Cassarini
- UNESCO-IHE, Institute for Water Education, P. O. Box 3015, 2601, DA, Delft, the Netherlands; National University of Ireland Galway, University Road, Galway, H91 TK33, Ireland.
| | - Eldon R Rene
- UNESCO-IHE, Institute for Water Education, P. O. Box 3015, 2601, DA, Delft, the Netherlands
| | - Susma Bhattarai
- UNESCO-IHE, Institute for Water Education, P. O. Box 3015, 2601, DA, Delft, the Netherlands
| | - Carsten Vogt
- Helmholtz-Centre for Environmental Research - UFZ, Department of Isotope Biogeochemistry, Permoser Strasse 15, 04318, Leipzig, Germany
| | - Niculina Musat
- Helmholtz-Centre for Environmental Research - UFZ, Department of Isotope Biogeochemistry, Permoser Strasse 15, 04318, Leipzig, Germany
| | - Piet N L Lens
- UNESCO-IHE, Institute for Water Education, P. O. Box 3015, 2601, DA, Delft, the Netherlands; National University of Ireland Galway, University Road, Galway, H91 TK33, Ireland
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Tansel B. Persistence times of refractory materials in landfills: A review of rate limiting conditions by mass transfer and reaction kinetics. J Environ Manage 2019; 247:88-103. [PMID: 31234049 DOI: 10.1016/j.jenvman.2019.06.056] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2019] [Revised: 06/02/2019] [Accepted: 06/11/2019] [Indexed: 06/09/2023]
Abstract
Monitoring programs at closed landfills show that transformation of plastics, wood, and metals continue long after the active decomposition of the waste fractions are considered as complete. Studies conducted in natural anaerobic environments (e.g., marine sediments and rocks) provide insight for slow degradation mechanisms involving coupling of thermodynamically favorable and unfavorable reactions and biochemical transformations by microbial consortia. These transformations occur at much slower rates through more complex and less obvious mechanisms and are not evident until after the primary decomposition mechanisms become less significant. This study presents a review of the conditions that limit the mass transfer and reaction kinetics for anaerobic transformations in landfills and provides new insights for reaction mechanisms (e.g., anaerobic oxidation and anaerobic corrosion) that occur at relatively slow rates in mature landfills. Conditions and mechanisms of slow transformations by microbial and chemical activities with relatively small energy yields and availability of electron acceptors (e.g., inorganics, plastics) and/or diffusion of gas and moisture into the previously isolated areas in waste deposits were discussed. Time scales for mass transfer and reaction kinetics were compared under anaerobic conditions for different waste components deposited at municipal solid waste landfills. Half-lives of different materials under anaerobic conditions were estimated and compared. Emergence of syntrophic methanogenic communities and conditions for triboelectric effects were evaluated as possible electron transfer mechanisms between waste layers for occurrence of extremely slow transformations of wastes deposited in landfills.
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Affiliation(s)
- Berrin Tansel
- Florida International University, Civil and Environmental Engineering Department, Florida, USA.
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Luo JH, Wu M, Liu J, Qian G, Yuan Z, Guo J. Microbial chromate reduction coupled with anaerobic oxidation of methane in a membrane biofilm reactor. Environ Int 2019; 130:104926. [PMID: 31228790 DOI: 10.1016/j.envint.2019.104926] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Revised: 06/02/2019] [Accepted: 06/12/2019] [Indexed: 06/09/2023]
Abstract
It has been reported that microbial reduction of sulfate, nitrite/nitrate and iron/manganese could be coupled with anaerobic oxidation of methane (AOM), which plays a significant role in controlling methane emission from anoxic niches. However, little is known about microbial chromate (Cr(VI)) reduction coupling with AOM. In this study, a microbial consortium was enriched via switching nitrate dosing to chromate feeding as the sole electron acceptor under anaerobic condition in a membrane biofilm reactor (MBfR), in which methane was continuously provided as the electron donor through bubble-less hollow fiber membranes. According to long-term reactor operation and chromium speciation analysis, soluble chromate could be reduced into Cr(III) compounds by using methane as electron donor. Fluorescence in situ hybridization and high-throughput 16S rRNA gene amplicon profiling further indicated that after feeding chromate Candidatus 'Methanoperedens' (a known nitrate-dependent anaerobic methane oxidation archaeon) became sole anaerobic methanotroph in the biofilm, potentially responsible for the chromate bio-reduction driven by methane. Two potential pathways of the microbial AOM-coupled chromate reduction were proposed: (i) Candidatus 'Methanoperedens' independently utilizes chromate as electron acceptor to form Cr(III) compounds, or (ii) Candidatus 'Methanoperedens' oxidizes methane to generate intermediates or electrons, which will be utilized to reduce chromate to Cr(III) compounds by unknown chromate reducers synergistically. Our findings suggest a possible link between the biogeochemical chromium and methane cycles.
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Affiliation(s)
- Jing-Huan Luo
- Advanced Water Management Centre, The University of Queensland, St Lucia, Queensland 4072, Australia; School of Environmental and Chemical Engineering, Shanghai University, 333 Nanchen Road, Shanghai 200444, PR China
| | - Mengxiong Wu
- Advanced Water Management Centre, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Jianyong Liu
- School of Environmental and Chemical Engineering, Shanghai University, 333 Nanchen Road, Shanghai 200444, PR China
| | - Guangren Qian
- School of Environmental and Chemical Engineering, Shanghai University, 333 Nanchen Road, Shanghai 200444, PR China
| | - Zhiguo Yuan
- Advanced Water Management Centre, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Jianhua Guo
- Advanced Water Management Centre, The University of Queensland, St Lucia, Queensland 4072, Australia.
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Carvalho L, Monteiro R, Figueira P, Mieiro C, Pereira E, Magalhães V, Pinheiro L, Vale C. Rare earth elements in mud volcano sediments from the Gulf of Cadiz, South Iberian Peninsula. Sci Total Environ 2019; 652:869-879. [PMID: 30380493 DOI: 10.1016/j.scitotenv.2018.10.227] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2018] [Revised: 10/04/2018] [Accepted: 10/16/2018] [Indexed: 06/08/2023]
Abstract
Eight gravity cores (GC) were retrieved from the deep mud volcanoes Sagres, Bonjardim, Soloviev and Porto in the Gulf of Cadiz. Cores with 137 to 317 cm long were sliced in intervals of 15 to 20 cm thickness, and 46 samples were analyzed for grain size distribution, loss on ignition, Al, Fe, Ca, Mg, Mn, Sr, Ba and the rare earth elements (REE) La, Ce, Pr, Nd, Sm, Eu, Gd, Dy, Ho, Er, Tm, Yb and Lu. REE profile normalized to Post-Archean Australian Average Shale (PAAS) was dominated by a mid-REE bulge with a pronounced Eu enhancement. Sediment reducing conditions resulting from the anaerobic oxidation of methane probably contributed to the positive-Eu anomaly (1.18-2.19, PAAS normalization). Most likely, reactions near the sulfate-methane transition zone such as the precipitation of barium sulfate found at layers around 50-cm depth explain the enhancement of Eu/Eu* ratios. The Ce anomalies (0.93-1.09) were almost absent.
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Affiliation(s)
- Lina Carvalho
- Central Laboratory of Analysis (LCA), University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal
| | - Rui Monteiro
- CESAM and Chemistry Department, University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal; Interdisciplinary Centre of Marine and Environmental Research (CIIMAR), University of Porto, Avenida Norton de Matos, 4450-208 Matosinhos, Portugal
| | - Paula Figueira
- Central Laboratory of Analysis (LCA), University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal; CICECO (Aveiro Institute of Materials) and Chemistry Department, University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal.
| | - Cláudia Mieiro
- CESAM and Chemistry Department, University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal
| | - Eduarda Pereira
- Central Laboratory of Analysis (LCA), University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal; CESAM and Chemistry Department, University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal
| | - Vítor Magalhães
- Marine Geology and Georesources Division (DivGM), Portuguese Institute for the Ocean and Atmosphere (IPMA), Rua C ao Aeroporto, 1749-077 Lisboa, Portugal
| | - Luís Pinheiro
- CESAM and Geosciences Department, University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal
| | - Carlos Vale
- Interdisciplinary Centre of Marine and Environmental Research (CIIMAR), University of Porto, Avenida Norton de Matos, 4450-208 Matosinhos, Portugal
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Cui H, Su X, Chen F, Holland M, Yang S, Liang J, Su P, Dong H, Hou W. Microbial diversity of two cold seep systems in gas hydrate-bearing sediments in the South China Sea. Mar Environ Res 2019; 144:230-239. [PMID: 30732863 DOI: 10.1016/j.marenvres.2019.01.009] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2018] [Revised: 12/29/2018] [Accepted: 01/14/2019] [Indexed: 05/05/2023]
Abstract
Cold seep is a unique habitat for microorganisms in deep marine sediments, and microbial communities and biogeochemical processes are still poorly understood, especially in relation to hydrate-bearing geo-systems. In this study, two cold seep systems were sampled and microbial diversity was studied at Site GMGS2-08 in the northern part of the South China Sea (SCS) during the GMGS2 gas hydrate expedition. The current cold seep system was composed of a sulfate methane transition zone (SMTZ) and an upper gas hydrate zone (UGHZ). The buried cold seep system was composed of an authigenic carbonate zone (ACZ) and a lower gas hydrate zone (LGHZ). These drill core samples provided an excellent opportunity for analyzing the microbial abundance and diversity based on quantitative polymerase chain reaction (qPCR) and high-throughput 16S rRNA gene sequencing. Compared to previous studies, the high relative abundance of ANME-1b, a clade of anaerobic methanotrophic archaea (ANME), may perform anaerobic oxidation of methane (AOM) in collaboration with ANME-2c and Desulfobacteraceae in the SMTZ, and the high relative abundances of Hadesarchaea, ANME-1b archaea and Aerophobetes bacteria were found in the gas hydrate zone (GHZ) at Site GMGS2-08. ANME-1b, detected in the GHZ, might mainly mediate the AOM process, and the process might occur in a wide depth range within the LGHZ. Moreover, bacterial communities were significantly different between the GHZ and non-GHZ sediments. In the ACZ, archaeal communities were different between the two samples from the upper and the lower layers, while bacterial communities shared similarities. Overall, this new record of cold seep microbial diversity at Site GMGS2-08 showed the complexity of the interaction between biogeochemical reactions and environmental conditions.
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Affiliation(s)
- Hongpeng Cui
- School of Ocean Sciences, China University of Geosciences, Beijing, 100083, China; State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Beijing, 100083, China
| | - Xin Su
- School of Ocean Sciences, China University of Geosciences, Beijing, 100083, China; State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Beijing, 100083, China.
| | - Fang Chen
- Guangzhou Marine Geological Survey, Guangzhou, 510075, China
| | | | - Shengxiong Yang
- Guangzhou Marine Geological Survey, Guangzhou, 510075, China
| | - Jinqiang Liang
- Guangzhou Marine Geological Survey, Guangzhou, 510075, China.
| | - Pibo Su
- Guangzhou Marine Geological Survey, Guangzhou, 510075, China
| | - Hailiang Dong
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Beijing, 100083, China; Department of Geology and Environmental Earth Science, Miami University, OH, 45056, USA
| | - Weiguo Hou
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Beijing, 100083, China
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Cheng C, Shen X, Xie H, Hu Z, Pavlostathis SG, Zhang J. Coupled methane and nitrous oxide biotransformation in freshwater wetland sediment microcosms. Sci Total Environ 2019; 648:916-922. [PMID: 30144759 DOI: 10.1016/j.scitotenv.2018.08.185] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2018] [Revised: 07/24/2018] [Accepted: 08/14/2018] [Indexed: 06/08/2023]
Abstract
Anaerobic oxidation of methane (AOM) coupled to denitrification is becoming the focus of scientific inquiry due to its potential contribution to global carbon and nitrogen cycles. AOM has been previously reported to proceed with nitrate (NO3-) or nitrite (NO2-). However, little research has been conducted on the simultaneous use of methane (CH4) and nitrous oxide (N2O). Here, coupled CH4 and N2O biotransformation in a freshwater wetland sediment was obtained in a 7-day anaerobic sediment incubation assay. The significant CO2 accumulation and decrease of CH4 emission in sediment microcosms was attributed to two mechanisms: inhibition of methanogenesis and N2O-dependent AOM. To further confirm the coupled CH4 and N2O transformation, a 13C-labelled stable isotope tracer assay after anaerobic incubation was conducted with N2O and/or CH4 amendments. The N2O-dependent AOM rate was 3.41 ± 0.13 nmol CO2 g-1 dry sediment·day-1. According to metagenomic analysis, addition of N2O stimulated AOM by increasing the activity and abundance of methanotrophic bacteria and by increasing enzymatic activities in the electron transport chain. Based on these results, we propose coupled CH4 and N2O biotransformation in the sediment microcosms for the first time, carried out by unidentified methanotroph(s) via intra‑oxygen produced in the presence of N2O. Such a process has the potential to reduce the emission of two highly potent greenhouse gases and makes a significant contribution to the link of global carbon and nitrogen cycles in anoxic environments.
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Affiliation(s)
- Cheng Cheng
- School of Environmental Science and Engineering, Shandong University, Jinan 250100, China; School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA 30332, United States
| | - Xuanxu Shen
- School of Environmental Science and Engineering, Shandong University, Jinan 250100, China
| | - Huijun Xie
- Environmental Research Institute, Shandong University, Jinan 250100, China
| | - Zhen Hu
- School of Environmental Science and Engineering, Shandong University, Jinan 250100, China
| | - Spyros G Pavlostathis
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA 30332, United States
| | - Jian Zhang
- School of Environmental Science and Engineering, Shandong University, Jinan 250100, China.
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Bhattarai S, Zhang Y, Lens PNL. Effect of pressure and temperature on anaerobic methanotrophic activities of a highly enriched ANME-2a community. Environ Sci Pollut Res Int 2018; 25:30031-30043. [PMID: 29946835 DOI: 10.1007/s11356-018-2573-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Accepted: 06/18/2018] [Indexed: 06/08/2023]
Abstract
This study investigated the effect of temperature and methane partial pressure on the anaerobic methane-oxidizing and sulfate-reducing (AOM-SR) activities by a highly enriched ANME-2a community. The ANME-2a-enriched biomass was incubated at different pressures, i.e., 2, 10, 20, and 30 MPa at 15 °C for 80 days. The response of the microbial community with temperature was investigated in incubations at 4, 15, and 25 °C at 10 MPa. Among all tested conditions, the incubation at 10 MPa pressure and 15 °C showed the highest AOM-SR activity of the studied ANME-2a phylotype, whereas activity at 2 MPa pressure and 15 °C was almost comparative to the response at 10 MPa pressure. The finding of the most favorable conditions for AOM-SR activity by the studied AOM-SR community comparable to the in situ pressure and temperature (15 °C at 10 MPa) suggests that the studied ANME-2a phylotype was well adapted to the conditions similar to its origin. The microbial community analysis showed that the bacterial community composition shifted upon changing the incubation temperature and pressure.
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Affiliation(s)
- Susma Bhattarai
- UNESCO-IHE, Westvest-7, P.O. Box 3015, 2601, DA, Delft, the Netherlands
| | - Yu Zhang
- State Key Laboratory of Ocean Engineering, Institute of Oceanography, Shanghai Jiao Tong University, Dongchuan Rd. 800, 200240, Shanghai, People's Republic of China.
| | - Piet N L Lens
- UNESCO-IHE, Westvest-7, P.O. Box 3015, 2601, DA, Delft, the Netherlands
- National University of Ireland Galway, University Road, Galway, H91 TK33, Ireland
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35
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Bhattarai S, Cassarini C, Rene ER, Zhang Y, Esposito G, Lens PNL. Enrichment of sulfate reducing anaerobic methane oxidizing community dominated by ANME-1 from Ginsburg Mud Volcano (Gulf of Cadiz) sediment in a biotrickling filter. Bioresour Technol 2018; 259:433-441. [PMID: 29602106 DOI: 10.1016/j.biortech.2018.03.018] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/01/2018] [Revised: 03/01/2018] [Accepted: 03/02/2018] [Indexed: 06/08/2023]
Abstract
This study was performed to enrich anaerobic methane-oxidizing archaea (ANME) present in sediment from the Ginsburg Mud Volcano (Gulf of Cadiz) in a polyurethane foam packed biotrickling filter (BTF). The BTF was operated at 20 (±2) °C, ambient pressure with continuous supply of methane for 248 days. Sulfate reduction with simultaneous sulfide production (accumulating ∼7 mM) after 200 days of BTF operation evidenced anaerobic oxidation of methane (AOM) coupled to sulfate reduction. High-throughput sequence analysis of 16S rRNA genes showed that after 248 days of BTF operation, the ANME clades enriched to more than 50% of the archaeal sequences, including ANME-1b (40.3%) and ANME-2 (10.0%). Enrichment of the AOM community was beneficial to Desulfobacteraceae, which increased from 0.2% to 1.8%. Both the inoculum and the BTF enrichment contained large populations of anaerobic sulfur oxidizing bacteria, suggesting extensive sulfur cycling in the BTF.
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Affiliation(s)
- Susma Bhattarai
- UNESCO-IHE, Institute for Water Education, Westvest 7, P.O. Box 3015, 2601 DA Delft, The Netherlands.
| | - Chiara Cassarini
- UNESCO-IHE, Institute for Water Education, Westvest 7, P.O. Box 3015, 2601 DA Delft, The Netherlands; National University of Ireland Galway, University Road, Galway H91 TK33, Ireland
| | - Eldon R Rene
- UNESCO-IHE, Institute for Water Education, Westvest 7, P.O. Box 3015, 2601 DA Delft, The Netherlands
| | - Yu Zhang
- State Key Laboratory of Ocean Engineering, Shanghai Jiao Tong University, Dongchuan Road 800, 200240 Shanghai, China; Institute of Oceanography, Shanghai Jiao Tong University, Dongchuan Road 800, 200240 Shanghai, China
| | - Giovanni Esposito
- Department of Civil and Mechanical Engineering, University of Cassino and Southern Lazio, via Di Biasio 43, 03043 Cassino, FR, Italy
| | - Piet N L Lens
- UNESCO-IHE, Institute for Water Education, Westvest 7, P.O. Box 3015, 2601 DA Delft, The Netherlands; National University of Ireland Galway, University Road, Galway H91 TK33, Ireland
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36
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Bhattarai S, Cassarini C, Gonzalez-Gil G, Egger M, Slomp CP, Zhang Y, Esposito G, Lens PNL. Anaerobic Methane-Oxidizing Microbial Community in a Coastal Marine Sediment: Anaerobic Methanotrophy Dominated by ANME-3. Microb Ecol 2017; 74:608-622. [PMID: 28389729 DOI: 10.1007/s00248-017-0978-y] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2016] [Accepted: 03/28/2017] [Indexed: 06/07/2023]
Abstract
The microbial community inhabiting the shallow sulfate-methane transition zone in coastal sediments from marine Lake Grevelingen (The Netherlands) was characterized, and the ability of the microorganisms to carry out anaerobic oxidation of methane coupled to sulfate reduction was assessed in activity tests. In vitro activity tests of the sediment with methane and sulfate demonstrated sulfide production coupled to the simultaneous consumption of sulfate and methane at approximately equimolar ratios over a period of 150 days. The maximum sulfate reduction rate was 5 μmol sulfate per gram dry weight per day during the incubation period. Diverse archaeal and bacterial clades were retrieved from the sediment with the majority of them clustered with Euryarchaeota, Thaumarcheota, Bacteroidetes, and Proteobacteria. The 16S rRNA gene sequence analysis showed that the sediment from marine Lake Grevelingen contained anaerobic methanotrophic Archaea (ANME) and methanogens as archaeal clades with a role in the methane cycling. ANME at the studied site mainly belong to the ANME-3 clade. This study provides one of the few reports for the presence of ANME-3 in a shallow coastal sediment. Sulfate-reducing bacteria from Desulfobulbus clades were found among the sulfate reducers, however, with very low relative abundance. Desulfobulbus has previously been commonly found associated with ANME, whereas in our study, ANME-3 and Desulfobulbus were not observed simultaneously in clusters, suggesting the possibility of independent AOM by ANME-3.
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Affiliation(s)
- Susma Bhattarai
- UNESCO-IHE, Westvest-7, P.O. Box 3015, Delft, 2601, DA, The Netherlands.
| | - Chiara Cassarini
- UNESCO-IHE, Westvest-7, P.O. Box 3015, Delft, 2601, DA, The Netherlands
| | | | - Matthias Egger
- Department of Earth Sciences - Geochemistry, Faculty of Geosciences, Utrecht University, P.O. Box 80021, 3508 TA, Utrecht, The Netherlands
- Center for Geomicrobiology, Department of Bioscience, Aarhus University, Ny Munkegade 114, 8000, Aarhus, Denmark
| | - Caroline P Slomp
- Department of Earth Sciences - Geochemistry, Faculty of Geosciences, Utrecht University, P.O. Box 80021, 3508 TA, Utrecht, The Netherlands
| | - Yu Zhang
- State Key Laboratory of Ocean Engineering, Shanghai Jiao Tong University, Dongchuan Rd. 800, Shanghai, 200240, People's Republic of China
| | - Giovanni Esposito
- Department of Civil and Mechanical Engineering, University of Cassino and Southern Lazio, via Di Biasio 43, 03043, Cassino, FR, Italy
| | - Piet N L Lens
- UNESCO-IHE, Westvest-7, P.O. Box 3015, Delft, 2601, DA, The Netherlands
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37
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Gao Y, Ryu H, Rittmann BE, Hussain A, Lee HS. Quantification of the methane concentration using anaerobic oxidation of methane coupled to extracellular electron transfer. Bioresour Technol 2017; 241:979-984. [PMID: 28637165 PMCID: PMC7362340 DOI: 10.1016/j.biortech.2017.06.053] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2017] [Revised: 06/06/2017] [Accepted: 06/10/2017] [Indexed: 06/07/2023]
Abstract
A biofilm anode acclimated with growth media containing acetate, then acetate+methane, and finally methane alone produced electrical current in a microbial electrochemical cell (MxC) fed with methane as the sole electron donor. Geobacter was the dominant genus for the bacterial domain (93%) in the biofilm anode, while methanogens (Methanocorpusculum labreanum and Methanosaeta concilii) accounted for 82% of the total archaeal clones in the biofilm. Fluorescence in situ hybridization (FISH) imaging clearly showed a biofilm of mixed bacteria and archaea, suggesting a syntrophic interaction between them for performing anaerobic oxidation of methane (AOM) in the biofilm anode. Measured cumulative coulombs were linearly correlated to the methane-gas concentration in the range of 10-99.97% (R2≥0.99) when the measurement was sustained for at least 50min Thus, cumulative coulombs over 50min could be used to quantify the methane concentration in gas samples.
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Affiliation(s)
- Yaohuan Gao
- Department of Civil and Environmental Engineering, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Hodon Ryu
- National Risk Management Research Laboratory, U.S. Environmental Protection Agency, 26 W. Martin Luther King Drive, Cincinnati, OH 45268, USA
| | - Bruce E Rittmann
- Biodesign Swette Center for Environmental Biotechnology, Arizona State University, Tempe, AZ 85287-5701, USA
| | - Abid Hussain
- Department of Civil and Environmental Engineering, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Hyung-Sool Lee
- Department of Civil and Environmental Engineering, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada.
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38
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Vaksmaa A, Guerrero-Cruz S, van Alen TA, Cremers G, Ettwig KF, Lüke C, Jetten MSM. Enrichment of anaerobic nitrate-dependent methanotrophic 'Candidatus Methanoperedens nitroreducens' archaea from an Italian paddy field soil. Appl Microbiol Biotechnol 2017; 101:7075-7084. [PMID: 28779290 PMCID: PMC5569662 DOI: 10.1007/s00253-017-8416-0] [Citation(s) in RCA: 66] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Revised: 06/27/2017] [Accepted: 06/28/2017] [Indexed: 01/06/2023]
Abstract
Paddy fields are a significant source of methane and contribute up to 20% of total methane emissions from wetland ecosystems. These inundated, anoxic soils featuring abundant nitrogen compounds and methane are an ideal niche for nitrate-dependent anaerobic methanotrophs. After 2 years of enrichment with a continuous supply of methane and nitrate as the sole electron donor and acceptor, a stable enrichment dominated by ‘Candidatus Methanoperedens nitroreducens’ archaea and ‘Candidatus Methylomirabilis oxyfera’ NC10 phylum bacteria was achieved. In this community, the methanotrophic archaea supplied the NC10 phylum bacteria with the necessary nitrite through nitrate reduction coupled to methane oxidation. The results of qPCR quantification of 16S ribosomal RNA (rRNA) gene copies, analysis of metagenomic 16S rRNA reads, and fluorescence in situ hybridization (FISH) correlated well and showed that after 2 years, ‘Candidatus Methanoperedens nitroreducens’ had the highest abundance of (2.2 ± 0.4 × 108) 16S rRNA copies per milliliter and constituted approximately 22% of the total microbial community. Phylogenetic analysis showed that the 16S rRNA genes of the dominant microorganisms clustered with previously described ‘Candidatus Methanoperedens nitroreducens ANME2D’ (96% identity) and ‘Candidatus Methylomirabilis oxyfera’ (99% identity) strains. The pooled metagenomic sequences resulted in a high-quality draft genome assembly of ‘Candidatus Methanoperedens nitroreducens Vercelli’ that contained all key functional genes for the reverse methanogenesis pathway and nitrate reduction. The diagnostic mcrA gene was 96% similar to ‘Candidatus Methanoperedens nitroreducens ANME2D’ (WP_048089615.1) at the protein level. The ‘Candidatus Methylomirabilis oxyfera’ draft genome contained the marker genes pmoCAB, mdh, and nirS and putative NO dismutase genes. Whole-reactor anaerobic activity measurements with methane and nitrate revealed an average methane oxidation rate of 0.012 mmol/h/L, with cell-specific methane oxidation rates up to 0.57 fmol/cell/day for ‘Candidatus Methanoperedens nitroreducens’. In summary, this study describes the first enrichment and draft genome of methanotrophic archaea from paddy field soil, where these organisms can contribute significantly to the mitigation of methane emissions.
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Affiliation(s)
- Annika Vaksmaa
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands.
| | - Simon Guerrero-Cruz
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands
| | - Theo A van Alen
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands
| | - Geert Cremers
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands
| | - Katharina F Ettwig
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands
| | - Claudia Lüke
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands
| | - Mike S M Jetten
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands.,Department of Biotechnology, Delft University of Technology, Delft, The Netherlands.,Soehngen Institute of Anaerobic Microbiology, Nijmegen, The Netherlands
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39
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Timmers PHA, Widjaja-Greefkes HCA, Plugge CM, Stams AJM. Evaluation and optimization of PCR primers for selective and quantitative detection of marine ANME subclusters involved in sulfate-dependent anaerobic methane oxidation. Appl Microbiol Biotechnol 2017; 101:5847-59. [PMID: 28620686 DOI: 10.1007/s00253-017-8338-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2017] [Revised: 05/07/2017] [Accepted: 05/08/2017] [Indexed: 01/08/2023]
Abstract
Since the discovery that anaerobic methanotrophic archaea (ANME) are involved in the anaerobic oxidation of methane coupled to sulfate reduction in marine sediments, different primers and probes specifically targeting the 16S rRNA gene of these archaea have been developed. Microbial investigation of the different ANME subtypes (ANME-1; ANME-2a, b, and c; and ANME-3) was mainly done in sediments where specific subtypes of ANME were highly enriched and methanogenic cell numbers were low. In different sediments with higher archaeal diversity and abundance, it is important that primers and probes targeting different ANME subtypes are very specific and do not detect other ANME subtypes or methanogens that are also present. In this study, primers and probes that were regularly used in AOM studies were tested in silico on coverage and specificity. Most of the previously developed primers and probes were not specific for the ANME subtypes, thereby not reflecting the actual ANME population in complex samples. Selected primers that showed good coverage and high specificity for the subclades ANME-1, ANME-2a/b, and ANME-2c were thoroughly validated using quantitative polymerase chain reaction (qPCR). From these qPCR tests, only certain combinations seemed suitable for selective amplification. After optimization of these primer sets, we obtained valid primer combinations for the selective detection and quantification of ANME-1, ANME-2a/b, and ANME-2c in samples where different ANME subtypes and possibly methanogens could be present. As a result of this work, we propose a standard workflow to facilitate selection of suitable primers for qPCR experiments on novel environmental samples.
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40
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Vaksmaa A, Jetten MSM, Ettwig KF, Lüke C. McrA primers for the detection and quantification of the anaerobic archaeal methanotroph 'Candidatus Methanoperedens nitroreducens'. Appl Microbiol Biotechnol 2017; 101:1631-1641. [PMID: 28084539 PMCID: PMC5266762 DOI: 10.1007/s00253-016-8065-8] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2016] [Revised: 12/05/2016] [Accepted: 12/07/2016] [Indexed: 12/31/2022]
Abstract
The nitrogen and methane cycles are important biogeochemical processes. Recently, ‘Candidatus Methanoperedens nitroreducens,’ archaea that catalyze nitrate-dependent anaerobic oxidation of methane (AOM), were enriched, and their genomes were analyzed. Diagnostic molecular tools for the sensitive detection of ‘Candidatus M. nitroreducens’ are not yet available. Here, we report the design of two novel mcrA primer combinations that specifically target the alpha sub-unit of the methyl-coenzyme M reductase (mcrA) gene of ‘Candidatus M. nitroreducens’. The first primer pair produces a fragment of 186-bp that can be used to quantify ‘Candidatus M. nitroreducens’ cells, whereas the second primer pair yields an 1191-bp amplicon that is with sufficient length and well suited for more detailed phylogenetic analyses. Six different environmental samples were evaluated with the new qPCR primer pair, and the abundances were compared with those determined using primers for the 16S rRNA gene. The qPCR results indicated that the number of copies of the ‘Candidatus M. nitroreducens’ mcrA gene was highest in rice field soil, with 5.6 ± 0.8 × 106 copies g−1 wet weight, whereas Indonesian river sediment had only 4.6 ± 2.7 × 102 copies g−1 wet weight. In addition to freshwater environments, sequences were also detected in marine sediment of the North Sea, which contained approximately 2.5 ± 0.7 × 104 copies g−1 wet weight. Phylogenetic analysis revealed that the amplified 1191-bp mcrA gene sequences from the different environments all clustered together with available genome sequences of mcrA from known ‘Candidatus M. nitroreducens’ archaea. Taken together, these results demonstrate the validity and utility of the new primers for the quantitative and sensitive detection of the mcrA gene sequences of these important nitrate-dependent AOM archaea. Furthermore, the newly obtained mcrA sequences will contribute to greater phylogenetic resolution of ‘Candidatus M. nitroreducens’ sequences, which have been only poorly captured by general methanogenic mcrA primers.
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Affiliation(s)
- Annika Vaksmaa
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands.
| | - Mike S M Jetten
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands.,Department of Biotechnology, Delft University of Technology, Delft, The Netherlands.,Soehngen Institute of Anaerobic Microbiology, Nijmegen, The Netherlands
| | - Katharina F Ettwig
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands
| | - Claudia Lüke
- Department of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands.
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41
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Lu YZ, Fu L, Ding J, Ding ZW, Li N, Zeng RJ. Cr(VI) reduction coupled with anaerobic oxidation of methane in a laboratory reactor. Water Res 2016; 102:445-452. [PMID: 27395029 DOI: 10.1016/j.watres.2016.06.065] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2016] [Revised: 06/13/2016] [Accepted: 06/30/2016] [Indexed: 06/06/2023]
Abstract
The process of anaerobic oxidation of methane (AOM) is globally important because of its contribution to the carbon cycle in the environment. Besides, microorganisms play important roles in the environmental fate of chromium. However, there have been no studies to date on the interaction between methane and chromium in batch reactor systems. In this study, biological Cr(VI) reduction was investigated using methane as the sole electron donor. Isotopic (13)CH4 in the batch experiments and long-term performance in the reactor demonstrated that Cr(VI) reduction is coupled with methane oxidation. High-throughput sequencing of the 16S rRNA genes demonstrated that the microbial community had changed substantially after Cr(VI) reduction. The populations of ANME-2d archaea were enhanced, and they became the only predominant AOM-related microbe. Interestingly, other bacteria with significant increases in abundance were not reported as having the ability to reduce Cr(VI). According to these results, two mechanisms were proposed: 1) Cr(VI) is reduced by ANME-2d alone; 2) Cr(VI) is reduced by unknown Cr(VI)-reducing microbes coupled with ANME-2d. This study revealed the potential relationship between Cr(VI) reduction and CH4 oxidation, and extended our knowledge of the relationship between the AOM process and biogeochemical cycles.
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Affiliation(s)
- Yong-Ze Lu
- CAS Key Laboratory for Urban Pollutant Conversion, Department of Chemistry, University of Science & Technology of China, Hefei 230026, China
| | - Liang Fu
- CAS Key Laboratory for Urban Pollutant Conversion, Department of Chemistry, University of Science & Technology of China, Hefei 230026, China
| | - Jing Ding
- Advanced Laboratory for Environmental Research and Technology, USTC-CityU, Suzhou 215123, China
| | - Zhao-Wei Ding
- CAS Key Laboratory for Urban Pollutant Conversion, Department of Chemistry, University of Science & Technology of China, Hefei 230026, China
| | - Na Li
- CAS Key Laboratory for Urban Pollutant Conversion, Department of Chemistry, University of Science & Technology of China, Hefei 230026, China
| | - Raymond J Zeng
- CAS Key Laboratory for Urban Pollutant Conversion, Department of Chemistry, University of Science & Technology of China, Hefei 230026, China; Advanced Laboratory for Environmental Research and Technology, USTC-CityU, Suzhou 215123, China.
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42
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Trembath-Reichert E, Case DH, Orphan VJ. Characterization of microbial associations with methanotrophic archaea and sulfate-reducing bacteria through statistical comparison of nested Magneto-FISH enrichments. PeerJ 2016; 4:e1913. [PMID: 27114874 PMCID: PMC4841229 DOI: 10.7717/peerj.1913] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2016] [Accepted: 03/18/2016] [Indexed: 11/20/2022] Open
Abstract
Methane seep systems along continental margins host diverse and dynamic microbial assemblages, sustained in large part through the microbially mediated process of sulfate-coupled Anaerobic Oxidation of Methane (AOM). This methanotrophic metabolism has been linked to consortia of anaerobic methane-oxidizing archaea (ANME) and sulfate-reducing bacteria (SRB). These two groups are the focus of numerous studies; however, less is known about the wide diversity of other seep associated microorganisms. We selected a hierarchical set of FISH probes targeting a range of Deltaproteobacteria diversity. Using the Magneto-FISH enrichment technique, we then magnetically captured CARD-FISH hybridized cells and their physically associated microorganisms from a methane seep sediment incubation. DNA from nested Magneto-FISH experiments was analyzed using Illumina tag 16S rRNA gene sequencing (iTag). Enrichment success and potential bias with iTag was evaluated in the context of full-length 16S rRNA gene clone libraries, CARD-FISH, functional gene clone libraries, and iTag mock communities. We determined commonly used Earth Microbiome Project (EMP) iTAG primers introduced bias in some common methane seep microbial taxa that reduced the ability to directly compare OTU relative abundances within a sample, but comparison of relative abundances between samples (in nearly all cases) and whole community-based analyses were robust. The iTag dataset was subjected to statistical co-occurrence measures of the most abundant OTUs to determine which taxa in this dataset were most correlated across all samples. Many non-canonical microbial partnerships were statistically significant in our co-occurrence network analysis, most of which were not recovered with conventional clone library sequencing, demonstrating the utility of combining Magneto-FISH and iTag sequencing methods for hypothesis generation of associations within complex microbial communities. Network analysis pointed to many co-occurrences containing putatively heterotrophic, candidate phyla such as OD1, Atribacteria, MBG-B, and Hyd24-12 and the potential for complex sulfur cycling involving Epsilon-, Delta-, and Gammaproteobacteria in methane seep ecosystems.
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Affiliation(s)
- Elizabeth Trembath-Reichert
- Department of Geological and Planetary Sciences, California Institute of Technology , Pasadena, CA , United States
| | - David H Case
- Department of Geological and Planetary Sciences, California Institute of Technology , Pasadena, CA , United States
| | - Victoria J Orphan
- Department of Geological and Planetary Sciences, California Institute of Technology , Pasadena, CA , United States
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43
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Suarez-Zuluaga DA, Timmers PHA, Plugge CM, Stams AJM, Buisman CJN, Weijma J. Thiosulphate conversion in a methane and acetate fed membrane bioreactor. Environ Sci Pollut Res Int 2016; 23:2467-2478. [PMID: 26423279 PMCID: PMC4717173 DOI: 10.1007/s11356-015-5344-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/10/2015] [Accepted: 08/31/2015] [Indexed: 06/05/2023]
Abstract
The use of methane and acetate as electron donors for biological reduction of thiosulphate in a 5-L laboratory membrane bioreactor was studied and compared to disproportionation of thiosulphate as competing biological reaction. The reactor was operated for 454 days in semi-batch mode; 30 % of its liquid phase was removed and periodically replenished (days 77, 119, 166, 258, 312 and 385). Although the reactor was operated under conditions favourable to promote thiosulphate reduction coupled to methane oxidation, thiosulphate disproportionation was the dominant microbial process. Pyrosequencing analysis showed that the most abundant microorganisms in the bioreactor were phototrophic green sulphur bacteria (GSB) belonging to the family Chlorobiaceae and thiosulphate-disproportionating bacteria belonging to the genus Desulfocapsa. Even though the reactor system was surrounded with opaque plastic capable of filtering most of the light, the GSB used it to oxidize the hydrogen sulphide produced from thiosulphate disproportionation to elemental sulphur. Interrupting methane and acetate supply did not have any effect on the microbial processes taking place. The ultimate goal of our research was to develop a process that could be applied for thiosulphate and sulphate removal and biogenic sulphide formation for metal precipitation. Even though the system achieved in this study did not accomplish the targeted conversion using methane as electron donor, it does perform microbial conversions which allow to directly obtain elemental sulphur from thiosulphate.
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Affiliation(s)
- Diego A Suarez-Zuluaga
- Sub-Department of Environmental Technology, Wageningen University, Bornse Weilanden 9, 6700 AA, Wageningen, The Netherlands
| | - Peer H A Timmers
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB, Wageningen, The Netherlands
| | - Caroline M Plugge
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB, Wageningen, The Netherlands
| | - Alfons J M Stams
- Laboratory of Microbiology, Wageningen University, Dreijenplein 10, 6703 HB, Wageningen, The Netherlands
| | - Cees J N Buisman
- Sub-Department of Environmental Technology, Wageningen University, Bornse Weilanden 9, 6700 AA, Wageningen, The Netherlands
| | - Jan Weijma
- Sub-Department of Environmental Technology, Wageningen University, Bornse Weilanden 9, 6700 AA, Wageningen, The Netherlands.
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Haroon MF, Skennerton CT, Steen JA, Lachner N, Hugenholtz P, Tyson GW. In-solution fluorescence in situ hybridization and fluorescence-activated cell sorting for single cell and population genome recovery. Methods Enzymol 2013; 531:3-19. [PMID: 24060113 DOI: 10.1016/b978-0-12-407863-5.00001-0] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/08/2022]
Abstract
Over the past decade, technological advances in whole genome amplification, microfluidics, flow sorting, and high-throughput sequencing have led to the development of single-cell genomics. Single-cell genomic approaches are typically applied to anonymous microbial cells with only morphology providing clues to their identity. However, targeted separation of microorganisms based on phylogenetic markers, such as the 16S rRNA gene, is beginning to emerge in the single-cell genomics field. Here, we describe an in-solution fluorescence in situ hybridization (FISH) protocol which can be combined with fluorescence-activated cell sorting (FACS) for separation of single cells or populations of interest from environmental samples. Sequencing of DNA obtained from sorted cells can be used for the recovery of draft quality genomes, and when performed in parallel with deep metagenomics, can be used to validate and further scaffold metagenomic assemblies. We illustrate in this chapter the feasibility of this FISH-FACS approach by describing the targeted recovery of a novel anaerobic methanotrophic archaeon.
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Affiliation(s)
- Mohamed F Haroon
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia, Queensland, Australia
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