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Iso S, Sato Y, Kimura H. Impacts of Groundwater Pumping on Subterranean Microbial Communities in a Deep Aquifer Associated with an Accretionary Prism. Microorganisms 2024; 12:679. [PMID: 38674625 PMCID: PMC11052133 DOI: 10.3390/microorganisms12040679] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2024] [Revised: 03/23/2024] [Accepted: 03/25/2024] [Indexed: 04/28/2024] Open
Abstract
Accretionary prisms are composed mainly of ancient marine sediment scraped from the subducting oceanic plate at convergent plate boundaries. Anoxic groundwater is stored in deep aquifers associated with accretionary prisms and can be collected via deep wells. We investigated how such groundwater pumping affects the microbial community in a deep aquifer. Groundwater samples were collected from a deep well drilled down to 1500 m every six months (five times in total) after completion of deep well construction and the start of groundwater pumping. Next-generation sequencing and clone-library analyses of 16S rRNA genes were used to describe the subterranean microbial communities in the samples. The archaea: the prokaryote ratio in groundwater increased significantly from 1 to 7% (0 and 7 months after initiating groundwater pumping) to 59 to 72% (13, 19, and 26 months after initiating groundwater pumping), and dominant prokaryotes changed from fermentative bacteria to sulfate-reducing archaea. The optimal growth temperature of the sulfate-reducing archaea, estimated based on the guanine-plus-cytosine contents of their 16S rRNA genes, was 48-52 °C, which agreed well with the groundwater temperature at the deep-well outflow. Our results indicated that, in deep aquifers, groundwater pumping enhances groundwater flow, and the supply of sulfate-containing seawater activates the metabolism of thermophilic sulfate-reducing archaea.
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Affiliation(s)
- Shinsei Iso
- Department of Science, Graduate School of Integrated Science and Technology, Shizuoka University, Shizuoka 422-8529, Japan
| | - Yu Sato
- Research Center for Thermotolerant Microbial Resources, Yamaguchi University, Yamaguchi 753-8515, Japan;
| | - Hiroyuki Kimura
- Department of Science, Graduate School of Integrated Science and Technology, Shizuoka University, Shizuoka 422-8529, Japan
- Department of Geosciences, Faculty of Science, Shizuoka University, Shizuoka 422-8529, Japan
- Research Institute of Green Science and Technology, Shizuoka University, Shizuoka 422-8529, Japan
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2
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Khomyakova MA, Merkel AY, Slobodkin AI, Sorokin DY. Phenotypic and genomic characterization of the first alkaliphilic aceticlastic methanogens and proposal of a novel genus Methanocrinis gen.nov. within the family Methanotrichaceae. Front Microbiol 2023; 14:1233691. [PMID: 37886072 PMCID: PMC10598746 DOI: 10.3389/fmicb.2023.1233691] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2023] [Accepted: 09/12/2023] [Indexed: 10/28/2023] Open
Abstract
Highly purified cultures of alkaliphilic aceticlastic methanogens were collected for the first time using methanogenic enrichments with acetate from a soda lake and a terrestrial mud volcano. The cells of two strains were non-motile rods forming filaments. The mud volcano strain M04Ac was alkalitolerant, with the pH range for growth from 7.5 to 10.0 (optimum at 9.0), while the soda lake strain Mx was an obligate alkaliphile growing in the pH range 7.7-10.2 (optimum 9.3-9.5) in the presence of optimally 0.2-0.3 M total Na+. Genomes of both strains encoded all enzymes required for aceticlastic methanogenesis and different mechanisms of (halo)alkaline adaptations, including ectoine biosynthesis, which is the first evidence for the formation of this osmoprotectant in archaea. According to 16S rRNA gene phylogeny, the strains possessed 98.3-98.9% sequence identity and belonged to the obligately aceticlastic genus Methanothrix with M. harundinaceae as the most closely related species. However, a more advanced phylogenomic reconstruction based on 122 conserved single-copy archaeal protein-coding marker genes clearly indicated a polyphyletic origin of the species included in the genus Methanothrix. We propose to reclassify Methanothrix harrundinacea (type strain 8AcT) into a new genus, Methanocrinis gen. nov., with the type species Methanocrinis harrundinaceus comb. nov. We also propose under SeqCode the complete genome sequences of strain MxTs (GCA_029167045.1) and strain M04AcTs (GCA_029167205.1) as nomenclatural types of Methanocrinis natronophilus sp. nov. and Methanocrinis alkalitolerans sp. nov., respectively, which represent other species of the novel genus. This work demonstrates that the low energy aceticlastic methanogenesis may function at extreme conditions present in (halo)alkaline habitats.
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Affiliation(s)
- Maria A. Khomyakova
- Winogradsky Institute of Microbiology, FRC Biotechnology Russian Academy of Sciences, Moscow, Russia
| | - Alexander Y. Merkel
- Winogradsky Institute of Microbiology, FRC Biotechnology Russian Academy of Sciences, Moscow, Russia
| | - Alexander I. Slobodkin
- Winogradsky Institute of Microbiology, FRC Biotechnology Russian Academy of Sciences, Moscow, Russia
| | - Dimitry Y. Sorokin
- Winogradsky Institute of Microbiology, FRC Biotechnology Russian Academy of Sciences, Moscow, Russia
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
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Sheng Q, Lu Y, Yuan S, Li X, Dai X, Guo Y, Dong B. Effect of nitrite on hydrolysis-acidification, biogas production and microbial community in semi-continuous two-phase anaerobic digestion of sewage sludge. J Environ Sci (China) 2023; 126:434-444. [PMID: 36503770 DOI: 10.1016/j.jes.2022.05.020] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Revised: 05/09/2022] [Accepted: 05/10/2022] [Indexed: 06/17/2023]
Abstract
Previous study found that the pre-treatment of sewage sludge with nitrite improves the biogas production during the mono/two-phase anaerobic digestion (AD) using batch biochemical methane potential tests. In this study, the effects of nitrite on hydrolysis-acidification, biogas production, volatile solids destruction and microbial composition in semi-continuous two-phase AD of sewage sludge were investigated. The addition of nitrite promotes sludge organic matter solubilization (+484%) and VFAs production (+98.9%), and causes an increase in the VS degradation rate during the AD process (+8.7%). The comparison of biogas production from the acidogenic and methanogenic reactors with or without the addition of nitrite implies that the nitrite has no significant effect on the overall biogas production of two-phase sludge AD process. High-throughput sequencing analysis shows that the microbial communities of bacteria and archaea in two-phase AD reactors significantly changes after the addition of nitrite. Vulcanibacillus (bacteria) and Candidatus Methanofastidiosum (archaea) become the dominant genera in the acidogenic and methanogenic reactors with the nitrite respectively. These findings provide new insights about using nitrite to promote the organic matter degradation of sewage sludge in a semi-continuous two-phase AD system.
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Affiliation(s)
- Qian Sheng
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Yiqing Lu
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Shijie Yuan
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Xiaowei Li
- School of Environmental and Chemical Engineering, Organic Compound Pollution Control Engineering, Ministry of Education, Shanghai University, Shanghai 200444, China.
| | - Xiaohu Dai
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China
| | - Yali Guo
- Shanghai Investigation Design & Research Institute Co. Ltd., Shanghai 200335, China
| | - Bin Dong
- State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, China; Shanghai Investigation Design & Research Institute Co. Ltd., Shanghai 200335, China; YANGTZE Eco-Environment Engineering Research Center, China Three Gorges Corporation, Beijing 100038, China.
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Saha S, Hussain A, Lee J, Lee E, Lee HS. An integrated leachate bed reactor - anaerobic membrane bioreactor system (LBR-AnMBR) for food waste stabilization and biogas recovery. CHEMOSPHERE 2023; 311:137054. [PMID: 36397635 DOI: 10.1016/j.chemosphere.2022.137054] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Revised: 10/23/2022] [Accepted: 10/26/2022] [Indexed: 06/16/2023]
Abstract
This study developed an integrated LBR - AnMBR system for efficient stabilization and biogas recovery from food waste (FW) at room temperatures (21-22 °C). First, the leachate recirculation rate (4.4-13.2 L/h) was optimized to maximize hydrolysis and acidification yields. The maximum hydrolysis yield of 551 gSCOD/kg VSadded was achieved at recirculation rate of 13.2 L/h. The VFA concentrations in the FW leachate was as high as 12.5-16.0 g/L, resulting in a high acidification of 468 g CODVFA/kg VS. The solubilized FW was further stabilized by feeding the leachate to AnMBR. Different hydraulic (HRT) and solids retention times (SRT) were tested to achieve high COD removal and methane yields. High COD removal of 86 ± 3% was obtained in the AnMBR at HRT of 13 and SRT of 75 days. High biogas recovery of about 850 kWh per ton FWtreated was achieved along with high quality of AnMBR permeates containing low COD concentration but advantageously high concentration of nutrients (NH4+-N 317-403 mg/L, total phosphate 23-213 mg/L) without any particulates, which can be reused for landscape or liquid fertilizer.
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Affiliation(s)
- Swakshar Saha
- Dept Civil & Environmental Engineering, University of Waterloo 200 University Ave W, Waterloo, Ontario, Canada, N2L 3G1
| | - Abid Hussain
- Dept Civil & Environmental Engineering, Carleton University, 1125 Colonel By Drive, Ottawa, Ontario, Canada, K1S 5B6
| | - Jangho Lee
- Dept Civil & Environmental Engineering, University of Waterloo 200 University Ave W, Waterloo, Ontario, Canada, N2L 3G1
| | - Eunseok Lee
- KENTECH Institute for Environmental and Climate Technology, Korea Institute of Energy Technology (KENTECH), 200 Hyeoksin-ro, Naju, 58330, Republic of Korea
| | - Hyung-Sool Lee
- Dept Civil & Environmental Engineering, University of Waterloo 200 University Ave W, Waterloo, Ontario, Canada, N2L 3G1; KENTECH Institute for Environmental and Climate Technology, Korea Institute of Energy Technology (KENTECH), 200 Hyeoksin-ro, Naju, 58330, Republic of Korea.
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Electrode Microbial Communities Associated with Electron Donor Source Types in a Bioelectrochemical System Treating Azo-Dye Wastewater. WATER 2022. [DOI: 10.3390/w14091505] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/07/2022]
Abstract
Bioelectrochemical systems (BESs) have been acknowledged to be an efficient technology for refractory pollution treatment. An electron donor is as an indispensable element of BES, and domestic wastewater (DW) has been proved as a cost-efficient and accessible alternative option to expensive carbon sources (such as acetate and glucose), yet its effect on microbial community evolution has not been thoroughly revealed. In this study, the electrode microbial communities from BESs treating azo dye wastewater fed by DW (RDW), acetate (RAc), and glucose (RGlu) were systematically revealed based on 16S rRNA Illumina MiSeq sequencing platform. It was found that there were significant differences between three groups in microbial community structures. Desulfovibrio, Acinetobacter, and Klebsiella were identified as the predominant bacterial genera in RDW, RAc, and RGlu, respectively. Methanosaeta, the most enriched methanogen in all reactors, had a relative lower abundance in RDW. Microbial communities in RAc and RGlu were sensitive to electrode polarity while RDW was sensitive to electrode position. Compared with pure substrates, DW increased the diversity of microbial community and, thus, may enhance the stability of electrode biofilm. This study provides an insight into the microbial response mechanism to the electron donors and provides engineering implications for the development of BES.
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Functional Insights of Salinity Stress-Related Pathways in Metagenome-Resolved Methanothrix Genomes. Appl Environ Microbiol 2022; 88:e0244921. [PMID: 35477253 PMCID: PMC9128505 DOI: 10.1128/aem.02449-21] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Recently, methanogenic archaea belonging to the genus Methanothrix were reported to have a fundamental role in maintaining stable ecosystem functioning in anaerobic bioreactors under different configurations/conditions. In this study, we reconstructed three Methanothrix metagenome-assembled genomes (MAGs) from granular sludge collected from saline upflow anaerobic sludge blanket (UASB) reactors, where Methanothrix harundinacea was previously implicated with the formation of compact and stable granules under elevated salinity levels (up to 20 g/L Na+). Genome annotation and pathway analysis of the Methanothrix MAGs revealed a genetic repertoire supporting their growth under high salinity. Specifically, the most dominant Methanothrix (MAG_279), classified as a subspecies of Methanothrix_A harundinacea_D, had the potential to augment its salinity resistance through the production of different glycoconjugates via the N-glycosylation process, and via the production of compatible solutes as Nε-acetyl-β-lysine and ectoine. The stabilization and reinforcement of the cell membrane via the production of isoprenoids was identified as an additional stress-related pathway in this microorganism. The improved understanding of the salinity stress-related mechanisms of M. harundinacea highlights its ecological niche in extreme conditions, opening new perspectives for high-efficiency methanisation of organic waste at high salinities, as well as the possible persistence of this methanogen in highly-saline natural anaerobic environments. IMPORTANCE Using genome-centric metagenomics, we discovered a new Methanothrix harundinacea subspecies that appears to be a halotolerant acetoclastic methanogen with the flexibility for adaptation in the anaerobic digestion process both at low (5 g/L Na+) and high salinity conditions (20 g/L Na+). Annotation of the recovered M. harundinacea genome revealed salinity stress-related functions, including the modification of EPS glycoconjugates and the production of compatible solutes. This is the first study reporting these genomic features within a Methanothrix sp., a milestone further supporting previous studies that identified M. harundinacea as a key-driver in anaerobic granulation under high salinity stress.
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Rowe A, Urbanic M, Trutschel L, Shukle J, Druschel G, Booth M. Sediment Disturbance Negatively Impacts Methanogen Abundance but Has Variable Effects on Total Methane Emissions. Front Microbiol 2022; 13:796018. [PMID: 35265057 PMCID: PMC8899539 DOI: 10.3389/fmicb.2022.796018] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2021] [Accepted: 02/02/2022] [Indexed: 11/16/2022] Open
Abstract
Methane emissions from aquatic ecosystems are increasingly recognized as substantial, yet variable, contributions to global greenhouse gas emissions. This is in part due to the challenge of modeling biologic parameters that affect methane emissions from a wide range of sediments. For example, the impacts of fish bioturbation on methane emissions in the literature have been shown to result in a gradient of reduced to enhanced emissions from sediments. However, it is likely that variation in experimental fish density, and consequently the frequency of bioturbation by fish, impacts this outcome. To explore how the frequency of disturbance impacts the levels of methane emissions in our previous work we quantified greenhouse gas emissions in sediment microcosms treated with various frequencies of mechanical disturbance, analogous to different levels of activity in benthic feeding fish. Greenhouse gas emissions were largely driven by methane ebullition and were highest for the intermediate disturbance frequency (disturbance every 7 days). The lowest emissions were for the highest frequency treatment (3 days). This work investigated the corresponding impacts of disturbance treatments on the microbial communities associated with producing methane. In terms of total microbial community structure, no statistical difference was observed in the total community structure of any disturbance treatment (0, 3, 7, and 14 days) or sediment depth (1 and 3 cm) measured. Looking specifically at methanogenic Archaea however, a shift toward greater relative abundance of a putatively oxygen-tolerant methanogenic phylotype (ca. Methanothrix paradoxum) was observed for the highest frequency treatments and at depths impacted by disturbance (1 cm). Notably, quantitative analysis of ca. Methanothrix paradoxum demonstrated no change in abundance, suggesting disturbance negatively and preferentially impacted other methanogen populations, likely through oxygen exposure. This was further supported by a linear decrease in quantitative abundance of methanogens (assessed by qPCR of the mcrA gene), with increased disturbance frequency in bioturbated sediments (1 cm) as opposed to those below the zone of bioturbation (3 cm). However, total methane emissions were not simply a function of methanogen populations and were likely impacted by the residence time of methane in the lower frequency disturbance treatments. Low frequency mechanical disruption results in lower methane ebullition compared to higher frequency treatments, which in turn resulted in reduced overall methane release, likely through enhanced methanotrophic activities, though this could not be identified in this work. Overall, this work contributes to understanding how animal behavior may impact variation in greenhouse gas emissions and provides insight into how frequency of disturbance may impact emissions.
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Affiliation(s)
- Annette Rowe
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, United States
| | - Megan Urbanic
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, United States
| | - Leah Trutschel
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, United States
| | - John Shukle
- Department of Earth Sciences, Indiana University-Purdue University Indianapolis, Indianapolis, IND, United States
| | - Gregory Druschel
- Department of Earth Sciences, Indiana University-Purdue University Indianapolis, Indianapolis, IND, United States
| | - Michael Booth
- Department of Biological Sciences, University of Cincinnati, Cincinnati, OH, United States
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Wang Y, Mairinger W, Raj SJ, Yakubu H, Siesel C, Green J, Durry S, Joseph G, Rahman M, Amin N, Hassan MZ, Wicken J, Dourng D, Larbi E, Adomako LAB, Senayah AK, Doe B, Buamah R, Tetteh-Nortey JNN, Kang G, Karthikeyan A, Roy S, Brown J, Muneme B, Sene SO, Tuffuor B, Mugambe RK, Bateganya NL, Surridge T, Ndashe GM, Ndashe K, Ban R, Schrecongost A, Moe CL. Quantitative assessment of exposure to fecal contamination in urban environment across nine cities in low-income and lower-middle-income countries and a city in the United States. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 763:143007. [PMID: 34718001 DOI: 10.1016/j.scitotenv.2020.143007] [Citation(s) in RCA: 48] [Impact Index Per Article: 24.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2020] [Revised: 10/08/2020] [Accepted: 10/08/2020] [Indexed: 05/23/2023]
Abstract
BACKGROUND During 2014 to 2019, the SaniPath Exposure Assessment Tool, a standardized set of methods to evaluate risk of exposure to fecal contamination in the urban environment through multiple exposure pathways, was deployed in 45 neighborhoods in ten cities, including Accra and Kumasi, Ghana; Vellore, India; Maputo, Mozambique; Siem Reap, Cambodia; Atlanta, United States; Dhaka, Bangladesh; Lusaka, Zambia; Kampala, Uganda; Dakar, Senegal. OBJECTIVE Assess and compare risk of exposure to fecal contamination via multiple pathways in ten cities. METHODS In total, 4053 environmental samples, 4586 household surveys, 128 community surveys, and 124 school surveys were collected. E. coli concentrations were measured in environmental samples as an indicator of fecal contamination magnitude. Bayesian methods were used to estimate the distributions of fecal contamination concentration and contact frequency. Exposure to fecal contamination was estimated by the Monte Carlo method. The contamination levels of ten environmental compartments, frequency of contact with those compartments for adults and children, and estimated exposure to fecal contamination through any of the surveyed environmental pathways were compared across cities and neighborhoods. RESULTS Distribution of fecal contamination in the environment and human contact behavior varied by city. Universally, food pathways were the most common dominant route of exposure to fecal contamination across cities in low-income and lower-middle-income countries. Risks of fecal exposure via water pathways, such as open drains, flood water, and municipal drinking water, were site-specific and often limited to smaller geographic areas (i.e., neighborhoods) instead of larger areas (i.e., cities). CONCLUSIONS Knowledge of the relative contribution to fecal exposure from multiple pathways, and the environmental contamination level and frequency of contact for those "dominant pathways" could provide guidance for Water, Sanitation, and Hygiene (WASH) programming and investments and enable local governments and municipalities to improve intervention strategies to reduce the risk of exposure to fecal contamination.
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Affiliation(s)
- Yuke Wang
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA.
| | - Wolfgang Mairinger
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA
| | - Suraja J Raj
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA
| | - Habib Yakubu
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA
| | - Casey Siesel
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA
| | - Jamie Green
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA
| | - Sarah Durry
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA
| | - George Joseph
- Water Global Practice, The World Bank, Washington, DC, USA
| | - Mahbubur Rahman
- Environmental Interventions Unit, Infectious Disease Division, International Centre for Diarrhoeal Disease Research, Bangladesh (icddr,b), Dhaka, Bangladesh
| | - Nuhu Amin
- Environmental Interventions Unit, Infectious Disease Division, International Centre for Diarrhoeal Disease Research, Bangladesh (icddr,b), Dhaka, Bangladesh
| | | | | | | | - Eugene Larbi
- Training Research and Networking for Development (TREND), Accra, Ghana
| | | | | | - Benjamin Doe
- Training Research and Networking for Development (TREND), Accra, Ghana
| | - Richard Buamah
- Department of Civil Engineering, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana
| | | | - Gagandeep Kang
- Wellcome Research Laboratory, Christian Medical College, Vellore, India
| | - Arun Karthikeyan
- Wellcome Research Laboratory, Christian Medical College, Vellore, India
| | - Sheela Roy
- Wellcome Research Laboratory, Christian Medical College, Vellore, India
| | - Joe Brown
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA, USA
| | - Bacelar Muneme
- Water Supply and Mapping, WE Consult, Maputo, Mozambique
| | - Seydina O Sene
- Initiative Prospective Agricole et Rurale (IPAR), Dakar, Senegal
| | - Benedict Tuffuor
- Training Research and Networking for Development (TREND), Accra, Ghana
| | - Richard K Mugambe
- Department of Disease Control and Environmental Health, Makerere University School of Public Health, Kampala, Uganda
| | - Najib Lukooya Bateganya
- Department of Environment and Public Health, Kampala Capital City Authority, Kampala, Uganda
| | - Trevor Surridge
- Deutsche Gesellschaft für Internationale Zusammenarbeit (GIZ) GmbH, Lusaka, Zambia
| | | | - Kunda Ndashe
- Department of Environmental Health, Faculty of Health Science, Lusaka Apex Medical University, Lusaka, Zambia
| | - Radu Ban
- Bill & Melinda Gates Foundation, Seattle, WA, USA
| | | | - Christine L Moe
- Center for Global Safe Water, Sanitation, and Hygiene, Hubert Department of Global Health, Rollins School of Public Health, Emory University, Atlanta, GA, USA
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Enhanced ex-situ biomethanation of hydrogen and carbon dioxide in a trickling filter bed reactor. Biochem Eng J 2022. [DOI: 10.1016/j.bej.2021.108311] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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10
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Zheng S, Li M, Liu Y, Liu F. Desulfovibrio feeding Methanobacterium with electrons in conductive methanogenic aggregates from coastal zones. WATER RESEARCH 2021; 202:117490. [PMID: 34364064 DOI: 10.1016/j.watres.2021.117490] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 06/23/2021] [Accepted: 07/26/2021] [Indexed: 06/13/2023]
Abstract
Geobacter, as a typical electroactive microorganism, is the "engine" of interspecies electron transfer (IET) between microorganisms. However, it does not have a dominant position in all natural environments. It is not known what performs a similar function as Geobacter in coastal zones. Metagenomic and metatranscriptomic analysis revealed that Desulfovibrio and Methanobacterium species were the most abundant in electrochemically active aggregates. Metatranscriptomic analysis showed that Desulfovibrio species highly expressed genes for ethanol metabolism and extracellular electron transfer involving cytochromes, pili and flagella. Methanobacterium species in the aggregates also expressed genes for enzymes involved in reducing carbon dioxide to methane. Pure cultures demonstrated that the isolated Desulfovibrio sp. strain JY contributed to aggregate conductivity and directly transferred electrons to Methanothrix harundinacea, which is unable to use H2 or formate. Most importantly, further coculture studies indicated that Methanobacterium strain YSL might directly accept electrons from the Desulfovibrio strain JY for the reduction of carbon dioxide to methane in the aggregate. This finding suggested that the possibility of DIET by Desulfovibrio similar to Geobacter species in conductive methanogenic aggregates can not be excluded.
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Affiliation(s)
- Shiling Zheng
- Key Laboratory of Coastal Biology and Biological Resources Utilization, CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, 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
| | - Meng Li
- Institute for Advanced Study, Shenzhen University, Shenzhen, Guangdong, 518060, PR China
| | - Yang Liu
- Institute for Advanced Study, Shenzhen University, Shenzhen, Guangdong, 518060, PR China
| | - Fanghua Liu
- Key Laboratory of Coastal Biology and Biological Resources Utilization, CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, 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; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, PR China.
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11
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Malik PK, Trivedi S, Mohapatra A, Kolte AP, Sejian V, Bhatta R, Rahman H. Comparison of enteric methane yield and diversity of ruminal methanogens in cattle and buffaloes fed on the same diet. PLoS One 2021; 16:e0256048. [PMID: 34379691 PMCID: PMC8357158 DOI: 10.1371/journal.pone.0256048] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2021] [Accepted: 07/28/2021] [Indexed: 11/19/2022] Open
Abstract
An in vivo study was conducted to compare the enteric methane emissions and diversity of ruminal methanogens in cattle and buffaloes kept in the same environment and fed on the same diet. Six cattle and six buffaloes were fed on a similar diet comprising Napier (Pennisetum purpureum) green grass and concentrate in 70:30. After 90 days of feeding, the daily enteric methane emissions were quantified by using the SF6 technique and ruminal fluid samples from animals were collected for the diversity analysis. The daily enteric methane emissions were significantly greater in cattle as compared to buffaloes; however, methane yields were not different between the two species. Methanogens were ranked at different taxonomic levels against the Rumen and Intestinal Methanogen-Database. The archaeal communities in both host species were dominated by the phylum Euryarchaeota; however, Crenarchaeota represented <1% of the total archaea. Methanogens affiliated with Methanobacteriales were most prominent and their proportion did not differ between the two hosts. Methanomicrobiales and Methanomassillicoccales constituted the second largest group of methanogens in cattle and buffaloes, respectively. Methanocellales (Methanocella arvoryza) were exclusively detected in the buffaloes. At the species level, Methanobrevibacter gottschalkii had the highest abundance (55-57%) in both the host species. The relative abundance of Methanobrevibacter wolinii between the two hosts differed significantly. Methanosarcinales, the acetoclastic methanogens were significantly greater in cattle than the buffaloes. It is concluded that the ruminal methane yield in cattle and buffaloes fed on the same diet did not differ. With the diet used in this study, there was a limited influence (<3.5%) of the host on the structure of the ruminal archaea community at the species level. Therefore, the methane mitigation strategies developed in either of the hosts should be effective in the other. Further studies are warranted to reveal the conjunctive effect of diet and geographical locations with the host on ruminal archaea community composition.
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Affiliation(s)
- P. K. Malik
- Bioenergetics and Environmental Science Division, ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, Karnataka, India
| | - S. Trivedi
- Bioenergetics and Environmental Science Division, ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, Karnataka, India
| | - A. Mohapatra
- Bioenergetics and Environmental Science Division, ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, Karnataka, India
| | - A. P. Kolte
- Animal Nutrition Division, ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, Karnataka, India
| | - V. Sejian
- Animal Physiology Division, ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, Karnataka, India
| | - R. Bhatta
- Bioenergetics and Environmental Science Division, ICAR-National Institute of Animal Nutrition and Physiology, Bangalore, Karnataka, India
| | - H. Rahman
- International Livestock Research Institute, South Asia Regional Office, New Delhi, India
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12
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Kim SI, Chairattanawat C, Kim E, Hwang S. Shift in methanogenic community in protein degradation using different inocula. BIORESOURCE TECHNOLOGY 2021; 333:125145. [PMID: 33906017 DOI: 10.1016/j.biortech.2021.125145] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2021] [Revised: 03/31/2021] [Accepted: 04/02/2021] [Indexed: 06/12/2023]
Abstract
Anaerobic digestion (AD) of protein-rich wastes is problematic due to production of ammonia and hydrogen sulfide. In this work, eight inocula were used in batch AD of solutions of gelatin and gluten at 3 g COD substrate/1g VSS inoculum. AD plants from which inocula originated were treating food waste or food wastewater, wastewater sludge, or a combination of them. Inocula were evaluated by fitting methane production data using the modified Gompertz model. Sequencing of 16 s rRNA of microorganisms showed that Methanoculleus was dominant in inocula from plants that were treating food waste, and Methanosaeta was dominant in the others. The maximum methane production rate varied by a factor of three for each substrate: 2.734-7.438 mLCH4 gCOD-1 d-1 for gelatin, and 1.950 to 5.532 mLCH4 gCOD-1 d-1 for gluten. This study demonstrates that inoculum must be chosen appropriately when treating proteinaceous waste by AD.
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Affiliation(s)
- Su In Kim
- Division of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk 37673, Republic of Korea
| | - Chayanee Chairattanawat
- Division of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk 37673, Republic of Korea
| | - Eunji Kim
- Division of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk 37673, Republic of Korea
| | - Seokhwan Hwang
- Division of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), 77 Cheongam-Ro, Nam-Gu, Pohang, Gyeongbuk 37673, Republic of Korea.
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13
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Procaryotic Diversity and Hydrogenotrophic Methanogenesis in an Alkaline Spring (La Crouen, New Caledonia). Microorganisms 2021; 9:microorganisms9071360. [PMID: 34201651 PMCID: PMC8307142 DOI: 10.3390/microorganisms9071360] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Revised: 06/17/2021] [Accepted: 06/19/2021] [Indexed: 01/01/2023] Open
Abstract
(1) Background: The geothermal spring of La Crouen (New Caledonia) discharges warm (42 °C) alkaline water (pH~9) enriched in dissolved nitrogen with traces of methane, but its microbial diversity has not yet been studied. (2) Methods: Cultivation-dependent and -independent methods (e.g., Illumina sequencing and quantitative PCR based on 16S rRNA gene) were used to describe the prokaryotic diversity of this spring. (3) Results: Prokaryotes were mainly represented by Proteobacteria (57% on average), followed by Cyanobacteria, Chlorofexi, and Candidatus Gracilibacteria (GN02/BD1-5) (each > 5%). Both potential aerobes and anaerobes, as well as mesophilic and thermophilic microorganisms, were identified. Some of them had previously been detected in continental hyperalkaline springs found in serpentinizing environments (The Cedars, Samail, Voltri, and Zambales ophiolites). Gammaproteobacteria, Ca. Gracilibacteria and Thermotogae were significantly more abundant in spring water than in sediments. Potential chemolithotrophs mainly included beta- and gammaproteobacterial genera of sulfate-reducers (Ca. Desulfobacillus), methylotrophs (Methyloversatilis), sulfur-oxidizers (Thiofaba, Thiovirga), or hydrogen-oxidizers (Hydrogenophaga). Methanogens (Methanobacteriales and Methanosarcinales) were the dominant Archaea, as found in serpentinization-driven and deep subsurface ecosystems. A novel alkaliphilic hydrogenotrophic methanogen (strain CAN) belonging to the genus Methanobacterium was isolated, suggesting that hydrogenotrophic methanogenesis occurs at La Crouen.
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14
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Nawaz MZ, Bilal M, Tariq A, Iqbal HMN, Alghamdi HA, Cheng H. Bio-purification of sugar industry wastewater and production of high-value industrial products with a zero-waste concept. Crit Rev Food Sci Nutr 2021; 61:3537-3554. [PMID: 32820646 DOI: 10.1080/10408398.2020.1802696] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
In recent years, biorefinery approach with a zero-waste concept has gained a lot research impetus to boost the environment and bioeconomy in a sustainable manner. The wastewater from sugar industries contains miscellaneous compounds and need to be treated chemically or biologically before being discharged into water bodies. Efficient utilization of wastewater produced by sugar industries is a key point to improve its economy. Thus, interest in the sugar industry wastes has grown in both fundamental and applied research fields, over the years. Although, traditional methods being used to process such wastewaters are effective yet are tedious, laborious and time intensive. Considering the diverse nature of wastewaters from various sugar-manufacturing processes, the development of robust, cost-competitive, sustainable and clean technologies has become a challenging task. Under the recent scenario of cleaner production and consumption, the biorefinery and/or close-loop concept, though using different technologies and multi-step processes, namely, bio-reduction, bio-accumulation or biosorption using a variety of microbial strains, has stepped-up as the method of choice for a sustainable exploitation of a wide range of organic waste matter along with the production of high-value products of industrial interests. This review comprehensively describes the use of various microbial strains employed for eliminating the environmental pollutants from sugar industry wastewater. Moreover, the main research gaps are also critically discussed along with the prospects for the efficient purification of sugar industry wastewaters with the concomitant production of high-value products using a biorefinery approach. In this review, we emphasized that the biotransformation/biopurification of sugar industry waste into an array of value-added compounds such as succinic acid, L-arabinose, solvents, and xylitol is a need of hour and is futuristic approach toward achieving cleaner production and consumption.
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Affiliation(s)
- Muhammad Zohaib Nawaz
- Center for Advanced Studies in Agriculture and Food Security, University of Agriculture, Faisalabad, Pakistan
| | - Muhammad Bilal
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, China
| | - Arslan Tariq
- Center for Advanced Studies in Agriculture and Food Security, University of Agriculture, Faisalabad, Pakistan
| | - Hafiz M N Iqbal
- Tecnologico de Monterrey, School of Engineering and Sciences, Monterrey, Mexico
| | - Huda Ahmed Alghamdi
- Department of Biology, College of Sciences, King Khalid University, Abha, Saudi Arabia
| | - Hairong Cheng
- State Key Laboratory of Microbial Metabolism, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
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15
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Beraud-Martínez LK, Gómez-Gil B, Franco-Nava MÁ, Almazán-Rueda P, Betancourt-Lozano M. A metagenomic assessment of microbial communities in anaerobic bioreactors and sediments: Taxonomic and functional relationships. Anaerobe 2020; 68:102296. [PMID: 33207267 DOI: 10.1016/j.anaerobe.2020.102296] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Revised: 10/20/2020] [Accepted: 11/11/2020] [Indexed: 02/04/2023]
Abstract
The present study used metagenomic sequencing, metagenome assembly and physical-chemical analysis to describe taxonomically and functionally 3 anaerobic bioreactors treating manure (LI), brewery (BR) and cornmeal (CO) wastes, and an anaerobic estuarine sediment (ES). Proteobacteria, Firmicutes, Euryarchaeota and Bacteroidetes were the most abundant Phyla in all metagenomes. A bacteria/archaea ratio of 3.4 was found in the industrial full-scale anaerobic bioreactors BR and CO, while ratios greater than 10 were found for LI and ES. Canonical correspondence analysis showed that environmental variables such as chemical oxygen demand, lipid content, and ammonium nitrogen influenced the ordination of taxonomic groups. Mesotoga prima was linked to high-temperature conditions, particularly in the BR bioreactor, along with the presence of heat shock proteins genes. Likewise, the hydrogenotrophic methanogen, Methanoregula formicica, was associated with high ammonium concentration in LI bioreactor. The interactions of microbes with specific methanogenic pathways were identified using Clusters of Orthologous Groups (COG) functions, while metagenome-assembled genomes (MAGs) further confirmed relationships between taxa and functions. Our results provide valuable information to understand microbial processes in anaerobic environments.
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Affiliation(s)
- Liov Karel Beraud-Martínez
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico
| | - Bruno Gómez-Gil
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico
| | - Miguel Ángel Franco-Nava
- Tecnológico Nacional de México, Campus Mazatlán. Calle Corsario 1 No. 203 Col. Urías, A.P. 757, Mazatlán, Sinaloa, 82070, Mexico
| | - Pablo Almazán-Rueda
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico
| | - Miguel Betancourt-Lozano
- Centro de Investigación en Alimentación y Desarrollo (CIAD), A. C. Unit for Aquaculture, Avenida Sábalo-Cerritos SS/n, Mazatlán, Sinaloa, 82112, Mexico.
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16
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Matsuda S, Yamato T, Mochizuki Y, Sekiguchi Y, Ohtsuki T. Batch-Mode Analysis of Thermophilic Methanogenic Microbial Community Changes in the Overacidification Stage in Beverage Waste Treatment. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2020; 17:E7514. [PMID: 33076472 PMCID: PMC7602568 DOI: 10.3390/ijerph17207514] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Revised: 10/09/2020] [Accepted: 10/12/2020] [Indexed: 11/30/2022]
Abstract
Biogasification by methane fermentation is an important and effective way to utilize beverage wastes. Beverage wastes are good feedstocks for methane fermentation because of their richness in sugars and proteins, although overacidification and inhibition of methane production caused by high substrate loading often become problematic. This study investigated changes in microbial communities in the overacidification state of the thermophilic methane fermentation process with beverage waste by establishing a simulated batch culture. We assessed 20 mL-scale batch cultures using a simulant beverage waste mixture (SBWM) with different amounts of addition; high cumulative methane production was achieved by adding 5 mL of SBWM (11358 mg-chemical oxygen demand-COD/L of organic loading), and overacidification was observed by adding 10 mL of SBWM (22715 mg-COD/L of organic loading). The results of 16S rRNA amplicon sequence analysis using nanopore sequencer suggested that Coprothermobacter proteolyticus, Defluviitoga tunisiensis, Acetomicrobium mobile, and Thermosediminibacter oceani were predominantly involved in hydrolysis/acidogenesis/acetogenesis processes, whereas Methanothrix soehngenii was the major acetotrophic methane producer. A comparison of microbial population between the methane-producing cultures and overacidification cultures revealed characteristic population changes especially in some minor species under 0.2% of population. We concluded that careful monitoring of population changes of the minor species is a potential indicator for prediction of overacidification.
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Affiliation(s)
- Shuhei Matsuda
- Graduate School of Medicine, Engineering and Agricultural Sciences, University of Yamanashi, Kofu, Yamanashi 400-8510, Japan; (S.M.); (T.Y.)
| | - Takahiro Yamato
- Graduate School of Medicine, Engineering and Agricultural Sciences, University of Yamanashi, Kofu, Yamanashi 400-8510, Japan; (S.M.); (T.Y.)
| | | | | | - Takashi Ohtsuki
- Graduate School of Medicine, Engineering and Agricultural Sciences, University of Yamanashi, Kofu, Yamanashi 400-8510, Japan; (S.M.); (T.Y.)
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17
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Tanikawa D, Seo S, Motokawa D. Development of a molasses wastewater treatment system equipped with a biological desulfurization process. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:24738-24748. [PMID: 31820243 DOI: 10.1007/s11356-019-07077-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Accepted: 11/17/2019] [Indexed: 06/10/2023]
Abstract
In this study, a laboratory scale experiment for the treatment of synthetic molasses wastewater using a combination of an anaerobic baffled reactor (ABR) and a two-stage down-flow hanging sponge (TSDHS) reactor (ABR-TSDHS system) was conducted. The TSDHS comprised a closed-type first-stage down-flow hanging sponge (first DHS) for desulfurization and an open-type second-stage DHS (second DHS) for post-treatment of effluent from the ABR and first DHS. Effluent from the second DHS was sprinkled on top of the first DHS, whereas biogas produced from the ABR was supplied to its bottom. A chemical oxygen demand (COD) removal efficiency of 88.3% was found for the ABR-TSDHS system during the final treatment phase. The ABR achieved a maximum organic loading rate (OLR) of 3.70 kg COD/(m3 day). Most of the organic matter was degraded in the first compartment of the ABR, with methane-producing archaea as its main consumer. The biogas generated by the ABR contained high concentrations of hydrogen sulfide (up to 4,500 ppm). In the TSDHS, the first DHS achieved 87.3% hydrogen sulfide removal via dissolution into sprinkled effluent water. Dissolved sulfide in the first DHS effluent was oxidized to sulfate in the second DHS in the absence of aeration. In addition, 85.0% of the ammonia and 57.7% of the total nitrogen were removed in the second DHS via biological reactions, including sulfur-based autotrophic denitrification. Therefore, the ABR-TSDHS system can be applied to not only molasses wastewater treatment but also the desulfurization of the produced biogas.
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Affiliation(s)
- Daisuke Tanikawa
- Department of Civil and Environmental Engineering, National Institute of Technology (KOSEN), Kure College, 2-2-11, Aga-minami, Kure, Hiroshima, 737-8506, Japan.
| | - Shogo Seo
- Advanced Course, Project Design Engineering, National Institute of Technology (KOSEN), Kure College, 2-2-11, Aga-minami, Kure, Hiroshima, 737-8506, Japan
| | - Daisuke Motokawa
- Department of Civil and Environmental Engineering, National Institute of Technology (KOSEN), Kure College, 2-2-11, Aga-minami, Kure, Hiroshima, 737-8506, Japan
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18
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Blank PN, Barnett AA, Ronnebaum TA, Alderfer KE, Gillott BN, Christianson DW, Himmelberger JA. Structural studies of geranylgeranylglyceryl phosphate synthase, a prenyltransferase found in thermophilic Euryarchaeota. Acta Crystallogr D Struct Biol 2020; 76:542-557. [PMID: 32496216 PMCID: PMC7271946 DOI: 10.1107/s2059798320004878] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2019] [Accepted: 04/05/2020] [Indexed: 12/26/2022] Open
Abstract
Archaea are uniquely adapted to thrive in harsh environments, and one of these adaptations involves the archaeal membrane lipids, which are characterized by their isoprenoid alkyl chains connected via ether linkages to glycerol 1-phosphate. The membrane lipids of the thermophilic and acidophilic euryarchaeota Thermoplasma volcanium are exclusively glycerol dibiphytanyl glycerol tetraethers. The first committed step in the biosynthetic pathway of these archaeal lipids is the formation of the ether linkage between glycerol 1-phosphate and geranylgeranyl diphosphate, and is catalyzed by the enzyme geranylgeranylglyceryl phosphate synthase (GGGPS). The 1.72 Å resolution crystal structure of GGGPS from T. volcanium (TvGGGPS) in complex with glycerol and sulfate is reported here. The crystal structure reveals TvGGGPS to be a dimer, which is consistent with the absence of the aromatic anchor residue in helix α5a that is required for hexamerization in other GGGPS homologs; the hexameric quaternary structure in GGGPS is thought to provide thermostability. A phylogenetic analysis of the Euryarchaeota and a parallel ancestral state reconstruction investigated the relationship between optimal growth temperature and the ancestral sequences. The presence of an aromatic anchor residue is not explained by temperature as an ecological parameter. An examination of the active site of the TvGGGPS dimer revealed that it may be able to accommodate longer isoprenoid substrates, supporting an alternative pathway of isoprenoid membrane-lipid synthesis.
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Affiliation(s)
- P. N. Blank
- Department of Chemistry, University of Pennsylvania, 231 South 34th Street, Philadelphia, PA 19104, USA
| | - A. A. Barnett
- Department of Biology, DeSales University, 2755 Station Avenue, Center Valley, PA 18034, USA
| | - T. A. Ronnebaum
- Department of Chemistry, University of Pennsylvania, 231 South 34th Street, Philadelphia, PA 19104, USA
| | - K. E. Alderfer
- Department of Chemistry and Physics, DeSales University, 2755 Station Avenue, Center Valley, PA 18034, USA
| | - B. N. Gillott
- Department of Chemistry and Physics, DeSales University, 2755 Station Avenue, Center Valley, PA 18034, USA
| | - D. W. Christianson
- Department of Chemistry, University of Pennsylvania, 231 South 34th Street, Philadelphia, PA 19104, USA
| | - J. A. Himmelberger
- Department of Chemistry and Physics, DeSales University, 2755 Station Avenue, Center Valley, PA 18034, USA
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19
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Calcium effect on microbial activity and biomass aggregation during anaerobic digestion at high salinity. N Biotechnol 2020; 56:114-122. [DOI: 10.1016/j.nbt.2020.01.001] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2019] [Revised: 12/19/2019] [Accepted: 01/03/2020] [Indexed: 02/02/2023]
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20
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Kim SN, Cho YB, Park JW, Kim OB. Adaptation of Methanosarcina barkeri 227 as acetate scavenger for succinate fermentation by Actinobacillus succinogenes. Appl Microbiol Biotechnol 2020; 104:4483-4492. [PMID: 32185433 DOI: 10.1007/s00253-020-10494-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2019] [Revised: 02/14/2020] [Accepted: 02/20/2020] [Indexed: 11/29/2022]
Abstract
Acetate is the main by-product from microbial succinate production. In this study, we performed acetate removal by Methanosarcina barkeri 227 for succinate fermentation by Actinobacillus succinogenes 130Z. The acetoclastic methanogen M. barkeri requires similar environmental factors to A. succinogenes, and the conditions required for co-cultivation were optimized in this study: gas used for anaerobicization, strain adaptation, medium composition, pH adjustment, and inoculation time points. M. barkeri 227 was adapted to acetate for 150 days, which accelerated the acetate consumption to 9-fold (from 190 to 1726 mmol gDW-1 day-1). In the acetate-adapted strain, there was a noticeable increase in transcription of genes required for acetoclastic pathway-satP (acetate transporter), ackA (acetate kinase), cdhA (carbon monoxide dehydrogenase/acetyl-CoA synthase complex), and mtrH (methyl-H4STP:CoM methyltransferase), which was not induced before the adaptation process. The activities of two energy-consuming steps in the pathway-acetate uptake and acetate kinase-increased about 3-fold. This acetate-adapted M. barkeri could be successfully applied to succinate fermentation culture of A. succinogenes, but only after pH adjustment following completion of fermentation. This study suggests the utility of M. barkeri as an acetate scavenger during fermentation for further steps towards genetic and process engineering.
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Affiliation(s)
- Su Nyoung Kim
- Division of EcoScience and Interdisciplinary Program of EcoCreative, Graduate School, Ewha Womans University, Seoul, 03760, South Korea
| | - Young Bin Cho
- Division of EcoScience and Interdisciplinary Program of EcoCreative, Graduate School, Ewha Womans University, Seoul, 03760, South Korea
| | - Ji Won Park
- Division of EcoScience and Interdisciplinary Program of EcoCreative, Graduate School, Ewha Womans University, Seoul, 03760, South Korea
| | - Ok Bin Kim
- Division of EcoScience and Interdisciplinary Program of EcoCreative, Graduate School, Ewha Womans University, Seoul, 03760, South Korea. .,Department of Life Science, Ewha Womans University, Seoul, 03760, South Korea.
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21
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Yee MO, Rotaru AE. Extracellular electron uptake in Methanosarcinales is independent of multiheme c-type cytochromes. Sci Rep 2020; 10:372. [PMID: 31941946 PMCID: PMC6962339 DOI: 10.1038/s41598-019-57206-z] [Citation(s) in RCA: 56] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2019] [Accepted: 12/23/2019] [Indexed: 11/14/2022] Open
Abstract
The co-occurrence of Geobacter and Methanosarcinales is often used as a proxy for the manifestation of direct interspecies electron transfer (DIET) in the environment. Here we tested eleven new co-culture combinations between methanogens and electrogens. Previously, only the most electrogenic Geobacter paired by DIET with Methanosarcinales methanogens, namely G. metallireducens and G. hydrogenophilus. Here we provide additional support, and show that five additional Methanosarcinales paired with G. metallireducens, while a strict hydrogenotroph could not. We also show that G. hydrogenophilus, which is incapable to grow with a strict hydrogenotrophic methanogen, could pair with a strict non-hydrogenotrophic Methanosarcinales. Likewise, an electrogen outside the Geobacter cluster (Rhodoferrax ferrireducens) paired with Methanosarcinales but not with strict hydrogenotrophic methanogens. The ability to interact with electrogens appears to be conserved among Methanosarcinales, the only methanogens with c-type cytochromes, including multihemes (MHC). Nonetheless, MHC, which are often linked to extracellular electron transfer, were neither unique nor universal to Methanosarcinales and only two of seven Methanosarcinales tested had MHC. Of these two, one strain had an MHC-deletion knockout available, which we hereby show is still capable to retrieve extracellular electrons from G. metallireducens or an electrode suggesting an MHC-independent strategy for extracellular electron uptake.
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Affiliation(s)
- Mon Oo Yee
- Nordcee, Department of Biology, University of Southern Denmark, Odense, Denmark
| | - Amelia-Elena Rotaru
- Nordcee, Department of Biology, University of Southern Denmark, Odense, Denmark.
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22
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Genome-Centered Metagenomics Analysis Reveals the Microbial Interactions of a Syntrophic Consortium during Methane Generation in a Decentralized Wastewater Treatment System. APPLIED SCIENCES-BASEL 2019. [DOI: 10.3390/app10010135] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
The application of anaerobic digestors to decentralized wastewater treatment systems (DWTS) has gained momentum worldwide due to their ease of operation, high efficiency, and ability to recycle wastewater. However, the microbial mechanisms responsible for the high efficiency and ability of DWTS to recycle wastewater are still unclear. In this study, the microbial community structure and function of two different anaerobic bioreactors (a primary sludge digestor, PSD, and anaerobic membrane bioreactor, AnMBR) of a DWTS located in Germany was investigated using 16S rRNA gene amplicon and metagenomic sequencing, respectively. The results showed that the microbial community structure was remarkably different in PSD and AnMBR. Methanobacteriaceae and Syntrophaceae were identified as the families that significantly differed in abundance between these two bioreactors. We also used genome-centered metagenomics to predict the microbial interactions and methane-generating pathway, which yielded 21 near-complete assembled genomes (MAGs) (average completeness of 93.0% and contamination of 2.9%). These MAGs together represented the majority of the microbial community. MAGs affiliated with methanogenic archaea, including Methanobacterium sp., Methanomicrobiales archaea, Methanomassiliicoccales archaea, and Methanosaeta concilii, were recruited, along with other syntrophic bacterial MAGs associated with anaerobic digestion. Key genes encoding enzymes involved in specific carbohydrate-active and methanogenic pathways in MAGs were identified to illustrate the microbial functions and interactions that occur during anaerobic digestion in the wastewater treatment. From the MAG information, it was predicted that bacteria affiliated with Bacteroidetes, Prolixibacteraceae, and Synergistaceae were the key bacteria involved in anaerobic digestion. In the methane production step, Methanobacterium sp. performed hydrogenotrophic methanogenesis, which reduced carbon dioxide to methane with hydrogen as the primary electron donor. Taken together, our findings provide a clear understanding of the methane-generating pathways and highlight the syntrophic interactions that occur during anaerobic digestion in DWTS.
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23
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Methanogenic activity and microbial communities characteristics in dry and wet anaerobic digestion sludges from swine manure. Biochem Eng J 2019. [DOI: 10.1016/j.bej.2019.107390] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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24
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Jensen MB, Strübing D, de Jonge N, Nielsen JL, Ottosen LDM, Koch K, Kofoed MVW. Stick or leave - Pushing methanogens to biofilm formation for ex situ biomethanation. BIORESOURCE TECHNOLOGY 2019; 291:121784. [PMID: 31344638 DOI: 10.1016/j.biortech.2019.121784] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2019] [Revised: 07/06/2019] [Accepted: 07/08/2019] [Indexed: 06/10/2023]
Abstract
Biomethanation exploits the ability of methanogenic archaea to convert CO2 and renewable H2 from electrolysis to biomethane. Biofilm reactors are promising for biomethanation scale-up due to high CH4 productivity and low energy input for H2 gas-liquid mass transfer. Effects of operational conditions on biofilm dynamics remain largely uncharacterized but may increase reactor potentials further. This study investigated the effect of hydraulic retention time (HRT) on methanogenic biofilm activity and composition. Commercial carriers floating in liquid were exposed to H2/CO2 for 87 days with the liquid phase being subject to either 18 hours, 10 days, or 20 days HRT. Methanogenic biofilms were dominated by hydrogenotrophic methanogens, but biofilm CH4 productivity was enhanced at 18 hours HRT due to wash-out of competing planktonic species, which otherwise hampered proliferation of biofilm biomass at long HRT. It is suggested that high-rate biofilm reactors can increase methanogenic biofilm activity by minimizing the liquid's H2 exposure.
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Affiliation(s)
- Mads Borgbjerg Jensen
- Department of Engineering, Aarhus University, Hangøvej 2, DK-8200 Aarhus N., Denmark
| | - Dietmar Strübing
- Chair of Urban Water Systems Engineering, Technical University of Munich, Am Coloumbwall 3, 85748 Garching, Germany
| | - Nadieh de Jonge
- Department of Chemistry and Bioscience, Aalborg University, Fredrik Bajers Vej 7H, DK-9220 Aalborg, Denmark
| | - Jeppe Lund Nielsen
- Department of Chemistry and Bioscience, Aalborg University, Fredrik Bajers Vej 7H, DK-9220 Aalborg, Denmark
| | | | - Konrad Koch
- Chair of Urban Water Systems Engineering, Technical University of Munich, Am Coloumbwall 3, 85748 Garching, Germany
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Bacterial and Archaeal Assemblages from Two Size Fractions in Submarine Groundwater Near an Industrial Zone. WATER 2019. [DOI: 10.3390/w11061261] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Nutrients and organic pollutants transported by submarine groundwater discharge (SGD) play a significant role in controlling water quality, and can lead to the concerned deleterious effects on marine ecosystems. Subterranean estuaries are complicated habitats of diverse microbial communities that mediate different biogeochemical processes. However, there is less information on how microorganisms mediate biogeochemical cycles in the submarine groundwater system. In this study, we investigated the changes in bacterial and archaeal assemblages from two size fractions (0.2–0.45 μm and >0.45 μm) in the submarine groundwater of Qinzhou Bay, China. Phylogenetic analysis showed that Bathyarchaeota was dominant in archaeal communities in the >0.45 μm size fraction, but was seldom in the 0.2–0.45 μm fraction. The co-occurrence of sequences belonging to Bathyarchaeota and Methanosaeta was found in the >0.45 μm size fraction. Since a gene encoding acetate kinase of Bathyarchaeota is involved in acetate production, and acetate is also a necessary growth factor for Methanosaeta, the acetate produced by Bathyarchaeota can provide food or energy sources for Methanosaeta in this very >0.45 μm size fraction. The most abundant bacterial sequences in the >0.45 μm size fraction was closely related to biomineral iron-oxidizing Gallionella spp., whereas the dominant bacterial sequences in the 0.2–0.45 μm fraction were affiliated with Limnohabitans spp., which can utilize dissolved organic matter as an important source of growth substrates. Notably, approximately 10% of the bacterial sequences in both of the two size fractions belonged to Novosphingobium spp., which plays an important role in the degradation of pollutants, especially aromatic compounds. Furthermore, the predictive functional profiling also revealed that the pathways involved in the degradation of aromatic compounds by both bacteria and archaea were identified. The presence of nutrients or pollutants in our study site provides different substrates for the growth of the specific microbial groups; in turn, these microbes may help to deplete pollutants to the ocean through submarine groundwater. We suggest that these specific microbial groups could be potential candidates for effective in situ bioremediation of groundwater ecosystems.
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26
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An evolving view of methane metabolism in the Archaea. Nat Rev Microbiol 2019; 17:219-232. [DOI: 10.1038/s41579-018-0136-7] [Citation(s) in RCA: 231] [Impact Index Per Article: 46.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2017] [Accepted: 11/26/2018] [Indexed: 11/08/2022]
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Carson MA, Bräuer S, Basiliko N. Enrichment of peat yields novel methanogens: approaches for obtaining uncultured organisms in the age of rapid sequencing. FEMS Microbiol Ecol 2019; 95:5289378. [DOI: 10.1093/femsec/fiz001] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2018] [Accepted: 01/08/2019] [Indexed: 11/13/2022] Open
Affiliation(s)
- Michael A Carson
- Department of Biology, Laurentian University, Vale Living with Lakes Centre, 935 Ramsey Lake Road, Sudbury, ON P3E 2C6, Canada
| | - Suzanna Bräuer
- Department of Biology, Appalachian State University, 572 Rivers Street, Boone, NC 28608, USA
| | - Nathan Basiliko
- Department of Biology, Laurentian University, Vale Living with Lakes Centre, 935 Ramsey Lake Road, Sudbury, ON P3E 2C6, Canada
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28
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Ma H, Wu M, Liu H, Wang Z, Guo C, Wang S. Study on enhancing sludge methanogenesis by adding acetylene black and effect on the characteristics & microbial community of anaerobic granular sludge. RSC Adv 2019; 9:23086-23095. [PMID: 35514522 PMCID: PMC9067283 DOI: 10.1039/c9ra03142a] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2019] [Accepted: 07/21/2019] [Indexed: 11/21/2022] Open
Abstract
Illustration of the interspecies electron transfer improved by ACET during methanogenesis.
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Affiliation(s)
- Haitong Ma
- College of Light Industry and Food Engineering
- Guangxi University
- Nanning 530004
- PR China
- Key Laboratory of Clean Pulp and Paper and Pollution Control
| | - Ming Wu
- College of Light Industry and Food Engineering
- Guangxi University
- Nanning 530004
- PR China
- Key Laboratory of Clean Pulp and Paper and Pollution Control
| | - Hui Liu
- College of Light Industry and Food Engineering
- Guangxi University
- Nanning 530004
- PR China
- Key Laboratory of Clean Pulp and Paper and Pollution Control
| | - Zhiwei Wang
- College of Light Industry and Food Engineering
- Guangxi University
- Nanning 530004
- PR China
- Key Laboratory of Clean Pulp and Paper and Pollution Control
| | - Chenyan Guo
- College of Light Industry and Food Engineering
- Guangxi University
- Nanning 530004
- PR China
- Key Laboratory of Clean Pulp and Paper and Pollution Control
| | - Shuangfei Wang
- College of Light Industry and Food Engineering
- Guangxi University
- Nanning 530004
- PR China
- Key Laboratory of Clean Pulp and Paper and Pollution Control
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29
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Zhang Y, Li J, Liu F, Yan H, Li J, Zhang X. Reduction of Gibbs free energy and enhancement of Methanosaeta by bicarbonate to promote anaerobic syntrophic butyrate oxidation. BIORESOURCE TECHNOLOGY 2018; 267:209-217. [PMID: 30025316 DOI: 10.1016/j.biortech.2018.06.098] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2018] [Revised: 06/24/2018] [Accepted: 06/28/2018] [Indexed: 06/08/2023]
Abstract
Bicarbonate (HCO3-) has been extensively researched as a buffer in anaerobic digestion. The effect of HCO3- concentration on syntrophic butyrate oxidation process was evaluated by batch culturing of anaerobic activated sludge, and the mechanism was further revealed by the changes of Gibbs free energy (ΔG) and the interspecies transfers of electron and proton. The results showed that butyrate degradation rate was enhanced by 32.07% when the supplement of HCO3- increased from 0 to 0.20 mol/L. However, methane production and acetate degradation were strongly inhibited by HCO3- more than 0.10 mol/L. More function of HCO3- was found as 1) decreasing the ΔG of syntrophic methanogenesis of butyrate while increasing the ΔG of methanogenesis of acetate, 2) enriching M. harundinacea and M. concilii, 3) increasing the diffusion rate of protons between the syntrophic consortia. This work would increase the anaerobic digestion efficiency by enhancing the interaction of the syntrophic consortia.
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Affiliation(s)
- Yupeng Zhang
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin 150090, PR China
| | - Jianzheng Li
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin 150090, PR China.
| | - Fengqin Liu
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin 150090, PR China
| | - Han Yan
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin 150090, PR China
| | - Jiuling Li
- Advanced Water Management Centre, The University of Queensland, St Lucia, Brisbane, QLD 4072, Australia
| | - Xue Zhang
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin 150090, PR China
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30
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Wang Y, Li P, Jiang Z, Liu H, Wei D, Wang H, Wang Y. Diversity and abundance of arsenic methylating microorganisms in high arsenic groundwater from Hetao Plain of Inner Mongolia, China. ECOTOXICOLOGY (LONDON, ENGLAND) 2018; 27:1047-1057. [PMID: 29951795 DOI: 10.1007/s10646-018-1958-9] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 06/07/2018] [Indexed: 06/08/2023]
Abstract
Arsenic methylation is regarded as an effective way of arsenic detoxification. Current knowledge about arsenic biomethylation in high arsenic groundwater remains limited. In the present study, 16 high arsenic groundwater samples from deep wells of the Hetao Plain were investigated using clone library and quantitative polymerase chain reaction (qPCR) analyses of arsM genes as well as geochemical analysis. The concentrations of methylated arsenic (including monomethylarsonic acid (MMA) and dimethylarsinic acid (DMA)) varied from 2.40 to 16.85 μg/L. Both bacterial and archaeal arsenic methylating populations were detected in the high arsenic aquifer. They were dominated by Proteobacteria, Firmicutes, Gemmatimonadetes, Nitrospirae, Methanomicrobia and a large unidentified group. The abundances of predominant populations were correlated positively to either total organic carbon or total arsenic and arsenite concentrations. The arsM gene abundances in high arsenic groundwater ranged from below detection to 5.71 × 106 copies/L and accounted for 0-3.32‰ of total bacterial and archaeal 16S rRNA genes. The arsM gene copies in high arsenic groundwater showed closely positive correlations with methylated arsenic concentrations. The overall results implied that arsenic methylating microorganisms were abundant and diverse in high arsenic groundwater. This was the first study of arsenic methylating microbial communities in high arsenic groundwater aquifers and might provide useful information for arsenic bioremediation in groundwater systems.
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Affiliation(s)
- Yanhong Wang
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Ping Li
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China.
| | - Zhou Jiang
- School of Environmental Studies, China University of Geosciences, Wuhan, China
| | - Han Liu
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Dazhun Wei
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Helin Wang
- School of Environmental Studies, China University of Geosciences, Wuhan, China
| | - Yanxin Wang
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China.
- School of Environmental Studies, China University of Geosciences, Wuhan, China.
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31
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Wu J, Niu Q, Li L, Hu Y, Mribet C, Hojo T, Li YY. A gradual change between methanogenesis and sulfidogenesis during a long-term UASB treatment of sulfate-rich chemical wastewater. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 636:168-176. [PMID: 29704712 DOI: 10.1016/j.scitotenv.2018.04.172] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2018] [Revised: 04/03/2018] [Accepted: 04/12/2018] [Indexed: 06/08/2023]
Abstract
The competition between methane-producing archaea and sulfate-reducing bacteria is an important topic in anaerobic wastewater treatment. In this study, an Up-flow Anaerobic Sludge Blanket Reactor (UASB) was operated for 330 days to evaluate the treatment performance of sulfate-rich wastewater. The effects of competition change between methane production and sulfate reduction on the organic removal efficiency, methane production, and electrons allocation were investigated. Synthetic wastewater was composed of ethanol and acetate with a chemical oxygen demand (COD)/SO42- of 1.0. As a result, the COD removal efficiency achieved in long-term treatment was higher than 90%. During the initial stage, methane production was the dominant reaction. Sulfate-reducing bacteria (SRB) could only partially oxidize ethanol to acetate, and methane-producing archaea (MPA) utilized acetate for methane production. Methane production declined gradually over the long-term operation, whereas the sulfate-reducing efficiency increased. However, UASB performed well throughout the experiment because there was no significant inhibition. After the complete reduction of the sulfate, MPA converted the remaining COD into methane.
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Affiliation(s)
- Jiang Wu
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan
| | - Qigui Niu
- School of Environmental Science and Engineering, Shandong University, 27# Shanda South Road, Jinan 250100, China
| | - Lu Li
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan
| | - Yong Hu
- National Institute for Environmental Studies, Onogawa 16-2, Tsukuba, Ibaraki 305-0053, Japan
| | - Chaimaa Mribet
- Graduate School of Environmental Studies, Tohoku University, 6-6-06 Aoba, Sendai 980-8579, Japan
| | - Toshimasa Hojo
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan
| | - Yu-You Li
- Department of Civil and Environmental Engineering, Graduate School of Engineering, Tohoku University, 6-6-06 Aza-Aoba, Aramaki, Aoba-ku, Sendai, Miyagi 980-8579, Japan.
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32
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De Vrieze J, Boon N, Verstraete W. Taking the technical microbiome into the next decade. Environ Microbiol 2018; 20:1991-2000. [PMID: 29745026 DOI: 10.1111/1462-2920.14269] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2018] [Accepted: 05/03/2018] [Indexed: 01/03/2023]
Abstract
The 'microbiome' has become a buzzword. Multiple new technologies allow to gather information about microbial communities as they evolve under stable and variable environmental conditions. The challenge of the next decade will be to develop strategies to compose and manage microbiomes. Here, key aspects are considered that will be of crucial importance for future microbial technological developments. First, the need to deal not only with genotypes but also particularly with phenotypes is addressed. Microbial technologies are often highly dependent on specific core organisms to obtain the desired process outcome. Hence, it is essential to combine omics data with phenotypic information to invoke and control specific phenotypes in the microbiome. Second, the development and application of synthetic microbiomes is evaluated. The central importance of the core species is a no-brainer, but the implementation of proper satellite species is an important route to explore. Overall, for the next decade, microbiome research should no longer almost exclusively focus on its capacity to degrade and dissipate but rather on its remarkable capability to capture disordered components and upgrade them into high-value microbial products. These products can become valuable commodities in the cyclic economy, as reflected in the case of 'reversed sanitation', which is introduced here.
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Affiliation(s)
- Jo De Vrieze
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, Gent 9000, Belgium
| | - Nico Boon
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, Gent 9000, Belgium
| | - Willy Verstraete
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, Gent 9000, Belgium.,Avecom NV, Industrieweg 122P, Wondelgem 9032, Belgium
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33
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Mlewski EC, Pisapia C, Gomez F, Lecourt L, Soto Rueda E, Benzerara K, Ménez B, Borensztajn S, Jamme F, Réfrégiers M, Gérard E. Characterization of Pustular Mats and Related Rivularia-Rich Laminations in Oncoids From the Laguna Negra Lake (Argentina). Front Microbiol 2018; 9:996. [PMID: 29872427 PMCID: PMC5972317 DOI: 10.3389/fmicb.2018.00996] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2018] [Accepted: 04/27/2018] [Indexed: 11/13/2022] Open
Abstract
Stromatolites are organo-sedimentary structures that represent some of the oldest records of the early biosphere on Earth. Cyanobacteria are considered as a main component of the microbial mats that are supposed to produce stromatolite-like structures. Understanding the role of cyanobacteria and associated microorganisms on the mineralization processes is critical to better understand what can be preserved in the laminated structure of stromatolites. Laguna Negra (Catamarca, Argentina), a high-altitude hypersaline lake where stromatolites are currently formed, is considered as an analog environment of early Earth. This study aimed at characterizing carbonate precipitation within microbial mats and associated oncoids in Laguna Negra. In particular, we focused on carbonated black pustular mats. By combining Confocal Laser Scanning Microscopy, Scanning Electron Microscopy, Laser Microdissection and Whole Genome Amplification, Cloning and Sanger sequencing, and Focused Ion Beam milling for Transmission Electron Microscopy, we showed that carbonate precipitation did not directly initiate on the sheaths of cyanobacterial Rivularia, which dominate in the mat. It occurred via organo-mineralization processes within a large EPS matrix excreted by the diverse microbial consortium associated with Rivularia where diatoms and anoxygenic phototrophic bacteria were particularly abundant. By structuring a large microbial consortium, Rivularia should then favor the formation of organic-rich laminations of carbonates that can be preserved in stromatolites. By using Fourier Transform Infrared spectroscopy and Synchrotron-based deep UV fluorescence imaging, we compared laminations rich in structures resembling Rivularia to putatively chemically-precipitated laminations in oncoids associated with the mats. We showed that they presented a different mineralogy jointly with a higher content in organic remnants, hence providing some criteria of biogenicity to be searched for in the fossil record.
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Affiliation(s)
- Estela C Mlewski
- Centro de Investigaciones en Ciencias de la Tierra (CICTERRA), Cordoba, Argentina
| | - Céline Pisapia
- Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Centre National de la Recherche Scientifique, Université Paris Diderot, Paris, France.,Synchrotron SOLEIL, DISCO Beamline, Saint Aubin, France
| | - Fernando Gomez
- Centro de Investigaciones en Ciencias de la Tierra (CICTERRA), Cordoba, Argentina
| | - Lena Lecourt
- Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Centre National de la Recherche Scientifique, Université Paris Diderot, Paris, France
| | - Eliana Soto Rueda
- Centro de Investigaciones en Ciencias de la Tierra (CICTERRA), Cordoba, Argentina
| | - Karim Benzerara
- Institut de Minéralogie, de Physique des Matériaux et de Cosmochimie, UMR Centre National de la Recherche Scientifique 7590, Sorbonne Université, Muséum National d'Histoire Naturelle, IRD UMR 206, Paris, France
| | - Bénédicte Ménez
- Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Centre National de la Recherche Scientifique, Université Paris Diderot, Paris, France
| | - Stephan Borensztajn
- Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Centre National de la Recherche Scientifique, Université Paris Diderot, Paris, France
| | | | | | - Emmanuelle Gérard
- Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Centre National de la Recherche Scientifique, Université Paris Diderot, Paris, France
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Zhang Y, Li J, Liu F, Yan H, Li J. Mediative mechanism of bicarbonate on anaerobic propionate degradation revealed by microbial community and thermodynamics. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2018; 25:12434-12443. [PMID: 29460248 DOI: 10.1007/s11356-018-1430-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Accepted: 01/29/2018] [Indexed: 06/08/2023]
Abstract
Syntrophic acetogenesis of volatile fatty acids (VFAs) such as propionate and butyrate is considered as the rate-limiting step of anaerobic digestion. Though being extensively researched, the mechanism is not well understood as the main constraint on developing effective solutions to the practical problem. In the present research work, the mediation of methanogenic propionate degradation by exogenous bicarbonate was evaluated, while the mechanism was revealed by microbial community and thermodynamics. It was found that the exogenous bicarbonate not more than 0.10 mol/L acted as a mediative role to enrich syntrophic acetogenic bacteria and decrease the actual Gibbs free energy change (ΔG) of syntrophic acetogenesis reaction, resulted in the increased degradation rate and methane production rate of propionate. The remarkably increased ΔG of methanogenic propionate degradation by the exogenous bicarbonate more than 0.15 mol/L decreased the degradation rate and methane production rate of propionate, though the ΔG of syntrophic acetogenesis reaction was also decreased by the exogenous bicarbonate. This research work provided a control strategy to enhance syntrophic acetogenesis, as well as the methanogenic VFAs degradation.
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Affiliation(s)
- Yupeng Zhang
- School of Environment, State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin, 150090, People's Republic of China
| | - Jianzheng Li
- School of Environment, State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin, 150090, People's Republic of China.
| | - Fengqin Liu
- School of Environment, State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin, 150090, People's Republic of China
| | - Han Yan
- School of Environment, State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, 73 Huanghe Road, Harbin, 150090, People's Republic of China
| | - Jiuling Li
- Advanced Water Management Centre, The University of Queensland, St Lucia, Brisbane, Queensland, 4072, Australia
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35
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Dai X, Hu C, Zhang D, Chen Y. A new method for the simultaneous enhancement of methane yield and reduction of hydrogen sulfide production in the anaerobic digestion of waste activated sludge. BIORESOURCE TECHNOLOGY 2017; 243:914-921. [PMID: 28738546 DOI: 10.1016/j.biortech.2017.07.036] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2017] [Revised: 07/03/2017] [Accepted: 07/06/2017] [Indexed: 06/07/2023]
Abstract
The biogas generated from anaerobic digestion (AD) also includes undesirable by-product such as hydrogen sulfide (H2S), which must be removed before the biogas can be used as a clean energy source. Therefore, it is necessary to find an appropriate strategy to simultaneously enhance the methane yield and reduce H2S production. An efficient strategy-pretreating sludge at pH 10 for 8d and adjusting the system at neutral pH to produce methane for 20d-is reported for the synchronous enhancement of methane production and reduction of H2S production during AD. The experimental results showed that the cumulative methane yield was 861.2±6.1mL/g volatile solids (VS) of sludge pretreated at pH 10 in semi-continuous stirred anaerobic reactors for 84d, an increase of 49.6% over the yield in the control. Meanwhile, the cumulative production of H2S was 144.1×10-4mL/g VS, 54.2% lower than that in the control.
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Affiliation(s)
- Xiaohu Dai
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Chongliang Hu
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
| | - Dong Zhang
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China.
| | - Yinguang Chen
- State Key Laboratory of Pollution Control and Resources Reuse, School of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai 200092, China
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36
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Carr SA, Schubotz F, Dunbar RB, Mills CT, Dias R, Summons RE, Mandernack KW. Acetoclastic Methanosaeta are dominant methanogens in organic-rich Antarctic marine sediments. ISME JOURNAL 2017; 12:330-342. [PMID: 29039843 PMCID: PMC5776447 DOI: 10.1038/ismej.2017.150] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2017] [Revised: 06/16/2017] [Accepted: 06/24/2017] [Indexed: 01/11/2023]
Abstract
Despite accounting for the majority of sedimentary methane, the physiology and relative abundance of subsurface methanogens remain poorly understood. We combined intact polar lipid and metagenome techniques to better constrain the presence and functions of methanogens within the highly reducing, organic-rich sediments of Antarctica's Adélie Basin. The assembly of metagenomic sequence data identified phylogenic and functional marker genes of methanogens and generated the first Methanosaeta sp. genome from a deep subsurface sedimentary environment. Based on structural and isotopic measurements, glycerol dialkyl glycerol tetraethers with diglycosyl phosphatidylglycerol head groups were classified as biomarkers for active methanogens. The stable carbon isotope (δ13C) values of these biomarkers and the Methanosaeta partial genome suggest that these organisms are acetoclastic methanogens and represent a relatively small (0.2%) but active population. Metagenomic and lipid analyses suggest that Thaumarchaeota and heterotrophic bacteria co-exist with Methanosaeta and together contribute to increasing concentrations and δ13C values of dissolved inorganic carbon with depth. This study presents the first functional insights of deep subsurface Methanosaeta organisms and highlights their role in methane production and overall carbon cycling within sedimentary environments.
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Affiliation(s)
| | - Florence Schubotz
- MARUM Center for Marine Environmental Sciences, University of Bremen, Bremen, Germany
| | - Robert B Dunbar
- Department of Environmental Earth Systems Science, Stanford University, Stanford, CA, USA
| | | | - Robert Dias
- US Geological Survey, Denver Federal Center, Denver, CO, USA
| | - Roger E Summons
- Department of Earth, Atmospheric and Planetary Sciences, Massachusetts Institute of Technology, Cambridge, MA, USA
| | - Kevin W Mandernack
- Department of Earth Sciences, Indiana University - Purdue University Indianapolis, Indianapolis, IN, USA
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Lee JY, Park JH, Park HD. Effects of an applied voltage on direct interspecies electron transfer via conductive materials for methane production. WASTE MANAGEMENT (NEW YORK, N.Y.) 2017; 68:165-172. [PMID: 28743578 DOI: 10.1016/j.wasman.2017.07.025] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Revised: 07/13/2017] [Accepted: 07/16/2017] [Indexed: 06/07/2023]
Abstract
Direct interspecies electron transfer (DIET) between exoelectrogenic bacteria and methanogenic archaea via conductive materials is reported as an efficient method to produce methane in anaerobic organic waste digestion. A voltage can be applied to the conductive materials to accelerate the DIET between two groups of microorganisms to produce methane. To evaluate this hypothesis, two sets of anaerobic serum bottles with and without applied voltage were used with a pair of graphite rods as conductive materials to facilitate DIET. Initially, the methane production rate was similar between the two sets of serum bottles, and later the serum bottles with an applied voltage of 0.39V showed a 168% higher methane production rate than serum bottles without an applied voltage. In cyclic voltammograms, the characteristic redox peaks for hydrogen and acetate oxidation were identified in the serum bottles with an applied voltage. In the microbial community analyses, hydrogenotrophic methanogens (e.g. Methanobacterium) were observed to be abundant in serum bottles with an applied voltage, while methanogens utilizing carbon dioxide (e.g., Methanosaeta and Methanosarcina) were dominant in serum bottles without an applied voltage. Taken together, the applied voltage on conductive materials might not be effective to promote DIET in methane production. Instead, it appeared to generate a condition for hydrogenotrophic methanogenesis.
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Affiliation(s)
- Jung-Yeol Lee
- School of Civil, Environmental and Architectural Engineering, Korea University, Seoul, South Korea
| | - Jeong-Hoon Park
- School of Civil, Environmental and Architectural Engineering, Korea University, Seoul, South Korea
| | - Hee-Deung Park
- School of Civil, Environmental and Architectural Engineering, Korea University, Seoul, South Korea; KU-KIST Green School, Graduate School of Energy and Environment, Korea University, Seoul, South Korea.
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Gagliano MC, Ismail SB, Stams AJM, Plugge CM, Temmink H, Van Lier JB. Biofilm formation and granule properties in anaerobic digestion at high salinity. WATER RESEARCH 2017; 121:61-71. [PMID: 28511041 DOI: 10.1016/j.watres.2017.05.016] [Citation(s) in RCA: 63] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2017] [Revised: 04/28/2017] [Accepted: 05/07/2017] [Indexed: 06/07/2023]
Abstract
For the anaerobic biological treatment of saline wastewater, Anaerobic Digestion (AD) is currently a possibility, even though elevated salt concentrations can be a major obstacle. Anaerobic consortia and especially methanogenic archaea are very sensitive to fluctuations in salinity. When working with Upflow Sludge Blanket Reactor (UASB) technology, in which the microorganisms are aggregated and retained in the system as a granular biofilm, high sodium concentration negatively affects aggregation and consequently process performances. In this research, we analysed the structure of the biofilm and granules formed during the anaerobic treatment of high salinity (at 10 and 20 g/L of sodium) synthetic wastewater at lab scale. The acclimated inoculum was able to accomplish high rates of organics removal at all the salinity levels tested. 16S rRNA gene clonal analysis and Fluorescence In Situ Hybridization (FISH) analyses identified the acetoclastic Methanosaeta harundinacea as the key player involved acetate degradation and microbial attachment/granulation. When additional calcium (1 g/L) was added to overcome the negative effect of sodium on microbial aggregation, during the biofilm formation process microbial attachment and acetate degradation decreased. The same result was observed on granules formation: while calcium had a positive effect on granules strength when added to UASB reactors, Methanosaeta filaments were not present and the degradation of the partially acidified substrate was negatively influenced. This research demonstrated the possibility to get granulation at high salinity, bringing to the forefront the importance of a selection towards Methanosaeta cells growing in filamentous form to obtain strong and healthy granules.
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Affiliation(s)
- M C Gagliano
- Laboratory of Microbiology, Wageningen University, Stippeneng 4, 6708 WE Wageningen, The Netherlands.
| | - S B Ismail
- Sanitary Engineering Section, Department of Water Management, Faculty of Civil Engineering and Geosciences, Delft University of Technology, Stevinweg 1, 2628 CN Delft, The Netherlands; Sub-department of Environmental Technology, Wageningen University, P.O. Box 8129, 6700 EV Wageningen, The Netherlands; Eastern Corridor Renewable Energy (ECRE), School of Ocean Engineering, University Malaysia Terengganu (UMT), 21030 Terengganu, Malaysia
| | - A J M Stams
- Laboratory of Microbiology, Wageningen University, Stippeneng 4, 6708 WE Wageningen, The Netherlands
| | - C M Plugge
- Laboratory of Microbiology, Wageningen University, Stippeneng 4, 6708 WE Wageningen, The Netherlands
| | - H Temmink
- Sub-department of Environmental Technology, Wageningen University, P.O. Box 8129, 6700 EV Wageningen, The Netherlands
| | - J B Van Lier
- Sanitary Engineering Section, Department of Water Management, Faculty of Civil Engineering and Geosciences, Delft University of Technology, Stevinweg 1, 2628 CN Delft, The Netherlands
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Metatranscriptomic Evidence for Direct Interspecies Electron Transfer between Geobacter and Methanothrix Species in Methanogenic Rice Paddy Soils. Appl Environ Microbiol 2017; 83:AEM.00223-17. [PMID: 28258137 DOI: 10.1128/aem.00223-17] [Citation(s) in RCA: 159] [Impact Index Per Article: 22.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2017] [Accepted: 02/24/2017] [Indexed: 01/04/2023] Open
Abstract
The possibility that Methanothrix (formerly Methanosaeta) and Geobacter species cooperate via direct interspecies electron transfer (DIET) in terrestrial methanogenic environments was investigated in rice paddy soils. Genes with high sequence similarity to the gene for the PilA pilin monomer of the electrically conductive pili (e-pili) of Geobacter sulfurreducens accounted for over half of the PilA gene sequences in metagenomic libraries and 42% of the mRNA transcripts in RNA sequencing (RNA-seq) libraries. This abundance of e-pilin genes and transcripts is significant because e-pili can serve as conduits for DIET. Most of the e-pilin genes and transcripts were affiliated with Geobacter species, but sequences most closely related to putative e-pilin genes from genera such as Desulfobacterium, Deferribacter, Geoalkalibacter, and Desulfobacula, were also detected. Approximately 17% of all metagenomic and metatranscriptomic bacterial sequences clustered with Geobacter species, and the finding that Geobacter spp. were actively transcribing growth-related genes indicated that they were metabolically active in the soils. Genes coding for e-pilin were among the most highly transcribed Geobacter genes. In addition, homologs of genes encoding OmcS, a c-type cytochrome associated with the e-pili of G. sulfurreducens and required for DIET, were also highly expressed in the soils. Methanothrix species in the soils highly expressed genes for enzymes involved in the reduction of carbon dioxide to methane. DIET is the only electron donor known to support CO2 reduction in Methanothrix Thus, these results are consistent with a model in which Geobacter species were providing electrons to Methanothrix species for methane production through electrical connections of e-pili.IMPORTANCEMethanothrix species are some of the most important microbial contributors to global methane production, but surprisingly little is known about their physiology and ecology. The possibility that DIET is a source of electrons for Methanothrix in methanogenic rice paddy soils is important because it demonstrates that the contribution that Methanothrix makes to methane production in terrestrial environments may extend beyond the conversion of acetate to methane. Furthermore, defined coculture studies have suggested that when Methanothrix species receive some of their energy from DIET, they grow faster than when acetate is their sole energy source. Thus, Methanothrix growth and metabolism in methanogenic soils may be faster and more robust than generally considered. The results also suggest that the reason that Geobacter species are repeatedly found to be among the most metabolically active microorganisms in methanogenic soils is that they grow syntrophically in cooperation with Methanothrix spp., and possibly other methanogens, via DIET.
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Distribution of Bathyarchaeota Communities Across Different Terrestrial Settings and Their Potential Ecological Functions. Sci Rep 2017; 7:45028. [PMID: 28322330 PMCID: PMC5359579 DOI: 10.1038/srep45028] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2016] [Accepted: 02/17/2017] [Indexed: 01/24/2023] Open
Abstract
High abundance and widespread distribution of the archaeal phylum Bathyarchaeota in marine environment have been recognized recently, but knowledge about Bathyarchaeota in terrestrial settings and their correlation with environmental parameters is fairly limited. Here we reported the abundance of Bathyarchaeota members across different ecosystems and their correlation with environmental factors by constructing 16S rRNA clone libraries of peat from the Dajiuhu Peatland, coupling with bioinformatics analysis of 16S rRNA data available to date in NCBI database. In total, 1456 Bathyarchaeota sequences from 28 sites were subjected to UniFrac analysis based on phylogenetic distance and multivariate regression tree analysis of taxonomy. Both phylogenetic and taxon-based approaches showed that salinity, total organic carbon and temperature significantly influenced the distribution of Bathyarchaeota across different terrestrial habitats. By applying the ecological concept of 'indicator species', we identify 9 indicator groups among the 6 habitats with the most in the estuary sediments. Network analysis showed that members of Bathyarchaeota formed the "backbone" of archaeal community and often co-occurred with Methanomicrobia. These results suggest that Bathyarchaeota may play an important ecological role within archaeal communities via a potential symbiotic association with Methanomicrobia. Our results shed light on understanding of the biogeography, potential functions of Bathyarchaeota and environment conditions that influence Bathyarchaea distribution in terrestrial settings.
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Ahlert S, Zimmermann R, Ebling J, König H. Analysis of propionate-degrading consortia from agricultural biogas plants. Microbiologyopen 2016; 5:1027-1037. [PMID: 27364538 PMCID: PMC5221444 DOI: 10.1002/mbo3.386] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2016] [Revised: 05/24/2016] [Accepted: 05/25/2016] [Indexed: 02/02/2023] Open
Abstract
In order to investigate the propionate-degrading community of agricultural biogas plants, four propionate-degrading consortia (Ap1a, N12, G12, and Wp2a) were established from different biogas plants which were fed with renewable resources. The consortia were cultivated in a batch for a period of 2-4 years and then analyzed in an 8-week batch experiment for microbial succession during propionate degradation. Community shifts showed considerable propagation of Syntrophobacter sulfatireducens, Cryptanaerobacter sp./Pelotomaculum sp., and "Candidatus Cloacamonas sp." in the course of decreasing propionate concentration. Methanogenic species belonged mainly to the genera Methanosarcina, Methanosaeta, and Methanoculleus. Due to the prevalent presence of the syntrophic acetate-oxidizing species Tepidanaerobacter acetatoxydans and potentially autotrophic homoacetogenic bacteria (Moorella sp., Thermacetogenium sp.), a theoretical involvement of syntrophic acetate oxidation and autotrophic homoacetogenesis in stable and efficient propionate degradation was indicated. Considering theoretical Gibbs free energy values at different hydrogen partial pressures, it is noticeable that syntrophic acetate oxidation and autotrophic homoacetogenesis have the potential to counterbalance adverse hydrogen partial pressure fluctuations, stabilizing most probably continuous and stable propionate degradation.
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Affiliation(s)
- Stephan Ahlert
- Institute of Microbiology and Wine ResearchJohannes Gutenberg UniversityMainzGermany
| | - Rita Zimmermann
- Institute of Microbiology and Wine ResearchJohannes Gutenberg UniversityMainzGermany
| | - Johannes Ebling
- Institute of Microbiology and Wine ResearchJohannes Gutenberg UniversityMainzGermany
| | - Helmut König
- Institute of Microbiology and Wine ResearchJohannes Gutenberg UniversityMainzGermany
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Treu L, Campanaro S, Kougias PG, Zhu X, Angelidaki I. Untangling the Effect of Fatty Acid Addition at Species Level Revealed Different Transcriptional Responses of the Biogas Microbial Community Members. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2016; 50:6079-90. [PMID: 27154312 DOI: 10.1021/acs.est.6b00296] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
In the present study, RNA-sequencing was used to elucidate the change of anaerobic digestion metatranscriptome after long chain fatty acids (oleate) exposure. To explore the general transcriptional behavior of the microbiome, the analysis was first performed on shotgun reads without considering a reference metagenome. As a second step, RNA reads were aligned on the genes encoded by the microbial community, revealing the expression of more than 51 000 different transcripts. The present study is the first research which was able to dissect the transcriptional behavior at a single species level by considering the 106 microbial genomes previously identified. The exploration of the metabolic pathways confirmed the importance of Syntrophomonas species in fatty acids degradation, and also highlighted the presence of protective mechanisms toward the long chain fatty acid effects in bacteria belonging to Clostridiales, Rykenellaceae, and in species of the genera Halothermothrix and Anaerobaculum. Additionally, an interesting transcriptional activation of the chemotaxis genes was evidenced in seven species belonging to Clostridia, Halothermothrix, and Tepidanaerobacter. Surprisingly, methanogens revealed a very versatile behavior different from each other, even among similar species of the Methanoculleus genus, while a strong increase of the expression level in Methanosarcina sp. was evidenced after oleate addition.
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Affiliation(s)
- Laura Treu
- Department of Environmental Engineering, Technical University of Denmark , 2800 Kgs. Lyngby, Denmark
- Department of Agronomy Food Natural Resources Animals and Environment (DAFNAE), University of Padova , Viale dell'Università 16, Legnaro, PD 35020, Italy
| | - Stefano Campanaro
- Department of Biology, University of Padova , Via U. Bassi 58/b, 35121, Padova Italy
| | - Panagiotis G Kougias
- Department of Environmental Engineering, Technical University of Denmark , 2800 Kgs. Lyngby, Denmark
| | - Xinyu Zhu
- Department of Environmental Engineering, Technical University of Denmark , 2800 Kgs. Lyngby, Denmark
| | - Irini Angelidaki
- Department of Environmental Engineering, Technical University of Denmark , 2800 Kgs. Lyngby, Denmark
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Taubner RS, Rittmann SKMR. Method for Indirect Quantification of CH4 Production via H2O Production Using Hydrogenotrophic Methanogens. Front Microbiol 2016; 7:532. [PMID: 27199898 PMCID: PMC4850170 DOI: 10.3389/fmicb.2016.00532] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2015] [Accepted: 03/31/2016] [Indexed: 01/01/2023] Open
Abstract
Hydrogenotrophic methanogens are an intriguing group of microorganisms from the domain Archaea. Methanogens exhibit extraordinary ecological, biochemical, and physiological characteristics and possess a huge biotechnological potential. Yet, the only possibility to assess the methane (CH4) production potential of hydrogenotrophic methanogens is to apply gas chromatographic quantification of CH4. In order to be able to effectively screen pure cultures of hydrogenotrophic methanogens regarding their CH4 production potential we developed a novel method for indirect quantification of the volumetric CH4 production rate by measuring the volumetric water production rate. This method was established in serum bottles for cultivation of methanogens in closed batch cultivation mode. Water production was estimated by determining the difference in mass increase in a quasi-isobaric setting. This novel CH4 quantification method is an accurate and precise analytical technique, which can be used to rapidly screen pure cultures of methanogens regarding their volumetric CH4 evolution rate. It is a cost effective alternative determining CH4 production of methanogens over CH4 quantification by using gas chromatography, especially if applied as a high throughput quantification method. Eventually, the method can be universally applied for quantification of CH4 production from psychrophilic, thermophilic and hyperthermophilic hydrogenotrophic methanogens.
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Affiliation(s)
- Ruth-Sophie Taubner
- Research Platform: ExoLife, University of ViennaVienna, Austria; Institute of Astrophysics, University of ViennaVienna, Austria; Archaea Biology and Ecogenomics Division, Department of Ecogenomics and Systems Biology, University of ViennaVienna, Austria
| | - Simon K-M R Rittmann
- Archaea Biology and Ecogenomics Division, Department of Ecogenomics and Systems Biology, University of Vienna Vienna, Austria
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Ino K, Konno U, Kouduka M, Hirota A, Togo YS, Fukuda A, Komatsu D, Tsunogai U, Tanabe AS, Yamamoto S, Iwatsuki T, Mizuno T, Ito K, Suzuki Y. Deep microbial life in high-quality granitic groundwater from geochemically and geographically distinct underground boreholes. ENVIRONMENTAL MICROBIOLOGY REPORTS 2016; 8:285-294. [PMID: 26743638 DOI: 10.1111/1758-2229.12379] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2015] [Revised: 12/30/2015] [Accepted: 12/30/2015] [Indexed: 06/05/2023]
Abstract
Deep granitic aquifer is one of the largest, but least understood, microbial habitats. To avoid contamination from the surface biosphere, underground drilling was conducted for 300 m deep granitic rocks at the Mizunami underground research laboratory (URL), Japan. Slightly alkaline groundwater was characterized by low concentrations of dissolved organic matter and sulfate and the presence of > 100 nM H2 . The initial biomass was the highest (∼10(5) cells ml(-1) ) with the dominance of Hydrogenophaga spp., whereas the phylum Nitrospirae became predominant after 3 years with decreasing biomass (∼10(4) cells ml(-1) ). One week incubation of groundwater microbes after 3 years with (13) C-labelled bicarbonate and 1% H2 and subsequent single-cell imaging with nanometer-scale secondary ion mass spectrometry demonstrated that microbial cells were metabolically active. Pyrosequencing of microbial communities in groundwater retrieved at 3-4 years after drilling at the Mizunami URL and at 14 and 25 years after the drilling at the Grimsel Test Site, Switzerland, revealed the occurrence of common Nitrospirae lineages at the geographically distinct sites. As the close relatives of the Nitrospirae lineages were exclusively detected from deep groundwaters and terrestrial hot springs, it suggests that these bacteria are indigenous and potentially adapted to the deep terrestrial subsurface.
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Affiliation(s)
- Kohei Ino
- Graduate School of Science, The University of Tokyo, 7-3-1 Hongo Bunkyo-ku, Bunkyo-ku, Tokyo, 113-0033, Japan
| | - Uta Konno
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology, Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan
| | - Mariko Kouduka
- Graduate School of Science, The University of Tokyo, 7-3-1 Hongo Bunkyo-ku, Bunkyo-ku, Tokyo, 113-0033, Japan
| | - Akinari Hirota
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology, Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan
| | - Yoko S Togo
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology, Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan
| | - Akari Fukuda
- Japan Atomic Energy Agency, 1-64 Yamanouchi, Akiyo-cho, Mizunami, Gifu, 509-6132, Japan
| | - Daisuke Komatsu
- Graduate School of Environmental Studies, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, Aichi, 464-8601, Japan
| | - Urumu Tsunogai
- Graduate School of Environmental Studies, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, Aichi, 464-8601, Japan
| | - Akihumi S Tanabe
- Graduate School of Global Environmental Studies, Kyoto University, Yoshida-nihonmatsu-cho, Sakyo-ku, Kyoto, 606-8501, Japan
| | - Satoshi Yamamoto
- Graduate School of Global Environmental Studies, Kyoto University, Yoshida-nihonmatsu-cho, Sakyo-ku, Kyoto, 606-8501, Japan
| | - Teruki Iwatsuki
- Japan Atomic Energy Agency, 1-64 Yamanouchi, Akiyo-cho, Mizunami, Gifu, 509-6132, Japan
| | - Takashi Mizuno
- Japan Atomic Energy Agency, 1-64 Yamanouchi, Akiyo-cho, Mizunami, Gifu, 509-6132, Japan
| | - Kazumasa Ito
- Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology, Higashi 1-1-1, Tsukuba, Ibaraki, 305-8567, Japan
| | - Yohey Suzuki
- Graduate School of Science, The University of Tokyo, 7-3-1 Hongo Bunkyo-ku, Bunkyo-ku, Tokyo, 113-0033, Japan
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Yun YM, Kim DH, Cho SK, Shin HS, Jung KW, Kim HW. Mitigation of ammonia inhibition by internal dilution in high-rate anaerobic digestion of food waste leachate and evidences of microbial community response. Biotechnol Bioeng 2016; 113:1892-901. [DOI: 10.1002/bit.25968] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2015] [Revised: 02/18/2016] [Accepted: 02/22/2016] [Indexed: 11/07/2022]
Affiliation(s)
- Yeo-Myeong Yun
- College of Agriculture; Forestry and Natural Resource Management; University of Hawaii at Hilo; Hilo Hawaii
| | - Dong-Hoon Kim
- Department of Civil Engineering; Inha University; Nam-gu, Incheon Republic of Korea
| | - Si-Kyung Cho
- Department of Biological and Environmental Science; Dongguk University; Ilsandong-gu, Goyang Republic of Korea
| | - Hang-Sik Shin
- Department of Civil and Environmental Engineering; KAIST; Yuseong-gu, Daejeon Republic of Korea
| | - Kyung-Won Jung
- Center for Water Resources Cycle Research; Korea Institute of Science and Technology; Seonbuk-gu, Seoul Republic of Korea
| | - Hyun-Woo Kim
- Department of Environmental Engineering; Soil Environment Research Center; Chonbuk National University; 567 Baekje-daero, deokjin-gu Jeonju 54896 Republic of Korea
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Kita A, Suehira K, Miura T, Okamura Y, Aki T, Matsumura Y, Tajima T, Nishio N, Nakashimada Y. Characterization of a halotolerant acetoclastic methanogen highly enriched from marine sediment and its application in removal of acetate. J Biosci Bioeng 2016; 121:196-202. [DOI: 10.1016/j.jbiosc.2015.05.018] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2015] [Revised: 05/15/2015] [Accepted: 05/28/2015] [Indexed: 11/30/2022]
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Liu Q, Ren ZJ, Huang C, Liu B, Ren N, Xing D. Multiple syntrophic interactions drive biohythane production from waste sludge in microbial electrolysis cells. BIOTECHNOLOGY FOR BIOFUELS 2016; 9:162. [PMID: 27489567 PMCID: PMC4971668 DOI: 10.1186/s13068-016-0579-x] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2016] [Accepted: 07/27/2016] [Indexed: 05/04/2023]
Abstract
BACKGROUND Biohythane is a new and high-value transportation fuel present as a mixture of biomethane and biohydrogen. It has been produced from different organic matters using anaerobic digestion. Bioenergy can be recovered from waste activated sludge through methane production during anaerobic digestion, but energy yield is often insufficient to sludge disposal. Microbial electrolysis cell (MEC) is also a promising approach for bioenergy recovery and waste sludge disposal as higher energy efficiency and biogas production. The systematic understanding of microbial interactions and biohythane production in MEC is still limited. Here, we report biohythane production from waste sludge in biocathode microbial electrolysis cells and reveal syntrophic interactions in microbial communities based on high-throughput sequencing and quantitative PCR targeting 16S rRNA gene. RESULTS The alkali-pretreated sludge fed MECs (AS-MEC) showed the highest biohythane production rate of 0.148 L·L(-1)-reactor·day(-1), which is 40 and 80 % higher than raw sludge fed MECs (RS-MEC) and anaerobic digestion (open circuit MEC, RS-OCMEC). Current density, metabolite profiles, and hydrogen-methane ratio results all confirm that alkali-pretreatment and microbial electrolysis greatly enhanced sludge hydrolysis and biohythane production. Illumina Miseq sequencing of 16S rRNA gene amplicons indicates that anode biofilm was dominated by exoelectrogenic Geobacter, fermentative bacteria and hydrogen-producing bacteria in the AS-MEC. The cathode biofilm was dominated by fermentative Clostridium. The dominant archaeal populations on the cathodes of AS-MEC and RS-MEC were affiliated with hydrogenotrophic Methanobacterium (98 %, relative abundance) and Methanocorpusculum (77 %), respectively. Multiple pathways of gas production were observed in the same MEC reactor, including fermentative and electrolytic H2 production, as well as hydrogenotrophic methanogenesis and electromethanogenesis. Real-time quantitative PCR analyses showed that higher amount of methanogens were enriched in AS-MEC than that in RS-MEC and RS-OCMEC, suggesting that alkali-pretreated sludge and MEC facilitated hydrogenotrophic methanogen enrichment. CONCLUSION This study proves for the first time that biohythane could be produced directly in biocathode MECs using waste sludge. MEC and alkali-pretreatment accelerated enrichment of hydrogenotrophic methanogen and hydrolysis of waste sludge. The results indicate syntrophic interactions among fermentative bacteria, exoelectrogenic bacteria and methanogenic archaea in MECs are critical for highly efficient conversion of complex organics into biohythane, demonstrating that MECs can be more competitive than conventional anaerobic digestion for biohythane production using carbohydrate-deficient substrates. Biohythane production from waste sludge by MEC provides a promising new way for practical application of microbial electrochemical technology.
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Affiliation(s)
- Qian Liu
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, P.O. Box 2650, 73 Huanghe Road, Nangang District, Harbin, 150090 Heilongjiang China
| | - Zhiyong Jason Ren
- Department of Civil, Environmental, and Architectural Engineering, University of Colorado Boulder, Boulder, CO 80309 USA
| | - Cong Huang
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, P.O. Box 2650, 73 Huanghe Road, Nangang District, Harbin, 150090 Heilongjiang China
| | - Bingfeng Liu
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, P.O. Box 2650, 73 Huanghe Road, Nangang District, Harbin, 150090 Heilongjiang China
| | - Nanqi Ren
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, P.O. Box 2650, 73 Huanghe Road, Nangang District, Harbin, 150090 Heilongjiang China
| | - Defeng Xing
- State Key Laboratory of Urban Water Resource and Environment, School of Municipal and Environmental Engineering, Harbin Institute of Technology, P.O. Box 2650, 73 Huanghe Road, Nangang District, Harbin, 150090 Heilongjiang China
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Holmes D, Smith J. Biologically Produced Methane as a Renewable Energy Source. ADVANCES IN APPLIED MICROBIOLOGY 2016; 97:1-61. [PMID: 27926429 DOI: 10.1016/bs.aambs.2016.09.001] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Methanogens are a unique group of strictly anaerobic archaea that are more metabolically diverse than previously thought. Traditionally, it was thought that methanogens could only generate methane by coupling the oxidation of products formed by fermentative bacteria with the reduction of CO2. However, it has recently been observed that many methanogens can also use electrons extruded from metal-respiring bacteria, biocathodes, or insoluble electron shuttles as energy sources. Methanogens are found in both human-made and natural environments and are responsible for the production of ∼71% of the global atmospheric methane. Their habitats range from the human digestive tract to hydrothermal vents. Although biologically produced methane can negatively impact the environment if released into the atmosphere, when captured, it can serve as a potent fuel source. The anaerobic digestion of wastes such as animal manure, human sewage, or food waste produces biogas which is composed of ∼60% methane. Methane from biogas can be cleaned to yield purified methane (biomethane) that can be readily incorporated into natural gas pipelines making it a promising renewable energy source. Conventional anaerobic digestion is limited by long retention times, low organics removal efficiencies, and low biogas production rates. Therefore, many studies are being conducted to improve the anaerobic digestion process. Researchers have found that addition of conductive materials and/or electrically active cathodes to anaerobic digesters can stimulate the digestion process and increase methane content of biogas. It is hoped that optimization of anaerobic digesters will make biogas more readily accessible to the average person.
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Taubner RS, Schleper C, Firneis MG, Rittmann SKMR. Assessing the Ecophysiology of Methanogens in the Context of Recent Astrobiological and Planetological Studies. Life (Basel) 2015; 5:1652-86. [PMID: 26703739 PMCID: PMC4695842 DOI: 10.3390/life5041652] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2015] [Revised: 10/15/2015] [Accepted: 11/10/2015] [Indexed: 12/31/2022] Open
Abstract
Among all known microbes capable of thriving under extreme and, therefore, potentially extraterrestrial environmental conditions, methanogens from the domain Archaea are intriguing organisms. This is due to their broad metabolic versatility, enormous diversity, and ability to grow under extreme environmental conditions. Several studies revealed that growth conditions of methanogens are compatible with environmental conditions on extraterrestrial bodies throughout the Solar System. Hence, life in the Solar System might not be limited to the classical habitable zone. In this contribution we assess the main ecophysiological characteristics of methanogens and compare these to the environmental conditions of putative habitats in the Solar System, in particular Mars and icy moons. Eventually, we give an outlook on the feasibility and the necessity of future astrobiological studies concerning methanogens.
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Affiliation(s)
- Ruth-Sophie Taubner
- Research Platform: ExoLife, University of Vienna, Türkenschanzstraße 17, 1180 Vienna, Austria.
- Institute of Astrophysics, University of Vienna, Türkenschanzstraße 17, 1180 Vienna, Austria.
| | - Christa Schleper
- Archaea Biology and Ecogenomics Division, Department of Ecogenomics and Systems Biology, University of Vienna, Althanstraße 14, 1090 Vienna, Austria.
| | - Maria G Firneis
- Research Platform: ExoLife, University of Vienna, Türkenschanzstraße 17, 1180 Vienna, Austria.
- Institute of Astrophysics, University of Vienna, Türkenschanzstraße 17, 1180 Vienna, Austria.
| | - Simon K-M R Rittmann
- Archaea Biology and Ecogenomics Division, Department of Ecogenomics and Systems Biology, University of Vienna, Althanstraße 14, 1090 Vienna, Austria.
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Tong H, Liu C, Li F, Luo C, Chen M, Hu M. The key microorganisms for anaerobic degradation of pentachlorophenol in paddy soil as revealed by stable isotope probing. JOURNAL OF HAZARDOUS MATERIALS 2015; 298:252-260. [PMID: 26073380 DOI: 10.1016/j.jhazmat.2015.05.049] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2015] [Revised: 05/26/2015] [Accepted: 05/28/2015] [Indexed: 06/04/2023]
Abstract
Pentachlorophenol (PCP) is a common residual persistent pesticide in paddy soil and has resulted in harmful effect on soil ecosystem. The anaerobic microbial transformation of PCP, therefore, has been received much attentions, especially the functional microbial communities for the reductive transformation. However, the key functional microorganisms for PCP mineralization in the paddy soil still remain unknown. In this work, DNA-based stable isotope probing (SIP) was applied to explore the key microorganisms responsible for PCP mineralization in paddy soil. The SIP results indicated that the dominant bacteria responsible for PCP biodegradation belonged to the genus Dechloromonas of the class β-Proteobacteria. In addition, the increased production of (13)CH4 and (13)CO2 indicated that the addition of lactate enhanced the rate of biodegradation and mineralization of PCP. Two archaea classified as the genera of Methanosaeta and Methanocella of class Methanobacteria were enriched in the heavy fraction when with lactate, whereas no archaea was detected in the absence of lactate. These findings provide direct evidence for the species of bacteria and archaea responsible for anaerobic PCP or its breakdown products mineralization and reveal a new insight into the microorganisms linked with PCP degradation in paddy soil.
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Affiliation(s)
- Hui Tong
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China; Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou 510640, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Chengshuai Liu
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550009, PR China
| | - Fangbai Li
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China.
| | - Chunling Luo
- Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou 510640, PR China
| | - Manjia Chen
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Min Hu
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
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