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Huang J, Mellage A, Garcia JP, Glöckler D, Mahler S, Elsner M, Jakus N, Mansor M, Jiang H, Kappler A. Metabolic Performance and Fate of Electrons during Nitrate-Reducing Fe(II) Oxidation by the Autotrophic Enrichment Culture KS Grown at Different Initial Fe/N Ratios. Appl Environ Microbiol 2023; 89:e0019623. [PMID: 36877057 PMCID: PMC10057050 DOI: 10.1128/aem.00196-23] [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: 02/07/2023] [Accepted: 02/11/2023] [Indexed: 03/07/2023] Open
Abstract
Autotrophic nitrate-reducing Fe(II)-oxidizing (NRFeOx) microorganisms fix CO2 and oxidize Fe(II) coupled to denitrification, influencing carbon, iron, and nitrogen cycles in pH-neutral, anoxic environments. However, the distribution of electrons from Fe(II) oxidation to either biomass production (CO2 fixation) or energy generation (nitrate reduction) in autotrophic NRFeOx microorganisms has not been quantified. We therefore cultivated the autotrophic NRFeOx culture KS at different initial Fe/N ratios, followed geochemical parameters, identified minerals, analyzed N isotopes, and applied numerical modeling. We found that at all initial Fe/N ratios, the ratios of Fe(II)oxidized to nitratereduced were slightly higher (5.11 to 5.94 at Fe/N ratios of 10:1 and 10:0.5) or lower (4.27 to 4.59 at Fe/N ratios of 10:4, 10:2, 5:2, and 5:1) than the theoretical ratio for 100% Fe(II) oxidation being coupled to nitrate reduction (5:1). The main N denitrification product was N2O (71.88 to 96.29% at Fe/15N ratios of 10:4 and 5:1; 43.13 to 66.26% at an Fe/15N ratio of 10:1), implying that denitrification during NRFeOx was incomplete in culture KS. Based on the reaction model, on average 12% of electrons from Fe(II) oxidation were used for CO2 fixation while 88% of electrons were used for reduction of NO3- to N2O at Fe/N ratios of 10:4, 10:2, 5:2, and 5:1. With 10 mM Fe(II) (and 4, 2, 1, or 0.5 mM nitrate), most cells were closely associated with and partially encrusted by the Fe(III) (oxyhydr)oxide minerals, whereas at 5 mM Fe(II), most cells were free of cell surface mineral precipitates. The genus Gallionella (>80%) dominated culture KS regardless of the initial Fe/N ratios. Our results showed that Fe/N ratios play a key role in regulating N2O emissions, for distributing electrons between nitrate reduction and CO2 fixation, and for the degree of cell-mineral interactions in the autotrophic NRFeOx culture KS. IMPORTANCE Autotrophic NRFeOx microorganisms that oxidize Fe(II), reduce nitrate, and produce biomass play a key role in carbon, iron, and nitrogen cycles in pH-neutral, anoxic environments. Electrons from Fe(II) oxidation are used for the reduction of both carbon dioxide and nitrate. However, the question is how many electrons go into biomass production versus energy generation during autotrophic growth. Here, we demonstrated that in the autotrophic NRFeOx culture KS cultivated at Fe/N ratios of 10:4, 10:2, 5:2, and 5:1, ca. 12% of electrons went into biomass formation, while 88% of electrons were used for reduction of NO3- to N2O. Isotope analysis also showed that denitrification during NRFeOx was incomplete in culture KS and the main N denitrification product was N2O. Therefore, most electrons stemming from Fe(II) oxidation seemed to be used for N2O formation in culture KS. This is environmentally important for the greenhouse gas budget.
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Affiliation(s)
- Jianrong Huang
- Geomicrobiology, Department of Geoscience, University of Tuebingen, Tuebingen, Germany
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Adrian Mellage
- Hydrogeology, Civil and Environmental Engineering, University of Kassel, Kassel, Germany
- Hydrogeology, Department of Geosciences, University of Tuebingen, Tuebingen, Germany
| | - Julian Pavon Garcia
- Hydrogeology, Department of Geosciences, University of Tuebingen, Tuebingen, Germany
| | - David Glöckler
- Analytical Chemistry and Water Chemistry, Technical University of Munich, Munich, Germany
| | - Susanne Mahler
- Analytical Chemistry and Water Chemistry, Technical University of Munich, Munich, Germany
| | - Martin Elsner
- Analytical Chemistry and Water Chemistry, Technical University of Munich, Munich, Germany
| | - Natalia Jakus
- Geomicrobiology, Department of Geoscience, University of Tuebingen, Tuebingen, Germany
- School of Architecture, Civil and Environmental Engineering, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Muammar Mansor
- Geomicrobiology, Department of Geoscience, University of Tuebingen, Tuebingen, Germany
| | - Hongchen Jiang
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, China
| | - Andreas Kappler
- Geomicrobiology, Department of Geoscience, University of Tuebingen, Tuebingen, Germany
- Cluster of Excellence, EXC 2124, Controlling Microbes to Fight Infection, Tuebingen, Germany
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Zhong YW, Zhou P, Cheng H, Zhou YD, Pan J, Xu L, Li M, Tao CH, Wu YH, Xu XW. Metagenomic Features Characterized with Microbial Iron Oxidoreduction and Mineral Interaction in Southwest Indian Ridge. Microbiol Spectr 2022; 10:e0061422. [PMID: 36286994 PMCID: PMC9769843 DOI: 10.1128/spectrum.00614-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Accepted: 07/25/2022] [Indexed: 01/05/2023] Open
Abstract
The Southwest Indian Ridge (SWIR) is one of the typical representatives of deep-sea ultraslow-spreading ridges, and has increasingly become a hot spot of studying subsurface geological activities and deep-sea mining management. However, the understanding of microbial activities is still limited on active hydrothermal vent chimneys in SWIR. In this study, samples from an active black smoker and a diffuse vent located in the Longqi hydrothermal region were collected for deep metagenomic sequencing, which yielded approximately 290 GB clean data and 295 mid-to-high-quality metagenome-assembled genomes (MAGs). Sulfur oxidation conducted by a variety of Gammaproteobacteria, Alphaproteobacteria, and Campylobacterota was presumed to be the major energy source for chemosynthesis in Longqi hydrothermal vents. Diverse iron-related microorganisms were recovered, including iron-oxidizing Zetaproteobacteria, iron-reducing Deferrisoma, and magnetotactic bacterium. Twenty-two bacterial MAGs from 12 uncultured phyla harbored iron oxidase Cyc2 homologs and enzymes for organic carbon degradation, indicated novel chemolithoheterotrophic iron-oxidizing bacteria that affected iron biogeochemistry in hydrothermal vents. Meanwhile, potential interactions between microbial communities and chimney minerals were emphasized as enriched metabolic potential of siderophore transportation, and extracellular electron transfer functioned by multi-heme proteins was discovered. Composition of chimney minerals probably affected microbial iron metabolic potential, as pyrrhotite might provide more available iron for microbial communities. Collectively, this study provides novel insights into microbial activities and potential mineral-microorganism interactions in hydrothermal vents. IMPORTANCE Microbial activities and interactions with minerals and venting fluid in active hydrothermal vents remain unclear in the ultraslow-spreading SWIR (Southwest Indian Ridge). Understanding about how minerals influence microbial metabolism is currently limited given the obstacles in cultivating microorganisms with sulfur or iron oxidoreduction functions. Here, comprehensive descriptions on microbial composition and metabolic profile on 2 hydrothermal vents in SWIR were obtained based on cultivation-free metagenome sequencing. In particular, autotrophic sulfur oxidation supported by minerals was presumed, emphasizing the role of chimney minerals in supporting chemosynthesis. Presence of novel heterotrophic iron-oxidizing bacteria was also indicated, suggesting overlooked biogeochemical pathways directed by microorganisms that connected sulfide mineral dissolution and organic carbon degradation in hydrothermal vents. Our findings offer novel insights into microbial function and biotic interactions on minerals in ultraslow-spreading ridges.
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Affiliation(s)
- Ying-Wen Zhong
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, PR China
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
| | - Peng Zhou
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
| | - Hong Cheng
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
| | - Ya-Dong Zhou
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
| | - Jie Pan
- Archaeal Biology Center, Institute for Advanced Study, Shenzhen University, Shenzhen, Guangdong, PR China
- Shenzhen Key Laboratory of Marine Microbiome Engineering, Institute for Advanced Study, Shenzhen University, Shenzhen, Guangdong, PR China
| | - Lin Xu
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
- College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou, PR China
| | - Meng Li
- Archaeal Biology Center, Institute for Advanced Study, Shenzhen University, Shenzhen, Guangdong, PR China
- Shenzhen Key Laboratory of Marine Microbiome Engineering, Institute for Advanced Study, Shenzhen University, Shenzhen, Guangdong, PR China
| | - Chun-Hui Tao
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, PR China
- Key Laboratory of Submarine Geosciences, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
| | - Yue-Hong Wu
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, PR China
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
| | - Xue-Wei Xu
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, PR China
- Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou, PR China
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Zhang L, Li W, Li J, Wang Y, Xie H, Zhao W. A novel iron-mediated nitrogen removal technology of ammonium oxidation coupled to nitrate/nitrite reduction: Recent advances. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2022; 319:115779. [PMID: 35982573 DOI: 10.1016/j.jenvman.2022.115779] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Revised: 07/15/2022] [Accepted: 07/15/2022] [Indexed: 06/15/2023]
Affiliation(s)
- Lihong Zhang
- School of Environmental and Municipal Engineering, Lanzhou Jiaotong University, Lanzhou, 730070, People's Republic of China; Gansu Membrane Science and Technology Research Institute Co.,Ltd., Lanzhou, 730020, People's Republic of China; Key Laboratory for Resources Utilization Technology of Unconventional Water of Gansu Province, Lanzhou, 730020, People's Republic of China
| | - Wenxuan Li
- NUS Environmental Research Institute, National University of Singapore, 5A Engineering Drive 1, #02-01 T-Lab Building, Singapore, 117411, Singapore
| | - Jie Li
- School of Environmental and Municipal Engineering, Lanzhou Jiaotong University, Lanzhou, 730070, People's Republic of China.
| | - Ya'e Wang
- School of Environmental and Municipal Engineering, Lanzhou Jiaotong University, Lanzhou, 730070, People's Republic of China
| | - Huina Xie
- School of Environmental and Municipal Engineering, Lanzhou Jiaotong University, Lanzhou, 730070, People's Republic of China
| | - Wei Zhao
- School of Environmental and Municipal Engineering, Lanzhou Jiaotong University, Lanzhou, 730070, People's Republic of China
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Swanner ED, Wüstner M, Leung T, Pust J, Fatka M, Lambrecht N, Chmiel HE, Strauss H. Seasonal phytoplankton and geochemical shifts in the subsurface chlorophyll maximum layer of a dimictic ferruginous lake. Microbiologyopen 2022; 11:e1287. [PMID: 35765183 PMCID: PMC9108440 DOI: 10.1002/mbo3.1287] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Accepted: 04/27/2022] [Indexed: 11/10/2022] Open
Abstract
Subsurface chlorophyll maxima layers (SCML) are ubiquitous features of stratified aquatic systems. Availability of the micronutrient iron is known to influence marine SCML, but iron has not been explored in detail as a factor in the development of freshwater SCML. This study investigates the relationship between dissolved iron and the SCML within the dimictic, ferruginous lake Grosses Heiliges Meer in northern Germany. The occurrence of the SCML under nonferruginous conditions in the spring and ferruginous conditions in the fall are context to explore temporal changes in the phytoplankton community and indicators of primary productivity. Results indicate that despite more abundant chlorophyll in the spring, the SCML sits below a likely primary productivity maximum within the epilimnion, inferred based on colocated dissolved oxygen, δ13 CDIC , and pH maxima. The peak amount of chlorophyll in the SCML is lower in the fall than in the spring, but in the fall the SCML is colocated with elevated dissolved iron concentrations and a local δ13 CDIC maximum. Cyanobacteria and Chlorophyta have elevated abundances within the SCML in the fall. Further investigation of the relationship of iron to primary productivity within ferruginous SCML may help to understand the environmental controls on primary productivity in past ferruginous oceans.
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Affiliation(s)
| | - Marina Wüstner
- Center for Applied GeoscienceUniversity of TübingenTübingenGermany
| | - Tania Leung
- Department of Geological & Atmospheric SciencesIowa State UniversityAmesIowaUSA
| | - Jürgen Pust
- Naturschutzgebietes Heiliges MeerLandschaftsverband Westfalen‐Lippe (LWL) Museum für NaturkundeReckeGermany
| | - Micah Fatka
- Department of Geological & Atmospheric SciencesIowa State UniversityAmesIowaUSA
| | - Nick Lambrecht
- Department of Geological & Atmospheric SciencesIowa State UniversityAmesIowaUSA
| | - Hannah E. Chmiel
- Environmental Engineering InstituteÉcole Polytechnique Fédérale de LausanneLausanneSwitzerland
| | - Harald Strauss
- Institute for Geology and PaleontologyUniversity of MünsterMünsterGermany
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Yang X, Guo Q, Boyko V, Avetisyan K, Findlay AJ, Huang F, Wang Z, Chen Z. Isotopic reconstruction of iron oxidation-reduction process based on an Archean Ocean analogue. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 817:152609. [PMID: 34963590 DOI: 10.1016/j.scitotenv.2021.152609] [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: 10/11/2021] [Revised: 12/17/2021] [Accepted: 12/18/2021] [Indexed: 06/14/2023]
Abstract
The chemical composition and redox conditions of the Precambrian ocean are key factors for reconstructing the temporal evolution of atmospheric oxygen through time. In particular, the isotopic composition of iron are useful proxies for reconstructing paleo-ocean environments. Yet, respective processes and related signatures are poorly constrained, hindering the reconstruction of iron redox mechanisms in the Archean ocean. This study centers on Sihailongwan Lake, a stratified water body with a euxinic lower water column considered as an Archean ocean analogue. Results show that the anaerobic oxidation layer is so different from other similar lakes in which dissolved Fe oxidation is present in redoxcline layer. And the fractionation factor between ferrous Fe and iron hydroxide observed in nature water body of Sihailongwan Lake reaches to 2.6‰, which would benefit the production of the oxidations of BIF in sediment. By the spatial distribution of Fe isotope, the benthic water in autumn and the hypolimnetic anoxic water in spring has been identified as iron sulfide zone, where iron isotopic fractionation factor during iron sulfide formation is 1.16‰, accounting for partial scavenging of dissolved Fe(II) with an associated isotopic fractionation. However, pyrite in the sediment records the iron isotopic signal from the redoxcline but not in the iron sulfide or oxide zones of the water column. Above findings indicate that neither the iron isotope fractionation during partial transfer of ferrous iron to iron sulfide nor the partial oxidation of ferrous iron are recorded as pyrite in sedimentary rock. Importantly, the signal of Fe isotopic fractionation in water was archived in the suspended particulate matter and transferred into the sediment, rather than via ferrous iron directly deposited in the sediment. This study reveals that Fe isotopes from modern natural environments are useful proxies for reconstructing iron oxidation-reduction process during Earth's early history.
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Affiliation(s)
- Xi Yang
- Center for Environmental Remediation, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; University of Chinese Academy of Sciences, Beijing 100049, China; Tianjin Key Laboratory of Water Resources and Environment, Tianjin Normal University, Tianjin 300387, China
| | - Qingjun Guo
- Center for Environmental Remediation, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Valeria Boyko
- Department of Geological and Environmental Sciences, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Khoren Avetisyan
- Department of Geological and Environmental Sciences, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Alyssa J Findlay
- Department of Geological and Environmental Sciences, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Fang Huang
- CAS Key Laboratory of Crust-Mantle Materials and Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei 230026, China
| | - Zhongliang Wang
- Tianjin Key Laboratory of Water Resources and Environment, Tianjin Normal University, Tianjin 300387, China
| | - Zhenwu Chen
- CAS Key Laboratory of Crust-Mantle Materials and Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei 230026, China
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Qian Z, Wu C, Pan W, Xiong X, Xia L, Li W. Arsenic Transformation in Soil-Rice System Affected by Iron-Oxidizing Strain ( Ochrobactrum sp.) and Related Soil Metabolomics Analysis. Front Microbiol 2022; 13:794950. [PMID: 35256871 PMCID: PMC8897285 DOI: 10.3389/fmicb.2022.794950] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Accepted: 01/14/2022] [Indexed: 11/29/2022] Open
Abstract
Iron-oxidizing bacteria (FeOB) could oxidize Fe(II) and mediate biomineralization, which provides the possibility for its potential application in arsenic (As) remediation. In the present study, a strain named Ochrobactrum EEELCW01 isolated previously, was inoculated into paddy soils to investigate the effect of FeOB inoculation on the As migration and transformation in paddy soils. The results showed that inoculation of Ochrobactrum sp. increased the proportion of As in iron-aluminum oxide binding fraction, which reduced the As bioavailability in paddy soils and effectively reduced the As accumulation in rice tissues. Moreover, the inoculation of iron oxidizing bacteria increased the abundance of KD4-96, Pedosphaeraceae and other bacteria in the soils, which could reduce the As toxicity in the soil through biotransformation. The abundance of metabolites such as carnosine, MG (0:0/14:0/0:0) and pantetheine 4'-phosphate increased in rhizosphere soils inoculated with FeOB, which indicated that the defense ability of soil-microorganism-plant system against peroxidation caused by As was enhanced. This study proved that FeOB have the potential application in remediation of As pollution in paddy soil, FeOB promotes the formation of iron oxide in paddy soil, and then adsorbed and coprecipitated with arsenic. On the other hand, the inoculation of Ochrobactrum sp. change soil microbial community structure and soil metabolism, increase the abundance of FeOB in soil, promote the biotransformation process of As in soil, and enhance the resistance of soil to peroxide pollution (As pollution).
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Affiliation(s)
- Ziyan Qian
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
- School of Metallurgy and Environment, Central South University, Changsha, China
| | - Chuan Wu
- School of Metallurgy and Environment, Central South University, Changsha, China
- Department of Science and Environmental Studies, The Education University of Hong Kong, Tai Po, Hong Kong SAR, China
| | - Weisong Pan
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Xiaoran Xiong
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Libing Xia
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Waichin Li
- Department of Science and Environmental Studies, The Education University of Hong Kong, Tai Po, Hong Kong SAR, China
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Varnali T, Bozoflu M, Şengönül H, Kurt Sİ. Potential metal chelating ability of mycosporine-like amino acids: a computational research. CHEMICAL PAPERS 2022. [DOI: 10.1007/s11696-021-02014-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Tian T, Zhou K, Li YS, Liu DF, Yu HQ. Recovery of Iron-Dependent Autotrophic Denitrification Activity from Cell-Iron Mineral Aggregation-Induced Reversible Inhibition by Low-Intensity Ultrasonication. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:595-604. [PMID: 34932326 DOI: 10.1021/acs.est.1c05553] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Iron-dependent autotrophic denitrification (IDAD) has garnered increasing interests as an efficient method for removing nitrogen from wastewater with a low carbon to nitrogen ratio. However, an inevitable deterioration of IDAD performance casts a shadow over its further development. In this work, the hidden cause for such a deterioration is uncovered, and a viable solution to this problem is provided. Batch test results reveal that the aggregation of microbial cells and iron-bearing minerals induced a cumulative and reversible inhibition on the activity of IDAD sludge. Extracellular polymeric substances were found to play a glue-like role in the cell-iron mineral aggregates, where microbial cells were caged, and their metabolisms were suppressed. Adopting low-intensity ultrasound treatment efficiently restored the IDAD activity by disintegrating such aggregates rather than stimulating the microbial metabolism. Moreover, the ultrasonication-assisted IDAD bioreactor exhibited an advantageous nitrogen removal efficiency (with a maximum enhancement of 72.3%) and operational stability compared to the control one, demonstrating a feasible strategy to achieve long-term stability of the IDAD process. Overall, this work provides a better understanding about the mechanism for the performance deterioration and a simple approach to maintain the stability of IDAD.
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Affiliation(s)
- Tian Tian
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, China
| | - Ke Zhou
- School of Resources and Environmental Engineering, Hefei University of Technology, Hefei 230009, China
| | - Yu-Sheng Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Dong-Feng Liu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
- School of Resources and Environmental Engineering, Hefei University of Technology, Hefei 230009, China
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Dreher CL, Schad M, Robbins LJ, Konhauser KO, Kappler A, Joshi P. Microbial processes during deposition and diagenesis of Banded Iron Formations. PALAONTOLOGISCHE ZEITSCHRIFT 2021; 95:593-610. [PMID: 35034981 PMCID: PMC8724090 DOI: 10.1007/s12542-021-00598-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/22/2021] [Accepted: 11/22/2021] [Indexed: 06/14/2023]
Abstract
Banded Iron Formations (BIFs) are marine chemical sediments consisting of alternating iron (Fe)-rich and silica (Si)-rich bands which were deposited throughout much of the Precambrian era. BIFs represent important proxies for the geochemical composition of Precambrian seawater and provide evidence for early microbial life. Iron present in BIFs was likely precipitated in the form of Fe3+ (Fe(III)) minerals, such as ferrihydrite (Fe(OH)3), either through the metabolic activity of anoxygenic photoautotrophic Fe2+ (Fe(II))-oxidizing bacteria (photoferrotrophs), by microaerophilic bacteria, or by the oxidation of dissolved Fe(II) by O2 produced by early cyanobacteria. However, in addition to oxidized Fe-bearing minerals such as hematite (FeIII 2O3), (partially) reduced minerals such as magnetite (FeIIFeIII 2O4) and siderite (FeIICO3) are found in BIFs as well. The presence of reduced Fe in BIFs has been suggested to reflect the reduction of primary Fe(III) minerals by dissimilatory Fe(III)-reducing bacteria, or by metamorphic (high pressure and temperature) reactions occurring in presence of buried organic matter. Here, we present the current understanding of the role of Fe-metabolizing bacteria in the deposition of BIFs, as well as competing hypotheses that favor an abiotic model for BIF deposition. We also discuss the potential abiotic and microbial reduction of Fe(III) in BIFs after deposition. Further, we review the availability of essential nutrients (e.g. P and Ni) and their implications on early Earth biogeochemistry. Overall, the combined results of various ancient seawater analogue experiments aimed at assessing microbial iron cycling pathways, coupled with the analysis of the BIF rock record, point towards a strong biotic influence during BIF genesis.
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Affiliation(s)
- Carolin L. Dreher
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Tuebingen, Germany
| | - Manuel Schad
- Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, AB Canada
| | | | - Kurt O. Konhauser
- Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, AB Canada
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Tuebingen, Germany
| | - Prachi Joshi
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Tuebingen, Germany
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Photoferrotrophy and phototrophic extracellular electron uptake is common in the marine anoxygenic phototroph Rhodovulum sulfidophilum. THE ISME JOURNAL 2021; 15:3384-3398. [PMID: 34054125 PMCID: PMC8528915 DOI: 10.1038/s41396-021-01015-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Revised: 05/07/2021] [Accepted: 05/12/2021] [Indexed: 02/03/2023]
Abstract
Photoferrotrophy allows anoxygenic phototrophs to use reduced iron as an electron donor for primary productivity. Recent work shows that freshwater photoferrotrophs can use electrons from solid-phase conductive substances via phototrophic extracellular electron uptake (pEEU), and the two processes share the underlying electron uptake mechanism. However, the ability of marine phototrophs to perform photoferrotrophy and pEEU, and the contribution of these processes to primary productivity is largely unknown. To fill this knowledge gap, we isolated 15 new strains of the marine anoxygenic phototroph Rhodovulum sulfidophilum on electron donors such as acetate and thiosulfate. We observed that all of the R. sulfidophilum strains isolated can perform photoferrotrophy. We chose strain AB26 as a representative strain to study further, and find that it can also perform pEEU from poised electrodes. We show that during pEEU, AB26 transfers electrons to the photosynthetic electron transport chain. Furthermore, systems biology-guided mutant analysis shows that R. sulfidophilum AB26 uses a previously unknown diheme cytochrome c protein, which we call EeuP, for pEEU but not photoferrotrophy. Homologs of EeuP occur in a range of widely distributed marine microbes. Overall, these results suggest that photoferrotrophy and pEEU contribute to the biogeochemical cycling of iron and carbon in marine ecosystems.
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Lambrecht N, Stevenson Z, Sheik CS, Pronschinske MA, Tong H, Swanner ED. " Candidatus Chlorobium masyuteum," a Novel Photoferrotrophic Green Sulfur Bacterium Enriched From a Ferruginous Meromictic Lake. Front Microbiol 2021; 12:695260. [PMID: 34305861 PMCID: PMC8302410 DOI: 10.3389/fmicb.2021.695260] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Accepted: 06/07/2021] [Indexed: 11/13/2022] Open
Abstract
Anoxygenic phototrophic bacteria can be important primary producers in some meromictic lakes. Green sulfur bacteria (GSB) have been detected in ferruginous lakes, with some evidence that they are photosynthesizing using Fe(II) as an electron donor (i.e., photoferrotrophy). However, some photoferrotrophic GSB can also utilize reduced sulfur compounds, complicating the interpretation of Fe-dependent photosynthetic primary productivity. An enrichment (BLA1) from meromictic ferruginous Brownie Lake, Minnesota, United States, contains an Fe(II)-oxidizing GSB and a metabolically flexible putative Fe(III)-reducing anaerobe. "Candidatus Chlorobium masyuteum" grows photoautotrophically with Fe(II) and possesses the putative Fe(II) oxidase-encoding cyc2 gene also known from oxygen-dependent Fe(II)-oxidizing bacteria. It lacks genes for oxidation of reduced sulfur compounds. Its genome encodes for hydrogenases and a reverse TCA cycle that may allow it to utilize H2 and acetate as electron donors, an inference supported by the abundance of this organism when the enrichment was supplied by these substrates and light. The anaerobe "Candidatus Pseudopelobacter ferreus" is in low abundance (∼1%) in BLA1 and is a putative Fe(III)-reducing bacterium from the Geobacterales ord. nov. While "Ca. C. masyuteum" is closely related to the photoferrotrophs C. ferroooxidans strain KoFox and C. phaeoferrooxidans strain KB01, it is unique at the genomic level. The main light-harvesting molecule was identified as bacteriochlorophyll c with accessory carotenoids of the chlorobactene series. BLA1 optimally oxidizes Fe(II) at a pH of 6.8, and the rate of Fe(II) oxidation was 0.63 ± 0.069 mmol day-1, comparable to other photoferrotrophic GSB cultures or enrichments. Investigation of BLA1 expands the genetic basis for phototrophic Fe(II) oxidation by GSB and highlights the role these organisms may play in Fe(II) oxidation and carbon cycling in ferruginous lakes.
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Affiliation(s)
- Nicholas Lambrecht
- Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA, United States
| | - Zackry Stevenson
- Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA, United States
| | - Cody S. Sheik
- Department of Biology, University of Minnesota Duluth, Duluth, MN, United States
- Large Lakes Observatory, University of Minnesota Duluth, Duluth, MN, United States
| | - Matthew A. Pronschinske
- Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA, United States
| | - Hui Tong
- Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA, United States
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Institute of Eco-environmental Science and Technology, Guangdong Academy of Sciences, Guangzhou, China
| | - Elizabeth D. Swanner
- Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA, United States
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12
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Zhou N, Luther GW, Chan CS. Ligand Effects on Biotic and Abiotic Fe(II) Oxidation by the Microaerophile Sideroxydans lithotrophicus. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:9362-9371. [PMID: 34110796 DOI: 10.1021/acs.est.1c00497] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Organic ligands are widely distributed and can affect microbially driven Fe biogeochemical cycles, but effects on microbial iron oxidation have not been well quantified. Our work used a model microaerophilic Fe(II)-oxidizing bacterium Sideroxydans lithotrophicus ES-1 to quantify biotic Fe(II) oxidation rates in the presence of organic ligands at 0.02 atm O2 and pH 6.0. We used two common Fe chelators with different binding strengths: citrate (log KFe(II)-citrate = 3.20) and nitrilotriacetic acid (NTA) (log KFe(II)-NTA = 8.09) and two standard humic substances, Pahokee peat humic acid (PPHA) and Suwannee River fulvic acid (SRFA). Our results provide rate constants for biotic and abiotic Fe(II) oxidation over different ligand concentrations and furthermore demonstrate that various models and natural iron-binding ligands each have distinct effects on abiotic versus biotic Fe(II) oxidation rates. We show that NTA accelerates abiotic oxidation and citrate has negligible effects, making it a better laboratory chelator. The humic substances only affect biotic Fe(II) oxidation, via a combination of chelation and electron transfer. PPHA accelerates biotic Fe(II) oxidation, while SRFA decelerates or accelerates the rate depending on concentration. The specific nature of organic-Fe microbe interactions may play key roles in environmental Fe(II) oxidation, which have cascading influences on cycling of nutrients and contaminants that associate with Fe oxide minerals.
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Affiliation(s)
- Nanqing Zhou
- School of Marine Science and Policy, University of Delaware, Newark, Delaware 19716, United States
| | - George W Luther
- School of Marine Science and Policy, University of Delaware, Newark, Delaware 19716, United States
| | - Clara S Chan
- School of Marine Science and Policy, University of Delaware, Newark, Delaware 19716, United States
- Department of Earth Sciences, University of Delaware, Newark, Delaware 19716, United States
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13
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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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Wang R, Wang WY, Liu MY, Zeb BS, Zhao ZG, Wang L. Improvement of ferrous ion-dependent nitrate removal (FeNiR) process with chelating ferrous ion as substrate. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2020; 271:110841. [PMID: 32579513 DOI: 10.1016/j.jenvman.2020.110841] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/29/2020] [Revised: 05/19/2020] [Accepted: 05/24/2020] [Indexed: 06/11/2023]
Abstract
In order to improve the ferrous ion-dependent nitrate removal (FeNiR) process, hexametaphosphate chelated ferrous ion was used as substrate to replace the free ferrous ion. With hexametaphosphate chelated ferrous ion as substrate, the influent pH was adjusted to 6.8, and as a result a higher effluent pH (7.2) was detected. The volumetric removal rate (VRR) of nitrate kept at 0.42 ± 0.03 kg-N/(m3∙d) for 48 days and the corresponding nitrogen removal efficiency was 94.39 ± 4.57%. After 88 days of cultivation, FeNiR granules became small because of the oligotrophic substrate. The transmission electron microscope (TEM) analysis showed that less iron encrustation was formed on the surface or in the periplasm of FeNiR cells. The linear curve of the living cell percentage versus time showed that the death rate of FeNiR cells with chelated ferrous ion as substrate was much lower than that with free ferrous ion as substrate (0.4210 vs 0.9221). Without iron encrustation, both the FeNiR activity and alkaline phosphatase (ALP) activity of FeNiR cells kept at high level and thus the efficiency of the FeNiR reactor kept stable and high. With hexametaphosphate chelated ferrous ion as substrate, the pH in bulk liquid was high (pH = 7.2) resulting in the high FeNiR rate, and less iron encrustation was formed around cells ensuring the stability of high FeNiR rate. Therefore, using hexametaphosphate chelated ferrous ion as substrate was an efficient way to improve the FeNiR process.
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Affiliation(s)
- Ru Wang
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, PR China.
| | - Wen-Yan Wang
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, PR China.
| | - Meng-Yu Liu
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, PR China.
| | - Bibi Saima Zeb
- Department of Environmental Sciences, COMSATS University Islamabad, Abbottabad Campus, Abbottabad, Pakistan.
| | - Zhi-Guo Zhao
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, PR China.
| | - Lan Wang
- Key Laboratory of Development and Application of Rural Renewable Energy, Ministry of Agriculture and Rural Affairs, Chengdu, 610041, PR China; Biogas Institute of Ministry of Agriculture and Rural Affairs, Chengdu, 610041, PR China.
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15
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Li G, Chen X, Yin H, Wang W, Wong PK, An T. Natural sphalerite nanoparticles can accelerate horizontal transfer of plasmid-mediated antibiotic-resistance genes. ENVIRONMENT INTERNATIONAL 2020; 136:105497. [PMID: 31999971 DOI: 10.1016/j.envint.2020.105497] [Citation(s) in RCA: 54] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Revised: 01/14/2020] [Accepted: 01/14/2020] [Indexed: 06/10/2023]
Abstract
Minerals and microorganisms are integral parts of natural environments, and they inevitably interact. Antibiotic-resistance genes (ARGs) significantly threaten modern healthcare. However, the effects of natural minerals on ARG propagation in aquatic systems are not fully understood. The present work studied the effects of natural sphalerite (NS) nanoparticles on the horizontal transfer of ARGs from Escherichia coli DH5α (CTX) (donor) to E. coli C600 (Sm) (recipient), and from E. coli DH5α (MCR) (donor) to E. coli C600 (Sm), and their underlying mechanisms. NS particles (0.5-50 mg L-1) induced an NS-concentration-dependent increase in conjugative transfer frequency. The underlying mechanisms associated with the facilitated ARG transfer included the production of intracellular reactive oxygen species, the SOS response, changes in bacterial cell morphology, and alteration of mRNA levels of bacterial cell membrane protein-related genes and genes associated with conjugative ARG transfer. The information herein offers new mechanistic understanding of risks of bacterial resistance resulting from NS.
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Affiliation(s)
- Guiying Li
- Guangdong Key Laboratory of Environmental Catalysis and Health Risk Control, Guangzhou Key Laboratory of Environmental Catalysis and Pollution Control, School of Environmental Science and Engineering, Institute of Environmental Health and Pollution Control, Guangdong University of Technology, Guangzhou 510006, Guangdong, China
| | - Xiaofang Chen
- Guangdong Key Laboratory of Environmental Catalysis and Health Risk Control, Guangzhou Key Laboratory of Environmental Catalysis and Pollution Control, School of Environmental Science and Engineering, Institute of Environmental Health and Pollution Control, Guangdong University of Technology, Guangzhou 510006, Guangdong, China
| | - Hongliang Yin
- Guangdong Key Laboratory of Environmental Catalysis and Health Risk Control, Guangzhou Key Laboratory of Environmental Catalysis and Pollution Control, School of Environmental Science and Engineering, Institute of Environmental Health and Pollution Control, Guangdong University of Technology, Guangzhou 510006, Guangdong, China
| | - Wanjun Wang
- Guangdong Key Laboratory of Environmental Catalysis and Health Risk Control, Guangzhou Key Laboratory of Environmental Catalysis and Pollution Control, School of Environmental Science and Engineering, Institute of Environmental Health and Pollution Control, Guangdong University of Technology, Guangzhou 510006, Guangdong, China
| | - Po Keung Wong
- School of Life Sciences, The Chinese University of Hong Kong, Shatin, NT, Hong Kong Special Administrative Region
| | - Taicheng An
- Guangdong Key Laboratory of Environmental Catalysis and Health Risk Control, Guangzhou Key Laboratory of Environmental Catalysis and Pollution Control, School of Environmental Science and Engineering, Institute of Environmental Health and Pollution Control, Guangdong University of Technology, Guangzhou 510006, Guangdong, China.
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16
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Tian T, Zhou K, Xuan L, Zhang JX, Li YS, Liu DF, Yu HQ. Exclusive microbially driven autotrophic iron-dependent denitrification in a reactor inoculated with activated sludge. WATER RESEARCH 2020; 170:115300. [PMID: 31756614 DOI: 10.1016/j.watres.2019.115300] [Citation(s) in RCA: 60] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Revised: 11/06/2019] [Accepted: 11/08/2019] [Indexed: 06/10/2023]
Abstract
Autotrophic iron-dependent denitrification (AIDD) is arising as a promising process for nitrogen removal from wastewater with a low carbon to nitrogen ratio. However, there is still a debate about the existence of such a process in activated sludge systems. This work provides evidence and elucidated the feasibility of autotrophic Fe(II)-oxidizing nitrate-reducing culture for nitrogen removal by long-term reactor operation, batch experimental verification, unstructured kinetic modeling and microbial community analyses. A relatively stable nitrate removal rate was achieved coupled with the oxidation of ferrous ions in 3-month operation of reactor. The kinetic modeling suggests that the iron oxidation was a growth-associated process in AIDD. Utilization of extracellular polymeric substances (and/or soluble microbial products) as electron donor for denitrification by heterotrophic denitrifiers was not mainly responsible for nitrogen removal in the reactor. After long-term operation of the reactor with activated sludge as inoculum, the enrichment culture KS-like consortium, dominated by Fe(II) oxidizer, Gallionellaceae, was successfully acclimated for autotrophic Fe(II)-oxidizing nitrate reduction. This work extents our understanding about the existence of such an autotrophic Fe(II)-oxidizing nitrate-reducing culture in both natural and engineered systems, and opens a door for its potential application in wastewater treatment.
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Affiliation(s)
- Tian Tian
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Ke Zhou
- School of Resources & Environmental Engineering, Hefei University of Technology, Hefei, 230009, China
| | - Liang Xuan
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China; School of Environmental Science & Engineering, State Key Laboratory of Pollution Control and Resource Reuse, Tongji University, Shanghai, 200092, China
| | - Jing-Xiao Zhang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Yu-Sheng Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Dong-Feng Liu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China; School of Resources & Environmental Engineering, Hefei University of Technology, Hefei, 230009, China.
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17
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Hussain S, Min Z, Xiuxiu Z, Khan MH, Lifeng L, Hui C. Significance of Fe(II) and environmental factors on carbon-fixing bacterial community in two paddy soils. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 182:109456. [PMID: 31398779 DOI: 10.1016/j.ecoenv.2019.109456] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2019] [Revised: 07/15/2019] [Accepted: 07/18/2019] [Indexed: 05/20/2023]
Abstract
The seasonal flooding and drainage process affect the paddy soils, the existence of the iron state either Fe(III) or Fe(II) is the main redox system of paddy soil. Its morphological transformation affects the redox nature of paddy soils, which also affects the distribution of bacterial community diversity. This study based on molecular biological methods (qPCR, Illumina MiSeq sequencing technique) to investigate the effect of Fe(II) and environmental factors on cbbM genes containing carbon fixing microbes. Both Eh5 and pH were reduced with Fe(II) concentrations. The Fe(II) addition significantly affects the cbbM gene copy number in both texture soils. In loamy soil, cbbM gene copy number increased with high addition of Fe(II), while both low and high concentrations significantly reduced the cbbM gene copy number in sandy soil. Chemotrophic bacterial abundance significantly increased by 79.7% and 54.8% with high and low Fe(II) addition in loamy soil while in sandy soil its abundance decreased by 53% and 54% with the low and high Fe(II) accumulation. The phototrophic microbial community increased by 37.8% with low Fe(II) concentration and decreased by 16.2% with a high concentration in loamy soil, while in sandy soil increased by 21% and 14.3% in sandy soil with low and high Fe(II) addition. Chemoheterotrophic carbon fixing bacterial abundance decreased with the Fe(II) accumulation in both soil textures in loamy soil its abundance decreased by 5.8% and 24.8%, while in sand soil 15.7% and 12.8% with low and high Fe(II) concentrations. The Fe(II) concentration and soil textures maybe two of the major factors to shape the bacterial community structure in paddy soils. These results provide a scientific basis for management of paddy soil fertility and it can be beneficial to take measures to ease the greenhouse gases effect.
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Affiliation(s)
- Sarfraz Hussain
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Zhang Min
- College of Animal Science and Technology, Nanjing Agricultural University, Nanjing, 210095, China
| | - Zhu Xiuxiu
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Muzammil Hassan Khan
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Li Lifeng
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Cao Hui
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China.
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18
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Schad M, Konhauser KO, Sánchez-Baracaldo P, Kappler A, Bryce C. How did the evolution of oxygenic photosynthesis influence the temporal and spatial development of the microbial iron cycle on ancient Earth? Free Radic Biol Med 2019; 140:154-166. [PMID: 31323314 DOI: 10.1016/j.freeradbiomed.2019.07.014] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Revised: 07/05/2019] [Accepted: 07/15/2019] [Indexed: 12/22/2022]
Abstract
Iron is the most abundant redox active metal on Earth and thus provides one of the most important records of the redox state of Earth's ancient atmosphere, oceans and landmasses over geological time. The most dramatic shifts in the Earth's iron cycle occurred during the oxidation of Earth's atmosphere. However, tracking the spatial and temporal development of the iron cycle is complicated by uncertainties about both the timing and location of the evolution of oxygenic photosynthesis, and by the myriad of microbial processes that act to cycle iron between redox states. In this review, we piece together the geological evidence to assess where and when oxygenic photosynthesis likely evolved, and attempt to evaluate the influence of this innovation on the microbial iron cycle.
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Affiliation(s)
- Manuel Schad
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, 72076, Tübingen, Germany
| | - Kurt O Konhauser
- Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, AB T6G 2E3, Canada
| | | | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, 72076, Tübingen, Germany
| | - Casey Bryce
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, 72076, Tübingen, Germany.
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19
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Bennett BD, Gralnick JA. Mechanisms of toxicity by and resistance to ferrous iron in anaerobic systems. Free Radic Biol Med 2019; 140:167-171. [PMID: 31251977 DOI: 10.1016/j.freeradbiomed.2019.06.027] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/05/2018] [Revised: 06/13/2019] [Accepted: 06/23/2019] [Indexed: 12/24/2022]
Abstract
Iron is an essential element for nearly all life on Earth, primarily for its value as a redox active cofactor. Iron exists predominantly in two biologically relevant redox states: ferric iron, the oxidized state (Fe3+), and ferrous iron, the reduced state (Fe2+). Fe2+ is well known to facilitate electron transfer reactions that can lead to the generation of reactive oxygen species. Less is known about why iron is toxic to cells in the absence of oxygen, yet this phenomenon is critically important for our understanding of life on early Earth and in iron-rich ecosystems today. In this brief review, we will highlight our current understanding of anaerobic Fe2+ toxicity, focusing on molecular mechanistic studies in several model systems.
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Affiliation(s)
- B D Bennett
- Pacific Biosciences Research Center, University of Hawai‛i at Mānoa, Honolulu, HI, 96813, USA
| | - J A Gralnick
- BioTechnology Institute and Department of Plant and Microbial Biology, University of Minnesota - Twin Cities, St. Paul, MN, 55108, USA.
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20
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Zhou GW, Yang XR, Rønn R, Su JQ, Cui L, Zheng BX, Zhu YG. Metabolic Inactivity and Re-awakening of a Nitrate Reduction Dependent Iron(II)-Oxidizing Bacterium Bacillus ferrooxidans. Front Microbiol 2019; 10:1494. [PMID: 31333611 PMCID: PMC6617468 DOI: 10.3389/fmicb.2019.01494] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Accepted: 06/14/2019] [Indexed: 11/13/2022] Open
Abstract
Microorganisms capable of anaerobic nitrate-dependent Fe(II) (ferrous iron) oxidation (ANDFO) contribute significantly to iron and nitrogen cycling in various environments. However, lab efforts in continuous cultivation of ANDFO strains suffer from loss of activity when ferrous iron is used as sole electron donor. Here, we used a novel strain of nitrate-dependent Fe(II)-oxidizing bacterium Bacillus ferroxidians as a model and focused on the physiological activity of cells during ANDFO. It was shown that B. ferrooxidans entered a metabolically inactive state during ANDFO. B. ferrooxidans exhibited nitrate reduction coupled with Fe(II) oxidation, and the activity gradually declined and was hardly detected after 48-h incubation. Propidium monoazide (PMA) assisted 16S rRNA gene real-time PCR suggested that a large number of B. ferrooxidans cells were alive during incubation. However, 2H(D)-isotope based Raman analysis indicated that the cells were metabolically inactive after 120-h of ANDFO. These inactive cells re-awakened in R2A medium and were capable of growth and reproduction, which was consistent with results in Raman analysis. Scanning electron microscopy (SEM) observation and x-ray diffraction (XRD) revealed the formation of Fe minerals in close proximity of cells in the Fe(II)-oxidizing medium after Fe(II) oxidation. Overall, our results demonstrated that continued ANDFO can induce a metabolically inactive state in B. ferrooxidans, which was responsible for the loss of activity during ANDFO. This study provides an insight into the ANDFO process and its contribution to iron and nitrogen cycling in the environments.
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Affiliation(s)
- Guo-Wei Zhou
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, China.,State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Xiao-Ru Yang
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, China
| | - Regin Rønn
- Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Jian-Qiang Su
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, China
| | - Li Cui
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, China
| | - Bang-Xiao Zheng
- Faculty of Biological and Environmental Sciences, University of Helsinki, Lahti, Finland
| | - Yong-Guan Zhu
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, China.,State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China
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21
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Bryce C, Blackwell N, Schmidt C, Otte J, Huang YM, Kleindienst S, Tomaszewski E, Schad M, Warter V, Peng C, Byrne JM, Kappler A. Microbial anaerobic Fe(II) oxidation - Ecology, mechanisms and environmental implications. Environ Microbiol 2018; 20:3462-3483. [DOI: 10.1111/1462-2920.14328] [Citation(s) in RCA: 104] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2018] [Revised: 06/15/2018] [Accepted: 06/16/2018] [Indexed: 11/30/2022]
Affiliation(s)
- Casey Bryce
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Nia Blackwell
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | | | - Julia Otte
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Yu-Ming Huang
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | | | | | - Manuel Schad
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Viola Warter
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Chao Peng
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - James M. Byrne
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Andreas Kappler
- Geomicrobiology; University of Tübingen; Tübingen Germany
- Center for Geomicrobiology, Department of Bioscience; Aarhus University; Aarhus Denmark
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Proteome Response of a Metabolically Flexible Anoxygenic Phototroph to Fe(II) Oxidation. Appl Environ Microbiol 2018; 84:AEM.01166-18. [PMID: 29915106 DOI: 10.1128/aem.01166-18] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Accepted: 06/07/2018] [Indexed: 11/20/2022] Open
Abstract
The oxidation of Fe(II) by anoxygenic photosynthetic bacteria was likely a key contributor to Earth's biosphere prior to the evolution of oxygenic photosynthesis and is still found in a diverse range of modern environments. All known phototrophic Fe(II) oxidizers can utilize a wide range of substrates, thus making them very metabolically flexible. However, the underlying adaptations required to oxidize Fe(II), a potential stressor, are not completely understood. We used a combination of quantitative proteomics and cryogenic transmission electron microscopy (cryo-TEM) to compare cells of Rhodopseudomonas palustris TIE-1 grown photoautotrophically with Fe(II) or H2 and photoheterotrophically with acetate. We observed unique proteome profiles for each condition, with differences primarily driven by carbon source. However, these differences were not related to carbon fixation but to growth and light harvesting processes, such as pigment synthesis. Cryo-TEM showed stunted development of photosynthetic membranes in photoautotrophic cultures. Growth on Fe(II) was characterized by a response typical of iron homeostasis, which included an increased abundance of proteins required for metal efflux (particularly copper) and decreased abundance of iron import proteins, including siderophore receptors, with no evidence of further stressors, such as oxidative damage. This study suggests that the main challenge facing anoxygenic phototrophic Fe(II) oxidizers comes from growth limitations imposed by autotrophy, and, once this challenge is overcome, iron stress can be mitigated using iron management mechanisms common to diverse bacteria (e.g., by control of iron influx and efflux).IMPORTANCE The cycling of iron between redox states leads to the precipitation and dissolution of minerals, which can in turn impact other major biogeochemical cycles, such as those of carbon, nitrogen, phosphorus and sulfur. Anoxygenic phototrophs are one of the few drivers of Fe(II) oxidation in anoxic environments and are thought to contribute significantly to iron cycling in both modern and ancient environments. These organisms thrive at high Fe(II) concentrations, yet the adaptations required to tolerate the stresses associated with this are unclear. Despite the general consensus that high Fe(II) concentrations pose numerous stresses on these organisms, our study of the large-scale proteome response of a model anoxygenic phototroph to Fe(II) oxidation demonstrates that common iron homeostasis strategies are adequate to manage this. The bulk of the proteome response is not driven by adaptations to Fe(II) stress but to adaptations required to utilize an inorganic carbon source. Such a global overview of the adaptation of these organisms to Fe(II) oxidation provides valuable insights into the physiology of these biogeochemically important organisms and suggests that Fe(II) oxidation may not pose as many challenges to anoxygenic phototrophs as previously thought.
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Otte JM, Harter J, Laufer K, Blackwell N, Straub D, Kappler A, Kleindienst S. The distribution of active iron‐cycling bacteria in marine and freshwater sediments is decoupled from geochemical gradients. Environ Microbiol 2018; 20:2483-2499. [DOI: 10.1111/1462-2920.14260] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2017] [Revised: 04/26/2018] [Accepted: 04/26/2018] [Indexed: 11/30/2022]
Affiliation(s)
- Julia M. Otte
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen Germany
| | - Johannes Harter
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen Germany
| | - Katja Laufer
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen Germany
- Center for Geomicrobiology, Department of BioscienceAarhus University Denmark
| | - Nia Blackwell
- Microbial Ecology, Center for Applied GeosciencesUniversity of Tübingen Germany
| | - Daniel Straub
- Microbial Ecology, Center for Applied GeosciencesUniversity of Tübingen Germany
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen Germany
- Center for Geomicrobiology, Department of BioscienceAarhus University Denmark
| | - Sara Kleindienst
- Microbial Ecology, Center for Applied GeosciencesUniversity of Tübingen Germany
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Iron-oxidizing bacteria in marine environments: recent progresses and future directions. World J Microbiol Biotechnol 2018; 34:110. [PMID: 29974320 DOI: 10.1007/s11274-018-2491-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2018] [Accepted: 06/26/2018] [Indexed: 10/28/2022]
Abstract
Iron-oxidizing bacteria (FeOB) refers to a group of bacteria with the ability to exchange and accumulate divalent iron dissolved in water as trivalent iron inside and outside the bacterial cell. Most FeOB belong the largest bacterial phylum, Proteobacteria. Within this phylum, FeOB with varying physiology with regards to their response to oxygen (obligate aerobes, facultative and obligate anaerobes) and pH optimum for proliferation (neutrophiles, moderate and extreme acidophiles) can be found. Although FeOB have been reported from a wide variety of environments, most of them have not been isolated and their biochemical characteristics remain largely unknown. This is especially true for those living in the marine realm, where the properties of FeOB was not known until the isolation of the Zetaproteobacteria Mariprofundus ferrooxydans, first reported in 2007. Since the proposal of Zetaproteobacteria by Emerson et al., the detection and isolation of those microorganisms from the marine environment has greatly escalated. Furthermore, FeOB have also recently been reported from works on ocean drilling and metal corrosion. This review aims to summarize the current state of phylogenetic and physiological diversity in marine FeOB, the significance of their roles in their environments (on both global and local scales), as well as their growing importance and applications in the industry.
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25
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Usman M, Byrne JM, Chaudhary A, Orsetti S, Hanna K, Ruby C, Kappler A, Haderlein SB. Magnetite and Green Rust: Synthesis, Properties, and Environmental Applications of Mixed-Valent Iron Minerals. Chem Rev 2018; 118:3251-3304. [PMID: 29465223 DOI: 10.1021/acs.chemrev.7b00224] [Citation(s) in RCA: 182] [Impact Index Per Article: 30.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Mixed-valent iron [Fe(II)-Fe(III)] minerals such as magnetite and green rust have received a significant amount of attention over recent decades, especially in the environmental sciences. These mineral phases are intrinsic and essential parts of biogeochemical cycling of metals and organic carbon and play an important role regarding the mobility, toxicity, and redox transformation of organic and inorganic pollutants. The formation pathways, mineral properties, and applications of magnetite and green rust are currently active areas of research in geochemistry, environmental mineralogy, geomicrobiology, material sciences, environmental engineering, and environmental remediation. These aspects ultimately dictate the reactivity of magnetite and green rust in the environment, which has important consequences for the application of these mineral phases, for example in remediation strategies. In this review we discuss the properties, occurrence, formation by biotic as well as abiotic pathways, characterization techniques, and environmental applications of magnetite and green rust in the environment. The aim is to present a detailed overview of the key aspects related to these mineral phases which can be used as an important resource for researchers working in a diverse range of fields dealing with mixed-valent iron minerals.
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Affiliation(s)
- M Usman
- Environmental Mineralogy, Center for Applied Geosciences , University of Tübingen , 72074 Tübingen , Germany.,Institute of Soil and Environmental Sciences , University of Agriculture , Faisalabad 38040 , Pakistan
| | - J M Byrne
- Geomicrobiology, Center for Applied Geosciences , University of Tübingen , 72074 Tübingen , Germany
| | - A Chaudhary
- Environmental Mineralogy, Center for Applied Geosciences , University of Tübingen , 72074 Tübingen , Germany.,Department of Environmental Science and Engineering , Government College University Faisalabad 38000 , Pakistan
| | - S Orsetti
- Environmental Mineralogy, Center for Applied Geosciences , University of Tübingen , 72074 Tübingen , Germany
| | - K Hanna
- Univ Rennes, École Nationale Supérieure de Chimie de Rennes , CNRS, ISCR - UMR6226 , F-35000 Rennes , France
| | - C Ruby
- Laboratoire de Chimie Physique et Microbiologie pour l'Environnement , UMR 7564 CNRS-Université de Lorraine , 54600 Villers-Lès-Nancy , France
| | - A Kappler
- Geomicrobiology, Center for Applied Geosciences , University of Tübingen , 72074 Tübingen , Germany
| | - S B Haderlein
- Environmental Mineralogy, Center for Applied Geosciences , University of Tübingen , 72074 Tübingen , Germany
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Laufer K, Niemeyer A, Nikeleit V, Halama M, Byrne JM, Kappler A. Physiological characterization of a halotolerant anoxygenic phototrophic Fe(II)-oxidizing green-sulfur bacterium isolated from a marine sediment. FEMS Microbiol Ecol 2017; 93:3738482. [PMID: 28431154 DOI: 10.1093/femsec/fix054] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2017] [Accepted: 04/17/2017] [Indexed: 01/20/2023] Open
Abstract
Anoxygenic photoautotrophic bacteria which use light energy and electrons from Fe(II) for growth, so-called photoferrotrophs, are suggested to have been amongst the first phototrophic microorganisms on Earth and to have contributed to the deposition of sedimentary iron mineral deposits, i.e. banded iron formations. To date only two isolates of marine photoferrotrophic bacteria exist, both of which are closely related purple non-sulfur bacteria. Here we present a novel green-sulfur photoautotrophic Fe(II) oxidizer isolated from a marine coastal sediment, Chlorobium sp. strain N1, which is closely related to the freshwater green-sulfur bacterium Chlorobium luteolum DSM273 that is incapable of Fe(II) oxidation. Besides Fe(II), our isolated strain grew phototrophically with other inorganic and organic substrates such as sulfide, hydrogen, lactate or yeast extract. Highest Fe(II) oxidation rates were measured at pH 7.0-7.3, the temperature optimum was 25°C. Mössbauer spectroscopy identified ferrihydrite as the main Fe(III) mineral and fluorescence and helium-ion microscopy revealed cell-mineral aggregates without obvious cell encrustation. In summary, our study showed that the new isolate is physiologically adapted to the conditions of its natural habitat but also to conditions as proposed for early Earth and is thus a suitable model organism for further studies addressing phototrophic Fe(II) oxidation on early Earth.
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Affiliation(s)
- Katja Laufer
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, D-72076 Tuebingen, Germany
| | - Annika Niemeyer
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, D-72076 Tuebingen, Germany
| | - Verena Nikeleit
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, D-72076 Tuebingen, Germany
| | - Maximilian Halama
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, D-72076 Tuebingen, Germany
| | - James M Byrne
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, D-72076 Tuebingen, Germany
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, D-72076 Tuebingen, Germany.,Center for Geomicrobiology, Department of Bioscience, Aarhus University, 8000 Aarhus, Denmark
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27
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Molecular structure of FoxE, the putative iron oxidase of Rhodobacter ferrooxidans SW2. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2017; 1858:847-853. [DOI: 10.1016/j.bbabio.2017.07.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2017] [Revised: 04/13/2017] [Accepted: 07/27/2017] [Indexed: 12/14/2022]
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Insights into Nitrate-Reducing Fe(II) Oxidation Mechanisms through Analysis of Cell-Mineral Associations, Cell Encrustation, and Mineralogy in the Chemolithoautotrophic Enrichment Culture KS. Appl Environ Microbiol 2017; 83:AEM.00752-17. [PMID: 28455336 DOI: 10.1128/aem.00752-17] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2017] [Accepted: 04/25/2017] [Indexed: 11/20/2022] Open
Abstract
Most described nitrate-reducing Fe(II)-oxidizing bacteria (NRFeOB) are mixotrophic and depend on organic cosubstrates for growth. Encrustation of cells in Fe(III) minerals has been observed for mixotrophic NRFeOB but not for autotrophic phototrophic and microaerophilic Fe(II) oxidizers. So far, little is known about cell-mineral associations in the few existing autotrophic NRFeOB. Here, we investigate whether the designated autotrophic Fe(II)-oxidizing strain (closely related to Gallionella and Sideroxydans) or the heterotrophic nitrate reducers that are present in the autotrophic nitrate-reducing Fe(II)-oxidizing enrichment culture KS form mineral crusts during Fe(II) oxidation under autotrophic and mixotrophic conditions. In the mixed culture, we found no significant encrustation of any of the cells both during autotrophic oxidation of 8 to 10 mM Fe(II) coupled to nitrate reduction and during cultivation under mixotrophic conditions with 8 to 10 mM Fe(II), 5 mM acetate, and 4 mM nitrate, where higher numbers of heterotrophic nitrate reducers were present. Two pure cultures of heterotrophic nitrate reducers (Nocardioides and Rhodanobacter) isolated from culture KS were analyzed under mixotrophic growth conditions. We found green rust formation, no cell encrustation, and only a few mineral particles on some cell surfaces with 5 mM Fe(II) and some encrustation with 10 mM Fe(II). Our findings suggest that enzymatic, autotrophic Fe(II) oxidation coupled to nitrate reduction forms poorly crystalline Fe(III) oxyhydroxides and proceeds without cellular encrustation while indirect Fe(II) oxidation via heterotrophic nitrate-reduction-derived nitrite can lead to green rust as an intermediate mineral and significant cell encrustation. The extent of encrustation caused by indirect Fe(II) oxidation by reactive nitrogen species depends on Fe(II) concentrations and is probably negligible under environmental conditions in most habitats.IMPORTANCE Most described nitrate-reducing Fe(II)-oxidizing bacteria (NRFeOB) are mixotrophic (their growth depends on organic cosubstrates) and can become encrusted in Fe(III) minerals. Encrustation is expected to be harmful and poses a threat to cells if it also occurs under environmentally relevant conditions. Nitrite produced during heterotrophic denitrification reacts with Fe(II) abiotically and is probably the reason for encrustation in mixotrophic NRFeOB. Little is known about cell-mineral associations in autotrophic NRFeOB such as the enrichment culture KS. Here, we show that no encrustation occurs in culture KS under autotrophic and mixotrophic conditions while heterotrophic nitrate-reducing isolates from culture KS become encrusted. These findings support the hypothesis that encrustation in mixotrophic cultures is caused by the abiotic reaction of Fe(II) with nitrite and provide evidence that Fe(II) oxidation in culture KS is enzymatic. Furthermore, we show that the extent of encrustation caused by indirect Fe(II) oxidation by reactive nitrogen species depends on Fe(II) concentrations and is probably negligible in most environmental habitats.
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29
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Swanner ED, Bayer T, Wu W, Hao L, Obst M, Sundman A, Byrne JM, Michel FM, Kleinhanns IC, Kappler A, Schoenberg R. Iron Isotope Fractionation during Fe(II) Oxidation Mediated by the Oxygen-Producing Marine Cyanobacterium Synechococcus PCC 7002. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:4897-4906. [PMID: 28402123 PMCID: PMC5415872 DOI: 10.1021/acs.est.6b05833] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2016] [Revised: 04/10/2017] [Accepted: 04/12/2017] [Indexed: 06/07/2023]
Abstract
In this study, we couple iron isotope analysis to microscopic and mineralogical investigation of iron speciation during circumneutral Fe(II) oxidation and Fe(III) precipitation with photosynthetically produced oxygen. In the presence of the cyanobacterium Synechococcus PCC 7002, aqueous Fe(II) (Fe(II)aq) is oxidized and precipitated as amorphous Fe(III) oxyhydroxide minerals (iron precipitates, Feppt), with distinct isotopic fractionation (ε56Fe) values determined from fitting the δ56Fe(II)aq (1.79‰ and 2.15‰) and the δ56Feppt (2.44‰ and 2.98‰) data trends from two replicate experiments. Additional Fe(II) and Fe(III) phases were detected using microscopy and chemical extractions and likely represent Fe(II) and Fe(III) sorbed to minerals and cells. The iron desorbed with sodium acetate (FeNaAc) yielded heavier δ56Fe compositions than Fe(II)aq. Modeling of the fractionation during Fe(III) sorption to cells and Fe(II) sorption to Feppt, combined with equilibration of sorbed iron and with Fe(II)aq using published fractionation factors, is consistent with our resulting δ56FeNaAc. The δ56Feppt data trend is inconsistent with complete equilibrium exchange with Fe(II)aq. Because of this and our detection of microbially excreted organics (e.g., exopolysaccharides) coating Feppt in our microscopic analysis, we suggest that electron and atom exchange is partially suppressed in this system by biologically produced organics. These results indicate that cyanobacteria influence the fate and composition of iron in sunlit environments via their role in Fe(II) oxidation through O2 production, the capacity of their cell surfaces to sorb iron, and the interaction of secreted organics with Fe(III) minerals.
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Affiliation(s)
- E. D. Swanner
- Iowa
State University, Department of Geological
& Atmospheric Sciences, 2237 Osborn Drive, 253 Science I, Ames, Iowa 50011-1027, United States
| | - T. Bayer
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
| | - W. Wu
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
| | - L. Hao
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
| | - M. Obst
- University
of Bayreuth, Bayreuth Center of Ecology
and Environmental Research, Dr-Hans-Frisch-Str. 1-3, 95448 Bayreuth, Germany
| | - A. Sundman
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
| | - J. M. Byrne
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
| | - F. M. Michel
- Department
of Geosciences, Virginia Tech, Blacksburg, Virginia 24061-0420, United States
| | - I. C. Kleinhanns
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
| | - A. Kappler
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
| | - R. Schoenberg
- University
of Tuebingen, Department of Geosciences, Tuebingen, Germany
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Camacho A, Walter XA, Picazo A, Zopfi J. Photoferrotrophy: Remains of an Ancient Photosynthesis in Modern Environments. Front Microbiol 2017; 8:323. [PMID: 28377745 PMCID: PMC5359306 DOI: 10.3389/fmicb.2017.00323] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2016] [Accepted: 02/15/2017] [Indexed: 11/13/2022] Open
Abstract
Photoferrotrophy, the process by which inorganic carbon is fixed into organic matter using light as an energy source and reduced iron [Fe(II)] as an electron donor, has been proposed as one of the oldest photoautotrophic metabolisms on Earth. Under the iron-rich (ferruginous) but sulfide poor conditions dominating the Archean ocean, this type of metabolism could have accounted for most of the primary production in the photic zone. Here we review the current knowledge of biogeochemical, microbial and phylogenetic aspects of photoferrotrophy, and evaluate the ecological significance of this process in ancient and modern environments. From the ferruginous conditions that prevailed during most of the Archean, the ancient ocean evolved toward euxinic (anoxic and sulfide rich) conditions and, finally, much after the advent of oxygenic photosynthesis, to a predominantly oxic environment. Under these new conditions photoferrotrophs lost importance as primary producers, and now photoferrotrophy remains as a vestige of a formerly relevant photosynthetic process. Apart from the geological record and other biogeochemical markers, modern environments resembling the redox conditions of these ancient oceans can offer insights into the past significance of photoferrotrophy and help to explain how this metabolism operated as an important source of organic carbon for the early biosphere. Iron-rich meromictic (permanently stratified) lakes can be considered as modern analogs of the ancient Archean ocean, as they present anoxic ferruginous water columns where light can still be available at the chemocline, thus offering suitable niches for photoferrotrophs. A few bacterial strains of purple bacteria as well as of green sulfur bacteria have been shown to possess photoferrotrophic capacities, and hence, could thrive in these modern Archean ocean analogs. Studies addressing the occurrence and the biogeochemical significance of photoferrotrophy in ferruginous environments have been conducted so far in lakes Matano, Pavin, La Cruz, and the Kabuno Bay of Lake Kivu. To date, only in the latter two lakes a biogeochemical role of photoferrotrophs has been confirmed. In this review we critically summarize the current knowledge on iron-driven photosynthesis, as a remains of ancient Earth biogeochemistry.
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Affiliation(s)
- Antonio Camacho
- Cavanilles Institute for Biodiversity and Evolutionary Biology, University of ValenciaBurjassot, Spain
| | - Xavier A. Walter
- Bristol BioEnergy Centre, Bristol Robotics Laboratory, University of the West of EnglandBristol, UK
| | - Antonio Picazo
- Cavanilles Institute for Biodiversity and Evolutionary Biology, University of ValenciaBurjassot, Spain
| | - Jakob Zopfi
- Aquatic and Stable Isotope Biogeochemistry, Department of Environmental Sciences, University of BaselBasel, Switzerland
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Comparative Analysis of Microbial Communities in Iron-Dominated Flocculent Mats in Deep-Sea Hydrothermal Environments. Appl Environ Microbiol 2016; 82:5741-55. [PMID: 27422841 DOI: 10.1128/aem.01151-16] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2016] [Accepted: 07/11/2016] [Indexed: 11/20/2022] Open
Abstract
UNLABELLED It has been suggested that iron is one of the most important energy sources for photosynthesis-independent microbial ecosystems in the ocean crust. Iron-metabolizing chemolithoautotrophs play a key role as primary producers, but little is known about their distribution and diversity and their ecological role as submarine iron-metabolizing chemolithotrophs, particularly the iron oxidizers. In this study, we investigated the microbial communities in several iron-dominated flocculent mats found in deep-sea hydrothermal fields in the Mariana Volcanic Arc and Trough and the Okinawa Trough by culture-independent molecular techniques and X-ray mineralogical analyses. The abundance and composition of the 16S rRNA gene phylotypes demonstrated the ubiquity of zetaproteobacterial phylotypes in iron-dominated mat communities affected by hydrothermal fluid input. Electron microscopy with energy-dispersive X-ray microanalysis and X-ray absorption fine structure (XAFS) analysis revealed the chemical and mineralogical signatures of biogenic Fe-(oxy)hydroxide species and the potential contribution of Zetaproteobacteria to the in situ generation. These results suggest that putative iron-oxidizing chemolithoautotrophs play a significant ecological role in producing iron-dominated flocculent mats and that they are important for iron and carbon cycles in deep-sea low-temperature hydrothermal environments. IMPORTANCE We report novel aspects of microbiology from iron-dominated flocculent mats in various deep-sea environments. In this study, we examined the relationship between Zetaproteobacteria and iron oxides across several hydrothermally influenced sites in the deep sea. We analyzed iron-dominated mats using culture-independent molecular techniques and X-ray mineralogical analyses. The scanning electron microscopy-energy-dispersive X-ray spectroscopy SEM-EDS analysis and X-ray absorption fine structure (XAFS) analysis revealed chemical and mineralogical signatures of biogenic Fe-(oxy)hydroxide species as well as the potential contribution of the zetaproteobacterial population to the in situ production. These key findings provide important information for understanding the mechanisms of both geomicrobiological iron cycling and the formation of iron-dominated mats in deep-sea hydrothermal fields.
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Laufer K, Nordhoff M, Røy H, Schmidt C, Behrens S, Jørgensen BB, Kappler A. Coexistence of Microaerophilic, Nitrate-Reducing, and Phototrophic Fe(II) Oxidizers and Fe(III) Reducers in Coastal Marine Sediment. Appl Environ Microbiol 2015; 82:1433-1447. [PMID: 26682861 PMCID: PMC4771319 DOI: 10.1128/aem.03527-15] [Citation(s) in RCA: 67] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2015] [Accepted: 12/14/2015] [Indexed: 02/04/2023] Open
Abstract
Iron is abundant in sediments, where it can be biogeochemically cycled between its divalent and trivalent redox states. The neutrophilic microbiological Fe cycle involves Fe(III)-reducing and three different physiological groups of Fe(II)-oxidizing microorganisms, i.e., microaerophilic, anoxygenic phototrophic, and nitrate-reducing Fe(II) oxidizers. However, it is unknown whether all three groups coexist in one habitat and how they are spatially distributed in relation to gradients of O2, light, nitrate, and Fe(II). We examined two coastal marine sediments in Aarhus Bay, Denmark, by cultivation and most probable number (MPN) studies for Fe(II) oxidizers and Fe(III) reducers and by quantitative-PCR (qPCR) assays for microaerophilic Fe(II) oxidizers. Our results demonstrate the coexistence of all three metabolic types of Fe(II) oxidizers and Fe(III) reducers. In qPCR, microaerophilic Fe(II) oxidizers (Zetaproteobacteria) were present with up to 3.2 × 10(6) cells g dry sediment(-1). In MPNs, nitrate-reducing Fe(II) oxidizers, anoxygenic phototrophic Fe(II) oxidizers, and Fe(III) reducers reached cell numbers of up to 3.5 × 10(4), 3.1 × 10(2), and 4.4 × 10(4) g dry sediment(-1), respectively. O2 and light penetrated only a few millimeters, but the depth distribution of the different iron metabolizers did not correlate with the profile of O2, Fe(II), or light. Instead, abundances were homogeneous within the upper 3 cm of the sediment, probably due to wave-induced sediment reworking and bioturbation. In microaerophilic Fe(II)-oxidizing enrichment cultures, strains belonging to the Zetaproteobacteria were identified. Photoferrotrophic enrichments contained strains related to Chlorobium and Rhodobacter; the nitrate-reducing Fe(II) enrichments contained strains related to Hoeflea and Denitromonas. This study shows the coexistence of all three types of Fe(II) oxidizers in two near-shore marine environments and the potential for competition and interrelationships between them.
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Affiliation(s)
- Katja Laufer
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
| | - Mark Nordhoff
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
| | - Hans Røy
- Center for Geomicrobiology, Department of Bioscience, Aarhus University, Aarhus, Denmark
| | - Caroline Schmidt
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
| | - Sebastian Behrens
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
- Department of Civil, Environmental, and Geo-Engineering, University of Minnesota, Minneapolis, Minnesota, USA
| | - Bo Barker Jørgensen
- Center for Geomicrobiology, Department of Bioscience, Aarhus University, Aarhus, Denmark
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
- Center for Geomicrobiology, Department of Bioscience, Aarhus University, Aarhus, Denmark
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Konhauser KO, Robbins LJ, Pecoits E, Peacock C, Kappler A, Lalonde SV. The Archean Nickel Famine Revisited. ASTROBIOLOGY 2015; 15:804-815. [PMID: 26426143 DOI: 10.1089/ast.2015.1301] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Iron formations (IF) preserve a history of Precambrian oceanic elemental abundance that can be exploited to examine nutrient limitations on early biological productivity. However, in order for IF to be employed as paleomarine proxies, lumped-process distribution coefficients for the element of interest must be experimentally determined or assumed. This necessitates consideration of bulk ocean chemistry and which authigenic ferric iron minerals controlled the sorption reactions. It also requires an assessment of metal mobilization reactions that might have occurred in the water column during particle descent and during post-depositional burial. Here, we summarize recent developments pertaining to the interpretation and fidelity of the IF record in reconstructions of oceanic trace element evolution. Using an updated compilation, we reexamine and validate temporal trends previously reported for the nickel content in IF (see Konhauser et al., 2009 ). Finally, we reevaluate the consequences of methanogen Ni starvation in the context of evolving views of the Archean ocean-climate system and how the Ni famine may have ultimately facilitated the rise in atmospheric oxygen.
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Affiliation(s)
- Kurt O Konhauser
- 1 Department of Earth and Atmospheric Sciences, University of Alberta , Edmonton, Canada
| | - Leslie J Robbins
- 1 Department of Earth and Atmospheric Sciences, University of Alberta , Edmonton, Canada
| | - Ernesto Pecoits
- 1 Department of Earth and Atmospheric Sciences, University of Alberta , Edmonton, Canada
- 2 Equipe Géobiosphère, Institut de Physique du Globe-Sorbonne Paris Cité, Université Paris Diderot , CNRS, Paris, France
| | - Caroline Peacock
- 3 School of Earth and Environment, University of Leeds , Leeds, UK
| | - Andreas Kappler
- 4 Geomicrobiology, Center for Applied Geoscience, Eberhard-Karls-University Tuebingen , Tuebingen, Germany
| | - Stefan V Lalonde
- 5 CNRS-UMR6538 Laboratoire Domaines Océaniques, European Institute for Marine Studies , Technopôle Brest-Iroise, Plouzané, France
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Pecoits E, Smith ML, Catling DC, Philippot P, Kappler A, Konhauser KO. Atmospheric hydrogen peroxide and Eoarchean iron formations. GEOBIOLOGY 2015; 13:1-14. [PMID: 25324177 DOI: 10.1111/gbi.12116] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2014] [Accepted: 09/15/2014] [Indexed: 06/04/2023]
Abstract
It is widely accepted that photosynthetic bacteria played a crucial role in Fe(II) oxidation and the precipitation of iron formations (IF) during the Late Archean-Early Paleoproterozoic (2.7-2.4 Ga). It is less clear whether microbes similarly caused the deposition of the oldest IF at ca. 3.8 Ga, which would imply photosynthesis having already evolved by that time. Abiological alternatives, such as the direct oxidation of dissolved Fe(II) by ultraviolet radiation may have occurred, but its importance has been discounted in environments where the injection of high concentrations of dissolved iron directly into the photic zone led to chemical precipitation reactions that overwhelmed photooxidation rates. However, an outstanding possibility remains with respect to photochemical reactions occurring in the atmosphere that might generate hydrogen peroxide (H2 O2 ), a recognized strong oxidant for ferrous iron. Here, we modeled the amount of H2 O2 that could be produced in an Eoarchean atmosphere using updated solar fluxes and plausible CO2 , O2 , and CH4 mixing ratios. Irrespective of the atmospheric simulations, the upper limit of H2 O2 rainout was calculated to be <10(6) molecules cm(-2) s(-1) . Using conservative Fe(III) sedimentation rates predicted for submarine hydrothermal settings in the Eoarchean, we demonstrate that the flux of H2 O2 was insufficient by several orders of magnitude to account for IF deposition (requiring ~10(11) H2 O2 molecules cm(-2) s(-1) ). This finding further constrains the plausible Fe(II) oxidation mechanisms in Eoarchean seawater, leaving, in our opinion, anoxygenic phototrophic Fe(II)-oxidizing micro-organisms the most likely mechanism responsible for Earth's oldest IF.
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Affiliation(s)
- E Pecoits
- Equipe Géobiosphère, Institut de Physique du Globe-Sorbonne Paris Cité, Université Paris Diderot, CNRS, Paris, France; Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, Alberta, Canada
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