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Niu S, Wang R, Jiang Y. Quantification of heavy metal contamination and source in urban water sediments using a statistically determined geochemical baseline. ENVIRONMENTAL RESEARCH 2024; 263:120080. [PMID: 39343342 DOI: 10.1016/j.envres.2024.120080] [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: 07/03/2024] [Revised: 09/12/2024] [Accepted: 09/26/2024] [Indexed: 10/01/2024]
Abstract
Geochemical baselines (GBs) play a crucial role in discerning natural variability from anthropogenic impacts on elemental composition within the environment. However, their applicability in quantifying the contribution of pollution sources to heavy metal contamination in sediments remains understudied. This research aimed to assess the degree of contamination and local pollution source attribution by leveraging geochemical baselines derived from statistical techniques, specifically the relative cumulative frequency (RCF) and 2σ-iterative (2σ-I) methods. In the urban water systems of Ma'anshan City, the major iron ore centre in eastern China, we observed concentration ranges of Cr, Cu, Ni, Pb and Zn in 36 sediment samples ranging from 66.89 to 352.08 mg/kg, 22.01 to 133.37 mg/kg, 22.66 to 50.80 mg/kg, 14.66to 264.37 mg/kg and 73.30 to 2707.46 mg/kg, respectively. RCF and 2σ-I techniques yielded similar GBs with no significant differences (p > 0.05). The geo-accumulation index and contamination factor analysis showed a sediment heavy metal accumulation rank of Zn > Pb > Cr > Cu > Ni. The contribution percentage of pollution sources varied with land functional type of watershed. For industry-influenced sediments, the contribution of local sources to Cr, Cu, Pb and Zn was significant, with shares of 43%-88%. Overall, this study highlights the valuable insights provided by GBs for effective management of urban aquatic environments.
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Affiliation(s)
- Siping Niu
- Department of Environmental Science and Engineering, School of Energy and Environment, Anhui University of Technology, Ma'ansh, 243002, PR China.
| | - Ruiqi Wang
- Department of Environmental Science and Engineering, School of Energy and Environment, Anhui University of Technology, Ma'ansh, 243002, PR China
| | - Yun Jiang
- Department of Environmental Science and Engineering, School of Energy and Environment, Anhui University of Technology, Ma'ansh, 243002, PR China
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2
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Liu H, Liu T, Chen S, Liu X, Li N, Huang T, Ma B, Liu X, Pan S, Zhang H. Biogeochemical cycles of iron: Processes, mechanisms, and environmental implications. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 951:175722. [PMID: 39187081 DOI: 10.1016/j.scitotenv.2024.175722] [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: 07/02/2024] [Revised: 07/29/2024] [Accepted: 08/08/2024] [Indexed: 08/28/2024]
Abstract
The iron (Fe) biogeochemical cycle is critical for abiotic and biological environmental processes that overlap spatially and may compete with each other. The development of modern molecular biology technologies promoted the understanding of the electron transport mechanisms of Fe-cycling-related microorganisms. Recent studies have revealed a novel pathway for microaerophilic ferrous iron (Fe(II))-oxidizers in extracellular Fe(II) oxidation. In addition, OmcS, OmcZ, and OmcE nanowires on the cell surface have been shown to promote electron transfer between microorganisms and their environment. These processes affect the fate of pollutants in directly or indirectly ways, such as greenhouse gas emissions. In this review, these advances and the environmental implications of the Fe cycle process were discussed, with a particular focus on the mechanisms of intracellular or extracellular electron transport in microorganisms.
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Affiliation(s)
- Huan Liu
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Tao Liu
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Shengnan Chen
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Xiaoyan Liu
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Nan Li
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China.
| | - Tinglin Huang
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Ben Ma
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Xiang Liu
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Sixuan Pan
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Haihan Zhang
- Collaborative Innovation Center of Water Pollution Control and Water Quality Security Assurance of Shaanxi Province, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Provincial Field Scientific Observation and Research Station of Water Quality in Qinling Mountains, Xi'an University of Architecture and Technology, Xi'an 710055, China; School of Environmental and Municipal Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China.
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3
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Liang D, Chang J, Wu Y, Wang S, Wang X, Ren N, Li N. The screening of iron oxides for long-term transformation into vivianite to recover phosphorus from sewage. WATER RESEARCH 2024; 265:122250. [PMID: 39154399 DOI: 10.1016/j.watres.2024.122250] [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: 05/28/2024] [Revised: 08/06/2024] [Accepted: 08/10/2024] [Indexed: 08/20/2024]
Abstract
The reducibility of iron oxides, depending on their properties, influences the kinetics of dissimilatory iron reduction (DIR) during vivianite recovery in sewage. This study elucidated the correlation between properties of iron oxides and kinetics of DIR during the long-term transformation into vivianite, mediated by Geobacter sulfurreducens PCA and sewage. The positive correlation between surface reactivity of iron oxides and reduction rate constant (k) influenced the terminal vivianite recovery efficiency. Akaganeite with the highest adhesion work and surface energy required the lowest reduction energy (Ea), obtained the highest k of 1.36 × 10-2 day-1 and vivianite recovery efficiency of 43 %. The vivianite yield with akaganeite as iron source was 76-164 % higher than goethite, hematite, feroxyhyte, and ferrihydrite in sewage. The distribution of P with akaganeite during DIR in sewage further suggested a more efficient pathway of direct vivianite formation via bio-reduced Fe(II) rather than indirect reduction of ferric phosphate precipitates. Thus, akaganeite was screened out as superior iron source among various iron oxides for vivianite recovery, which provided insights into the fate of iron sources and the cycle of P in sewage.
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Affiliation(s)
- Danhui Liang
- School of Environmental Science and Engineering, Tianjin University, No. 135 Yaguan Road, Jinnan District, Tianjin, 300350, China
| | - Jifei Chang
- School of Environmental Science and Engineering, Tianjin University, No. 135 Yaguan Road, Jinnan District, Tianjin, 300350, China
| | - Yu Wu
- School of Environmental Science and Engineering, Tianjin University, No. 135 Yaguan Road, Jinnan District, Tianjin, 300350, China
| | - Shu Wang
- Powerchina Northwest Engineering Corporation Limited, Xi'an, 710065, China
| | - Xin Wang
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, Nankai University, No. 38 Tongyan Road, Jinnan District, Tianjin, 300350, China
| | - Nanqi Ren
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, China
| | - Nan Li
- School of Environmental Science and Engineering, Tianjin University, No. 135 Yaguan Road, Jinnan District, Tianjin, 300350, China.
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Nikeleit V, Mellage A, Bianchini G, Sauter L, Buessecker S, Gotterbarm S, Schad M, Konhauser K, Zerkle AL, Sánchez-Baracaldo P, Kappler A, Bryce C. Inhibition of phototrophic iron oxidation by nitric oxide in ferruginous environments. NATURE GEOSCIENCE 2024; 17:1169-1174. [PMID: 39526045 PMCID: PMC11543593 DOI: 10.1038/s41561-024-01560-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Accepted: 09/13/2024] [Indexed: 11/16/2024]
Abstract
Anoxygenic phototrophic Fe(II) oxidizers (photoferrotrophs) are thought to have thrived in Earth's ancient ferruginous oceans and played a primary role in the precipitation of Archaean and Palaeoproterozoic (3.8-1.85-billion-year-old) banded iron formations (BIFs). The end of BIF deposition by photoferrotrophs has been interpreted as the result of a deepening of water-column oxygenation below the photic zone, concomitant with the proliferation of cyanobacteria. However, photoferrotrophs may have experienced competition from other anaerobic Fe(II)-oxidizing microorganisms, altering the formation mechanism of BIFs. Here we utilize microbial incubations to show that nitrate-reducing Fe(II) oxidizers metabolically outcompete photoferrotrophs for dissolved Fe(II). Moreover, both experiments and numerical modelling show that the nitrate-reducing Fe(II) oxidizers inhibit photoferrotrophy via the production of toxic intermediates. Four different photoferrotrophs, representing both green sulfur and purple non-sulfur bacteria, are susceptible to this toxic effect despite having genomic capabilities for nitric oxide detoxification. Indeed, despite nitric oxide detoxification mechanisms being ubiquitous in some groups of phototrophs at the genomic level (for example, Chlorobi and Cyanobacteria) it is likely that they would still be affected. We suggest that the production of reactive nitrogen species during nitrate-reducing Fe(II) oxidation in ferruginous environments may have inhibited the activity of photoferrotrophs in the ancient oceans and thus impeded their role in the precipitation of BIFs.
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Affiliation(s)
- Verena Nikeleit
- Geomicrobiology, University of Tübingen, Tübingen, Germany
- NORCE Norwegian Research Center, Bergen, Norway
| | - Adrian Mellage
- Civil and Environmental Engineering, University of Kassel, Kassel, Germany
| | | | - Lea Sauter
- Geomicrobiology, University of Tübingen, Tübingen, Germany
| | - Steffen Buessecker
- Department of Earth System Science, Stanford University, Stanford, CA USA
- School of Life Sciences, Arizona State University, Tempe, AZ USA
| | | | - Manuel Schad
- Geomicrobiology, University of Tübingen, Tübingen, Germany
- Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, Alberta Canada
| | - Kurt Konhauser
- Department of Earth and Atmospheric Sciences, University of Alberta, Edmonton, Alberta Canada
| | | | | | - Andreas Kappler
- Geomicrobiology, University of Tübingen, Tübingen, Germany
- Cluster of Excellence EXC 2124: Controlling Microbes to Fight Infections, Tübingen, Germany
| | - Casey Bryce
- School of Earth Sciences, University of Bristol, Bristol, UK
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5
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Kaksonen AH, Janneck E. Biological Iron Removal and Recovery from Water and Wastewater. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2024. [PMID: 38951134 DOI: 10.1007/10_2024_255] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/03/2024]
Abstract
Iron is a common contaminant in source water and wastewater. The mining and metallurgical industries in particular can produce and discharge large quantities of wastewater with high iron concentrations. Due to the harmful effects of iron on organisms and infrastructure, efficient technologies for iron removal from water and wastewater are needed. On the other hand, iron is a valuable commodity for a wide range of applications. Microorganisms can facilitate iron removal and recovery through aerobic and anaerobic processes. The most commonly utilized microbes include iron oxidizers that facilitate iron precipitation as jarosites, schwertmannite, ferrihydrite, goethite, and scorodite, and sulfate reducers which produce hydrogen sulfide that precipitates iron as sulfides. Biological iron removal has been explored in various suspended cell and biofilm-based bioreactors that can be configured in parallel or series and integrated with precipitation and settling units for an effective flow sheet. This chapter reviews principles for biological iron removal and recovery, the microorganisms involved, reactor types, patents and examples of laboratory- and pilot-scale studies, and full-scale implementations of the technology.
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Affiliation(s)
- Anna Henriikka Kaksonen
- Commonwealth Scientific and industrial Research Organisation (CSIRO) Environment, Floreat, WA, Australia.
- Western Australian School of Mines: Minerals, Energy and Chemical Engineering, Faculty of Science and Engineering, Curtin University, Bentley, WA, Australia.
- School of Engineering, University of Western Australia, Crawley, WA, Australia.
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6
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Nishihara A, Tsukatani Y, Azai C, Nobu MK. Illuminating the coevolution of photosynthesis and Bacteria. Proc Natl Acad Sci U S A 2024; 121:e2322120121. [PMID: 38875151 PMCID: PMC11194577 DOI: 10.1073/pnas.2322120121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Accepted: 05/06/2024] [Indexed: 06/16/2024] Open
Abstract
Life harnessing light energy transformed the relationship between biology and Earth-bringing a massive flux of organic carbon and oxidants to Earth's surface that gave way to today's organotrophy- and respiration-dominated biosphere. However, our understanding of how life drove this transition has largely relied on the geological record; much remains unresolved due to the complexity and paucity of the genetic record tied to photosynthesis. Here, through holistic phylogenetic comparison of the bacterial domain and all photosynthetic machinery (totally spanning >10,000 genomes), we identify evolutionary congruence between three independent biological systems-bacteria, (bacterio)chlorophyll-mediated light metabolism (chlorophototrophy), and carbon fixation-and uncover their intertwined history. Our analyses uniformly mapped progenitors of extant light-metabolizing machinery (reaction centers, [bacterio]chlorophyll synthases, and magnesium-chelatases) and enzymes facilitating the Calvin-Benson-Bassham cycle (form I RuBisCO and phosphoribulokinase) to the same ancient Terrabacteria organism near the base of the bacterial domain. These phylogenies consistently showed that extant phototrophs ultimately derived light metabolism from this bacterium, the last phototroph common ancestor (LPCA). LPCA was a non-oxygen-generating (anoxygenic) phototroph that already possessed carbon fixation and two reaction centers, a type I analogous to extant forms and a primitive type II. Analyses also indicate chlorophototrophy originated before LPCA. We further reconstructed evolution of chlorophototrophs/chlorophototrophy post-LPCA, including vertical inheritance in Terrabacteria, the rise of oxygen-generating chlorophototrophy in one descendant branch near the Great Oxidation Event, and subsequent emergence of Cyanobacteria. These collectively unveil a detailed view of the coevolution of light metabolism and Bacteria having clear congruence with the geological record.
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Affiliation(s)
- Arisa Nishihara
- Department of Life Science and Biotechnology, The National Institute of Advanced Industrial Science and Technology, Ibaraki305-0817, Japan
| | - Yusuke Tsukatani
- Biogeochemistry Research Center, Japan Agency for Marine-Earth Science and Technology (JAMSTEC), Kanagawa237-0061, Japan
- Institute for Extra-Cutting-Edge Science and Technology Avant-Garde Research (X-star), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), Kanagawa237-0061, Japan
| | - Chihiro Azai
- College of Life Sciences, Ritsumeikan University, Shiga525-8577, Japan
- Department of Biological Sciences, Faculty of Science and Engineering, Chuo University, Tokyo112-8551, Japan
| | - Masaru K. Nobu
- Department of Life Science and Biotechnology, The National Institute of Advanced Industrial Science and Technology, Ibaraki305-0817, Japan
- Institute for Extra-Cutting-Edge Science and Technology Avant-Garde Research (X-star), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), Kanagawa237-0061, Japan
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7
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Baker IR, Girguis PR. Sulfur cycling likely obscures dynamic biologically-driven iron redox cycling in contemporary methane seep environments. ENVIRONMENTAL MICROBIOLOGY REPORTS 2024; 16:e13263. [PMID: 38705733 PMCID: PMC11070330 DOI: 10.1111/1758-2229.13263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2023] [Accepted: 04/06/2024] [Indexed: 05/07/2024]
Abstract
Deep-sea methane seeps are amongst the most biologically productive environments on Earth and are often characterised by stable, low oxygen concentrations and microbial communities that couple the anaerobic oxidation of methane to sulfate reduction or iron reduction in the underlying sediment. At these sites, ferrous iron (Fe2+) can be produced by organoclastic iron reduction, methanotrophic-coupled iron reduction, or through the abiotic reduction by sulfide produced by the abundant sulfate-reducing bacteria at these sites. The prevalence of Fe2+in the anoxic sediments, as well as the availability of oxygen in the overlying water, suggests that seeps could also harbour communities of iron-oxidising microbes. However, it is unclear to what extent Fe2+ remains bioavailable and in solution given that the abiotic reaction between sulfide and ferrous iron is often assumed to scavenge all ferrous iron as insoluble iron sulfides and pyrite. Accordingly, we searched the sea floor at methane seeps along the Cascadia Margin for microaerobic, neutrophilic iron-oxidising bacteria, operating under the reasoning that if iron-oxidising bacteria could be isolated from these environments, it could indicate that porewater Fe2+ can persist is long enough for biology to outcompete pyritisation. We found that the presence of sulfate in our enrichment media muted any obvious microbially-driven iron oxidation with most iron being precipitated as iron sulfides. Transfer of enrichment cultures to sulfate-depleted media led to dynamic iron redox cycling relative to abiotic controls and sulfate-containing cultures, and demonstrated the capacity for biogenic iron (oxyhydr)oxides from a methane seep-derived community. 16S rRNA analyses revealed that removing sulfate drastically reduced the diversity of enrichment cultures and caused a general shift from a Gammaproteobacteria-domainated ecosystem to one dominated by Rhodobacteraceae (Alphaproteobacteria). Our data suggest that, in most cases, sulfur cycling may restrict the biological "ferrous wheel" in contemporary environments through a combination of the sulfur-adapted sediment-dwelling ecosystems and the abiotic reactions they influence.
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Affiliation(s)
- Isabel R. Baker
- Department of Organismic and Evolutionary BiologyHarvard UniversityCambridgeMassachusettsUSA
- Department of Earth and Planetary ScienceJohns Hopkins UniversityBaltimoreMarylandUSA
| | - Peter R. Girguis
- Department of Organismic and Evolutionary BiologyHarvard UniversityCambridgeMassachusettsUSA
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Chen X, Yang G, Quan X, Zhu S, Qin B, Shou D, Zhuang L. Significance of a minor pilin PilV in biofilm cohesion of Geobacter sulfurreducens. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 927:172242. [PMID: 38582122 DOI: 10.1016/j.scitotenv.2024.172242] [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: 12/14/2023] [Revised: 04/03/2024] [Accepted: 04/03/2024] [Indexed: 04/08/2024]
Abstract
Bacterial adhesion plays a vital role in forming and shaping the structure of electroactive biofilms that are essential for the performance of bioelectrochemical systems (BESs). Type IV pili are known to mediate cell adhesion in many Gram-negative bacteria, but the mechanism of pili-mediated cell adhesion of Geobacter species on anode surface remains unclear. Herein, a minor pilin PilV2 was found to be essential for cell adhesion ability of Geobacter sulfurreducens since the lack of pilV2 gene depressed the cell adhesion capability by 81.2% in microplate and the anodic biofilm density by 23.1 % at -0.1 V and 37.7 % at -0.3 V in BESs. The less cohesiveness of mutant biofilms increased the charge transfer resistance and biofilm resistance, which correspondingly lowered current generation of the pilV2-deficient strain by up to 63.2 % compared with that of the wild-type strain in BESs. The deletion of pilV2 posed an insignificant effect on the production of extracellular polysaccharides, pili, extracellular cytochromes and electron shuttles that are involved in biofilm formation or extracellular electron transfer (EET) process. This study demonstrated the significance of pilV2 gene in cell adhesion and biofilm formation of G. sulfurreducens, as well as the importance of pili-mediated adhesion for EET of electroactive biofilm.
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Affiliation(s)
- Xiaochun Chen
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 510632, China
| | - Guiqin Yang
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 510632, China
| | - Xiaoyun Quan
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 510632, China
| | - Siyue Zhu
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 510632, China
| | - Baoli Qin
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 510632, China
| | - Danyang Shou
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 510632, China
| | - Li Zhuang
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment, Jinan University, Guangzhou 510632, China.
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9
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Zheng Y, Wang H, Liu Y, Liu P, Zhu B, Zheng Y, Li J, Chistoserdova L, Ren ZJ, Zhao F. Electrochemically coupled CH 4 and CO 2 consumption driven by microbial processes. Nat Commun 2024; 15:3097. [PMID: 38600111 PMCID: PMC11006836 DOI: 10.1038/s41467-024-47445-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2024] [Accepted: 03/27/2024] [Indexed: 04/12/2024] Open
Abstract
The chemical transformations of methane (CH4) and carbon dioxide (CO2) greenhouse gases typically have high energy barriers. Here we present an approach of strategic coupling of CH4 oxidation and CO2 reduction in a switched microbial process governed by redox cycling of iron minerals under temperate conditions. The presence of iron minerals leads to an obvious enhancement of carbon fixation, with the minerals acting as the electron acceptor for CH4 oxidation and the electron donor for CO2 reduction, facilitated by changes in the mineral structure. The electron flow between the two functionally active microbial consortia is tracked through electrochemistry, and the energy metabolism in these consortia is predicted at the genetic level. This study offers a promising strategy for the removal of CH4 and CO2 in the natural environment and proposes an engineering technique for the utilization of major greenhouse gases.
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Affiliation(s)
- Yue Zheng
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China
- State Key Laboratory of Marine Environmental Science, and College of the Environment and Ecology, Xiamen University, Xiamen, 361102, China
| | - Huan Wang
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China
- State Key Laboratory of Marine Environmental Science, and College of the Environment and Ecology, Xiamen University, Xiamen, 361102, China
| | - Yan Liu
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Chinese Academy of Sciences, Beijing, 100029, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, 266237, China
| | - Peiyu Liu
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Chinese Academy of Sciences, Beijing, 100029, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, 266237, China
| | - Baoli Zhu
- Key Laboratory of Agro-ecological Processes in Subtropical Regions and Taoyuan Agro-ecosystem Research Station, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, 410125, China
| | - Yanning Zheng
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Jinhua Li
- Key Laboratory of Earth and Planetary Physics, Institute of Geology and Geophysics, Chinese Academy of Sciences, Beijing, 100029, China
- Laboratory for Marine Geology, Qingdao Marine Science and Technology Center, Qingdao, 266237, China
| | | | - Zhiyong Jason Ren
- Department of Civil and Environmental Engineering, and Andlinger Center for Energy and the Environment, Princeton University, 41 Olden St., Princeton, NJ, 08540, USA.
| | - Feng Zhao
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China.
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10
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Nikeleit V, Roth L, Maisch M, Kappler A, Bryce C. Phototrophic Fe(II) oxidation benefits from light/dark cycles. ENVIRONMENTAL MICROBIOLOGY REPORTS 2024; 16:e13239. [PMID: 38490970 PMCID: PMC10943175 DOI: 10.1111/1758-2229.13239] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/02/2023] [Accepted: 02/01/2024] [Indexed: 03/18/2024]
Abstract
Phototrophic Fe(II)-oxidizers use Fe(II) as electron donor for CO2 fixation thus linking Fe(II) oxidation, ATP formation, and growth directly to the availability of sunlight. We compared the effect of short (10 h light/14 h dark) and long (2-3 days light/2-3 days dark) light/dark cycles to constant light conditions for the phototrophic Fe(II)-oxidizer Chlorobium ferrooxidans KoFox. Fe(II) oxidation was completed first in the setup with constant light (9 mM Fe(II) oxidised within 8.9 days) compared to the light/dark cycles but both short and long light/dark cycles showed faster maximum Fe(II) oxidation rates. In the short and long cycle, Fe(II) oxidation rates reached 3.5 ± 1.0 and 2.6 ± 0.3 mM/d, respectively, compared to 2.1 ± 0.3 mM/d in the constant light setup. Maximum Fe(II) oxidation was significantly faster in the short cycle compared to the constant light setup. Cell growth reached roughly equivalent cell numbers across all three light conditions (from 0.2-2.0 × 106 cells/mL to 1.1-1.4 × 108 cells/mL) and took place in both the light and dark phases of incubation. SEM images showed different mineral structures independent of the light setup and 57 Fe Mössbauer spectroscopy confirmed the formation of poorly crystalline Fe(III) oxyhydroxides (such as ferrihydrite) in all three setups. Our results suggest that periods of darkness have a significant impact on phototrophic Fe(II)-oxidizers and significantly influence rates of Fe(II) oxidation.
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Affiliation(s)
- Verena Nikeleit
- Department of GeosciencesUniversity of TübingenTübingenGermany
| | - Linda Roth
- Department of GeosciencesUniversity of TübingenTübingenGermany
| | - Markus Maisch
- Department of GeosciencesUniversity of TübingenTübingenGermany
| | - Andreas Kappler
- Department of GeosciencesUniversity of TübingenTübingenGermany
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight InfectionsTübingenGermany
| | - Casey Bryce
- School of Earth SciencesUniversity of BristolBristolUK
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11
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Semin B, Loktyushkin A, Lovyagina E. Current analysis of cations substitution in the oxygen-evolving complex of photosystem II. Biophys Rev 2024; 16:237-247. [PMID: 38737202 PMCID: PMC11078907 DOI: 10.1007/s12551-024-01186-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 03/27/2024] [Indexed: 05/14/2024] Open
Abstract
Water oxidation in photosystem II (PSII) is performed by the oxygen-evolving complex Mn4CaO5 which can be extracted from PSII and then reconstructed using exogenous cations Mn(II) and Ca2+. The binding efficiency of other cations to the Mn-binding sites in Mn-depleted PSII was investigated without any positive results. At the same time, a study of the Fe cations interaction with Mn-binding sites showed that it binds at a level comparable with the binding of Mn cations. Binding of Fe(II) cations first requires its light-dependent oxidation. In general, the interaction of Fe(II) with Mn-depleted PSII has a number of features similar to the two-quantum model of photoactivation of the complex with the release of oxygen. Interestingly, incubation of Ca-depleted PSII with Fe(II) cations under certain conditions is accompanied by the formation of a chimeric cluster Mn/Fe in the oxygen-evolving complex. PSII with the cluster 2Mn2Fe was found to be capable of water oxidation, but only to the H2O2 intermediate. However, the cluster 3Mn1Fe can oxidize water to O2 with an efficiency about 25% of the original in the absence of extrinsic proteins PsbQ and PsbP. In the presence of these proteins, the efficiency of O2 evolution can reach 80% of the original when adding exogenous Ca2+. In this review, we summarized information on the formation of chimeric Mn-Fe clusters in the oxygen-evolving complex. The data cited may be useful for detailing the mechanism of water oxidation.
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Affiliation(s)
- Boris Semin
- Department of Biophysics, Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia 119234
| | - Aleksey Loktyushkin
- Department of Biophysics, Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia 119234
| | - Elena Lovyagina
- Department of Biophysics, Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia 119234
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12
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Liu L, Zheng N, Yu Y, Zheng Z, Yao H. Soil carbon and nitrogen cycles driven by iron redox: A review. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 918:170660. [PMID: 38325492 DOI: 10.1016/j.scitotenv.2024.170660] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Revised: 01/30/2024] [Accepted: 02/01/2024] [Indexed: 02/09/2024]
Abstract
Soil carbon and nitrogen cycles affect agricultural production, environmental quality, and global climate. Iron (Fe), regarded as the most abundant redox-active metal element in the Earth's crust, is involved in a biogeochemical cycle that includes Fe(III) reduction and Fe(II) oxidation. The redox reactions of Fe can be linked to the carbon and nitrogen cycles in soil in various ways. Investigating the transformation processes and mechanisms of soil carbon and nitrogen species driven by Fe redox can provide theoretical guidance for improving soil fertility, and addressing global environmental pollution as well as climate change. Although the widespread occurrence of these coupling processes in soils has been revealed, explorations of the effects of Fe redox on soil carbon and nitrogen cycles remain in the early stages, particularly when considering the broader context of global climate and environmental changes. The key functional microorganisms, mechanisms, and contributions of these coupling processes to soil carbon and nitrogen cycles have not been fully elucidated. Here, we present a systematic review of the research progress on soil carbon and nitrogen cycles mediated by Fe redox, including the underlying reaction processes, the key microorganisms involved, the influencing factors, and their environmental significance. Finally, some unresolved issues and future perspectives are addressed. This knowledge expands our understanding of the interconnected cycles of Fe, carbon and nitrogen in soils.
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Affiliation(s)
- Lihu Liu
- Research Center for Environmental Ecology and Engineering, Key Laboratory of Green Chemical Engineering Process of Ministry of Education, School of Environmental Ecology and Biological Engineering, Wuhan Institute of Technology, 206 Guanggu 1st Road, Wuhan 430205, PR China
| | - Ningguo Zheng
- Research Center for Environmental Ecology and Engineering, Key Laboratory of Green Chemical Engineering Process of Ministry of Education, School of Environmental Ecology and Biological Engineering, Wuhan Institute of Technology, 206 Guanggu 1st Road, Wuhan 430205, PR China
| | - Yongxiang Yu
- Research Center for Environmental Ecology and Engineering, Key Laboratory of Green Chemical Engineering Process of Ministry of Education, School of Environmental Ecology and Biological Engineering, Wuhan Institute of Technology, 206 Guanggu 1st Road, Wuhan 430205, PR China
| | - Zhaozhi Zheng
- Water Research Centre, School of Civil and Environmental Engineering, University of New South Wales, New South Wales 2052, Australia
| | - Huaiying Yao
- Research Center for Environmental Ecology and Engineering, Key Laboratory of Green Chemical Engineering Process of Ministry of Education, School of Environmental Ecology and Biological Engineering, Wuhan Institute of Technology, 206 Guanggu 1st Road, Wuhan 430205, PR China; Key Laboratory of Urban Environment and Health, Ningbo Observation and Research Station, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, PR China; Zhejiang Key Laboratory of Urban Environmental Processes and Pollution Control, CAS Haixi Industrial Technology Innovation Center in Beilun, Ningbo 315830, PR China.
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13
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Hassan Z, Westerhoff HV. Arsenic Contamination of Groundwater Is Determined by Complex Interactions between Various Chemical and Biological Processes. TOXICS 2024; 12:89. [PMID: 38276724 PMCID: PMC11154318 DOI: 10.3390/toxics12010089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Revised: 01/03/2024] [Accepted: 01/05/2024] [Indexed: 01/27/2024]
Abstract
At a great many locations worldwide, the safety of drinking water is not assured due to pollution with arsenic. Arsenic toxicity is a matter of both systems chemistry and systems biology: it is determined by complex and intertwined networks of chemical reactions in the inanimate environment, in microbes in that environment, and in the human body. We here review what is known about these networks and their interconnections. We then discuss how consideration of the systems aspects of arsenic levels in groundwater may open up new avenues towards the realization of safer drinking water. Along such avenues, both geochemical and microbiological conditions can optimize groundwater microbial ecology vis-à-vis reduced arsenic toxicity.
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Affiliation(s)
- Zahid Hassan
- Department of Molecular Cell Biology, A-Life, Faculty of Science, Vrije Universiteit Amsterdam, 1081 HV Amsterdam, The Netherlands;
- Department of Genetic Engineering and Biotechnology, Jagannath University, Dhaka 1100, Bangladesh
| | - Hans V. Westerhoff
- Department of Molecular Cell Biology, A-Life, Faculty of Science, Vrije Universiteit Amsterdam, 1081 HV Amsterdam, The Netherlands;
- School of Biological Sciences, Faculty of Biology, Medicine and Health, The University of Manchester, Manchester M13 9PT, UK
- Synthetic Systems Biology and Nuclear Organization, Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH Amsterdam, The Netherlands
- Stellenbosch Institute of Advanced Studies (STIAS), Wallenberg Research Centre at Stellenbosch University, Stellenbosch 7600, South Africa
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14
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Zhou A, Templeton AS, Johnson JE. Dissolved silica affects the bulk iron redox state and recrystallization of minerals generated by photoferrotrophy in a simulated Archean ocean. GEOBIOLOGY 2024; 22:e12587. [PMID: 38385601 DOI: 10.1111/gbi.12587] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Revised: 12/12/2023] [Accepted: 01/20/2024] [Indexed: 02/23/2024]
Abstract
Chemical sedimentary deposits called Banded Iron Formations (BIFs) are one of the best surviving records of ancient marine (bio)geochemistry. Many BIF precursor sediments precipitated from ferruginous, silica-rich waters prior to the Great Oxidation Event at ~2.43 Ga. Reconstructing the mineralogy of BIF precursor phases is key to understanding the coevolution of seawater chemistry and early life. Many models of BIF deposition invoke the activity of Fe(II)-oxidizing photoautotrophic bacteria as a mechanism for precipitating mixed-valence Fe(II,III) and/or fully oxidized Fe(III) minerals in the absence of molecular oxygen. Although the identity of phases produced by ancient photoferrotrophs remains debated, laboratory experiments provide a means to explore what their mineral byproducts might have been. Few studies have thoroughly characterized precipitates produced by photoferrotrophs in settings representative of Archean oceans, including investigating how residual Fe(II)aq can affect the mineralogy of expected solid phases. The concentration of dissolved silica (Si) is also an important variable to consider, as silicate species may influence the identity and reactivity of Fe(III)-bearing phases. To address these uncertainties, we cultured Rhodopseudomonas palustris TIE-1 as a photoferrotroph in synthetic Archean seawater with an initial [Fe(II)aq ] of 1 mM and [Si] spanning 0-1.5 mM. Ferrihydrite was the dominant precipitate across all Si concentrations, even with substantial Fe(II) remaining in solution. Consistent with other studies of microbial iron oxidation, no Fe-silicates were observed across the silica gradient, although Si coprecipitated with ferrihydrite via surface adsorption. More crystalline phases such as lepidocrocite and goethite were only detected at low [Si] and are likely products of Fe(II)-catalyzed ferrihydrite transformation. Finally, we observed a substantial fraction of Fe(II) in precipitates, with the proportion of Fe(II) increasing as a function of [Si]. These experimental results suggest that photoferrotrophy in a Fe(II)-buffered ocean may have exported Fe(II,III)-oxide/silica admixtures to BIF sediments, providing a more chemically diverse substrate than previously hypothesized.
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Affiliation(s)
- Alice Zhou
- Department of Earth and Environmental Sciences, University of Michigan, Ann Arbor, Michigan, USA
| | - Alexis S Templeton
- Department of Geological Sciences, University of Colorado, Boulder, Colorado, USA
| | - Jena E Johnson
- Department of Earth and Environmental Sciences, University of Michigan, Ann Arbor, Michigan, USA
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15
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Mathlouthi NEH, Belguith I, Yengui M, Oumarou Hama H, Lagier JC, Ammar Keskes L, Grine G, Gdoura R. The Archaeome's Role in Colorectal Cancer: Unveiling the DPANN Group and Investigating Archaeal Functional Signatures. Microorganisms 2023; 11:2742. [PMID: 38004753 PMCID: PMC10673094 DOI: 10.3390/microorganisms11112742] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Revised: 09/25/2023] [Accepted: 10/11/2023] [Indexed: 11/26/2023] Open
Abstract
BACKGROUND AND AIMS Gut microbial imbalances are linked to colorectal cancer (CRC), but archaea's role remains underexplored. Here, using previously published metagenomic data from different populations including Austria, Germany, Italy, Japan, China, and India, we performed bioinformatic and statistical analysis to identify archaeal taxonomic and functional signatures related to CRC. METHODS We analyzed published fecal metagenomic data from 390 subjects, comparing the archaeomes of CRC and healthy individuals. We conducted a biostatistical analysis to investigate the relationship between Candidatus Mancarchaeum acidiphilum (DPANN superphylum) and other archaeal species associated with CRC. Using the Prokka tool, we annotated the data focusing on archaeal genes, subsequently linking them to CRC and mapping them against UniprotKB and GO databases for specific archaeal gene functions. RESULTS Our analysis identified enrichment of methanogenic archaea in healthy subjects, with an exception for Methanobrevibacter smithii, which correlated with CRC. Notably, CRC showed a strong association with archaeal species, particularly Natrinema sp. J7-2, Ferroglobus placidus, and Candidatus Mancarchaeum acidiphilum. Furthermore, the DPANN archaeon exhibited a significant correlation with other CRC-associated archaea (p < 0.001). Functionally, we found a marked association between MvhB-type polyferredoxin and colorectal cancer. We also highlighted the association of archaeal proteins involved in the biosynthesis of leucine and the galactose metabolism process with the healthy phenotype. CONCLUSIONS The archaeomes of CRC patients show identifiable alterations, including a decline in methanogens and an increase in Halobacteria species. MvhB-type polyferredoxin, linked with CRC and species like Candidatus Mancarchaeum acidiphilum, Natrinema sp. J7-2, and Ferroglobus placidus emerge as potential archaeal biomarkers. Archaeal proteins may also offer gut protection, underscoring archaea's role in CRC dynamics.
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Affiliation(s)
- Nour El Houda Mathlouthi
- Laboratoire de Recherche Toxicologie Microbiologie Environnementale et Santé (LR17ES06), Faculté des Sciences de Sfax, University of Sfax, Sfax 3000, Tunisia; (N.E.H.M.); (M.Y.)
| | - Imen Belguith
- Laboratoire de Recherche de Génétique Moléculaire Humaine, Faculté de Médecine de Sfax, University of Sfax, Avenue Majida BOULILA, Sfax 3029, Tunisia; (I.B.); (L.A.K.)
| | - Mariem Yengui
- Laboratoire de Recherche Toxicologie Microbiologie Environnementale et Santé (LR17ES06), Faculté des Sciences de Sfax, University of Sfax, Sfax 3000, Tunisia; (N.E.H.M.); (M.Y.)
| | - Hamadou Oumarou Hama
- IHU Méditerranée Infection, l’unité de Recherche Microbes, Evolution, Phylogénie et Infection (MEPHI), 19-21, Bd. Jean Moulin, 13005 Marseille, France; (H.O.H.); (J.-C.L.); (G.G.)
| | - Jean-Christophe Lagier
- IHU Méditerranée Infection, l’unité de Recherche Microbes, Evolution, Phylogénie et Infection (MEPHI), 19-21, Bd. Jean Moulin, 13005 Marseille, France; (H.O.H.); (J.-C.L.); (G.G.)
| | - Leila Ammar Keskes
- Laboratoire de Recherche de Génétique Moléculaire Humaine, Faculté de Médecine de Sfax, University of Sfax, Avenue Majida BOULILA, Sfax 3029, Tunisia; (I.B.); (L.A.K.)
| | - Ghiles Grine
- IHU Méditerranée Infection, l’unité de Recherche Microbes, Evolution, Phylogénie et Infection (MEPHI), 19-21, Bd. Jean Moulin, 13005 Marseille, France; (H.O.H.); (J.-C.L.); (G.G.)
- Institut de Recherche pour le Développement (IRD), Aix-Marseille Université, IHU Méditerranée Infection, l’unité de Recherche Microbes, Evolution, Phylogénie et Infection (MEPHI), 13005 Marseille, France
| | - Radhouane Gdoura
- Laboratoire de Recherche Toxicologie Microbiologie Environnementale et Santé (LR17ES06), Faculté des Sciences de Sfax, University of Sfax, Sfax 3000, Tunisia; (N.E.H.M.); (M.Y.)
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16
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Watanabe Y, Tajika E, Ozaki K. Evolution of iron and oxygen biogeochemical cycles during the Precambrian. GEOBIOLOGY 2023; 21:689-707. [PMID: 37622474 DOI: 10.1111/gbi.12571] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Revised: 07/05/2023] [Accepted: 08/12/2023] [Indexed: 08/26/2023]
Abstract
Iron (Fe) is an essential element for life, and its geochemical cycle is intimately linked to the coupled history of life and Earth's environment. The accumulated geologic records indicate that ferruginous waters existed in the Precambrian oceans not only before the first major rise of atmospheric O2 levels (Great Oxidation Event; GOE) during the Paleoproterozoic, but also during the rest of the Proterozoic. However, the interactive evolution of the biogeochemical cycles of O2 and Fe during the Archean-Proterozoic remains ambiguous. Here, we develop a biogeochemical model to investigate the coupled biogeochemical evolution of Fe-O2 -P-C cycles across the GOE. Our model demonstrates that the marine Fe cycle was less sensitive to changes in the production rate of O2 before the GOE (atmospheric pO2 < 10-6 PAL; present atmospheric level). When the P supply rate to the ocean exceeds a certain threshold, the GOE occurs and atmospheric pO2 rises to ~10-3 -10-1 PAL. After the GOE, the marine Fe(II) concentration is highly sensitive to atmospheric pO2 , suggesting that the marine redox landscape during the Proterozoic may have fluctuated between ferruginous conditions and anoxic non-ferruginous conditions with sulfidic water masses around continental margins. At a certain threshold value of atmospheric pO2 of ~0.3% PAL, the primary oxidation pathway of Fe(II) shifts from the activity of Fe(II)-utilizing anoxygenic photoautotrophs in sunlit surface waters to abiotic process in the deep ocean. This is accompanied by a shift in the primary deposition site of Fe(III) hydroxides from the surface ocean to the deep sea, providing a plausible mechanistic explanation for the observed cessation of iron formations during the Proterozoic.
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Affiliation(s)
- Yasuto Watanabe
- Department of Earth and Planetary Science, Graduate School of Science, The University of Tokyo, Tokyo, Japan
| | - Eiichi Tajika
- Department of Earth and Planetary Science, Graduate School of Science, The University of Tokyo, Tokyo, Japan
| | - Kazumi Ozaki
- Department of Earth and Planetary Sciences, Tokyo Institute of Technology, Tokyo, Japan
- Earth-Life Science Institute, Tokyo Institute of Technology, Tokyo, Japan
- Alternative Earths Team, Interdisciplinary Consortia for Astrobiology Research, National Aeronautics and Space Administration, Riverside, California, USA
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17
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Fan Y, Sun S, He S. Iron plaque formation and its effect on key elements cycling in constructed wetlands: Functions and outlooks. WATER RESEARCH 2023; 235:119837. [PMID: 36905735 DOI: 10.1016/j.watres.2023.119837] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Revised: 02/13/2023] [Accepted: 03/05/2023] [Indexed: 06/18/2023]
Abstract
Ecological restoration of wetland plants has emerged as an environmentally-friendly and less carbon footprint method for treating secondary effluent wastewater. Root iron plaque (IP) is located at the important ecological niches in constructed wetlands (CWs) ecosystem and is the critical micro-zone for pollutants migration and transformation. Root IP can affect the chemical behaviors and bioavailability of key elements (C, N, P) since its formation/dissolution is a dynamic equilibrium process jointly influenced by rhizosphere habitats. However, as an efficient approach to further explore the mechanism of pollutant removal in CWs, the dynamic formation of root IP and its function have not been fully studied, especially in substrate-enhanced CWs. This article concentrates on the biogeochemical processes between Fe cycling involved in root IP with carbon turnover, nitrogen transformation, and phosphorus availability in CWs rhizosphere. As IP has the potential to enhance pollutant removal by being regulated and managed, we summarized the critical factors affecting the IP formation from the perspective of wetland design and operation, as well as emphasizing the heterogeneity of rhizosphere redox and the role of key microbes in nutrient cycling. Subsequently, interactions between redox-controlled root IP and biogeochemical elements (C, N, P) are emphatically discussed. Additionally, the effects of IP on emerging contaminants and heavy metals in CWs rhizosphere are assessed. Finally, major challenges and outlooks for future research in regards to root IP are proposed. It is expected that this review can provide a new perspective for the efficient removal of target pollutants in CWs.
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Affiliation(s)
- Yuanyuan Fan
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Shanshan Sun
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Shengbing He
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240, China; Shanghai Engineering Research Center of Landscape Water Environment, Shanghai 200031, China.
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18
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Runge EA, Mansor M, Kappler A, Duda JP. Microbial biosignatures in ancient deep-sea hydrothermal sulfides. GEOBIOLOGY 2023; 21:355-377. [PMID: 36524457 DOI: 10.1111/gbi.12539] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2022] [Revised: 11/03/2022] [Accepted: 12/03/2022] [Indexed: 06/17/2023]
Abstract
Deep-sea hydrothermal systems provide ideal conditions for prebiotic reactions and ancient metabolic pathways and, therefore, might have played a pivotal role in the emergence of life. To understand this role better, it is paramount to examine fundamental interactions between hydrothermal processes, non-living matter, and microbial life in deep time. However, the distribution and diversity of microbial communities in ancient deep-sea hydrothermal systems are still poorly constrained, so evolutionary, and ecological relationships remain unclear. One important reason is an insufficient understanding of the formation of diagnostic microbial biosignatures in such settings and their preservation through geological time. This contribution centers around microbial biosignatures in Precambrian deep-sea hydrothermal sulfide deposits. Intending to provide a valuable resource for scientists from across the natural sciences whose research is concerned with the origins of life, we first introduce different types of biosignatures that can be preserved over geological timescales (rock fabrics and textures, microfossils, mineral precipitates, carbonaceous matter, trace metal, and isotope geochemical signatures). We then review selected reports of biosignatures from Precambrian deep-sea hydrothermal sulfide deposits and discuss their geobiological significance. Our survey highlights that Precambrian hydrothermal sulfide deposits potentially encode valuable information on environmental conditions, the presence and nature of microbial life, and the complex interactions between fluids, micro-organisms, and minerals. It further emphasizes that the geobiological interpretation of these records is challenging and requires the concerted application of analytical and experimental methods from various fields, including geology, mineralogy, geochemistry, and microbiology. Well-orchestrated multidisciplinary studies allow us to understand the formation and preservation of microbial biosignatures in deep-sea hydrothermal sulfide systems and thus help unravel the fundamental geobiology of ancient settings. This, in turn, is critical for reconstructing life's emergence and early evolution on Earth and the search for life elsewhere in the universe.
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Affiliation(s)
- Eric Alexander Runge
- Sedimentology and Organic Geochemistry, Department of Geosciences, Tübingen University, Tübingen, Germany
| | - Muammar Mansor
- Geomicrobiology, Department of Geosciences, Tübingen University, Tübingen, Germany
| | - Andreas Kappler
- Geomicrobiology, Department of Geosciences, Tübingen University, Tübingen, Germany
- Cluster of Excellence EXC 2124, Controlling Microbes to Fight Infection, Tübingen, Germany
| | - Jan-Peter Duda
- Sedimentology and Organic Geochemistry, Department of Geosciences, Tübingen University, Tübingen, Germany
- Geobiology, Geoscience Center, Göttingen University, Göttingen, Germany
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19
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Semin BК, Davletshina LN. High-efficiency oxygen evolution by photosystem II oxygen-evolving complex containing 3Mn per reaction center. J Biol Inorg Chem 2023; 28:393-401. [PMID: 37043043 DOI: 10.1007/s00775-023-01987-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 12/27/2022] [Indexed: 04/13/2023]
Abstract
Ca-depleted photosystem II membranes obtained by treatment with acidic buffer do not contain Ca2+ in the Mn4CaO5 cluster but contain all extrinsic proteins protecting this cluster (PSII(-Ca/low pH)). However, unlike native photosystem II, Mn cluster in PSII(-Ca/low pH) samples is available for small-sized reductants. Using this property, we investigated the substitution possibility of Mn cation(s) with Fe cation(s) to obtain a chimeric cluster in PSII(-Ca/low pH) samples containing extrinsic proteins. We found that Fe(II) cation replaces Mn cation at pH 6.5, however, PSII(-Ca/low pH) membranes with the 3Mn1Fe chimeric cluster in the oxygen-evolving complex evolve O2 with high intensity in the presence of exogenous Ca2+. The O2 evolution rate is about 80% of the same rate in PSII(-Ca/low pH) membranes.
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Affiliation(s)
- Boris К Semin
- Department of Biophysics, Faculty of Biology, Moscow State University, Moscow, 119234, Russia.
| | - Lira N Davletshina
- Department of Biophysics, Faculty of Biology, Moscow State University, Moscow, 119234, Russia
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20
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Bayer T, Tomaszewski EJ, Bryce C, Kappler A, Byrne JM. Continuous cultivation of the lithoautotrophic nitrate-reducing Fe(II)-oxidizing culture KS in a chemostat bioreactor. ENVIRONMENTAL MICROBIOLOGY REPORTS 2023. [PMID: 36992623 DOI: 10.1111/1758-2229.13149] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2022] [Accepted: 02/15/2023] [Indexed: 06/19/2023]
Abstract
Laboratory-based studies on microbial Fe(II) oxidation are commonly performed for 5-10 days in small volumes with high substrate concentrations, resulting in geochemical gradients and volumetric effects caused by sampling. We used a chemostat to enable uninterrupted supply of medium and investigated autotrophic nitrate-reducing Fe(II)-oxidizing culture KS for 24 days. We analysed Fe- and N-speciation, cell-mineral associations, and the identity of minerals. Results were compared to batch systems (50 and 700 mL-static/shaken). The Fe(II) oxidation rate was highest in the chemostat with 7.57 mM Fe(II) d-1 , while the extent of oxidation was similar to the other experimental setups (average oxidation of 92% of all Fe(II)). Short-range ordered Fe(III) phases, presumably ferrihydrite, precipitated and later goethite was detected in the chemostat. The 1 mM solid phase Fe(II) remained in the chemostat, up to 15 μM of reactive nitrite was measured, and 42% of visualized cells were partially or completely mineral-encrusted, likely caused by abiotic oxidation of Fe(II) by nitrite. Despite (partial) encrustation, cells were still viable. Our results show that even with similar oxidation rates as in batch cultures, cultivating Fe(II)-oxidizing microorganisms under continuous conditions reveals the importance of reactive nitrogen intermediates on Fe(II) oxidation, mineral formation and cell-mineral interactions.
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Affiliation(s)
- Timm Bayer
- Geomicrobiology Group, Center for Applied Geoscience, University of Tuebingen, Tuebingen, Germany
| | - Elizabeth J Tomaszewski
- Geomicrobiology Group, Center for Applied Geoscience, University of Tuebingen, Tuebingen, Germany
| | - Casey Bryce
- School of Earth Sciences, University of Bristol, Bristol, UK
| | - Andreas Kappler
- Geomicrobiology Group, Center for Applied Geoscience, University of Tuebingen, Tuebingen, Germany
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight Infection, Tuebingen, Germany
| | - James M Byrne
- School of Earth Sciences, University of Bristol, Bristol, UK
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21
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Manchon C, Muniesa-Merino F, Llorente M, Esteve-Núñez A. Microbial photoelectrosynthesis: Feeding purple phototrophic bacteria electricity to produce bacterial biomass. Microb Biotechnol 2023; 16:569-578. [PMID: 36537073 PMCID: PMC9948228 DOI: 10.1111/1751-7915.14190] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Revised: 11/14/2022] [Accepted: 11/21/2022] [Indexed: 02/24/2023] Open
Abstract
Purple phototrophic bacteria are one of the main actors in chemolithotrophic carbon fixation and, therefore, fundamental in the biogeochemical cycle. These microbes are capable of using insoluble electron donors such as ferrous minerals or even carbon-based electrodes. Carbon fixation through extracellular electron uptake places purple phototrophic bacteria in the field of microbial electrosynthesis as key carbon capturing microorganisms. In this work we demonstrate biomass production dominated by purple phototrophic bacteria with a cathode (-0.6 V vs. Ag/AgCl) as electron donor. In addition, we compared the growth and microbial population structure with ferrous iron as the electron donor. We detect interaction between the cathode and the consortium showing a midpoint potential of 0.05 V (vs. Ag/AgCl). Microbial community analyses revealed different microbial communities depending on the electron donor, indicating different metabolic interactions. Electrochemical measurements together with population analyses point to Rhodopseudomonas genus as the key genus in the extracellular electron uptake. Furthermore, the genera Azospira and Azospirillum could play a role in the photoelectrotrophic consortium.
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Affiliation(s)
- Carlos Manchon
- Universidad de Alcalá, Madrid, Spain.,Nanoelectra, Madrid, Spain
| | | | | | - Abraham Esteve-Núñez
- Universidad de Alcalá, Madrid, Spain.,Nanoelectra, Madrid, Spain.,IMDEA Water, Alcalá de Henares, Spain
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22
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Messersmith RE, Sage FC, Johnson JK, Langevin SA, Forsyth ER, Hart MT, Hoffman CM. Iron Sequestration by Galloyl-Silane Nano Coatings Inhibits Biofilm Formation of Sulfitobacter sp. Biomimetics (Basel) 2023; 8:biomimetics8010079. [PMID: 36810410 PMCID: PMC9944052 DOI: 10.3390/biomimetics8010079] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Revised: 02/08/2023] [Accepted: 02/10/2023] [Indexed: 02/15/2023] Open
Abstract
Microbially-induced corrosion is the acceleration of corrosion induced by bacterial biofilms. The bacteria in the biofilms oxidize metals on the surface, especially evident with iron, to drive metabolic activity and reduce inorganic species such as nitrates and sulfates. Coatings that prevent the formation of these corrosion-inducing biofilms significantly increase the service life of submerged materials and significantly decrease maintenance costs. One species in particular, a member of the Roseobacter clade, Sulfitobacter sp., has demonstrated iron-dependent biofilm formation in marine environments. We have found that compounds that contain the galloyl moiety can prevent Sulfitobacter sp. biofilm formation by sequestering iron, thus making a surface unappealing for bacteria. Herein, we have fabricated surfaces with exposed galloyl groups to test the effectiveness of nutrient reduction in iron-rich media as a non-toxic method to reduce biofilm formation.
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Affiliation(s)
- Reid E. Messersmith
- Research and Exploratory Development Department, The Johns Hopkins University Applied Physics Laboratory, 11100 Johns Hopkins Road, Laurel, MD 20723, USA
| | - F. Connor Sage
- Asymmetric Operations Sector, The Johns Hopkins University Applied Physics Laboratory, 11100 Johns Hopkins Road, Laurel, MD 20723, USA
| | - James K. Johnson
- Asymmetric Operations Sector, The Johns Hopkins University Applied Physics Laboratory, 11100 Johns Hopkins Road, Laurel, MD 20723, USA
| | - Spencer A. Langevin
- Research and Exploratory Development Department, The Johns Hopkins University Applied Physics Laboratory, 11100 Johns Hopkins Road, Laurel, MD 20723, USA
| | - Ellen R. Forsyth
- Asymmetric Operations Sector, The Johns Hopkins University Applied Physics Laboratory, 11100 Johns Hopkins Road, Laurel, MD 20723, USA
| | - Meaghan T. Hart
- Research and Exploratory Development Department, The Johns Hopkins University Applied Physics Laboratory, 11100 Johns Hopkins Road, Laurel, MD 20723, USA
| | - Christopher M. Hoffman
- Research and Exploratory Development Department, The Johns Hopkins University Applied Physics Laboratory, 11100 Johns Hopkins Road, Laurel, MD 20723, USA
- Correspondence:
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Kolarikova M, Hosikova B, Dilenko H, Barton-Tomankova K, Valkova L, Bajgar R, Malina L, Kolarova H. Photodynamic therapy: Innovative approaches for antibacterial and anticancer treatments. Med Res Rev 2023. [PMID: 36757198 DOI: 10.1002/med.21935] [Citation(s) in RCA: 61] [Impact Index Per Article: 30.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2022] [Revised: 12/07/2022] [Accepted: 01/03/2023] [Indexed: 02/10/2023]
Abstract
Photodynamic therapy is an alternative treatment mainly for cancer but also for bacterial infections. This treatment dates back to 1900 when a German medical school graduate Oscar Raab found a photodynamic effect while doing research for his doctoral dissertation with Professor Hermann von Tappeiner. Unexpectedly, Raab revealed that the toxicity of acridine on paramecium depends on the intensity of light in his laboratory. Photodynamic therapy is therefore based on the administration of a photosensitizer with subsequent light irradiation within the absorption maxima of this substance followed by reactive oxygen species formation and finally cell death. Although this treatment is not a novelty, there is an endeavor for various modifications to the therapy. For example, selectivity and efficiency of the photosensitizer, as well as irradiation with various types of light sources are still being modified to improve final results of the photodynamic therapy. The main aim of this review is to summarize anticancer and antibacterial modifications, namely various compounds, approaches, and techniques, to enhance the effectiveness of photodynamic therapy.
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Affiliation(s)
- Marketa Kolarikova
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
| | - Barbora Hosikova
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
| | - Hanna Dilenko
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
| | - Katerina Barton-Tomankova
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
| | - Lucie Valkova
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
| | - Robert Bajgar
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
| | - Lukas Malina
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
| | - Hana Kolarova
- Department of Biophysics, Faculty of Medicine and Dentistry, Palacky University, Olomouc, Czech Republic
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24
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Fang L, Hong Z, Borch T, Shi Q, Li F. Iron Vacancy Accelerates Fe(II)-Induced Anoxic As(III) Oxidation Coupled to Iron Reduction. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:2175-2185. [PMID: 36693009 DOI: 10.1021/acs.est.2c07833] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Chemical oxidation of As(III) by iron (Fe) oxyhydroxides has been proposed to occur under anoxic conditions and may play an important role in stabilization and detoxification of As in subsurface environments. However, this reaction remains controversial due to lack of direct evidence and poorly understood mechanisms. In this study, we show that As(III) oxidation can be facilitated by Fe oxyhydroxides (i.e., goethite) under anoxic conditions coupled with the reduction of structural Fe(III). An excellent electron balance between As(V) production and Fe(III) reduction is obtained. The formation of an active metastable Fe(III) phase at the defective surface of goethite due to atom exchange is responsible for the oxidation of As(III). Furthermore, the presence of defects (i.e., Fe vacancies) in goethite can noticeably enhance the electron transfer (ET) and atom exchange between the surface-bound Fe(II) and the structural Fe(III) resulting in a two time increase in As(III) oxidation. Atom exchange-induced regeneration of active goethite sites is likely to facilitate As(III) coordination and ET with structural Fe(III) based on electrochemical analysis and theoretical calculations showing that this reaction pathway is thermodynamically and kinetically favorable. Our findings highlight the synergetic effects of defects in the Fe crystal structure and Fe(II)-induced catalytic processes on anoxic As(III) oxidation, shedding a new light on As risk management in soils and subsurface environments.
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Affiliation(s)
- Liping Fang
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou510650, China
| | - Zebin Hong
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou510650, China
| | - Thomas Borch
- Department of Soil and Crop Sciences and Department of Chemistry, Colorado State University, 1170 Campus Delivery, Fort Collins, Colorado80523, United States
| | - Qiantao Shi
- Center for Environmental Systems, Stevens Institute of Technology, Hoboken, New Jersey07030, United States
| | - Fangbai Li
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou510650, China
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25
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Stevenson DS. A New Ecological and Evolutionary Perspective on the Emergence of Oxygenic Photosynthesis. ASTROBIOLOGY 2023; 23:230-237. [PMID: 36413050 DOI: 10.1089/ast.2021.0165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
In this hypothesis article, we propose that the timing of the evolution of oxygenic photosynthesis and the diversification of cyanobacteria is firmly tied to the geological evolution of Earth in the Mesoarchean to Neoarchean. Specifically, the diversification of species capable of oxygenic photosynthesis is tied to the growth of subaerial (above sea-level/terrestrial) continental crust, which provided niches for their diversification. Moreover, we suggest that some formerly aerobic bacterial lineages evolved to become anoxygenic photosynthetic as a result of changes in selection following the reintroduction of ferruginous conditions in the oceans at 1.88 GYa. Both conclusions are fully compatible with phylogenetic evidence. The hypothesis carries with it a predictive component-at least for terrestrial organisms-that the development and expansion of photosynthesis species was dependent on the geological evolution of Earth.
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26
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Kashyap S, Sklute EC, Wang P, Tague TJ, Dyar MD, Holden JF. Spectral Detection of Nanophase Iron Minerals Produced by Fe(III)-Reducing Hyperthermophilic Crenarchaea. ASTROBIOLOGY 2023; 23:43-59. [PMID: 36070586 PMCID: PMC9810357 DOI: 10.1089/ast.2022.0042] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/01/2022] [Accepted: 08/01/2022] [Indexed: 06/15/2023]
Abstract
Mineral transformations by two hyperthermophilic Fe(III)-reducing crenarchaea, Pyrodictium delaneyi and Pyrobaculum islandicum, were examined using synthetic nanophase ferrihydrite, lepidocrocite, and akaganeite separately as terminal electron acceptors and compared with abiotic mineral transformations under similar conditions. Spectral analyses using visible-near-infrared, Fourier-transform infrared attenuated total reflectance (FTIR-ATR), Raman, and Mössbauer spectroscopies were complementary and revealed formation of various biomineral assemblages distinguishable from abiotic phases. The most extensive biogenic mineral transformation occurred with ferrihydrite, which formed primarily magnetite with spectral features similar to biomagnetite relative to a synthetic magnetite standard. The FTIR-ATR spectra of ferrihydrite bioreduced by P. delaneyi also showed possible cell-associated organics such as exopolysaccharides. Such combined detections of biomineral assemblages and organics might serve as biomarkers for hyperthermophilic Fe(III) reduction. With lepidocrocite, P. delaneyi produced primarily a ferrous carbonate phase reminiscent of siderite, and with akaganeite, magnetite and a ferrous phosphate phase similar to vivianite were formed. P. islandicum showed minor biogenic production of a ferrous phosphate similar to vivianite when grown on lepidocrocite, and a mixed valent phosphate or sulfate mineral when grown on akaganeite. These results expand the range of biogenic mineral transformations at high temperatures and identify spacecraft-relevant spectroscopies suitable for discriminating mineral biogenicity.
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Affiliation(s)
- Srishti Kashyap
- Department of Microbiology, University of Massachusetts, Amherst, Massachusetts, USA
| | | | - Peng Wang
- Bruker Optics, Inc., Billerica, Massachusetts, USA
| | | | - M. Darby Dyar
- Planetary Science Institute, Tucson, Arizona, USA
- Department of Astronomy, Mount Holyoke College, South Hadley, Massachusetts, USA
| | - James F. Holden
- Department of Microbiology, University of Massachusetts, Amherst, Massachusetts, USA
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27
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Reineke W, Schlömann M. Cycles of Sulfur, Iron and Manganese. Environ Microbiol 2023. [DOI: 10.1007/978-3-662-66547-3_8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/09/2023]
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28
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Liu K, Schiff SL, Wu L, Molot LA, Venkiteswaran JJ, Paterson MJ, Elgood RJ, Tsuji JM, Neufeld JD. Large Fractionation in Iron Isotopes Implicates Metabolic Pathways for Iron Cycling in Boreal Shield Lakes. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:14840-14851. [PMID: 36162065 DOI: 10.1021/acs.est.2c04247] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Stable Fe isotopes have only recently been measured in freshwater systems, mainly in meromictic lakes. Here we report the δ56Fe of dissolved, particulate, and sediment Fe in two small dimictic boreal shield headwater lakes: manipulated eutrophic Lake 227, with annual cyanobacterial blooms, and unmanipulated oligotrophic Lake 442. Within the lakes, the range in δ56Fe is large (ca. -0.9 to +1.8‰), spanning more than half the entire range of natural Earth surface samples. Two layers in the water column with distinctive δ56Fe of dissolved (dis) and particulate (spm) Fe were observed, despite differences in trophic states. In the epilimnia of both lakes, a large Δ56Fedis-spm fractionation of 0.4-1‰ between dissolved and particulate Fe was only observed during cyanobacterial blooms in Lake 227, possibly regulated by selective biological uptake of isotopically light Fe by cyanobacteria. In the anoxic layers in both lakes, upward flux from sediments dominates the dissolved Fe pool with an apparent Δ56Fedis-spm fractionation of -2.2 to -0.6‰. Large Δ56Fedis-spm and previously published metagenome sequence data suggest active Fe cycling processes in anoxic layers, such as microaerophilic Fe(II) oxidation or photoferrotrophy, could regulate biogeochemical cycling. Large fractionation of stable Fe isotopes in these lakes provides a potential tool to probe Fe cycling and the acquisition of Fe by cyanobacteria, with relevance for understanding biogeochemical cycling of Earth's early ferruginous oceans.
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Affiliation(s)
- Kai Liu
- Department of Earth and Environmental Sciences, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
- Water Institute, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Sherry L Schiff
- Department of Earth and Environmental Sciences, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
- Water Institute, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Lingling Wu
- Department of Earth and Environmental Sciences, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
- Water Institute, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Lewis A Molot
- Faculty of Environmental and Urban Change, York University, Toronto, Ontario M3J 1P3, Canada
| | - Jason J Venkiteswaran
- Department of Geography and Environmental Studies, Wilfrid Laurier University, Waterloo, Ontario N2L 3C5, Canada
| | | | - Richard J Elgood
- Department of Earth and Environmental Sciences, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
- Water Institute, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Jackson M Tsuji
- Department of Biology, University of Waterloo, Waterloo, Ontario, Canada N2L 3G1
| | - Josh D Neufeld
- Water Institute, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
- Department of Biology, University of Waterloo, Waterloo, Ontario, Canada N2L 3G1
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29
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Haas NW, Jain A, Hying Z, Arif SJ, Niehaus TD, Gralnick JA, Fixen KR. PioABC-Dependent Fe(II) Oxidation during Photoheterotrophic Growth on an Oxidized Carbon Substrate Increases Growth Yield. Appl Environ Microbiol 2022; 88:e0097422. [PMID: 35862670 PMCID: PMC9361825 DOI: 10.1128/aem.00974-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Accepted: 06/29/2022] [Indexed: 01/21/2023] Open
Abstract
Microorganisms that carry out Fe(II) oxidation play a major role in biogeochemical cycling of iron in environments with low oxygen. Fe(II) oxidation has been largely studied in the context of autotrophy. Here, we show that the anoxygenic phototroph, Rhodopseudomonas palustris CGA010, carries out Fe(II) oxidation during photoheterotrophic growth with an oxidized carbon source, malate, leading to an increase in cell yield and allowing more carbon to be directed to cell biomass. We probed the regulatory basis for this by transcriptome sequencing (RNA-seq) and found that the expression levels of the known pioABC Fe(II) oxidation genes in R. palustris depended on the redox-sensing two-component system, RegSR, and the oxidation state of the carbon source provided to cells. This provides the first mechanistic demonstration of mixotrophic growth involving reducing power generated from both Fe(II) oxidation and carbon assimilation. IMPORTANCE The simultaneous use of carbon and reduced metals such as Fe(II) by bacteria is thought to be widespread in aquatic environments, and a mechanistic description of this process could improve our understanding of biogeochemical cycles. Anoxygenic phototrophic bacteria like Rhodopseudomonas palustris typically use light for energy and organic compounds as both a carbon and an electron source. They can also use CO2 for carbon by carbon dioxide fixation when electron-rich compounds like H2, thiosulfate, and Fe(II) are provided as electron donors. Here, we show that Fe(II) oxidation can be used in another context to promote higher growth yields of R. palustris when the oxidized carbon compound malate is provided. We further established the regulatory mechanism underpinning this observation.
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Affiliation(s)
- Nicholas W. Haas
- BioTechnology Institute and Department of Plant and Microbial Biology, University of Minnesota, St. Paul, Minnesota, USA
| | - Abhiney Jain
- BioTechnology Institute and Department of Plant and Microbial Biology, University of Minnesota, St. Paul, Minnesota, USA
| | - Zachary Hying
- BioTechnology Institute and Department of Plant and Microbial Biology, University of Minnesota, St. Paul, Minnesota, USA
| | - Sabrina J. Arif
- Department of Genetics, Cell Biology, and Development, University of Minnesota, Minneapolis, Minnesota, USA
| | - Thomas D. Niehaus
- BioTechnology Institute and Department of Plant and Microbial Biology, University of Minnesota, St. Paul, Minnesota, USA
| | - Jeffrey A. Gralnick
- BioTechnology Institute and Department of Plant and Microbial Biology, University of Minnesota, St. Paul, Minnesota, USA
| | - Kathryn R. Fixen
- BioTechnology Institute and Department of Plant and Microbial Biology, University of Minnesota, St. Paul, Minnesota, USA
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30
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Competitive interaction of Mn(II) and Fe(II) cations with the high-affinity Mn-binding site of the photosystem II: evolutionary aspect. ORIGINS LIFE EVOL B 2022; 52:113-128. [PMID: 35796895 DOI: 10.1007/s11084-022-09625-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2022] [Accepted: 06/16/2022] [Indexed: 10/17/2022]
Abstract
The evolutionary origin of the oxygen-evolving complex (OEC) in the photosystem II (PSII) is still unclear, as is the nature of electron source for the photosystem before the OEC had appeared. Johnson et al. (in PNAS 110:11238, 2013) speculated that Mn(II) cations were the source of electrons for transitional photosystems. However, Archean oceans also contained Fe(II) cations at concentrations comparable or higher than that of Mn(II). Fe(II) cations can bind to the high-affinity (НА) Mn-binding site in the OEC (Semin et al. in Biochemistry 41:5854, 2002). Now we have investigated the competitive interaction of Mn(II) and Fe(II) cations with the HA site in the Mn-depleted PSII membranes (PSII[-Mn]). Fe cations, oxidized under illumination, bind strongly to the HA site and, thus, prevent the interaction of Mn(II) with this site. If the Mn(II) and Fe(II) cations, at relatively equal concentration, are simultaneously present in the buffer, together with PSII(-Mn) membranes, there is competition between these two cations for the binding site, which manifests itself in partial inhibition of the Mn(II) oxidation and the blocking of the HA site by Fe(II) cations. If the concentration of Fe(II) cations is several times higher than the concentration of Mn(II), the HA site is completely blocked and the oxidation of Mn(II) cations is inhibited; under saturating light, the effectiveness of this inhibitory effect increases. This may be due to the generation of H2O2 on the acceptor side of the photosystem, which significantly accelerates the rate of the turnover reaction of Mn(II) on the HA site.
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31
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Hao J, Liu W, Goff JL, Steadman JA, Large RR, Falkowski PG, Yee N. Anoxic photochemical weathering of pyrite on Archean continents. SCIENCE ADVANCES 2022; 8:eabn2226. [PMID: 35767603 PMCID: PMC9242442 DOI: 10.1126/sciadv.abn2226] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/11/2021] [Accepted: 05/10/2022] [Indexed: 06/15/2023]
Abstract
Sulfur is an essential element of life that is assimilated by Earth's biosphere through the chemical breakdown of pyrite. On the early Earth, pyrite weathering by atmospheric oxygen was severely limited, and low marine sulfate concentrations persisted for much of the Archean eon. Here, we show an anoxic photochemical mechanism of pyrite weathering that could have provided substantial amounts of sulfate to the oceans as continents formed in the late Archean. Pyrite grains suspended in anoxic ferrous iron solutions produced millimolar sulfate concentrations when irradiated with ultraviolet light. The Fe2+(aq) was photooxidized, which, in turn, led to the chemical oxidation of pyritic sulfur. Additional experiments conducted with 2.68 Ga shale demonstrated that photochemically derived ferric iron oxidizes and dissolves sedimentary pyrite during chemical weathering. The results suggest that before the rise of atmospheric oxygen, oxidative pyrite weathering on Archean continents was controlled by the exposure of land to sunlight.
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Affiliation(s)
- Jihua Hao
- Department of Marine and Coastal Sciences, Rutgers University, New Brunswick, NJ 08901, USA
- 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
| | - Winnie Liu
- Department of Earth and Planetary Sciences, Rutgers University, Piscataway, NJ 08854, USA
| | - Jennifer L. Goff
- Department of Earth and Planetary Sciences, Rutgers University, Piscataway, NJ 08854, USA
| | - Jeffrey A. Steadman
- CODES, Centre for Ore Deposit and Earth Sciences, University of Tasmania, Hobart, TAS 7001, Australia
| | - Ross R. Large
- CODES, Centre for Ore Deposit and Earth Sciences, University of Tasmania, Hobart, TAS 7001, Australia
| | - Paul G. Falkowski
- Department of Marine and Coastal Sciences, Rutgers University, New Brunswick, NJ 08901, USA
- Department of Earth and Planetary Sciences, Rutgers University, Piscataway, NJ 08854, USA
| | - Nathan Yee
- Department of Earth and Planetary Sciences, Rutgers University, Piscataway, NJ 08854, USA
- Department of Environmental Sciences, Rutgers University, New Brunswick, NJ 08901, USA
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32
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Lueder U, Maisch M, Jørgensen BB, Druschel G, Schmidt C, Kappler A. Growth of microaerophilic Fe(II)-oxidizing bacteria using Fe(II) produced by Fe(III) photoreduction. GEOBIOLOGY 2022; 20:421-434. [PMID: 35014744 DOI: 10.1111/gbi.12485] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 11/10/2021] [Accepted: 12/31/2021] [Indexed: 06/14/2023]
Abstract
Iron(II) (Fe(II)) can be formed by abiotic Fe(III) photoreduction, particularly when Fe(III) is organically complexed. Light-influenced environments often overlap or even coincide with oxic or microoxic geochemical conditions, for example, in sediments. So far, it is unknown whether microaerophilic Fe(II)-oxidizing bacteria are able to use the Fe(II) produced by Fe(III) photoreduction as electron donor. Here, we present an adaption of the established agar-stabilized gradient tube approach in comparison with liquid cultures for the cultivation of microaerophilic Fe(II)-oxidizing microorganisms by using a ferrihydrite-citrate mixture undergoing Fe(III) photoreduction as Fe(II) source. We quantified oxygen and Fe(II) gradients with amperometric and voltammetric microelectrodes and evaluated microbial growth by qPCR of 16S rRNA genes. We showed that gradients of dissolved Fe(II) (maximum Fe(II) concentration of 1.25 mM) formed in the gradient tubes when incubated in blue or UV light (400-530 nm or 350-400 nm). Various microaerophilic Fe(II)-oxidizing bacteria (Curvibacter sp. and Gallionella sp.) grew by oxidizing Fe(II) that was produced in situ by Fe(III) photoreduction. Best growth for these species, based on highest gene copy numbers, was observed in incubations using UV light in both liquid culture and gradient tubes containing 8 mM ferrihydrite-citrate mixtures (1:1), due to continuous light-induced Fe(II) formation. Microaerophilic Fe(II)-oxidizing bacteria contributed up to 40% to the overall Fe(II) oxidation within 24 h of incubation in UV light. Our results highlight the potential importance of Fe(III) photoreduction as a source of Fe(II) for Fe(II)-oxidizing bacteria by providing Fe(II) in illuminated environments, even under microoxic conditions.
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Affiliation(s)
- Ulf Lueder
- Geomicrobiology Group, Center for Applied Geoscience (ZAG), University of Tuebingen, Tuebingen, Germany
| | - Markus Maisch
- Geomicrobiology Group, Center for Applied Geoscience (ZAG), University of Tuebingen, Tuebingen, Germany
| | - Bo Barker Jørgensen
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
| | - Gregory Druschel
- Department of Earth Sciences, Indiana University-Purdue University, Indianapolis, Indiana, USA
| | - Caroline Schmidt
- Geomicrobiology Group, Center for Applied Geoscience (ZAG), University of Tuebingen, Tuebingen, Germany
| | - Andreas Kappler
- Geomicrobiology Group, Center for Applied Geoscience (ZAG), University of Tuebingen, Tuebingen, Germany
- Section for Microbiology, Department of Biology, Aarhus University, Aarhus, Denmark
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight Infection, Tübingen, Germany
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33
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Papineau D, She Z, Dodd MS, Iacoviello F, Slack JF, Hauri E, Shearing P, Little CTS. Metabolically diverse primordial microbial communities in Earth's oldest seafloor-hydrothermal jasper. SCIENCE ADVANCES 2022; 8:eabm2296. [PMID: 35417227 PMCID: PMC9007518 DOI: 10.1126/sciadv.abm2296] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Accepted: 02/28/2022] [Indexed: 06/14/2023]
Abstract
The oldest putative fossils occur as hematite filaments and tubes in jasper-carbonate banded iron formations from the 4280- to 3750-Ma Nuvvuagittuq Supracrustal Belt, Québec. If biological in origin, these filaments might have affinities with modern descendants; however, if abiotic, they could indicate complex prebiotic forms on early Earth. Here, we report images of centimeter-size, autochthonous hematite filaments that are pectinate-branching, parallel-aligned, undulated, and containing Fe2+-oxides. These microstructures are considered microfossils because of their mineral associations and resemblance to younger microfossils, modern Fe-bacteria from hydrothermal environments, and the experimental products of heated Fe-oxidizing bacteria. Additional clusters of irregular hematite ellipsoids could reflect abiotic processes of silicification, producing similar structures and thus yielding an uncertain origin. Millimeter-sized chalcopyrite grains within the jasper-carbonate rocks have 34S- and 33S-enrichments consistent with microbial S-disproportionation and an O2-poor atmosphere. Collectively, the observations suggest a diverse microbial ecosystem on the primordial Earth that may be common on other planetary bodies, including Mars.
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Affiliation(s)
- Dominic Papineau
- State Key Laboratory of Biogeology and Environmental Geology, School of Earth Sciences, China University of Geosciences, Wuhan, China
- London Centre for Nanotechnology, University College London, London, UK
- Department of Earth Sciences, University College London, London, UK
- Centre for Planetary Sciences, University College London & Birkbeck College London, London, UK
| | - Zhenbing She
- State Key Laboratory of Biogeology and Environmental Geology, School of Earth Sciences, China University of Geosciences, Wuhan, China
| | - Matthew S. Dodd
- State Key Laboratory of Biogeology and Environmental Geology, School of Earth Sciences, China University of Geosciences, Wuhan, China
| | | | - John F. Slack
- U.S. Geological Survey National Center, Reston, VA, USA
- Department of Earth Sciences, Memorial University of Newfoundland, St. John’s, NL, Canada
| | - Erik Hauri
- Department of Terrestrial Magnetism, Carnegie Institution for Science, Washington, DC, USA
| | - Paul Shearing
- Department of Chemical Engineering, University College London, London, UK
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Chen R, Liu H, Zhang P, Ma J, Jin M. Co-response of Fe-reducing/oxidizing bacteria and Fe species to the dynamic redox cycles of natural sediment. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 815:152953. [PMID: 34999076 DOI: 10.1016/j.scitotenv.2022.152953] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 12/29/2021] [Accepted: 01/03/2022] [Indexed: 06/14/2023]
Abstract
Fe(III)-reducing bacteria (FRB) and Fe(II)-oxidizing bacteria (FOB) play essential roles in the biogeochemical cycling of iron (Fe). Although the redox transformation of Fe species mediated by FRB/FOB has been extensively studied, the co-responses of FRB and FOB and Fe species transformation in natural sediment under dynamic redox conditions are poorly known. This study explored the variations of potential FRB and FOB abundances and Fe species transformation in natural sediment during successive anoxic-oxic-anoxic-oxic-anoxic cycles. Compared with the pristine sediment sample, the FRB abundance increased 121-793% (initial: (2.6 ± 0.6) × 107 copies/g) in the anoxic stages, while it decreased by 38-64% in the oxic stages. The increase in FRB abundance was ascribed to energy gain of FRB from the reduction of the amorphous Fe(III) (Fe(III)am) and the crystalline Fe(III) (Fe(III)cry) to the aqueous Fe(II) (Fe(II)aq), the adsorbed Fe(II) (Fe(II)ad) and the amorphous Fe(II) (Fe(II)am), while the decrease was attributed to the oxidative stress caused by the reactive oxidant produced from the abiotic oxidation of Fe(II)aq, Fe(II)ad and Fe(II)am to Fe(III)am and Fe(III)cry. The FOB abundance decreased 38-44% (initial: (5 ± 1.8) × 107 copies/g) in the second and third anoxic stages, while slightly fluctuated in the oxic periods. This observation was contrary to the variation of FRB, which might be attributed to the strong resistance to oxidative stress of FOB and its ability to obtain energy under oxic conditions. Although the functions of FRB and FOB were impaired during anoxic-oxic cycles, the transformation of Fe(II)/Fe(III) was not immediately affected, which may be related to the residual reactivity of dead bacteria and the bio-availability of Fe(II)/Fe(III) species. In the anoxic-oxic alternation process, the iron cycle is mainly the mutual transformation between Fe(II)aq, Fe(II)ad, Fe(II)am and Fe(III)am, Fe(III)cry. This finding deepens our understanding of the biogeochemical cycling of Fe in the redox-dynamic environments.
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Affiliation(s)
- Rong Chen
- School of Environmental Studies, China University of Geosciences, 68 Jincheng Street, East Lake High-Tech Development Zone, Wuhan, Hubei 430078, PR China
| | - Hui Liu
- School of Environmental Studies, China University of Geosciences, 68 Jincheng Street, East Lake High-Tech Development Zone, Wuhan, Hubei 430078, PR China; State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, 68 Jincheng Street, East Lake High-Tech Development Zone, Wuhan, Hubei 430078, PR China.
| | - Peng Zhang
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, 68 Jincheng Street, East Lake High-Tech Development Zone, Wuhan, Hubei 430078, PR China
| | - Jie Ma
- School of Environmental Studies, China University of Geosciences, 68 Jincheng Street, East Lake High-Tech Development Zone, Wuhan, Hubei 430078, PR China
| | - Menggui Jin
- School of Environmental Studies, China University of Geosciences, 68 Jincheng Street, East Lake High-Tech Development Zone, Wuhan, Hubei 430078, PR China
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Zhang C, Liu S, Hussain S, Li L, Baiome BA, Xiao S, Cao H. Fe(II) Addition Drives Soil Bacterial Co-Ocurrence Patterns and Functions Mediated by Anaerobic and Chemoautotrophic Taxa. Microorganisms 2022; 10:microorganisms10030547. [PMID: 35336122 PMCID: PMC8950066 DOI: 10.3390/microorganisms10030547] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Revised: 02/04/2022] [Accepted: 02/05/2022] [Indexed: 12/10/2022] Open
Abstract
Iron is among the most abundant elements in the soil of paddy fields, and its valence state and partitioning can be transformed by flooding and drainage alternations. However, little is known about the function of soil microbes that interact with Fe(II). In this study, sandy and loamy soils originating from rice fields were treated with Fe(II) at low and high concentrations. The findings demonstrate that additional Fe(II) has various effects on the soil’s microbial community structure and metabolic pathways. We conclude that Fe(II) at high concentrations reduced bacterial abundance and diversity in two textured paddy soils, yet the abundance in loamy soils was higher than it was in sandy soil. Additionally, in environments with high Fe(II) levels, the relative abundance of both anaerobic and chemoautotrophic bacteria increased. The Fe(II) concentration was positively correlated with total reduced substances but negatively correlated with redox potential and pH. Co-occurrence networks revealed that Fe(II) significantly promoted interactions with the most anaerobic and chemoautotrophic bacteria. In addition, adding Fe(II) greatly increased the number of more complex bacterial networks, and an increase in the number of mutually beneficial taxa occurred. We found that Fe(II) promoted the methane pathway, the Calvin cycle, and nitrate reduction to small but significant extents. These pathways involve the growth and interrelation of autotrophic and anaerobic bacteria. These results suggest that changes in the bacterial community structure occur in many dry–wet alternating environments.
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Affiliation(s)
- Chenyang Zhang
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Senlin Liu
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
- Wellington Research Group, School of Life Sciences, University of Warwick, Gibbet Hill Road, Coventry CV4 7AL, UK
| | - Sarfraz Hussain
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Lifeng Li
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Baiome Abdelmaguid Baiome
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Shuiqing Xiao
- School of Intercultural Studies, Jiangxi Normal University, Nanchang 330022, China;
| | - Hui Cao
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
- Correspondence: ; Tel./Fax: +86-025-8439-6753
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‘Candidatus ferrigenium straubiae’ sp. nov., ‘Candidatus ferrigenium bremense’ sp. nov., ‘Candidatus ferrigenium altingense’ sp. nov., are autotrophic Fe(II)-oxidizing bacteria of the family Gallionellaceae. Syst Appl Microbiol 2022; 45:126306. [DOI: 10.1016/j.syapm.2022.126306] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Revised: 02/06/2022] [Accepted: 02/07/2022] [Indexed: 01/04/2023]
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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: 0.5] [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: 1.5] [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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Chance and Necessity in the Evolution of Matter to Life: A Comprehensive Hypothesis. Symmetry (Basel) 2021. [DOI: 10.3390/sym13101918] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Specialists in several branches of life sciences are trying to solve, piece by piece, the immensely complex puzzle of the origin of life. Some parts of the puzzle seem to appear with a rather high degree of clarity, while others remain totally obscure. We cannot be sure that life emerged only on our Earth, but we believe that the presence of large amounts of water in its liquid state is absolutely essential for the emergence and evolution of living matter. We can also assume that the latter exploits everywhere the same light elements, mainly C, H, O, N, S, and P, and somehow manipulates the same simple monomeric and polymeric organic compounds, such as alpha-amino acids, carbohydrates, nucleic bases, and surface-active carboxylic acids. The author contributes to the field by stating that all fundamental particles of our matter are “homochiral” and predominantly produce in an absolute asymmetric synthesis amino acids of L-configuration and carbohydrates of D-series. Another important point is that free atmospheric oxygen mainly stems from the photolysis of water molecules by cosmic irradiation and is not necessarily bound to living organisms on the planet.
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Gorka M, Baldansuren A, Malnati A, Gruszecki E, Golbeck JH, Lakshmi KV. Shedding Light on Primary Donors in Photosynthetic Reaction Centers. Front Microbiol 2021; 12:735666. [PMID: 34659164 PMCID: PMC8517396 DOI: 10.3389/fmicb.2021.735666] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2021] [Accepted: 08/30/2021] [Indexed: 11/17/2022] Open
Abstract
Chlorophylls (Chl)s exist in a variety of flavors and are ubiquitous in both the energy and electron transfer processes of photosynthesis. The functions they perform often occur on the ultrafast (fs-ns) time scale and until recently, these have been difficult to measure in real time. Further, the complexity of the binding pockets and the resulting protein-matrix effects that alter the respective electronic properties have rendered theoretical modeling of these states difficult. Recent advances in experimental methodology, computational modeling, and emergence of new reaction center (RC) structures have renewed interest in these processes and allowed researchers to elucidate previously ambiguous functions of Chls and related pheophytins. This is complemented by a wealth of experimental data obtained from decades of prior research. Studying the electronic properties of Chl molecules has advanced our understanding of both the nature of the primary charge separation and subsequent electron transfer processes of RCs. In this review, we examine the structures of primary electron donors in Type I and Type II RCs in relation to the vast body of spectroscopic research that has been performed on them to date. Further, we present density functional theory calculations on each oxidized primary donor to study both their electronic properties and our ability to model experimental spectroscopic data. This allows us to directly compare the electronic properties of hetero- and homodimeric RCs.
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Affiliation(s)
- Michael Gorka
- Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, United States
| | - Amgalanbaatar Baldansuren
- Department of Chemistry and Chemical Biology and The Baruch ’60 Center for Biochemical Solar Energy Research, Rensselaer Polytechnic Institute, Troy, NY, United States
| | - Amanda Malnati
- Department of Chemistry and Chemical Biology and The Baruch ’60 Center for Biochemical Solar Energy Research, Rensselaer Polytechnic Institute, Troy, NY, United States
| | - Elijah Gruszecki
- Department of Chemistry and Chemical Biology and The Baruch ’60 Center for Biochemical Solar Energy Research, Rensselaer Polytechnic Institute, Troy, NY, United States
| | - John H. Golbeck
- Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, United States
- Department of Chemistry, The Pennsylvania State University, University Park, PA, United States
| | - K. V. Lakshmi
- Department of Chemistry and Chemical Biology and The Baruch ’60 Center for Biochemical Solar Energy Research, Rensselaer Polytechnic Institute, Troy, NY, United States
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Song ZG, Yuan Q, Lv P, Chen K. Research Progress of Small Molecule Fluorescent Probes for Detecting Hypochlorite. SENSORS 2021; 21:s21196326. [PMID: 34640646 PMCID: PMC8512788 DOI: 10.3390/s21196326] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 08/19/2021] [Accepted: 08/20/2021] [Indexed: 11/19/2022]
Abstract
Hypochlorous acid (HOCl) generates from the reaction between hydrogen peroxide and chloride ions via myeloperoxidase (MPO)-mediated in vivo. As very important reactive oxygen species (ROS), hypochlorous acid (HOCl)/hypochlorite (OCl−) play a crucial role in a variety of physiological and pathological processes. However, excessive or misplaced production of HOCl/OCl− can cause variety of tissue damage and human diseases. Therefore, rapid, sensitive, and selective detection of OCl− is very important. In recent years, the fluorescent probe method for detecting hypochlorous acid has been developed rapidly due to its simple operation, low toxicity, high sensitivity, and high selectivity. In this review, the progress of recently discovered fluorescent probes for the detection of hypochlorous acid was summarized with the aim to provide useful information for further design of better fluorescent probes.
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Affiliation(s)
- Zhi-Guo Song
- The Joint Research Center of Guangzhou University and Keele Univeristy for Gene Interference and Application, School of Life Science, Guangzhou University, Guangzhou 510006, China; (Z.-G.S.); (Q.Y.)
- Zhejiang Guoneng Technology Co., Ltd., 1518 Mengxi Road, Huzhou 313000, China
| | - Qing Yuan
- The Joint Research Center of Guangzhou University and Keele Univeristy for Gene Interference and Application, School of Life Science, Guangzhou University, Guangzhou 510006, China; (Z.-G.S.); (Q.Y.)
| | - Pengcheng Lv
- The Joint Research Center of Guangzhou University and Keele Univeristy for Gene Interference and Application, School of Life Science, Guangzhou University, Guangzhou 510006, China; (Z.-G.S.); (Q.Y.)
- Correspondence: (P.L.); (K.C.); Tel./Fax: +86-20-3936-6915 (P.L. & K.C.)
| | - Kun Chen
- The Joint Research Center of Guangzhou University and Keele Univeristy for Gene Interference and Application, School of Life Science, Guangzhou University, Guangzhou 510006, China; (Z.-G.S.); (Q.Y.)
- Correspondence: (P.L.); (K.C.); Tel./Fax: +86-20-3936-6915 (P.L. & K.C.)
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Huang YM, Straub D, Blackwell N, Kappler A, Kleindienst S. Meta-omics Reveal Gallionellaceae and Rhodanobacter Species as Interdependent Key Players for Fe(II) Oxidation and Nitrate Reduction in the Autotrophic Enrichment Culture KS. Appl Environ Microbiol 2021; 87:e0049621. [PMID: 34020935 PMCID: PMC8276803 DOI: 10.1128/aem.00496-21] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Accepted: 05/16/2021] [Indexed: 01/04/2023] Open
Abstract
Nitrate reduction coupled to Fe(II) oxidation (NRFO) has been recognized as an environmentally important microbial process in many freshwater ecosystems. However, well-characterized examples of autotrophic nitrate-reducing Fe(II)-oxidizing bacteria are rare, and their pathway of electron transfer as well as their interaction with flanking community members remain largely unknown. Here, we applied meta-omics (i.e., metagenomics, metatranscriptomics, and metaproteomics) to the nitrate-reducing Fe(II)-oxidizing enrichment culture KS growing under autotrophic or heterotrophic conditions and originating from freshwater sediment. We constructed four metagenome-assembled genomes with an estimated completeness of ≥95%, including the key players of NRFO in culture KS, identified as Gallionellaceae sp. and Rhodanobacter sp. The Gallionellaceae sp. and Rhodanobacter sp. transcripts and proteins likely involved in Fe(II) oxidation (e.g., mtoAB, cyc2, and mofA), denitrification (e.g., napGHI), and oxidative phosphorylation (e.g., respiratory chain complexes I to V) along with Gallionellaceae sp. transcripts and proteins for carbon fixation (e.g., rbcL) were detected. Overall, our results indicate that in culture KS, the Gallionellaceae sp. and Rhodanobacter sp. are interdependent: while Gallionellaceae sp. fixes CO2 and provides organic compounds for Rhodanobacter sp., Rhodanobacter sp. likely detoxifies NO through NO reduction and completes denitrification, which cannot be performed by Gallionellaceae sp. alone. Additionally, the transcripts and partial proteins of cbb3- and aa3-type cytochrome c suggest the possibility for a microaerophilic lifestyle of the Gallionellaceae sp., yet culture KS grows under anoxic conditions. Our findings demonstrate that autotrophic NRFO is performed through cooperation among denitrifying and Fe(II)-oxidizing bacteria, which might resemble microbial interactions in freshwater environments. IMPORTANCE Nitrate-reducing Fe(II)-oxidizing bacteria are widespread in the environment, contribute to nitrate removal, and influence the fate of the greenhouse gases nitrous oxide and carbon dioxide. The autotrophic growth of nitrate-reducing Fe(II)-oxidizing bacteria is rarely investigated and not fully understood. The most prominent model system for this type of study is the enrichment culture KS. To gain insights into the metabolism of nitrate reduction coupled to Fe(II) oxidation in the absence of organic carbon and oxygen, we performed metagenomic, metatranscriptomic, and metaproteomic analyses of culture KS and identified Gallionellaceae sp. and Rhodanobacter sp. as interdependent key Fe(II) oxidizers in culture KS. Our work demonstrates that autotrophic nitrate reduction coupled to Fe(II) oxidation is not performed by an individual strain but is a cooperation of at least two members of the bacterial community in culture KS. These findings serve as a foundation for our understanding of nitrate-reducing Fe(II)-oxidizing bacteria in the environment.
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Affiliation(s)
- Yu-Ming Huang
- Microbial Ecology, Center for Applied Geoscience, University of Tübingen, Tübingen, Germany
- Geomicrobiology, Center for Applied Geoscience, University of Tübingen, Tübingen, Germany
| | - Daniel Straub
- Microbial Ecology, Center for Applied Geoscience, University of Tübingen, Tübingen, Germany
- Quantitative Biology Center (QBiC), University of Tübingen, Tübingen, Germany
| | - Nia Blackwell
- Microbial Ecology, Center for Applied Geoscience, University of Tübingen, Tübingen, Germany
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geoscience, University of Tübingen, Tübingen, Germany
- Cluster of Excellence, EXC 2124, “Controlling Microbes to Fight Infections,” University of Tübingen, Tübingen, Germany
| | - Sara Kleindienst
- Microbial Ecology, Center for Applied Geoscience, University of Tübingen, Tübingen, Germany
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Liu X, Huang L, Rensing C, Ye J, Nealson KH, Zhou S. Syntrophic interspecies electron transfer drives carbon fixation and growth by Rhodopseudomonas palustris under dark, anoxic conditions. SCIENCE ADVANCES 2021; 7:eabh1852. [PMID: 34215588 PMCID: PMC11057707 DOI: 10.1126/sciadv.abh1852] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Accepted: 05/20/2021] [Indexed: 06/13/2023]
Abstract
In natural anoxic environments, anoxygenic photosynthetic bacteria fix CO2 by photoheterotrophy, photoautotrophy, or syntrophic anaerobic photosynthesis. Here, we describe electroautotrophy, a previously unidentified dark CO2 fixation mode enabled by the electrosyntrophic interaction between Geobacter metallireducens and Rhodopseudomonas palustris. After an electrosyntrophic coculture is formed, electrons are transferred either directly or indirectly (via electron shuttles) from G. metallireducens to R. palustris, thereby providing reducing power and energy for the dark CO2 fixation. Transcriptomic analyses demonstrated the high expression of genes encoding for the extracellular electron transfer pathway in G. metallireducens and the Calvin-Benson-Bassham carbon fixation cycle in R. palustris Given that sediments constitute one of the most ubiquitous and abundant niches on Earth and that, at depth, most of the sedimentary niche is both anoxic and dark, dark carbon fixation provides a metabolic window for the survival of anoxygenic phototrophs, as well as an as-yet unappreciated contribution to the global carbon cycle.
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Affiliation(s)
- Xing Liu
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Lingyan Huang
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Christopher Rensing
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Jie Ye
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Kenneth H Nealson
- Department of Earth Science, University of Southern California, Los Angeles, CA, USA.
| | - Shungui Zhou
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China.
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Rego ES, Busigny V, Lalonde SV, Philippot P, Bouyon A, Rossignol C, Babinski M, de Cássia Zapparoli A. Anoxygenic photosynthesis linked to Neoarchean iron formations in Carajás (Brazil). GEOBIOLOGY 2021; 19:326-341. [PMID: 33660904 DOI: 10.1111/gbi.12438] [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: 10/14/2020] [Revised: 02/12/2021] [Accepted: 02/14/2021] [Indexed: 06/12/2023]
Abstract
Microbial activity is often invoked as a direct or indirect contributor to the precipitation of ancient chemical sedimentary rocks such as Precambrian iron formations (IFs). Determining a specific metabolic pathway from the geological record remains a challenge, however, due to a lack of constraints on the initial conditions and microbially induced redox reactions involved in the formation of iron oxides. Thus, there is ongoing debate concerning the role of photoferrotrophy, that is the process by which inorganic carbon is fixed into organic matter using light as an energy source and Fe(II) as an electron donor, in the deposition of IFs. Here, we examine ~2.74-Ga-old Neoarchean IFs and associated carbonates from the Carajás Mineral Province, Brazil, to reconstruct redox conditions and to infer the oxidizing mechanism that allowed one of the world's largest iron deposits to form. The absence of cerium (Ce) anomalies reveals that conditions were pervasively anoxic during IF deposition, while unprecedented europium (Eu) anomalies imply that Fe was supplied by intense hydrothermal activity. A positive and homogeneous Fe isotopic signal in space and time in these IFs indicates a low degree of partial oxidation of Fe(II), which, combined with the presence of 13 C-depleted organic matter, points to a photoautotrophic metabolic driver. Collectively, our results argue in favor of reducing conditions during IF deposition and suggest anoxygenic photosynthesis as the most plausible mechanism responsible for Fe oxidation in the Carajás Basin.
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Affiliation(s)
- Eric Siciliano Rego
- Instituto de Geociências, Universidade de São Paulo, Cidade Universitária, São Paulo, Brazil
- Institut de Physique du Globe de Paris, Université de Paris, CNRS, Paris cedex 05, France
- Géosciences Montpellier, Université de Montpellier, CNRS, Université des Antilles, Montpellier, France
| | - Vincent Busigny
- Institut de Physique du Globe de Paris, Université de Paris, CNRS, Paris cedex 05, France
| | - Stefan V Lalonde
- Institut Universitaire Européen de la Mer, Université de Bretagne Occidentale, CNRS, Plouzané, France
| | - Pascal Philippot
- Institut de Physique du Globe de Paris, Université de Paris, CNRS, Paris cedex 05, France
- Géosciences Montpellier, Université de Montpellier, CNRS, Université des Antilles, Montpellier, France
- Departamento de Geofísica, Instituto de Astronomia, Geofísica e Ciências Atmosféricas, Universidade de São Paulo, Cidade Universitária, São Paulo, Brazil
| | - Amaury Bouyon
- Géosciences Montpellier, Université de Montpellier, CNRS, Université des Antilles, Montpellier, France
| | - Camille Rossignol
- Institut de Physique du Globe de Paris, Université de Paris, CNRS, Paris cedex 05, France
- Departamento de Geofísica, Instituto de Astronomia, Geofísica e Ciências Atmosféricas, Universidade de São Paulo, Cidade Universitária, São Paulo, Brazil
| | - Marly Babinski
- Instituto de Geociências, Universidade de São Paulo, Cidade Universitária, São Paulo, Brazil
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Tan JSW, Sephton MA. Quantifying Preservation Potential: Lipid Degradation in a Mars-Analog Circumneutral Iron Deposit. ASTROBIOLOGY 2021; 21:638-654. [PMID: 33835833 DOI: 10.1089/ast.2020.2344] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Comparisons between the preservation potential of Mars-analog environments have historically been qualitative rather than quantitative. Recently, however, laboratory-based artificial maturation combined with kinetic modeling techniques have emerged as a potential means by which the preservation potential of solvent-soluble organic matter can be quantified in various Mars-analog environments. These methods consider how elevated temperatures, pressures, and organic-inorganic interactions influence the degradation of organic biomarkers post-burial. We used these techniques to investigate the preservation potential of deposits from a circumneutral iron-rich groundwater system. These deposits are composed of ferrihydrite (Fe5HO8 · 4H2O), an amorphous iron hydroxide mineral that is a common constituent of rocks found in ancient lacustrine environments on Mars, such as those observed in Gale Crater. Both natural and synthetic ferrihydrite samples were subjected to hydrous pyrolysis to observe the effects of long-term burial on the mineralogy and organic content of the samples. Our experiments revealed that organic-inorganic interactions in the samples are dominated by the transformation of iron minerals. As amorphous ferrihydrite transforms into more crystalline species, the decrease in surface area results in the desorption of organic matter, potentially rendering them more susceptible to degradation. We also find that circumneutral iron-rich deposits provide unfavorable conditions for the preservation of solvent-soluble organic matter. Quantitative comparisons between preservation potentials as calculated when using kinetic parameters show that circumneutral iron-rich deposits are ∼25 times less likely to preserve solvent-soluble organic matter compared with acidic, iron-rich environments. Our results suggest that circumneutral iron-rich deposits should be deprioritized in favor of acidic iron- and sulfur-rich deposits when searching for evidence of life with solvent extraction techniques.
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Affiliation(s)
- Jonathan S W Tan
- Department of Earth Science and Engineering, Impacts and Astromaterials Research Centre, Imperial College London, London, United Kingdom
| | - Mark A Sephton
- Department of Earth Science and Engineering, Impacts and Astromaterials Research Centre, Imperial College London, London, United Kingdom
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Hassenkam T, Tsai EHR, Sørensen HO, Dalby KN, Mackenzie DMA, Holler M, Ferreira D, Grolimund D, Bruns S, Rosing MT. Direct evidence for eoarchean iron metabolism? GEOBIOLOGY 2021; 19:218-227. [PMID: 33624944 DOI: 10.1111/gbi.12432] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2019] [Revised: 11/08/2020] [Accepted: 01/17/2021] [Indexed: 06/12/2023]
Abstract
Metasedimentary rocks from Isua, West Greenland (> 3,700 million years old) contain carbonaceous compounds, compatible with a biogenic origin (Hassenkam, Andersson, Dalby, Mackenzie, & Rosing, 2017; Ohtomo, Kakegawa, Ishida, Nagase, & Rosing, 2014; Rosing, 1999). The metamorphic mineral assemblage with garnet and quartz intergrowths contains layers of carbonaceous inclusions contiguous with carbon-rich sedimentary beds in the host rock. Previous studies (Hassenkam et al., 2017; Ohtomo et al., 2014; Rosing, 1999) on Isua rocks focused on testing the biogenic origin of the carbonaceous material, but here we searched for evidence which could provide new insights into the nature of the life that generated this carbonaceous material. We studied material trapped in inclusions armoured within quartz grains inside garnet porphyroblasts by non-destructive ptychographic X-ray nanotomography (PXCT). The 3D electron density maps generated by PXCT were correlated with maps from X-ray fluorescence tomography and micro-Raman spectroscopy. We found that the material trapped inside inclusions in the quartz grains consist of disordered carbon material encasing domains of iron-rich carbonaceous material. These results corroborate earlier claims (Hassenkam et al., 2017; Ohtomo et al., 2014; Rosing, 1999) for biogenic origins and are compatible with relics of metamorphosed biological material originally containing high iron/carbon ratios, comparable to ratios found in most extant organisms. These iron-rich domains represent the oldest evidence for organic iron complexes in the geologic record and are consistent with Fe-isotopic evidence for metabolic iron fractionation in > 3,700 Ma Isua banded iron formation (Czaja et al., 2013; Whitehouse & Fedo, 2007).
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Affiliation(s)
- Tue Hassenkam
- Globe Institute, University of Copenhagen, Copenhagen, Denmark
| | - Esther H R Tsai
- Paul Scherrer Institut, Villigen, Switzerland
- Center for Functional Nanomaterials, Brookhaven National Laboratory, Upton, NY, USA
| | - Henning O Sørensen
- Department of Chemistry, Nano-Science Center, University of Copenhagen, Copenhagen, Denmark
- Department of Physics, Technical University of Denmark, Lyngby, Denmark
| | - Kim N Dalby
- Department of Chemistry, Nano-Science Center, University of Copenhagen, Copenhagen, Denmark
- Haldor Topsøe A/S, Lyngby, Denmark
| | - David M A Mackenzie
- Department of Electronics and Nanoengineering, Aalto University, Aalto, Finland
| | | | | | | | - Stefan Bruns
- Helmholtz-Center Geesthacht, Centre for Materials and Coastal Research, Institute of Metallic Biomaterials, Geesthacht, Germany
| | - Minik T Rosing
- Globe Institute, University of Copenhagen, Copenhagen, Denmark
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Tong H, Chen M, Lv Y, Liu C, Zheng C, Xia Y. Changes in the microbial community during microbial microaerophilic Fe(II) oxidation at circumneutral pH enriched from paddy soil. ENVIRONMENTAL GEOCHEMISTRY AND HEALTH 2021; 43:1305-1317. [PMID: 32975698 DOI: 10.1007/s10653-020-00725-w] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2020] [Accepted: 09/15/2020] [Indexed: 06/11/2023]
Abstract
Fe(II)-oxidizing bacteria (FeOB) are important catalysts for iron cycling in iron-rich marine, groundwater, and freshwater environments. However, few studies have reported the distribution and diversity of these bacteria in flooded paddy soils. This study investigates the microbial structure and diversity of microaerophilic Fe(II)-oxidizing bacteria (mFeOB) and their possible role in Fe(II) oxidation in iron-rich paddy soils. Using enrichment experiments that employed serial transfers, the changes in microaerophilic microbial community were examined via 16S rRNA gene high-throughput sequencing. During enrichments, the Fe(II) oxidation rate decreased as transfers increased, and the maximum rate of Fe(II) oxidation was observed in the first transfer (0.197 mM day-1). Results from X-ray diffraction of minerals and scanning electron microscopy of the cell-mineral aggregates revealed that cell surfaces in all transfers were partly covered with amorphous iron oxide formed by FeOB. After four transfers, the phyla of Proteobacteria had a dominant presence that reached up to 95%. Compared with the original soil, the relative abundances of Cupriavidus, Massilia, Pseudomonas, Ralstonia, Sphingomonas, and Variovorax increased in FeS gradient tubes and became dominant genera after transfers. Cupriavidus, Pseudomonas, and Ralstonia have been identified as FeOB previously. Furthermore, the structure of the microbial community tended to be stable as transfers increased, indicating that other bacterial species might perform important roles in Fe(II) oxidation. These results suggest the potential involvement of mFeOB and these other microorganisms in the Fe(II)-oxidizing process of soils. It will be helpful for future studies to consider their role in related biogeochemical processes, such as transformation of organic matters and heavy metals.
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Affiliation(s)
- Hui Tong
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-environmental Science and Technology, Guangdong Academy of Sciences, Guangzhou, 510650, China
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China
| | - Manjia Chen
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-environmental Science and Technology, Guangdong Academy of Sciences, Guangzhou, 510650, China
| | - Yahui Lv
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-environmental Science and Technology, Guangdong Academy of Sciences, Guangzhou, 510650, China
| | - Chengshuai Liu
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China.
- CAS Center for Excellence in Quaternary Science and Global Change, Xi'an, 710061, China.
| | - Chunju Zheng
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China
| | - Yafei Xia
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China
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Kappler A, Bryce C, Mansor M, Lueder U, Byrne JM, Swanner ED. An evolving view on biogeochemical cycling of iron. Nat Rev Microbiol 2021; 19:360-374. [PMID: 33526911 DOI: 10.1038/s41579-020-00502-7] [Citation(s) in RCA: 240] [Impact Index Per Article: 60.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/08/2020] [Indexed: 01/23/2023]
Abstract
Biogeochemical cycling of iron is crucial to many environmental processes, such as ocean productivity, carbon storage, greenhouse gas emissions and the fate of nutrients, toxic metals and metalloids. Knowledge of the underlying processes involved in iron cycling has accelerated in recent years along with appreciation of the complex network of biotic and abiotic reactions dictating the speciation, mobility and reactivity of iron in the environment. Recent studies have provided insights into novel processes in the biogeochemical iron cycle such as microbial ammonium oxidation and methane oxidation coupled to Fe(III) reduction. They have also revealed that processes in the biogeochemical iron cycle spatially overlap and may compete with each other, and that oxidation and reduction of iron occur cyclically or simultaneously in many environments. This Review discusses these advances with particular focus on their environmental consequences, including the formation of greenhouse gases and the fate of nutrients and contaminants.
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Affiliation(s)
- Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany.
| | - Casey Bryce
- School of Earth Sciences, University of Bristol, Bristol, UK
| | - Muammar Mansor
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
| | - Ulf Lueder
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Tübingen, Germany
| | - James M Byrne
- School of Earth Sciences, University of Bristol, Bristol, UK
| | - Elizabeth D Swanner
- Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA, USA
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Siderite-based anaerobic iron cycle driven by autotrophic thermophilic microbial consortium. Sci Rep 2020; 10:21661. [PMID: 33303863 PMCID: PMC7729950 DOI: 10.1038/s41598-020-78605-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Accepted: 11/27/2020] [Indexed: 11/14/2022] Open
Abstract
Using a sample from a terrestrial hot spring (pH 6.8, 60 °C), we enriched a thermophilic microbial consortium performing anaerobic autotrophic oxidation of hydrothermal siderite (FeCO3), with CO2/bicarbonate as the electron acceptor and the only carbon source, producing green rust and acetate. In order to reproduce Proterozoic environmental conditions during the deposition of banded iron formation (BIF), we incubated the microbial consortium in a bioreactor that contained an unmixed anoxic layer of siderite, perfectly mixed N2/CO2-saturated liquid medium and microoxic (2% O2) headspace. Long-term incubation (56 days) led to the formation of magnetite (Fe3O4) instead of green rust as the main product of Fe(II) oxidation, the precipitation of newly formed metabolically induced siderite in the anoxic zone, and the deposition of hematite (Fe2O3) on bioreactor walls over the oxycline boundary. Acetate was the only metabolic product of CO2/bicarbonate reduction. Thus, we have demonstrated the ability of autotrophic thermophilic microbial consortium to perform a short cycle of iron minerals transformation: siderite–magnetite–siderite, accompanied by magnetite and hematite accumulation. This cycle is believed to have driven the evolution of the early biosphere, leading to primary biomass production and deposition of the main iron mineral association of BIF.
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