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Zhou J, Deng W, Wu J, Xiang H, Shen X, Lin JG, Hong Y. Respiration and growth of Paracoccus denitrificans R-1 with nitrous oxide as an electron acceptor. Microbiol Spectr 2024; 12:e0381123. [PMID: 38647341 PMCID: PMC11237620 DOI: 10.1128/spectrum.03811-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 03/22/2024] [Indexed: 04/25/2024] Open
Abstract
In the nitrogen biogeochemical cycle, the reduction of nitrous oxide (N2O) to N2 by N2O reductase, which is encoded by nosZ gene, is the only biological pathway for N2O consumption. In this study, we successfully isolated a strain of denitrifying Paracoccus denitrificans R-1 from sewage treatment plant sludge. This strain has strong N2O reduction capability, and the average N2O reduction rate was 5.10 ± 0.11 × 10-9 µmol·h-1·cell-1 under anaerobic condition in a defined medium. This reduction was accompanied by the stoichiometric consumption of acetate over time when N2O served as the sole electron acceptor and the reduction can yield energy to support microbial growth, suggesting that microbial N2O reduction is related to the energy generation process. Genomic analysis showed that the gene cluster encoding N2O reductase of P. denitrificans R-1 was composed of nosR, nosZ, nosD, nosF, nosY, nosL, and nosZ, which was identified as that in other strains in clade I. Respiratory inhibitors test indicated that the pathway of electron transport for N2O reduction was different from that of the traditional electron transport chain for aerobic respiration. Cu2+, silver nanoparticles, O2, and acidic conditions can strongly inhibit the reduction, whereas NO3- or NH4+ can promote it. These findings suggest that modular N2O reduction of P. denitrificans R-1 is linked to the electron transport and energy conservation, and dissimilatory N2O reduction is a form of microbial anaerobic respiration. IMPORTANCE Nitrous oxide (N2O) is a potent greenhouse gas and contributor to ozone layer destruction, and atmospheric N2O has increased steadily over the past century due to human activities. The release of N2O from fixed N is almost entirely controlled by microbial N2O reductase activities. Here, we investigated the ability to obtain energy for the growth of Paracoccus denitrificans R-1 by coupling the oxidation of various electron donors to N2O reduction. The modular N2O reduction process of denitrifying microorganism not only can consume N2O produced by itself but also can consume the external N2O generated from biological or abiotic pathways under suitable condition, which should be critical for controlling the release of N2O from ecosystems into the atmosphere.
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Affiliation(s)
- Jiaxian Zhou
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, China
- School of Environmental Science and Engineering, Guangzhou University, Guangzhou, China
| | - Wenfang Deng
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, China
| | - Jiapeng Wu
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, China
| | - Hua Xiang
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, China
| | - Xiaomei Shen
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, China
| | - Jih-Gaw Lin
- Institute of Environmental Engineering, National Yangming Chiao Tung University, Hsinchu City, Taiwan
| | - Yiguo Hong
- Institute of Environmental Research at Greater Bay Area; Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, China
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2
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Saghaï A, Hallin S. Diversity and ecology of NrfA-dependent ammonifying microorganisms. Trends Microbiol 2024; 32:602-613. [PMID: 38462391 DOI: 10.1016/j.tim.2024.02.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Revised: 02/11/2024] [Accepted: 02/13/2024] [Indexed: 03/12/2024]
Abstract
Nitrate ammonifiers are a taxonomically diverse group of microorganisms that reduce nitrate to ammonium, which is released, and thereby contribute to the retention of nitrogen in ecosystems. Despite their importance for understanding the fate of nitrate, they remain a largely overlooked group in the nitrogen cycle. Here, we present the latest advances on free-living microorganisms using NrfA to reduce nitrite during ammonification. We describe their diversity and ecology in terrestrial and aquatic environments, as well as the environmental factors influencing the competition for nitrate with denitrifiers that reduce nitrate to gaseous nitrogen species, including the greenhouse gas nitrous oxide (N2O). We further review the capacity of ammonifiers for other redox reactions, showing that they likely play multiple roles in the cycling of elements.
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Affiliation(s)
- Aurélien Saghaï
- Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Sara Hallin
- Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences, Uppsala, Sweden.
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3
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Li MJ, Ye XX, Da YM, Sun QY, Zhou GW. Unveil of the role of fungal taxa in iron(III) reduction in paddy soil. Front Microbiol 2024; 14:1334051. [PMID: 38328582 PMCID: PMC10848163 DOI: 10.3389/fmicb.2023.1334051] [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: 11/06/2023] [Accepted: 12/13/2023] [Indexed: 02/09/2024] Open
Abstract
Hitherto, research on iron(III)-reduction has mainly focused on bacteria rather than fungal communities. To acquire insight into fungi involved in iron(III) reduction, typical organic matters (containing cellulose, glucose, lactate, and acetate) and ferrihydrite were used as electron donors and acceptors, respectively, in the presence of antibiotics. After antibiotic addition, microbial iron(III) reduction was still detected at quite high rates. In comparison, rates of iron(III) reduction were significantly lower in cellulose-amended groups than those with glucose, lactate, and acetate under the antibiotic-added condition. Patterns of intermediate (e.g., acetate, pyruvate, glucose) turnover were markedly different between treatments with and without antibiotics during organic degradation. A total of 20 genera of potential respiratory and fermentative iron(III)-reducing fungi were discovered based on ITS sequencing and genome annotation. This study provided an insight into the diversity of iron(III)-reducing fungi, indicating the underestimated contribution of fungi to iron and the coupled carbon biogeochemical cycling in environments.
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Affiliation(s)
| | | | | | | | - Guo-Wei Zhou
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
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4
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Yoon S, Heo H, Han H, Song DU, Bakken LR, Frostegård Å, Yoon S. Suggested role of NosZ in preventing N 2O inhibition of dissimilatory nitrite reduction to ammonium. mBio 2023; 14:e0154023. [PMID: 37737639 PMCID: PMC10653820 DOI: 10.1128/mbio.01540-23] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Accepted: 07/31/2023] [Indexed: 09/23/2023] Open
Abstract
IMPORTANCE Dissimilatory nitrate/nitrite reduction to ammonium (DNRA) is a microbial energy-conserving process that reduces NO3 - and/or NO2 - to NH4 +. Interestingly, DNRA-catalyzing microorganisms possessing nrfA genes are occasionally found harboring nosZ genes encoding nitrous oxide reductases, i.e., the only group of enzymes capable of removing the potent greenhouse gas N2O. Here, through a series of physiological experiments examining DNRA metabolism in one of such microorganisms, Bacillus sp. DNRA2, we have discovered that N2O may delay the transition to DNRA upon an oxic-to-anoxic transition, unless timely removed by the nitrous oxide reductases. These observations suggest a novel explanation as to why some nrfA-possessing microorganisms have retained nosZ genes: to remove N2O that may otherwise interfere with the transition from O2 respiration to DNRA.
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Affiliation(s)
- Sojung Yoon
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, South Korea
| | - Hokwan Heo
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, South Korea
| | - Heejoo Han
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, South Korea
| | - Dong-Uk Song
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, South Korea
| | - Lars R. Bakken
- Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway
| | - Åsa Frostegård
- Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway
| | - Sukhwan Yoon
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, South Korea
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5
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Jia L, Zhou Q, Li Y, Wu W. Application of manganese oxides in wastewater treatment: Biogeochemical Mn cycling driven by bacteria. CHEMOSPHERE 2023:139219. [PMID: 37327824 DOI: 10.1016/j.chemosphere.2023.139219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 06/05/2023] [Accepted: 06/13/2023] [Indexed: 06/18/2023]
Abstract
Manganese oxides (MnOx) are recognized as a strongest oxidant and adsorbent, of which composites have been proved to be effective in the removal of contaminants from wastewater. This review provides a comprehensive analysis of Mn biochemistry in water environment including Mn oxidation and Mn reduction. The recent research on the application of MnOx in the wastewater treatment was summarized, including the involvement of organic micropollutant degradation, the transformation of nitrogen and phosphorus, the fate of sulfur and the methane mitigation. In addition to the adsorption capacity, the Mn cycling mediated by Mn(II) oxidizing bacteria and Mn(IV) reducing bacteria is the driving force for the MnOx utilization. The common category, characteristics and functions of Mn microorganisms in recent studies were also reviewed. Finally, the discussion on the influence factors, microbial response, reaction mechanism and potential risk of MnOx application in pollutants' transformation were proposed, which might be the promising opportunities for the future investigation of MnOx application in wastewater treatment.
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Affiliation(s)
- Lixia Jia
- Department of Environmental Science, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, PR China
| | - Qi Zhou
- Department of Environmental Science, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, PR China
| | - Yuanwei Li
- Department of Environmental Science, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, PR China
| | - Weizhong Wu
- Department of Environmental Science, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, PR China; The Key Laboratory of Water and Sediment Sciences (Peking University), Ministry of Education, Beijing, 100871, China.
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6
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Fan Y, Sun S, He S. Iron plaque formation and its effect on key elements cycling in constructed wetlands: Functions and outlooks. WATER RESEARCH 2023; 235:119837. [PMID: 36905735 DOI: 10.1016/j.watres.2023.119837] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Revised: 02/13/2023] [Accepted: 03/05/2023] [Indexed: 06/18/2023]
Abstract
Ecological restoration of wetland plants has emerged as an environmentally-friendly and less carbon footprint method for treating secondary effluent wastewater. Root iron plaque (IP) is located at the important ecological niches in constructed wetlands (CWs) ecosystem and is the critical micro-zone for pollutants migration and transformation. Root IP can affect the chemical behaviors and bioavailability of key elements (C, N, P) since its formation/dissolution is a dynamic equilibrium process jointly influenced by rhizosphere habitats. However, as an efficient approach to further explore the mechanism of pollutant removal in CWs, the dynamic formation of root IP and its function have not been fully studied, especially in substrate-enhanced CWs. This article concentrates on the biogeochemical processes between Fe cycling involved in root IP with carbon turnover, nitrogen transformation, and phosphorus availability in CWs rhizosphere. As IP has the potential to enhance pollutant removal by being regulated and managed, we summarized the critical factors affecting the IP formation from the perspective of wetland design and operation, as well as emphasizing the heterogeneity of rhizosphere redox and the role of key microbes in nutrient cycling. Subsequently, interactions between redox-controlled root IP and biogeochemical elements (C, N, P) are emphatically discussed. Additionally, the effects of IP on emerging contaminants and heavy metals in CWs rhizosphere are assessed. Finally, major challenges and outlooks for future research in regards to root IP are proposed. It is expected that this review can provide a new perspective for the efficient removal of target pollutants in CWs.
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Affiliation(s)
- Yuanyuan Fan
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Shanshan Sun
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Shengbing He
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China; Shanghai Engineering Research Center of Landscape Water Environment, Shanghai 200031, China.
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7
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Al-Mamun A, Ahmed W, Jafary T, Nayak JK, Al-Nuaimi A, Sana A. Recent advances in microbial electrosynthesis system: Metabolic investigation and process optimization. Biochem Eng J 2023. [DOI: 10.1016/j.bej.2023.108928] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/07/2023]
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8
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Li S, Wang J, Liu J, Zhang H, Bao T, Sun C, Fang J, Cao J. Genomic Analysis of the Deep-Sea Bacterium Shewanella sp. MTB7 Reveals Backgrounds Related to Its Deep-Sea Environment Adaptation. Microorganisms 2023; 11:microorganisms11030798. [PMID: 36985371 PMCID: PMC10059138 DOI: 10.3390/microorganisms11030798] [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: 01/30/2023] [Revised: 02/27/2023] [Accepted: 03/18/2023] [Indexed: 03/30/2023] Open
Abstract
Shewanella species are widely distributed in various environments, especially deep-sea sediments, due to their remarkable ability to utilize multiple electron receptors and versatile metabolic capabilities. In this study, a novel facultatively anaerobic, psychrophilic, and piezotolerant bacterium, Shewanella sp. MTB7, was isolated from the Mariana Trench at a depth of 5900 m. Here, we report its complete genome sequence and adaptation strategies for survival in deep-sea environments. MTB7 contains what is currently the third-largest genome among all isolated Shewanella strains and shows higher coding density than neighboring strains. Metabolically, MTB7 is predicted to utilize various carbon and nitrogen sources. D-amino acid utilization and HGT-derived purine-degrading genes could contribute to its oligotrophic adaptation. For respiration, the cytochrome o ubiquinol oxidase genes cyoABCDE, typically expressed at high oxygen concentrations, are missing. Conversely, a series of anaerobic respiratory genes are employed, including fumarate reductase, polysulfide reductase, trimethylamine-N-oxide reductase, crotonobetaine reductase, and Mtr subunits. The glycine reductase genes and the triplication of dimethyl sulfoxide reductase genes absent in neighboring strains could also help MTB7 survive in low-oxygen environments. Many genes encoding cold-shock proteins, glycine betaine transporters and biosynthetic enzymes, and reactive oxygen species-scavenging proteins could contribute to its low-temperature adaptation. The genomic analysis of MTB7 will deepen our understanding of microbial adaptation strategies in deep-sea environments.
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Affiliation(s)
- Sicong Li
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
| | - Jiahua Wang
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
| | - Jie Liu
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
| | - Hongcai Zhang
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
| | - Tianqiang Bao
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
| | - Chengwen Sun
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
| | - Jiasong Fang
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Junwei Cao
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
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9
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Liu Y, Wan Y, Ma Z, Dong W, Su X, Shen X, Yi X, Chen Y. Effects of magnetite on microbially driven nitrate reduction processes in groundwater. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 855:158956. [PMID: 36150598 DOI: 10.1016/j.scitotenv.2022.158956] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Revised: 08/30/2022] [Accepted: 09/19/2022] [Indexed: 06/16/2023]
Abstract
Nitrate is a common pollutant in the aquatic environment. Denitrification and dissimilatory nitrate reduction to ammonium (DNRA) are the main reduction processes of nitrate. In the relatively closed sediment environment, the competitive interaction of these two nitrate reduction determines whether the ecosystem removes or retains nitrogen. In the process of NO3--N bioreduction, Magnetite, which is a common mineral present in soil and other sediments can play a crucial role. However, it is still not clear whether magnetite promotes or inhibits NO3--N bioreduction. In this paper, the effect of magnetite on NO3--N bioreduction was studied by batch experiments. The results show that magnetite can increase the NO3--N reduction rate by 1.48 %, and can inhibit the DNRA process at the beginning of the reaction and then promote the DNRA process. Magnetite changed the microbial community structure in our experiment systems. The relative abundance of Sphingomonas, which mainly exists in a high carbon and low nitrogen environment, increased under sufficient carbon source conditions. The relative abundance of Fe-oxidizing and NO3--N reducing bacteria, such as Flavobacterium, increased in the absence of carbon sources but in the presence of magnetite. In addition, magnetite can significantly increase activity of the microbial electron transport system (ETS). the added microbial electronic activity of magnetite increased nearly two-fold under the same experiment conditions. The acid produced by the metabolisms of Pseudomonas and Acinetobacter further promotes the dissolution of magnetite, thus increasing the concentration of Fe (II) in the system, which is beneficial to autotrophic denitrifying bacteria and promote the reduction of NO3--N. These findings can enhance our understanding of the interaction mechanism between iron minerals and nitrate reducing bacteria during nitrate reduction under natural conditions.
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Affiliation(s)
- Yu Liu
- College of New Energy and Environment, Jilin University, Changchun, Jilin 130021, China; Institute of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China
| | - Yuyu Wan
- Key Laboratory of Groundwater Resources and Environments, Ministry of Education, Jilin University, Changchun, Jilin 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China
| | - Zhe Ma
- Key Laboratory of Groundwater Resources and Environments, Ministry of Education, Jilin University, Changchun, Jilin 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China
| | - Weihong Dong
- Key Laboratory of Groundwater Resources and Environments, Ministry of Education, Jilin University, Changchun, Jilin 130021, China; Institute of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China.
| | - Xiaosi Su
- Key Laboratory of Groundwater Resources and Environments, Ministry of Education, Jilin University, Changchun, Jilin 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China
| | - Xiaofang Shen
- College of New Energy and Environment, Jilin University, Changchun, Jilin 130021, China; Institute of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China
| | - Xiaokun Yi
- College of New Energy and Environment, Jilin University, Changchun, Jilin 130021, China; Institute of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China
| | - Yaoxuan Chen
- College of New Energy and Environment, Jilin University, Changchun, Jilin 130021, China; Institute of Water Resources and Environment, Jilin University, Changchun, Jilin 130021, China
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Nims C, Johnson JE. Exploring the secondary mineral products generated by microbial iron respiration in Archean ocean simulations. GEOBIOLOGY 2022; 20:743-763. [PMID: 36087062 PMCID: PMC9826415 DOI: 10.1111/gbi.12523] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Revised: 05/17/2022] [Accepted: 07/02/2022] [Indexed: 06/15/2023]
Abstract
Marine chemical sedimentary deposits known as Banded Iron Formations (BIFs) archive Archean ocean chemistry and, potentially, signs of ancient microbial life. BIFs contain a diversity of iron- and silica-rich minerals in disequilibrium, and thus many interpretations of these phases suggest they formed secondarily during early diagenetic processes. One such hypothesis posits that the early diagenetic microbial respiration of primary iron(III) oxides in BIFs resulted in the formation of other iron phases, including the iron-rich silicates, carbonates, and magnetite common in BIF assemblages. Here, we simulated this proposed pathway in laboratory incubations combining a model dissimilatory iron-reducing (DIR) bacterium, Shewanella putrefaciens CN32, and the ferric oxyhydroxide mineral ferrihydrite under conditions mimicking the predicted Archean seawater geochemistry. We assessed the impact of dissolved silica, calcium, and magnesium on the bioreduced precipitates. After harvesting the solid products from these experiments, we analyzed the reduced mineral phases using Raman spectroscopy, electron microscopy, powder x-ray diffraction, and spectrophotometric techniques to identify mineral precipitates and track the bulk distributions of Fe(II) and Fe(III). These techniques detected a diverse range of calcium carbonate morphologies and polymorphism in incubations with calcium, as well as secondary ferric oxide phases like goethite in silica-free experiments. We also identified aggregates of curling, iron- and silica-rich amorphous precipitates in all incubations amended with silica. Although ferric oxides persist even in our electron acceptor-limited incubations, our observations indicate that microbial iron reduction of ferrihydrite is a viable pathway for the formation of early iron silicate phases. This finding allows us to draw parallels between our experimental proto-silicates and the recently characterized iron silicate nanoinclusions in BIF chert deposits, suggesting that early iron silicates could possibly be signatures of iron-reducing metabolisms on early Earth.
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Affiliation(s)
- Christine Nims
- Department of Earth and Environmental SciencesUniversity of MichiganAnn ArborMichiganUSA
| | - Jena E. Johnson
- Department of Earth and Environmental SciencesUniversity of MichiganAnn ArborMichiganUSA
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Darma A, Yang J, Zandi P, Liu J, Możdżeń K, Xia X, Sani A, Wang Y, Schnug E. Significance of Shewanella Species for the Phytoavailability and Toxicity of Arsenic-A Review. BIOLOGY 2022; 11:biology11030472. [PMID: 35336844 PMCID: PMC8944983 DOI: 10.3390/biology11030472] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/18/2022] [Revised: 03/14/2022] [Accepted: 03/16/2022] [Indexed: 12/02/2022]
Abstract
Simple Summary The availability of some toxic heavy metals, such as arsenic (As), is related to increased human and natural activities. This type of metal availability in the environment is associated with various health and environmental issues. Such problems may arise due to direct contact with or consumption of plant products containing this metal in some of their parts. A microbial approach that employs a group of bacteria (Shewanella species) is proposed to reduce the negative consequences of the availability of this metal (As) in the environment. This innovative strategy can reduce As mobility, its spread, and uptake by plants in the environment. The benefits of this approach include its low cost and the possibility of not exposing other components of the environment to unfavourable consequences. Abstract The distribution of arsenic continues due to natural and anthropogenic activities, with varying degrees of impact on plants, animals, and the entire ecosystem. Interactions between iron (Fe) oxides, bacteria, and arsenic are significantly linked to changes in the mobility, toxicity, and availability of arsenic species in aquatic and terrestrial habitats. As a result of these changes, toxic As species become available, posing a range of threats to the entire ecosystem. This review elaborates on arsenic toxicity, the mechanisms of its bioavailability, and selected remediation strategies. The article further describes how the detoxification and methylation mechanisms used by Shewanella species could serve as a potential tool for decreasing phytoavailable As and lessening its contamination in the environment. If taken into account, this approach will provide a globally sustainable and cost-effective strategy for As remediation and more information to the literature on the unique role of this bacterial species in As remediation as opposed to conventional perception of its role as a mobiliser of As.
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Affiliation(s)
- Aminu Darma
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
- Department of Biological Sciences, Faculty of Life Science, Bayero University, Kano 700006, Nigeria;
| | - Jianjun Yang
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
- Correspondence: (J.Y.); (E.S.); Tel.: +86-010-82105996 (J.Y.)
| | - Peiman Zandi
- International Faculty of Applied Technology, Yibin University, Yibin 644600, China;
| | - Jin Liu
- College of Agronomy and Biotechnology, China Agricultural University, Beijing 100094, China;
| | - Katarzyna Możdżeń
- Institute of Biology, Pedagogical University of Krakow, Podchorążych 2 St., 30-084 Krakow, Poland;
| | - Xing Xia
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
| | - Ali Sani
- Department of Biological Sciences, Faculty of Life Science, Bayero University, Kano 700006, Nigeria;
| | - Yihao Wang
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
| | - Ewald Schnug
- Department of Life Sciences, Institute for Plant Biology, Technical University of Braunschweig, 38106 Braunschweig, Germany
- Correspondence: (J.Y.); (E.S.); Tel.: +86-010-82105996 (J.Y.)
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12
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Bertsova YV, Oleynikov IP, Bogachev AV. A new water-soluble bacterial NADH: fumarate oxidoreductase. FEMS Microbiol Lett 2021; 367:5941483. [PMID: 33107907 DOI: 10.1093/femsle/fnaa175] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Accepted: 10/22/2020] [Indexed: 11/12/2022] Open
Abstract
The cytoplasmic fumarate reductase of Klebsiella pneumoniae (FRD) is a monomeric protein which contains three prosthetic groups: noncovalently bound FMN and FAD plus a covalently bound FMN. In the present work, NADH is revealed to be an inherent electron donor for this enzyme. We found that the fumarate reductase activity of FRD significantly exceeds its NADH dehydrogenase activity. During the catalysis of NADH:fumarate oxidoreductase reaction, FRD turnover is limited by a very low rate (∼10/s) of electron transfer between the noncovalently and covalently bound FMN moieties. Induction of FRD synthesis in K. pneumoniae cells was observed only under anaerobic conditions in the presence of fumarate or malate. Enzymes with the FRD-like domain architecture are widely distributed among various bacteria and apparently comprise a new type of water-soluble NADH:fumarate oxidoreductases.
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Affiliation(s)
- Yulia V Bertsova
- Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Vorobievy Gory 1/40, Moscow 119234, Russia
| | - Ilya P Oleynikov
- Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Vorobievy Gory 1/40, Moscow 119234, Russia
| | - Alexander V Bogachev
- Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Vorobievy Gory 1/40, Moscow 119234, Russia
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Huang J, Jones A, Waite TD, Chen Y, Huang X, Rosso KM, Kappler A, Mansor M, Tratnyek PG, Zhang H. Fe(II) Redox Chemistry in the Environment. Chem Rev 2021; 121:8161-8233. [PMID: 34143612 DOI: 10.1021/acs.chemrev.0c01286] [Citation(s) in RCA: 147] [Impact Index Per Article: 49.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
Iron (Fe) is the fourth most abundant element in the earth's crust and plays important roles in both biological and chemical processes. The redox reactivity of various Fe(II) forms has gained increasing attention over recent decades in the areas of (bio) geochemistry, environmental chemistry and engineering, and material sciences. The goal of this paper is to review these recent advances and the current state of knowledge of Fe(II) redox chemistry in the environment. Specifically, this comprehensive review focuses on the redox reactivity of four types of Fe(II) species including aqueous Fe(II), Fe(II) complexed with ligands, minerals bearing structural Fe(II), and sorbed Fe(II) on mineral oxide surfaces. The formation pathways, factors governing the reactivity, insights into potential mechanisms, reactivity comparison, and characterization techniques are discussed with reference to the most recent breakthroughs in this field where possible. We also cover the roles of these Fe(II) species in environmental applications of zerovalent iron, microbial processes, biogeochemical cycling of carbon and nutrients, and their abiotic oxidation related processes in natural and engineered systems.
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Affiliation(s)
- Jianzhi Huang
- Department of Civil and Environmental Engineering, Case Western Reserve University, 2104 Adelbert Road, Cleveland, Ohio 44106, United States
| | - Adele Jones
- UNSW Water Research Centre, School of Civil and Environmental Engineering, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - T David Waite
- UNSW Water Research Centre, School of Civil and Environmental Engineering, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - Yiling Chen
- Institute of Environmental and Ecological Engineering, Guangdong University of Technology, Guangzhou 510006, China
| | - Xiaopeng Huang
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Kevin M Rosso
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, 72076 Tuebingen, Germany
| | - Muammar Mansor
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, 72076 Tuebingen, Germany
| | - Paul G Tratnyek
- School of Public Health, Oregon Health & Science University, 3181 SW Sam Jackson Park Road, Portland, Oregon 97239, United States
| | - Huichun Zhang
- Department of Civil and Environmental Engineering, Case Western Reserve University, 2104 Adelbert Road, Cleveland, Ohio 44106, United States
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14
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Goff JL, Schaefer JK, Yee N. Extracellular sulfite is protective against reactive oxygen species and antibiotic stress in Shewanella oneidensis MR-1. ENVIRONMENTAL MICROBIOLOGY REPORTS 2021; 13:394-400. [PMID: 33870629 DOI: 10.1111/1758-2229.12947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Accepted: 04/04/2021] [Indexed: 06/12/2023]
Abstract
In this study, we investigated the extracellular reactive sulfur species produced by Shewanella oneidensis MR-1 during growth. The results showed that sulfite is the major extracellular sulfur metabolite released to the growth medium under both aerobic and anaerobic growth conditions. Exogenous sulfite at physiological concentrations protected S. oneidensis MR-1 from hydrogen peroxide toxicity and enhanced tolerance to the beta-lactam antibiotics cefazolin, meropenem, doripenem and ertapenem. These findings suggest that the release of extracellular sulfite is a bacterial defence mechanism that plays a role in the mitigation of environmental stress.
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Affiliation(s)
- Jennifer L Goff
- Department of Earth and Planetary Sciences, Rutgers University, Piscataway, NJ, USA
| | - Jeffra K Schaefer
- Department of Environmental Sciences, Rutgers University, New Brunswick, NJ, USA
| | - Nathan Yee
- Department of Earth and Planetary Sciences, Rutgers University, Piscataway, NJ, USA
- Department of Environmental Sciences, Rutgers University, New Brunswick, NJ, USA
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15
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Khan N, Anwer AH, Khan MD, Azam A, Ibhadon A, Khan MZ. Magnesium ferrite spinels as anode modifier for the treatment of Congo red and energy recovery in a single chambered microbial fuel cell. JOURNAL OF HAZARDOUS MATERIALS 2021; 410:124561. [PMID: 33246812 DOI: 10.1016/j.jhazmat.2020.124561] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2020] [Revised: 10/15/2020] [Accepted: 11/10/2020] [Indexed: 06/12/2023]
Abstract
Magnesium Ferrite (MgFe2O4) spinel structures prepared by a solid-state reaction was used as an anode modifier in the microbial fuel cell (MFC) treatment of Congo red dye. The performance of the reactors with unmodified stainless-steel mesh anode (CR-1) and MgFe2O4 coated stainless steel mesh anode (CR-2) were tested and compared followed by aerobic treatment. The peak power density was observed to be 295.936 (CR-1) and 430.336 mW/m2 (CR-2) revealing increased bioenergy output and better electron transfer in the reactor with the MgFe2O4 modified anode. The final decolourisation efficiencies were found to be 92.053% for CR-1 and 98.386% for CR-2. The formation of metabolites (diaminonaphthalene-1-sulfonate, 1-(biphenyl-4-yl)-2-(naphthalene-2-yl) diazene, benzidine and phthalic acid, monoethyl ether) during the anaerobic-aerobic biotreatment of azo dye was confirmed using Gas chromatography coupled Mass spectrometry system. Scanning electron microscopy confirmed a uniform coating of MgFe2O4 on the anode surface with evidence of biofilm formation in the system. Electrochemical studies confirmed the superior performance of spinel coated anode with enhanced redox activity. In addition, the charge-discharge studies confirmed the high capacitive nature of the modified electrode improving the electrodes charge holding capacity. The study suggested an effective treatment strategy for the treatment of Congo red dye.
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Affiliation(s)
- Nishat Khan
- Environmental Research Laboratory, Department of Chemistry, Aligarh Muslim University, Aligarh 202 002, UP, India
| | - Abdul Hakeem Anwer
- Industrial Chemistry Research Laboratory, Depatment of Chemistry, Aligarh Muslim University, Aligarh 202 002, UP, India
| | - Mohammad Danish Khan
- Industrial Chemistry Research Laboratory, Depatment of Chemistry, Aligarh Muslim University, Aligarh 202 002, UP, India
| | - Ameer Azam
- Department of Applied Physics, Zakir Husain College of Engineering and Technology, Aligarh Muslim University, Aligarh 202 002, UP, India
| | - Alex Ibhadon
- Department of Chemical Engineering, Faculty of Science and Engineering, University of Hull, Cottingham Road, Hull HU6 7RX, United Kingdom
| | - Mohammad Zain Khan
- Environmental Research Laboratory, Department of Chemistry, Aligarh Muslim University, Aligarh 202 002, UP, India; Industrial Chemistry Research Laboratory, Depatment of Chemistry, Aligarh Muslim University, Aligarh 202 002, UP, India.
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16
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Castelein SM, Aarts TF, Schleppi J, Hendrikx R, Böttger AJ, Benz D, Marechal M, Makaya A, Brouns SJJ, Schwentenwein M, Meyer AS, Lehner BAE. Iron can be microbially extracted from Lunar and Martian regolith simulants and 3D printed into tough structural materials. PLoS One 2021; 16:e0249962. [PMID: 33909656 PMCID: PMC8081250 DOI: 10.1371/journal.pone.0249962] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2020] [Accepted: 03/26/2021] [Indexed: 11/23/2022] Open
Abstract
In-situ resource utilization (ISRU) is increasingly acknowledged as an essential requirement for the construction of sustainable extra-terrestrial colonies. Even with decreasing launch costs, the ultimate goal of establishing colonies must be the usage of resources found at the destination of interest. Typical approaches towards ISRU are often constrained by the mass and energy requirements of transporting processing machineries, such as rovers and massive reactors, and the vast amount of consumables needed. Application of self-reproducing bacteria for the extraction of resources is a promising approach to reduce these pitfalls. In this work, the bacterium Shewanella oneidensis was used to reduce three different types of Lunar and Martian regolith simulants, allowing for the magnetic extraction of iron-rich materials. The combination of bacterial treatment and magnetic extraction resulted in a 5.8-times higher quantity of iron and 43.6% higher iron concentration compared to solely magnetic extraction. The materials were 3D printed into cylinders and the mechanical properties were tested, resulting in a 400% improvement in compressive strength in the bacterially treated samples. This work demonstrates a proof of concept for the on-demand production of construction and replacement parts in space exploration.
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Affiliation(s)
| | - Tom F. Aarts
- Department of Bionanoscience, TU Delft, Delft, Netherlands
| | - Juergen Schleppi
- School of Engineering and Physical Sciences, Institute for Mechanical, Process and Energy Engineering, Heriot-Watt University, Edinburgh, United Kingdom
| | - Ruud Hendrikx
- Department of Materials Science and Engineering, TU Delft, Delft, Netherlands
| | - Amarante J. Böttger
- Department of Materials Science and Engineering, TU Delft, Delft, Netherlands
| | - Dominik Benz
- Department of Chemical Engineering, TU Delft, Delft, Netherlands
| | - Maude Marechal
- European Space Research and Technology Centre (ESTEC), ESA, Noordwijk, Netherlands
| | - Advenit Makaya
- European Space Research and Technology Centre (ESTEC), ESA, Noordwijk, Netherlands
| | | | | | - Anne S. Meyer
- Department of Biology, University of Rochester, Rochester, New York, United States of America
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17
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Yang F, Zheng Y, Tian X, Liu Y, Li J, Shao Z, Zhao F. Redox cycling of manganese by Bacillus horikoshii biET1 via oxygen switch. Electrochim Acta 2021. [DOI: 10.1016/j.electacta.2021.137963] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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Dissimilatory Iron-Reducing Microorganisms Are Present and Active in the Sediments of the Doce River and Tributaries Impacted by Iron Mine Tailings from the Collapsed Fundão Dam (Mariana, MG, Brazil). MINERALS 2021. [DOI: 10.3390/min11030244] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
On 5 November 2015, a large tailing deposit failed in Brazil, releasing an estimated 32.6 to 62 million m3 of iron mining tailings into the environment. Tailings from the Fundão Dam flowed down through the Gualaxo do Norte and Carmo riverbeds and floodplains and reached the Doce River. Since then, bottom sediments have become enriched in Fe(III) oxyhydroxides. Dissimilatory iron-reducing microorganisms (DIRMs) are anaerobes able to couple organic matter oxidation to Fe(III) reduction, producing CO2 and Fe(II), which can precipitate as magnetite (FeO·Fe2O3) and other Fe(II) minerals. In this work, we investigated the presence of DIRMs in affected and non-affected bottom sediments of the Gualaxo do Norte and Doce Rivers. The increase in Fe(II) concentrations in culture media over time indicated the presence of Fe(III)-reducing microorganisms in all sediments tested, which could reduce Fe(III) from both tailings and amorphous ferric oxyhydroxide. Half of our enrichment cultures converted amorphous Fe(III) oxyhydroxide into magnetite, which was characterized by X-ray diffraction, transmission electron microscopy, and magnetic measurements. The conversion of solid Fe(III) phases to soluble Fe(II) and/or magnetite is characteristic of DIRM cultures. The presence of DIRMs in the sediments of the Doce River and tributaries points to the possibility of reductive dissolution of goethite (α-FeOOH) and/or hematite (α-Fe2O3) from sediments, along with the consumption of organics, release of trace elements, and impairment of water quality.
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19
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Kappler A, Bryce C, Mansor M, Lueder U, Byrne JM, Swanner ED. An evolving view on biogeochemical cycling of iron. Nat Rev Microbiol 2021; 19:360-374. [PMID: 33526911 DOI: 10.1038/s41579-020-00502-7] [Citation(s) in RCA: 202] [Impact Index Per Article: 67.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/08/2020] [Indexed: 01/23/2023]
Abstract
Biogeochemical cycling of iron is crucial to many environmental processes, such as ocean productivity, carbon storage, greenhouse gas emissions and the fate of nutrients, toxic metals and metalloids. Knowledge of the underlying processes involved in iron cycling has accelerated in recent years along with appreciation of the complex network of biotic and abiotic reactions dictating the speciation, mobility and reactivity of iron in the environment. Recent studies have provided insights into novel processes in the biogeochemical iron cycle such as microbial ammonium oxidation and methane oxidation coupled to Fe(III) reduction. They have also revealed that processes in the biogeochemical iron cycle spatially overlap and may compete with each other, and that oxidation and reduction of iron occur cyclically or simultaneously in many environments. This Review discusses these advances with particular focus on their environmental consequences, including the formation of greenhouse gases and the fate of nutrients and contaminants.
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Affiliation(s)
- Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany.
| | - Casey Bryce
- School of Earth Sciences, University of Bristol, Bristol, UK
| | - Muammar Mansor
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
| | - Ulf Lueder
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
| | - James M Byrne
- School of Earth Sciences, University of Bristol, Bristol, UK
| | - Elizabeth D Swanner
- Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA, USA
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20
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Dissimilatory Nitrate Reduction to Ammonium (DNRA) and Denitrification Pathways Are Leveraged by Cyclic AMP Receptor Protein (CRP) Paralogues Based on Electron Donor/Acceptor Limitation in Shewanella loihica PV-4. Appl Environ Microbiol 2021; 87:AEM.01964-20. [PMID: 33158888 DOI: 10.1128/aem.01964-20] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2020] [Accepted: 10/29/2020] [Indexed: 12/13/2022] Open
Abstract
Under anoxic conditions, many bacteria, including Shewanella loihica strain PV-4, could use nitrate as an electron acceptor for dissimilatory nitrate reduction to ammonium (DNRA) and/or denitrification. Previous and current studies have shown that DNRA is favored under higher ambient carbon-to-nitrogen (C/N) ratios, whereas denitrification is upregulated under lower C/N ratios, which is consistent with our bioenergetics calculations. Interestingly, computational analyses indicate that the common cyclic AMP receptor protein (designated CRP1) and its paralogue CRP2 might both be involved in the regulation of two competing dissimilatory nitrate reduction pathways, DNRA and denitrification, in S. loihica PV-4 and several other denitrifying Shewanella species. To explore the regulatory mechanism underlying the dissimilatory nitrate reduction (DNR) pathways, nitrate reduction of a series of in-frame deletion mutants was analyzed under different C/N ratios. Deletion of crp1 could accelerate the reduction of nitrite to NO under both low and high C/N ratios. CRP1 is not required for denitrification and actually suppresses production of NO and N2O gases. Deletion of either of the NO-forming nitrite reductase genes nirK or crp2 blocked production of NO gas. Furthermore, real-time PCR and electrophoretic mobility shift assays (EMSAs) demonstrated that the transcription levels of DNRA-relevant genes such as nap-β (napDABGH), nrfA, and cymA were upregulated by CRP1, while nirK transcription was dependent on CRP2. There are tradeoffs between the different physiological roles of nitrate/lactate, as nitrogen nutrient/carbon source and electron acceptor/donor and CRPs may leverage dissimilatory nitrate reduction pathways for maximizing energy yield and bacterial survival under ambient environmental conditions.IMPORTANCE Some microbes utilize different dissimilatory nitrate reduction (DNR) pathways, including DNR to ammonia (DNRA) and denitrification pathways, for anaerobic respiration in response to ambient carbon/nitrogen ratio changes. Large-scale industrial nitrogen fixation and fertilizer application raise the concern of emission of N2O, a stable gas with potent global warming potential, as consequence of microbial respiration, thereby aggravating global warming and climate change. However, little is known about the molecular mechanism underlying the choice of two competing DNR pathways. We demonstrate that the global regulator CRP1, which is widely encoded in bacteria, is required for DNRA in S. loihica PV-4 strain, while the CRP2 paralogue is required for transcription of the nitrite reductase gene nirK for denitrification. Sufficient carbon source lead to the predominance of DNRA, while carbon source/electron donor deficiency may result in an incomplete denitrification process, raising the concern of high levels of N2O emission from nitrate-rich and carbon source-poor waters and soils.
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21
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Cooper RE, Wegner CE, Kügler S, Poulin RX, Ueberschaar N, Wurlitzer JD, Stettin D, Wichard T, Pohnert G, Küsel K. Iron is not everything: unexpected complex metabolic responses between iron-cycling microorganisms. THE ISME JOURNAL 2020; 14:2675-2690. [PMID: 32690937 PMCID: PMC7784907 DOI: 10.1038/s41396-020-0718-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/24/2020] [Revised: 06/30/2020] [Accepted: 07/08/2020] [Indexed: 02/02/2023]
Abstract
Coexistence of microaerophilic Fe(II)-oxidizers and anaerobic Fe(III)-reducers in environments with fluctuating redox conditions is a prime example of mutualism, in which both partners benefit from the sustained Fe-pool. Consequently, the Fe-cycling machineries (i.e., metal-reducing or -oxidizing pathways) should be most affected during co-cultivation. However, contrasting growth requirements impeded systematic elucidation of their interactions. To disentangle underlying interaction mechanisms, we established a suboxic co-culture system of Sideroxydans sp. CL21 and Shewanella oneidensis. We showed that addition of the partner's cell-free supernatant enhanced both growth and Fe(II)-oxidizing or Fe(III)-reducing activity of each partner. Metabolites of the exometabolome of Sideroxydans sp. CL21 are generally upregulated if stimulated with the partner´s spent medium, while S. oneidensis exhibits a mixed metabolic response in accordance with a balanced response to the partner. Surprisingly, RNA-seq analysis revealed genes involved in Fe-cycling were not differentially expressed during co-cultivation. Instead, the most differentially upregulated genes included those encoding for biopolymer production, lipoprotein transport, putrescine biosynthesis, and amino acid degradation suggesting a regulated inter-species biofilm formation. Furthermore, the upregulation of hydrogenases in Sideroxydans sp. CL21 points to competition for H2 as electron donor. Our findings reveal that a complex metabolic and transcriptomic response, but not accelerated formation of Fe-end products, drive interactions of Fe-cycling microorganisms.
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Affiliation(s)
- Rebecca E Cooper
- Institute of Biodiversity, Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburger Strasse 159, 07743, Jena, Germany
| | - Carl-Eric Wegner
- Institute of Biodiversity, Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburger Strasse 159, 07743, Jena, Germany
| | - Stefan Kügler
- Institute of Biodiversity, Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburger Strasse 159, 07743, Jena, Germany
- Institute of Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany
| | - Remington X Poulin
- Institute of Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany
| | - Nico Ueberschaar
- Mass Spectrometry Platform, Faculty of Chemistry and Earth Sciences, Friedrich Schiller University Jena, Humboldstr. 8, 07743, Jena, Germany
| | - Jens D Wurlitzer
- Institute of Biodiversity, Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburger Strasse 159, 07743, Jena, Germany
| | - Daniel Stettin
- Institute of Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany
| | - Thomas Wichard
- Institute of Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany
| | - Georg Pohnert
- Institute of Inorganic and Analytical Chemistry, Friedrich Schiller University Jena, Lessingstr. 8, 07743, Jena, Germany
| | - Kirsten Küsel
- Institute of Biodiversity, Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburger Strasse 159, 07743, Jena, Germany.
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103, Leipzig, Germany.
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22
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Ouyang B, Lu X, Li J, Liu H. Microbial reductive transformation of iron-rich tailings in a column reactor and its environmental implications to arsenic reactive transport in mining tailings. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 670:1008-1018. [PMID: 31018416 DOI: 10.1016/j.scitotenv.2019.03.285] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/01/2019] [Revised: 03/16/2019] [Accepted: 03/19/2019] [Indexed: 06/09/2023]
Abstract
The evolution of iron minerals under buried conditions is one of the most important processes controlling the mineral composition and heavy metal transportation in sediments. Microbial-mediated reduction plays a critical role in iron mineral transformation in natural environment. This study examined the transformation pathways of iron minerals mediated by bacteria and the changes of associated arsenic species in iron-rich mine tailings. Static and column reactions were designed to monitor variations of minerals and released iron and arsenic, a reactive transport model was simulated to support laboratory results. Laboratory experiments showed that major ferric minerals were preferentially dissolved and reduced by dissimilatory iron-reducing bacteria. The released Fe3+ in fluid promoted oxidative dissolution of pyrite and arsenopyrite, and precipitation of oxides and carbonates. The arsenic released to fluid was inferred to be immobilized by both pristine ferrihydrite and newly formed hydrous ferric oxides via surface complexation. The reaction system maintained a steady-state of iron mineral transformation and arsenic (im)mobilization. In the latter stage of column reactor experiments, continuous reaction and removal of dissolved Fe3+ and Fe2+ destabilized the state, leading to arsenic re-location and eventually rising concentration in fluid. The findings implicate that microbial-mediated iron mineral evolution remarkably influence the natural mineral assemblages and the fate of contaminant transport in the environment, and that deposition of iron oxides is essential in environmental protection and pollution recovery.
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Affiliation(s)
- Bingjie Ouyang
- Earth Sciences Department, Dartmouth College, HB6105 Fairchild Hall, Hanover, NH 03755, United States; Key Laboratory of Surficial Geochemistry of Ministry of Education, School of Earth Sciences and Engineering, Nanjing University, Nanjing, Jiangsu 210046, China
| | - Xiancai Lu
- Key Laboratory of Surficial Geochemistry of Ministry of Education, School of Earth Sciences and Engineering, Nanjing University, Nanjing, Jiangsu 210046, China.
| | - Juan Li
- State Key Laboratory for Deposits research, School of Earth Sciences and Engineering, Nanjing University, Nanjing, Jiangsu 210046, China
| | - Huan Liu
- State Key Laboratory for Deposits research, School of Earth Sciences and Engineering, Nanjing University, Nanjing, Jiangsu 210046, China
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23
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Han H, Song B, Song MJ, Yoon S. Enhanced Nitrous Oxide Production in Denitrifying Dechloromonas aromatica Strain RCB Under Salt or Alkaline Stress Conditions. Front Microbiol 2019; 10:1203. [PMID: 31275250 PMCID: PMC6593283 DOI: 10.3389/fmicb.2019.01203] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2019] [Accepted: 05/13/2019] [Indexed: 11/25/2022] Open
Abstract
Salinity and pH have direct and indirect impacts on the growth and metabolic activities of microorganisms. In this study, the effects of salt and alkaline stresses on the kinetic balance between nitrous oxide (N2O) production and consumption in the denitrification pathway of Dechloromonas aromatica strain RCB were examined. N2O accumulated transiently only in insignificant amounts at low salinity (≤0.5% NaCl) and circumneutral pH (7.0 and 7.5). As compared to these control conditions, incubation at 0.7% salinity resulted in substantially longer lag phase and slower growth rate, along with the increase in the amounts of transiently accumulated N2O (15.8 ± 2.8 μmoles N2O-N/vessel). Incubation at pH 8.0 severely inhibited growth and resulted in permanent accumulation of 29.9 ± 1.3 μmoles N2O-N/vessel from reduction of 151 ± 20 μmoles NO3−/vessel. Monitoring of temporal changes in nirS1, nirS2, and nosZ transcription suggested that the nosZ/(nirS1+nirS2) ratios were indicative of whether N2O was produced or consumed at the time points where measurements were taken. The salt and alkaline stresses altered the N2O consumption kinetics of the resting D. aromatica cells with expressed nitrous oxide reductases. The N2O consumption rates of the cells subjected to the salt and alkaline stress conditions were significantly reduced from 0.84 ± 0.007 μmoles min−1 mg protein−1 of the control to 0.27 ± 0.02 μmoles min−1 mg protein−1 and 0.31 ± 0.03 μmoles min−1 mg protein−1, respectively, when the initial dissolved N2O concentration was 0.1 mM. As the rates of N2O production from NO2− reduction was not significantly affected by the stresses (0.45–0.55 μmoles min−1 mg protein−1), the N2O consumption rate was lower than the N2O production rate at the stress conditions, but not at the control condition. These results clearly indicate that the altered kinetics of expressed nitrous oxide reductase and the resultant disruption of kinetic balance between N2O production and consumption was another cause of enhanced N2O emission observed under the salt and alkaline stress conditions. These findings suggest that canonical denitrifiers may become a significant N2O source when faced with abrupt environmental changes.
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Affiliation(s)
- Heejoo Han
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea
| | - Bongkeun Song
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea.,Department of Biological Sciences, Virginia Institute of Marine Science, College of William and Mary, Gloucester Point, VA, United States
| | - Min Joon Song
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea
| | - Sukhwan Yoon
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea
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24
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LUO X, WU Y, LIU T, LI F, LI X, CHEN D, WANG Y. Quantifying Redox Dynamics of c-Type Cytochromes in a Living Cell Suspension of Dissimilatory Metal-reducing Bacteria. ANAL SCI 2019; 35:315-321. [DOI: 10.2116/analsci.18p394] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Xiaobo LUO
- Guangzhou Institute of Geochemistry, Chinese Academy of Sciences
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
- University of Chinese Academy of Sciences
| | - Yundang WU
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Tongxu LIU
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Fangbai LI
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Xiaomin LI
- The Environmental Research Institute, MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University
| | - Dandan CHEN
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Ying WANG
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
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25
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Abstract
Alarming changes in environmental conditions have prompted significant research into producing renewable commodities from sources other than fossil fuels. One such alternative is CO2, a determinate greenhouse gas with historically high atmospheric levels. If sequestered, CO2 could be used as a highly renewable feedstock for industrially relevant products and fuels. The vast majority of atmospheric CO2 fixation is accomplished by photosynthetic organisms, which have unfortunately proven difficult to utilize as chassis for industrial production. Nonphotosynthetic CO2 fixing microorganisms and pathways have recently attracted scientific and commercial interest. This Perspective will review promising alternate CO2 fixation strategies and their potential to supply microbially produced fuels and commodity chemicals, such as higher alcohols. Acetogenic fermentation and microbial electrosynthesis are the primary focuses of this review.
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Affiliation(s)
- Jake N Gonzales
- Plant Biology Graduate Group , University of California, Davis , One Shields Avenue , Davis , California 95616 , United States
| | - Morgan M Matson
- Department of Chemistry , University of California, Davis , One Shields Avenue , Davis , California 95616 , United States
| | - Shota Atsumi
- Plant Biology Graduate Group , University of California, Davis , One Shields Avenue , Davis , California 95616 , United States.,Department of Chemistry , University of California, Davis , One Shields Avenue , Davis , California 95616 , United States
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Uniform and Pitting Corrosion of Carbon Steel by Shewanella oneidensis MR-1 under Nitrate-Reducing Conditions. Appl Environ Microbiol 2018; 84:AEM.00790-18. [PMID: 29654179 DOI: 10.1128/aem.00790-18] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2018] [Accepted: 04/06/2018] [Indexed: 11/20/2022] Open
Abstract
Despite observations of steel corrosion in nitrate-reducing environments, processes of nitrate-dependent microbially influenced corrosion (MIC) remain poorly understood and difficult to identify. We evaluated carbon steel corrosion by Shewanella oneidensis MR-1 under nitrate-reducing conditions using a split-chamber/zero-resistance ammetry (ZRA) technique. This approach entails the deployment of two metal (carbon steel 1018 in this case) electrodes into separate chambers of an electrochemical split-chamber unit, where the microbiology or chemistry of the chambers can be manipulated. This approach mimics the conditions of heterogeneous metal coverage that can lead to uniform and pitting corrosion. The current between working electrode 1 (WE1) and WE2 can be used to determine rates, mechanisms, and, we now show, extents of corrosion. When S. oneidensis was incubated in the WE1 chamber with lactate under nitrate-reducing conditions, nitrite transiently accumulated, and electron transfer from WE2 to WE1 occurred as long as nitrite was present. Nitrite in the WE1 chamber (without S. oneidensis) induced electron transfer in the same direction, indicating that nitrite cathodically protected WE1 and accelerated the corrosion of WE2. When S. oneidensis was incubated in the WE1 chamber without an electron donor, nitrate reduction proceeded, and electron transfer from WE2 to WE1 also occurred, indicating that the microorganism could use the carbon steel electrode as an electron donor for nitrate reduction. Our results indicate that under nitrate-reducing conditions, uniform and pitting carbon steel corrosion can occur due to nitrite accumulation and the use of steel-Fe(0) as an electron donor, but conditions of sustained nitrite accumulation can lead to more-aggressive corrosive conditions.IMPORTANCE Microbially influenced corrosion (MIC) causes damage to metals and metal alloys that is estimated to cost over $100 million/year in the United States for prevention, mitigation, and repair. While MIC occurs in a variety of settings and by a variety of organisms, the mechanisms by which microorganisms cause this damage remain unclear. Steel pipe and equipment may be exposed to nitrate, especially in oil and gas production, where this compound is used for corrosion and "souring" control. In this paper, we show uniform and pitting MIC under nitrate-reducing conditions and that a major mechanism by which it occurs is via the heterogeneous cathodic protection of metal surfaces by nitrite as well as by the microbial oxidation of steel-Fe(0).
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Tokunou Y, Hashimoto K, Okamoto A. Electrochemical Detection of Deuterium Kinetic Isotope Effect on Extracellular Electron Transport in Shewanella oneidensis MR-1. J Vis Exp 2018. [PMID: 29708543 DOI: 10.3791/57584] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Direct electrochemical detection of c-type cytochrome complexes embedded in the bacterial outer membrane (outer membrane c-type cytochrome complexes; OM c-Cyts) has recently emerged as a novel whole-cell analytical method to characterize the bacterial electron transport from the respiratory chain to the cell exterior, referred to as the extracellular electron transport (EET). While the pathway and kinetics of the electron flow during the EET reaction have been investigated, a whole-cell electrochemical method to examine the impact of cation transport associated with EET has not yet been established. In the present study, an example of a biochemical technique to examine the deuterium kinetic isotope effect (KIE) on EET through OM c-Cyts using a model microbe, Shewanella oneidensis MR-1, is described. The KIE on the EET process can be obtained if the EET through OM c-Cyts acts as the rate-limiting step in the microbial current production. To that end, before the addition of D2O, the supernatant solution was replaced with fresh media containing a sufficient amount of the electron donor to support the rate of upstream metabolic reactions, and to remove the planktonic cells from a uniform monolayer biofilm on the working electrode. Alternative methods to confirm the rate-limiting step in microbial current production as EET through OM c-Cyts are also described. Our technique of a whole-cell electrochemical assay for investigating proton transport kinetics can be applied to other electroactive microbial strains.
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Affiliation(s)
| | - Kazuhito Hashimoto
- Global Research Center for Environment and Energy based on Nanomaterials Science, National Institute for Materials Science
| | - Akihiro Okamoto
- Global Research Center for Environment and Energy based on Nanomaterials Science, National Institute for Materials Science;
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Shin HJ, Jung KA, Nam CW, Park JM. A genetic approach for microbial electrosynthesis system as biocommodities production platform. BIORESOURCE TECHNOLOGY 2017; 245:1421-1429. [PMID: 28550992 DOI: 10.1016/j.biortech.2017.05.077] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2017] [Revised: 05/12/2017] [Accepted: 05/14/2017] [Indexed: 06/07/2023]
Abstract
Microbial electrosynthesis is a process that can produce biocommodities from the reduction of substrates with microbial catalysts and an external electron supply. This process is expected to become a new application of a cell factory for novel chemical production, wastewater treatment, and carbon capture and utilization. However, microbial electrosynthesis is still subject to several problems that need to be overcome for commercialization, so continuous development such as metabolic engineering is essential. The development of microbial electrosynthesis can open up new opportunities for sustainable biocommodities production platforms. This review provides significant information on the current state of MES development, focusing on extracellularly electron transfer and metabolic engineering.
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Affiliation(s)
- Hyo Jeong Shin
- Department of Chemical Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea
| | - Kyung A Jung
- Bioenergy Research Center, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea
| | - Chul Woo Nam
- Department of Chemical Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea
| | - Jong Moon Park
- Department of Chemical Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea; Bioenergy Research Center, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea; Division of Advanced Nuclear Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea.
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Kim H, Park D, Yoon S. pH Control Enables Simultaneous Enhancement of Nitrogen Retention and N 2O Reduction in Shewanella loihica Strain PV-4. Front Microbiol 2017; 8:1820. [PMID: 28979255 PMCID: PMC5611402 DOI: 10.3389/fmicb.2017.01820] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2017] [Accepted: 09/06/2017] [Indexed: 11/13/2022] Open
Abstract
pH has been recognized as one of the key environmental parameters with significant impacts on the nitrogen cycle in the environment. In this study, the effects of pH on NO3-/NO2- fate and N2O emission were examined with Shewanella loihica strain PV-4, an organism with complete denitrification and respiratory ammonification pathways. Strain PV-4 was incubated at varying pH with lactate as the electron donor and NO3-/NO2- and N2O as the electron acceptors. When incubated with NO3- and N2O at pH 6.0, transient accumulation of N2O was observed and no significant NH4+ production was observed. At pH 7.0 and 8.0, strain PV-4 served as a N2O sink, as N2O concentration decreased consistently without accumulation. Respiratory ammonification was upregulated in the experiments performed at these higher pH values. When NO2- was used in place of NO3-, neither growth nor NO2- reduction was observed at pH 6.0. NH4+ was the exclusive product from NO2- reduction at both pH 7.0 and 8.0 and neither production nor consumption of N2O was observed, suggesting that NO2- regulation superseded pH effects on the nitrogen-oxide dissimilation reactions. When NO3- was the electron acceptor, nirK transcription was significantly upregulated upon cultivation at pH 6.0, while nrfA transcription was significantly upregulated at pH 8.0. The highest level of nosZ transcription was observed at pH 6.0 and the lowest at pH 8.0. With NO2- as the electron acceptor, transcription profiles of nirK, nrfA, and nosZ were statistically indistinguishable between pH 7.0 and 8.0. The transcriptions of nirK and nosZ were severely downregulated regardless of pH. These observations suggested that the kinetic imbalance between N2O production and consumption, but neither decrease in expression nor activity of NosZ, was the major cause of N2O accumulation at pH 6.0. The findings also suggest that simultaneous enhancement of nitrogen retention and N2O emission reduction may be feasible through pH modulation, but only in environments where C:N or NO2-:NO3- ratio does not exhibit overarching control over the NO3-/NO2- reduction pathways.
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Affiliation(s)
- Hayeon Kim
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and TechnologyDaejeon, South Korea
| | - Doyoung Park
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and TechnologyDaejeon, South Korea
| | - Sukhwan Yoon
- Department of Civil and Environmental Engineering, Korea Advanced Institute of Science and TechnologyDaejeon, South Korea
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Okamoto A, Tokunou Y, Kalathil S, Hashimoto K. Proton Transport in the Outer‐Membrane Flavocytochrome Complex Limits the Rate of Extracellular Electron Transport. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201704241] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- Akihiro Okamoto
- Global Research Center for Environment and Energy based on Nanomaterials Science National Institute for Material Science 1-1 Namiki, Tsukuba Ibaraki 305-0044 Japan
| | - Yoshihide Tokunou
- Department of Applied Chemistry The University of Tokyo 7-3-1 Hongo, Bunkyo-ku Tokyo 113-8656 Japan
| | - Shafeer Kalathil
- Department of Applied Chemistry The University of Tokyo 7-3-1 Hongo, Bunkyo-ku Tokyo 113-8656 Japan
| | - Kazuhito Hashimoto
- Global Research Center for Environment and Energy based on Nanomaterials Science National Institute for Material Science 1-1 Namiki, Tsukuba Ibaraki 305-0044 Japan
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Okamoto A, Tokunou Y, Kalathil S, Hashimoto K. Proton Transport in the Outer-Membrane Flavocytochrome Complex Limits the Rate of Extracellular Electron Transport. Angew Chem Int Ed Engl 2017; 56:9082-9086. [PMID: 28608645 PMCID: PMC5575523 DOI: 10.1002/anie.201704241] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2017] [Indexed: 01/17/2023]
Abstract
The microbial transfer of electrons to extracellularly located solid compounds, termed extracellular electron transport (EET), is critical for microbial electrode catalysis. Although the components of the EET pathway in the outer membrane (OM) have been identified, the role of electron/cation coupling in EET kinetics is poorly understood. We studied the dynamics of proton transport associated with EET in an OM flavocytochrome complex in Shewanella oneidensis MR‐1. Using a whole‐cell electrochemical assay, a significant kinetic isotope effect (KIE) was observed following the addition of deuterated water (D2O). The removal of a flavin cofactor or key components of the OM flavocytochrome complex significantly increased the KIE in the presence of D2O to values that were significantly larger than those reported for proton channels and ATP synthase, thus indicating that proton transport by OM flavocytochrome complexes limits the rate of EET.
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Affiliation(s)
- Akihiro Okamoto
- Global Research Center for Environment and Energy based on Nanomaterials Science, National Institute for Material Science, 1-1 Namiki, Tsukuba, Ibaraki, 305-0044, Japan
| | - Yoshihide Tokunou
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Shafeer Kalathil
- Department of Applied Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Kazuhito Hashimoto
- Global Research Center for Environment and Energy based on Nanomaterials Science, National Institute for Material Science, 1-1 Namiki, Tsukuba, Ibaraki, 305-0044, Japan
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Li SW, Sheng GP, Cheng YY, Yu HQ. Redox properties of extracellular polymeric substances (EPS) from electroactive bacteria. Sci Rep 2016; 6:39098. [PMID: 27991531 PMCID: PMC5171820 DOI: 10.1038/srep39098] [Citation(s) in RCA: 59] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Accepted: 11/17/2016] [Indexed: 11/17/2022] Open
Abstract
Although the capacity for electroactive bacteria to convert environmental metallic minerals and organic pollutants is well known, the role of the redox properties of microbial extracellular polymeric substances (EPS) in this process is poorly understood. In this work, the redox properties of EPS from two widely present electroactive bacterial strains (Shewanella oneidensis and Pseudomonas putida) were explored. Electrochemical analysis demonstrates that the EPS extracted from the two strains exhibited redox properties. Spectroelectrochemical and protein electrophoresis analyses indicate that the extracted EPS from S. oneidensis and P. putida contained heme-binding proteins, which were identified as the possible redox components in the EPS. The results of heme-mediated behavior of EPS may provide an insight into the important roles of EPS in electroactive bacteria to maximize their redox capability for biogeochemical cycling, environmental bioremediation and wastewater treatment.
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Affiliation(s)
- Shan-Wei Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Guo-Ping Sheng
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Yuan-Yuan Cheng
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China, Hefei, 230026, China
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NapB in excess inhibits growth of Shewanella oneidensis by dissipating electrons of the quinol pool. Sci Rep 2016; 6:37456. [PMID: 27857202 PMCID: PMC5114592 DOI: 10.1038/srep37456] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2016] [Accepted: 10/25/2016] [Indexed: 01/22/2023] Open
Abstract
Shewanella, a group of ubiquitous bacteria renowned for respiratory versatility, thrive in environments where various electron acceptors (EAs) of different chemical and physiological characteristics coexist. Despite being extensively studied, we still know surprisingly little about strategies by which multiple EAs and their interaction define ecophysiology of these bacteria. Previously, we showed that nitrite inhibits growth of the genus representative Shewanella oneidensis on fumarate and presumably some other CymA (quinol dehydrogenase)-dependent EAs by reducing cAMP production, which in turn leads to lowered expression of nitrite and fumarate reductases. In this study, we demonstrated that inhibition of fumarate growth by nitrite is also attributable to overproduction of NapB, the cytochrome c subunit of nitrate reductase. Further investigations revealed that excessive NapB per se inhibits growth on all EAs tested, including oxygen. When overproduced, NapB acts as an electron shuttle to dissipate electrons of the quinol pool, likely to extracellullar EAs, because the Mtr system, the major electron transport pathway for extracellular electron transport, is implicated. The study not only sheds light on mechanisms by which certain EAs, especially toxic ones, impact the bacterial ecophysiology, but also provides new insights into how electron shuttle c-type cytochromes regulate multi-branched respiratory networks.
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Deletion of degQ gene enhances outer membrane vesicle production of Shewanella oneidensis cells. Arch Microbiol 2016; 199:415-423. [PMID: 27796471 DOI: 10.1007/s00203-016-1315-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2015] [Revised: 10/17/2016] [Accepted: 10/22/2016] [Indexed: 10/20/2022]
Abstract
Shewanella oneidensis is a Gram-negative facultative anaerobe that can use a wide variety of terminal electron acceptors for anaerobic respiration. In this study, S. oneidensis degQ gene, encoding a putative periplasmic serine protease, was cloned and expressed. The activity of purified DegQ was inhibited by diisopropyl fluorophosphate, a typical serine protease-specific inhibitor, indicating that DegQ is a serine protease. In-frame deletion and subsequent complementation of the degQ were carried out to examine the effect of envelope stress on the production of outer membrane vesicles (OMVs). Analysis of periplasmic proteins from the resulting S. oneidensis strain showed that deletion of degQ induced protein accumulation and resulted in a significant decrease in protease activity within the periplasmic space. OMVs from the wild-type and mutant strains were purified and observed by transmission electron microscopy. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis analysis of the OMVs showed a prominent band at ~37 kDa. Nanoliquid chromatography-tandem mass spectrometry analysis identified three outer membrane porins (SO3896, SO1821, and SO3545) as dominant components of the band, suggesting that these proteins could be used as indices for comparing OMV production by S. oneidensis strains. Quantitative evaluation showed that degQ-deficient cells had a fivefold increase in OMV production compared with wild-type cells. Thus, the increased OMV production following the deletion of DegQ in S. oneidensis may be responsible for the increase in envelope stress.
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Production of Manganese Oxide Nanoparticles by Shewanella Species. Appl Environ Microbiol 2016; 82:5402-9. [PMID: 27342559 DOI: 10.1128/aem.00663-16] [Citation(s) in RCA: 44] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2016] [Accepted: 06/21/2016] [Indexed: 11/20/2022] Open
Abstract
UNLABELLED Several species of the bacterial genus Shewanella are well-known dissimilatory reducers of manganese under anaerobic conditions. In fact, Shewanella oneidensis is one of the most well studied of all metal-reducing bacteria. In the current study, a number of Shewanella strains were tested for manganese-oxidizing capacity under aerobic conditions. All were able to oxidize Mn(II) and to produce solid dark brown manganese oxides. Shewanella loihica strain PV-4 was the strongest oxidizer, producing oxides at a rate of 20.3 mg/liter/day and oxidizing Mn(II) concentrations of up to 9 mM. In contrast, S. oneidensis MR-1 was the weakest oxidizer tested, producing oxides at 4.4 mg/liter/day and oxidizing up to 4 mM Mn(II). Analysis of products from the strongest oxidizers, i.e., S loihica PV-4 and Shewanella putrefaciens CN-32, revealed finely grained, nanosize, poorly crystalline oxide particles with identical Mn oxidation states of 3.86. The biogenic manganese oxide products could be subsequently reduced within 2 days by all of the Shewanella strains when culture conditions were made anoxic and an appropriate nutrient (lactate) was added. While Shewanella species were detected previously as part of manganese-oxidizing consortia in natural environments, the current study has clearly shown manganese-reducing Shewanella species bacteria that are able to oxidize manganese in aerobic cultures. IMPORTANCE Members of the genus Shewanella are well known as dissimilatory manganese-reducing bacteria. This study shows that a number of species from Shewanella are also capable of manganese oxidation under aerobic conditions. Characterization of the products of the two most efficient oxidizers, S. loihica and S. putrefaciens, revealed finely grained, nanosize oxide particles. With a change in culture conditions, the manganese oxide products could be subsequently reduced by the same bacteria. The ability of Shewanella species both to oxidize and to reduce manganese indicates that the genus plays a significant role in the geochemical cycling of manganese. Due to the high affinity of manganese oxides for binding other metals, these bacteria may also contribute to the immobilization and release of other metals in the environment.
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Okamoto A, Tokunou Y, Saito J. Cation-limited kinetic model for microbial extracellular electron transport via an outer membrane cytochrome C complex. Biophys Physicobiol 2016; 13:71-76. [PMID: 27924259 PMCID: PMC5042175 DOI: 10.2142/biophysico.13.0_71] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2016] [Accepted: 04/23/2016] [Indexed: 12/01/2022] Open
Abstract
Outer-membrane c-type cytochrome (OM c-Cyt) complexes in several genera of iron-reducing bacteria, such as Shewanella and Geobacter, are capable of transporting electrons from the cell interior to extracellular solids as a terminal step of anaerobic respiration. The kinetics of this electron transport has implications for controlling the rate of microbial electron transport during bioenergy or biochemical production, iron corrosion, and natural mineral cycling. Herein, we review the findings from in-vivo and in-vitro studies examining electron transport kinetics through single OM c-Cyt complexes in Shewanella oneidensis MR-1. In-vitro electron flux via a purified OM c-Cyt complex, comprised of MtrA, B, and C proteins from S. oneidensis MR-1, embedded in a proteoliposome system is reported to be 10- to 100-fold faster compared with in-vivo estimates based on measurements of electron flux per cell and OM c-Cyts density. As the proteoliposome system is estimated to have 10-fold higher cation flux via potassium channels than electrons, we speculate that the slower rate of electron-coupled cation transport across the OM is responsible for the significantly lower electron transport rate that is observed in-vivo. As most studies to date have primarily focused on the energetics or kinetics of interheme electron hopping in OM c-Cyts in this microbial electron transport mechanism, the proposed model involving cation transport provides new insight into the rate detemining step of EET, as well as the role of self-secreted flavin molecules bound to OM c-Cyt and proton management for energy conservation and production in S. oneidensis MR-1.
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Affiliation(s)
- Akihiro Okamoto
- Global Research Center for Environment and Energy based on Nanomaterials Science (GREEN), National Institute for Materials Science (NIMS), Tsukuba, Ibaraki 305-0044, Japan; Department of Applied Chemistry, School of Engineering, The University of Tokyo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Yoshihide Tokunou
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Junki Saito
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, Bunkyo-ku, Tokyo 113-8656, Japan
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Li SW, Zhang X, Sheng GP. Silver nanoparticles formation by extracellular polymeric substances (EPS) from electroactive bacteria. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2016; 23:8627-8633. [PMID: 26797954 DOI: 10.1007/s11356-016-6105-7] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2015] [Accepted: 01/11/2016] [Indexed: 06/05/2023]
Abstract
Microbial extracellular polymeric substances (EPS) excreted from microorganisms were a complex natural biological polymer mixture of proteins and polysaccharides, which played an important roles in the transport of metals, such as Ag(+). Electroactive bacteria, is an important class of environmental microorganisms, which can use iron or manganese mineral as terminal electron acceptors to generate energy for biosynthesis and cell maintenance. In this work, the EPS extracted of three electroactive bacteria (Shewanella oneidensis, Aeromonas hydrophila, and Pseudomonas putida) were used for reducing Ag(+) and forming silver nanoparticles (AgNPs). Results showed that all the three microbial EPS could reduce Ag(+) to AgNPs. The formed AgNPs were characterized in depth by the UV-visible spectroscopy, X-ray diffraction, X-ray photoelectron spectroscopy, and high-resolution transmission electron microscopy. The main components in the EPS from the three electroactive bacteria were analyzed. The presence of cytochrome c in these EPS was confirmed, and they were found to contribute to the reduction of Ag(+) to AgNPs. The results indicated that the EPS of electroactive bacteria could act as a reductant for AgNPs synthesis and could provide new information to understand the fate of metals and their metal nanoparticles in the natural environments.
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Affiliation(s)
- Shan-Wei Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Xing Zhang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Guo-Ping Sheng
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China, Hefei, 230026, China.
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Chen G, Ke Z, Liang T, Liu L, Wang G. Shewanella oneidensis MR-1-Induced Fe(III) Reduction Facilitates Roxarsone Transformation. PLoS One 2016; 11:e0154017. [PMID: 27100323 PMCID: PMC4839622 DOI: 10.1371/journal.pone.0154017] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2016] [Accepted: 04/07/2016] [Indexed: 12/02/2022] Open
Abstract
Although microbial activity and associated iron (oxy)hydroxides are known in general to affect the environmental dynamics of 4-hydroxy-3-nitrobenzenearsonic acid (roxarsone), the mechanistic understanding of the underlying biophysico-chemical processes remains unclear due to limited experimental information. We studied how Shewanella oneidensis MR-1 –a widely distributed metal-reducing bacterium, in the presence of dissolved Fe(III), affects roxarsone transformations and biogeochemical cycling in a model aqueous system. The results showed that the MR-1 strain was able to anaerobically use roxarsone as a terminal electron acceptor and to convert it to a single product, 3-amino-4-hydroxybenzene arsonic acid (AHBAA). The presence of Fe(III) stimulated roxarsone transformation via MR-1-induced Fe(III) reduction, whereby the resulting Fe(II) acted as an efficient reductant for roxarsone transformation. In addition, the subsequent secondary Fe(III)/Fe(II) mineralization created conditions for adsorption of organoarsenic compounds to the yielded precipitates and thereby led to arsenic immobilization. The study provided direct evidence of Shewanella oneidensis MR-1-induced direct and Fe(II)-associated roxarsone transformation. Quantitative estimations revealed a candidate mechanism for the early-stage environmental dynamics of roxarsone in nature, which is essential for understanding the environmental dynamics of roxarsone and successful risk assessment.
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Affiliation(s)
- Guowei Chen
- School of Civil and Hydraulic Engineering, Hefei University of Technology, Hefei 230009, China
| | - Zhengchen Ke
- School of Civil and Hydraulic Engineering, Hefei University of Technology, Hefei 230009, China
| | - Tengfang Liang
- School of Civil and Hydraulic Engineering, Hefei University of Technology, Hefei 230009, China
| | - Li Liu
- School of Civil and Hydraulic Engineering, Hefei University of Technology, Hefei 230009, China
- * E-mail: (GW); (LL)
| | - Gang Wang
- Department of Soil and Water Sciences, China Agricultural University, Beijing 100193, China
- * E-mail: (GW); (LL)
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Miller RB, Sadek A, Rodriguez A, Iannuzzi M, Giai C, Senko JM, Monty CN. Use of an Electrochemical Split Cell Technique to Evaluate the Influence of Shewanella oneidensis Activities on Corrosion of Carbon Steel. PLoS One 2016; 11:e0147899. [PMID: 26824529 PMCID: PMC4733109 DOI: 10.1371/journal.pone.0147899] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2015] [Accepted: 01/11/2016] [Indexed: 11/25/2022] Open
Abstract
Microbially induced corrosion (MIC) is a complex problem that affects various industries. Several techniques have been developed to monitor corrosion and elucidate corrosion mechanisms, including microbiological processes that induce metal deterioration. We used zero resistance ammetry (ZRA) in a split chamber configuration to evaluate the effects of the facultatively anaerobic Fe(III) reducing bacterium Shewanella oneidensis MR-1 on the corrosion of UNS G10180 carbon steel. We show that activities of S. oneidensis inhibit corrosion of steel with which that organism has direct contact. However, when a carbon steel coupon in contact with S. oneidensis was electrically connected to a second coupon that was free of biofilm (in separate chambers of the split chamber assembly), ZRA-based measurements indicated that current moved from the S. oneidensis-containing chamber to the cell-free chamber. This electron transfer enhanced the O2 reduction reaction on the coupon deployed in the cell free chamber, and consequently, enhanced oxidation and corrosion of that electrode. Our results illustrate a novel mechanism for MIC in cases where metal surfaces are heterogeneously covered by biofilms.
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Affiliation(s)
- Robert Bertram Miller
- Department of Biology, The University of Akron, Akron, OH 44325, United States of America
- Integrated Bioscience Program, The University of Akron, Akron, OH 44325, United States of America
| | - Anwar Sadek
- Department of Chemical and Biomolecular Engineering, The University of Akron, Akron, OH 44325, United States of America
| | - Alvaro Rodriguez
- Department of Chemical and Biomolecular Engineering, The University of Akron, Akron, OH 44325, United States of America
| | - Mariano Iannuzzi
- Department of Chemical and Biomolecular Engineering, The University of Akron, Akron, OH 44325, United States of America
| | - Carla Giai
- Department of Geosciences, The University of Akron, Akron, OH 44325, United States of America
| | - John M. Senko
- Department of Biology, The University of Akron, Akron, OH 44325, United States of America
- Integrated Bioscience Program, The University of Akron, Akron, OH 44325, United States of America
- Department of Geosciences, The University of Akron, Akron, OH 44325, United States of America
| | - Chelsea N. Monty
- Department of Chemical and Biomolecular Engineering, The University of Akron, Akron, OH 44325, United States of America
- * E-mail:
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Duda JP, Van Kranendonk MJ, Thiel V, Ionescu D, Strauss H, Schäfer N, Reitner J. A Rare Glimpse of Paleoarchean Life: Geobiology of an Exceptionally Preserved Microbial Mat Facies from the 3.4 Ga Strelley Pool Formation, Western Australia. PLoS One 2016; 11:e0147629. [PMID: 26807732 PMCID: PMC4726515 DOI: 10.1371/journal.pone.0147629] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2015] [Accepted: 01/06/2016] [Indexed: 11/19/2022] Open
Abstract
Paleoarchean rocks from the Pilbara Craton of Western Australia provide a variety of clues to the existence of early life on Earth, such as stromatolites, putative microfossils and geochemical signatures of microbial activity. However, some of these features have also been explained by non-biological processes. Further lines of evidence are therefore required to convincingly argue for the presence of microbial life. Here we describe a new type of microbial mat facies from the 3.4 Ga Strelley Pool Formation, which directly overlies well known stromatolitic carbonates from the same formation. This microbial mat facies consists of laminated, very fine-grained black cherts with discontinuous white quartz layers and lenses, and contains small domical stromatolites and wind-blown crescentic ripples. Light- and cathodoluminescence microscopy, Raman spectroscopy, and time of flight—secondary ion mass spectrometry (ToF-SIMS) reveal a spatial association of carbonates, organic material, and highly abundant framboidal pyrite within the black cherts. Nano secondary ion mass spectrometry (NanoSIMS) confirmed the presence of distinct spheroidal carbonate bodies up to several tens of μm that are surrounded by organic material and pyrite. These aggregates are interpreted as biogenic. Comparison with Phanerozoic analogues indicates that the facies represents microbial mats formed in a shallow marine environment. Carbonate precipitation and silicification by hydrothermal fluids occurred during sedimentation and earliest diagenesis. The deciphered environment, as well as the δ13C signature of bulk organic matter (-35.3‰), are in accord with the presence of photoautotrophs. At the same time, highly abundant framboidal pyrite exhibits a sulfur isotopic signature (δ34S = +3.05‰; Δ33S = 0.268‰; and Δ36S = -0.282‰) that is consistent with microbial sulfate reduction. Taken together, our results strongly support a microbial mat origin of the black chert facies, thus providing another line of evidence for life in the 3.4 Ga Strelley Pool Formation.
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Affiliation(s)
- Jan-Peter Duda
- Department of Geobiology, Geoscience Centre, Georg-August-University Göttingen, Goldschmidtstr. 3, 37077, Göttingen, Germany
- ‘Origin of Life’ Group, Göttingen Academy of Sciences and Humanities, Theaterstraße 7, 37073, Göttingen, Germany
- * E-mail:
| | - Martin J. Van Kranendonk
- Australian Centre for Astrobiology and School of Biological, Earth and Environmental Sciences, University of New South Wales, Kensington, NSW 2052, Australia
| | - Volker Thiel
- Department of Geobiology, Geoscience Centre, Georg-August-University Göttingen, Goldschmidtstr. 3, 37077, Göttingen, Germany
| | - Danny Ionescu
- Department of Experimental Limnology, Leibniz Institute for Freshwater Ecology and Inland Fisheries (IGB), Alte Fischerhütte 2, 16775, Stechlin, Germany
| | - Harald Strauss
- Institut für Geologie und Paläontologie, Westfälische Wilhelms-Universität Münster, Corrensstraße 24, 48149, Münster, Germany
| | - Nadine Schäfer
- Department of Geobiology, Geoscience Centre, Georg-August-University Göttingen, Goldschmidtstr. 3, 37077, Göttingen, Germany
| | - Joachim Reitner
- Department of Geobiology, Geoscience Centre, Georg-August-University Göttingen, Goldschmidtstr. 3, 37077, Göttingen, Germany
- ‘Origin of Life’ Group, Göttingen Academy of Sciences and Humanities, Theaterstraße 7, 37073, Göttingen, Germany
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Zhang X, Liu H, Wang J, Ren G, Xie B, Liu H, Zhu Y, Jiang L. Facilitated extracellular electron transfer of Shewanella loihica PV-4 by antimony-doped tin oxide nanoparticles as active microelectrodes. NANOSCALE 2015; 7:18763-18769. [PMID: 26505239 DOI: 10.1039/c5nr04765j] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Dissimilatory metal reducing bacteria are capable of extracellular electron transfer (EET) to insoluble metal oxides as external electron acceptors for their anaerobic respiration, which is recognized as an important energy-conversion process in natural and engineered environments, such as in mineral cycling, bioremediation, and microbial fuel/electrolysis cells. However, the low EET efficiency remains one of the major bottlenecks for its practical application. We report firstly that the microbial current generated by Shewanella loihica PV-4 (S. loihica PV-4) could be greatly improved that is up to ca. 115 fold, by adding antimony-doped tin oxide (ATO) nanoparticles in the electrochemical reactor. The results demonstrate that the biocompatible, electrically conductive ATO nanoparticles acted as active microelectrodes could facilitate the formation of a cells/ATO composite biofilm and the reduction of the outer membrane c-type cytochromes (OM c-Cyts) that are beneficial for the electron transfer from cells to electrode. Meanwhile, a synergistic effect between the participation of OM c-Cyts and the accelerated EET mediated by cell-secreted flavins may play an important role for the enhanced current generation in the presence of ATO nanoparticles. Moreover, it is worth noting that the TCA cycle in S. loihica PV-4 cells is activated by adding ATO nanoparticles, even if the potential is poised at +0.2 V, thereby also improving the EET process. The results presented here may provide a simple and effective strategy to boost the EET of S. loihica PV-4 cells, which is conducive to providing potential applications in bioelectrochemical systems.
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Affiliation(s)
- Xiaojian Zhang
- Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology of Ministry of Education, Beijing Key Laboratory of Bio-inspired Energy Materials and Devices, School of Chemistry and Environment, Beihang University, Beijing 100191, PR China.
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Khilari S, Pandit S, Varanasi JL, Das D, Pradhan D. Bifunctional Manganese Ferrite/Polyaniline Hybrid as Electrode Material for Enhanced Energy Recovery in Microbial Fuel Cell. ACS APPLIED MATERIALS & INTERFACES 2015; 7:20657-66. [PMID: 26315619 DOI: 10.1021/acsami.5b05273] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Microbial fuel cells (MFCs) are emerging as a sustainable technology for waste to energy conversion where electrode materials play a vital role on its performance. Platinum (Pt) is the most common material used as cathode catalyst in the MFCs. However, the high cost and low earth abundance associated with Pt prompt the researcher to explore inexpensive catalysts. The present study demonstrates a noble metal-free MFC using a manganese ferrite (MnFe2O4)/polyaniline (PANI)-based electrode material. The MnFe2O4 nanoparticles (NPs) and MnFe2O4 NPs/PANI hybrid composite not only exhibited superior oxygen reduction reaction (ORR) activity for the air cathode but also enhanced anode half-cell potential upon modifying carbon cloth anode in the single-chambered MFC. This is attributed to the improved extracellular electron transfer of exoelectrogens due to Fe(3+) in MnFe2O4 and its capacitive nature. The present work demonstrates for the first time the dual property of MnFe2O4 NPs/PANI, i.e., as cathode catalyst and an anode modifier, thereby promising cost-effective MFCs for practical applications.
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Affiliation(s)
- Santimoy Khilari
- Materials Science Centre and ‡Department of Biotechnology, Indian Institute of Technology , Kharagpur 721302, West Bengal, India
| | - Soumya Pandit
- Materials Science Centre and ‡Department of Biotechnology, Indian Institute of Technology , Kharagpur 721302, West Bengal, India
| | - Jhansi L Varanasi
- Materials Science Centre and ‡Department of Biotechnology, Indian Institute of Technology , Kharagpur 721302, West Bengal, India
| | - Debabrata Das
- Materials Science Centre and ‡Department of Biotechnology, Indian Institute of Technology , Kharagpur 721302, West Bengal, India
| | - Debabrata Pradhan
- Materials Science Centre and ‡Department of Biotechnology, Indian Institute of Technology , Kharagpur 721302, West Bengal, India
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Zhang J, Burgess JG. Shewanella electrodiphila sp. nov., a psychrotolerant bacterium isolated from Mid-Atlantic Ridge deep-sea sediments. Int J Syst Evol Microbiol 2015; 65:2882-2889. [PMID: 25999594 DOI: 10.1099/ijs.0.000345] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
Strains MAR441(T) and MAR445 were isolated from Mid-Atlantic Ridge sediments from a depth of 2734 m, and were found to belong to the genus Shewanella. The strains were rod-shaped, pigmented, non-motile and capable of anaerobic growth either by fermentation of carbohydrates or by anaerobic respiration. The strains utilized a variety of electron acceptors, including nitrate and ferric compounds, and could utilize peptone when grown anaerobically in a two-chambered microbial fuel cell, which used carbon cloth electrodes and delivered a stable power output of ,150-200 mW m(-2). The major fatty acids were typical of the genus Shewanella, with major components C13 : 0, iso-C13 : 0, iso-C15 : 0, C16 : 0, C16 : 1ω7c, C18 : 1ω7c and C20 : 5ω3 fatty acids. The DNA G+C content of strains MAR441(T) and MAR445 was 42.4 mol%. 16S rRNA gene sequence analysis indicated that strains MAR441(T) and MAR445 were most closely related to Shewanella olleyana (sequence similarities 97.9% to the type strain). DNA-DNA hybridization demonstrated only 15.6-37.2% relatedness between strain MAR441(T) and the type strains of related species of the genus Shewanella. Phenotypic characteristics confirmed that these isolates constituted a novel species of the genus Shewanella, for which the name Shewanella electrodiphila sp. nov. is proposed; the type strain is MAR441(T) (5ATCC BAA-2408(T) = DSM 24955(T)).
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Affiliation(s)
- Jinwei Zhang
- School of Marine Science and Technology, Newcastle University, Newcastle upon Tyne NE30 4PZ, UK
- MRC Protein Phosphorylation and Ubiquitylation Unit, College of Life Sciences, University of Dundee, Dundee DD1 5EH, Scotland, UK
| | - J Grant Burgess
- School of Marine Science and Technology, Newcastle University, Newcastle upon Tyne NE30 4PZ, UK
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Dantas JM, Campelo LM, Duke NEC, Salgueiro CA, Pokkuluri PR. The structure of PccH from Geobacter sulfurreducens - a novel low reduction potential monoheme cytochrome essential for accepting electrons from an electrode. FEBS J 2015; 282:2215-31. [PMID: 25786707 DOI: 10.1111/febs.13269] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2014] [Revised: 02/09/2015] [Accepted: 03/13/2015] [Indexed: 11/27/2022]
Abstract
The structure of cytochrome c (GSU3274) designated as PccH from Geobacter sulfurreducens was determined at a resolution of 2.0 Å. PccH is a small (15 kDa) cytochrome containing one c-type heme, found to be essential for the growth of G. sulfurreducens with respect to accepting electrons from graphite electrodes poised at -300 mV versus standard hydrogen electrode. with fumarate as the terminal electron acceptor. The structure of PccH is unique among the monoheme cytochromes described to date. The structural fold of PccH can be described as forming two lobes with the heme sandwiched in a cleft between the two lobes. In addition, PccH has a low reduction potential of -24 mV at pH 7, which is unusual for monoheme cytochromes. Based on difference in structure, together with sequence phylogenetic analysis, we propose that PccH can be regarded as a first characterized example of a new subclass of class I monoheme cytochromes. The low reduction potential of PccH may enable the protein to be redox active at the typically negative potential ranges encountered by G. sulfurreducens. Because PccH is predicted to be located in the periplasm of this bacterium, it could not be involved in the first step of accepting electrons from the electrode but is very likely involved in the downstream electron transport events in the periplasm.
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Affiliation(s)
- Joana M Dantas
- UCIBIO - REQUIMTE, Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Caparica, Portugal
| | - Luísa M Campelo
- UCIBIO - REQUIMTE, Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Caparica, Portugal
| | - Norma E C Duke
- Biosciences Division, Argonne National Laboratory, Lemont, IL, USA
| | - Carlos A Salgueiro
- UCIBIO - REQUIMTE, Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Caparica, Portugal
| | - P Raj Pokkuluri
- Biosciences Division, Argonne National Laboratory, Lemont, IL, USA
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Hu M, Li F, Lei J, Fang Y, Tong H, Wu W, Liu C. Pyrosequencing revealed highly microbial phylogenetic diversity in ferromanganese nodules from farmland. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2015; 17:213-224. [PMID: 25503395 DOI: 10.1039/c4em00407h] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
There is renewed interest in the origin and makeup of ferromanganese nodules (FMNs), long known to soil mineralogists as unusual secondary minerals. However, new evidence suggests that microorganisms play a significant role in the generation of FMNs. The biogenic origin of nodules has remained elusive because until recently, little has been known about the overall microbial community structure in their microbiota. To learn more about the microbial community and to determine the relative abundance, diversity, and composition of the microbial communities present in FMNs and their surrounding soil, we used pyrosequencing to investigate 16S rRNA genes obtained from vertical soil profiles of both paddy fields and sugarcane fields. Using pyrotaq 16S rRNA gene sequencing, we show that the microbial phylogenetic diversity of nodules was higher than those reported in previous studies of this biosphere, and we identified many previously unidentified microorganisms. Here, we show that the microbial community of these nodules is dominated by Burkholderiales, Rhodocyclales, Acidobacteriales, Desulfuromonales, and Clostridiales, and there were no statistically significant differences found when comparing the microbial community structures of FMNs obtained from vertical soil sequences. Although the microbial composition was markedly different between the surrounding soil and the FMNs, the microbes found within the FMNs were very similar to other FMNs from both field types examined here. In addition to their geochemical properties and the microbial community composition of FMNs, we found that the levels of iron (Fe), manganese (Mn), and SiO2 greatly impact the microbial diversity among FMN communities. Our results indicate that the FMN microbial communities from different land-use types are very similar and suggest that natural selection of these microbes is based on the oligotrophic conditions and the high metal content. Researching FMNs in these two land-use patterns, which represent two different redox potentials, deepens our understanding of Fe-Mn biogeochemical cycling in these oligotrophic biospheres and suggests a biogenetical origin for these nodules.
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Affiliation(s)
- Min Hu
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, P. R. China.
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Melton ED, Swanner ED, Behrens S, Schmidt C, Kappler A. The interplay of microbially mediated and abiotic reactions in the biogeochemical Fe cycle. Nat Rev Microbiol 2014; 12:797-808. [DOI: 10.1038/nrmicro3347] [Citation(s) in RCA: 503] [Impact Index Per Article: 50.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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47
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Flavin Redox Bifurcation as a Mechanism for Controlling the Direction of Electron Flow during Extracellular Electron Transfer. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201407004] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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48
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Okamoto A, Hashimoto K, Nealson KH. Flavin Redox Bifurcation as a Mechanism for Controlling the Direction of Electron Flow during Extracellular Electron Transfer. Angew Chem Int Ed Engl 2014; 53:10988-91. [DOI: 10.1002/anie.201407004] [Citation(s) in RCA: 87] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2014] [Indexed: 11/12/2022]
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Melton ED, Stief P, Behrens S, Kappler A, Schmidt C. High spatial resolution of distribution and interconnections between Fe- and N-redox processes in profundal lake sediments. Environ Microbiol 2014; 16:3287-303. [DOI: 10.1111/1462-2920.12566] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2014] [Accepted: 07/05/2014] [Indexed: 11/29/2022]
Affiliation(s)
- Emily D. Melton
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
| | - Peter Stief
- Microsensor Research Group; Max Planck Institute for Marine Microbiology; Bremen Germany
| | - Sebastian Behrens
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
| | - Andreas Kappler
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
| | - Caroline Schmidt
- Geomicrobiology; Center for Applied Geosciences; University of Tübingen; Tübingen 72076 Germany
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Kreuzer HW, Hill EA, Moran JJ, Bartholomew RA, Yang H, Hegg EL. Contributions of the [NiFe]- and [FeFe]-hydrogenase to H2production inShewanella oneidensisMR-1 as revealed by isotope ratio analysis of evolved H2. FEMS Microbiol Lett 2014; 352:18-24. [DOI: 10.1111/1574-6968.12361] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2013] [Revised: 11/06/2013] [Accepted: 12/14/2013] [Indexed: 11/29/2022] Open
Affiliation(s)
| | - Eric. A. Hill
- Pacific Northwest National Laboratory; Richland WA USA
| | | | | | - Hui Yang
- Michigan State University; East Lansing MI USA
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