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Pan D, Chen P, Yang G, Niu R, Bai Y, Cheng K, Huang G, Liu T, Li X, Li F. Fe(II) Oxidation Shaped Functional Genes and Bacteria Involved in Denitrification and Dissimilatory Nitrate Reduction to Ammonium from Different Paddy Soils. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:21156-21167. [PMID: 38064275 DOI: 10.1021/acs.est.3c06337] [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: 12/20/2023]
Abstract
Microbial nitrate reduction can drive Fe(II) oxidation in anoxic environments, affecting the nitrous oxide emission and ammonium availability. The nitrate-reducing Fe(II) oxidation usually causes severe cell encrustation via chemodenitrification and potentially inhibits bacterial activity due to the blocking effect of secondary minerals. However, it remains unclear how Fe(II) oxidation and subsequent cell encrustation affect the functional genes and bacteria for denitrification and dissimilatory nitrate reduction to ammonium (DNRA). Here, bacteria were enriched from different paddy soils with and without Fe(II) under nitrate-reducing conditions. Fe(II) addition decelerated nitrate reduction and increased NO2- accumulation, due to the rapid Fe(II) oxidation and cell encrustation in the periplasm and on the cell surface. The N2O accumulation was lower in the treatment with Fe(II) and nitrate than that in the treatment with nitrate only, although the proportions of N2O and NH4+ to the reduced NO3- were low (3.25% ∼ 6.51%) at the end of incubation regardless of Fe(II) addition. The dominant bacteria varied from soils under nitrate-reducing conditions, while Fe(II) addition shaped a similar microbial community, including Dechloromonas, Azospira, and Pseudomonas. Fe(II) addition increased the relative abundance of napAB, nirS, norBC, nosZ, and nirBD genes but decreased that of narG and nrfA, suggesting that Fe(II) oxidation favored denitrification in the periplasm and NO2--to-NH4+ reduction in the cytoplasm. Dechloromonas dominated the NO2--to-N2O reduction, while Thauera mediated the periplasmic nitrate reduction and cytoplasmic NO2--to-NH4+ during Fe(II) oxidation. However, Thauera showed much lower abundance than the dominant genera, resulting in slow nitrate reduction and limited NH4+ production. These findings provide new insights into the response of denitrification and DNRA bacteria to Fe(II) oxidation and cell encrustation in anoxic environments.
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Affiliation(s)
- Dandan Pan
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Provincial Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- School of Environment, South China Normal University, Guangzhou 510006, China
| | - Pengcheng Chen
- School of Environmental Science and Engineering, Guangdong University of Technology, Guangzhou 510006, China
| | - Guang Yang
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
- School of Environment, South China Normal University, Guangzhou 510006, China
| | - Rumiao Niu
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
- School of Environment, South China Normal University, Guangzhou 510006, China
| | - Yan Bai
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Provincial Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- School of Environment, South China Normal University, Guangzhou 510006, China
| | - Kuan Cheng
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Provincial Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
| | - Guoyong Huang
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Provincial Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- School of Environment, South China Normal University, Guangzhou 510006, China
| | - Tongxu Liu
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Provincial Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
| | - Xiaomin Li
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
- School of Environment, South China Normal University, Guangzhou 510006, China
| | - Fangbai Li
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Provincial Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
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Hezema NN, Eltarahony MM, Abdel Salam SA. Therapeutic and antioxidant potential of bionanofactory Ochrobactrum sp.-mediated magnetite and zerovalent iron nanoparticles against acute experimental toxoplasmosis. PLoS Negl Trop Dis 2023; 17:e0011655. [PMID: 37801440 PMCID: PMC10558077 DOI: 10.1371/journal.pntd.0011655] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Accepted: 09/11/2023] [Indexed: 10/08/2023] Open
Abstract
The control of toxoplasmosis, a rampant one health disease, has been focussed on conventional antitoxoplasmic agents with their adverse outcomes, including serious side effects, treatment failure and emergence of drug resistant strains. Nanobiotechnology may provide a strong impetus for versatile alternative therapies against toxoplasmosis. Bionanofactory Ochrobactrum sp. strain CNE2 was recruited for the biosynthesis of functionalized magnetite iron nanoparticles (MNPs) and nanozerovalent iron (nZVI) under aerobic and anaerobic conditions and their therapeutic efficacy was evaluated against acute toxoplasmosis in murine model. The formation of self-functionalized spherical nanoparticles varied in size, identity and surface properties were substantiated. Mice were orally administered 20 mg/kg of each formulation on the initial day of infection and continued for seven consecutive days post infection (PI). Parasitological, ultrastructural, immunological, and biochemical studies were performed for assessment of therapeutic activity of biogenic iron nanoparticles (INPs). Parasitologically, MNPs showed the highest antitoxoplasmic efficacy in terms of 96.82% and 91.87% reduction in mean tachyzoite count in peritoneal fluid and liver impression smears, respectively. Lesser percentage reductions were recorded in nZVI-treated infected subgroup (75.44% and 69.04%). In addition, scanning electron microscopy (SEM) examination revealed remarkable reduction in size and extensive damage to the surface of MNPs-treated tachyzoites. MNPs-treated infected mice revealed a statistically significant increase in the serum levels of both interferon gamma (IFN-γ) to 346.2 ± 4.6 pg/ml and reduced glutathione (GSH) to 8.83 ± 0.30 mg/dl that subsequently exerted malondialdehyde (MDA) quenching action. MNPs showed a superior promising antitoxoplasmic activity with respect to both spiramycin (SPI) and nZVI. To best of our knowledge, this is the first study of a bio-safe oral iron nanotherapeutic agent fabricated via an eco-friendly approach that offers promising potential against acute experimental toxoplasmosis.
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Affiliation(s)
- Nehal Nassef Hezema
- Department of Medical Parasitology, Faculty of Medicine, Alexandria University, Alexandria, Egypt
| | - Marwa Moustafa Eltarahony
- Department of Environmental Biotechnology, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications, New Borg El-Arab City, Alexandria, Egypt
| | - Sara Ahmed Abdel Salam
- Department of Medical Parasitology, Faculty of Medicine, Alexandria University, Alexandria, Egypt
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Fiskal A, Shuster J, Fischer S, Joshi P, Raghunatha Reddy L, Wulf SE, Kappler A, Fischer H, Herrig I, Meier J. Microbially influenced corrosion and rust tubercle formation on sheet piles in freshwater systems. Environ Microbiol 2023; 25:1796-1815. [PMID: 37145936 DOI: 10.1111/1462-2920.16393] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Accepted: 04/19/2023] [Indexed: 05/07/2023]
Abstract
The extent of how complex natural microbial communities contribute to metal corrosion is still not fully resolved, especially not for freshwater environments. In order to elucidate the key processes, we investigated rust tubercles forming massively on sheet piles along the river Havel (Germany) applying a complementary set of techniques. In-situ microsensor profiling revealed steep gradients of O2 , redox potential and pH within the tubercle. Micro-computed tomography and scanning electron microscopy showed a multi-layered inner structure with chambers and channels and various organisms embedded in the mineral matrix. Using Mössbauer spectroscopy we identified typical corrosion products including electrically conductive iron (Fe) minerals. Determination of bacterial gene copy numbers and sequencing of 16S rRNA and 18S rRNA amplicons supported a densely populated tubercle matrix with a phylogenetically and metabolically diverse microbial community. Based on our results and previous models of physic(electro)chemical reactions, we propose here a comprehensive concept of tubercle formation highlighting the crucial reactions and microorganisms involved (such as phototrophs, fermenting bacteria, dissimilatory sulphate and Fe(III) reducers) in metal corrosion in freshwaters.
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Affiliation(s)
- Annika Fiskal
- Department U2-Microbial Ecology, Federal Institute of Hydrology, Koblenz, Germany
| | - Jeremiah Shuster
- Tübingen Structural Microscopy, University of Tübingen, Tübingen, Germany
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
| | - Stefan Fischer
- Tübingen Structural Microscopy, University of Tübingen, Tübingen, Germany
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
| | - Prachi Joshi
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
| | | | - Sven-Erik Wulf
- Section B2-Steel Structures and Corrosion Protection, Federal Waterways Engineering and Research Institute, Karlsruhe, Germany
| | - Andreas Kappler
- Tübingen Structural Microscopy, University of Tübingen, Tübingen, Germany
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight Infection, Tübingen, Germany
| | - Helmut Fischer
- Department U2-Microbial Ecology, Federal Institute of Hydrology, Koblenz, Germany
| | - Ilona Herrig
- Department G3-Ecotoxicology, Federal Institute of Hydrology, Koblenz, Germany
| | - Jutta Meier
- Institute for Integrated Natural Sciences, University Koblenz, Koblenz, Germany
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Chen D, Cheng K, Liu T, Chen G, Kappler A, Li X, Zeng RJ, Yang Y, Yue F, Hu S, Cao F, Li F. Novel Insight into Microbially Mediated Nitrate-Reducing Fe(II) Oxidation by Acidovorax sp. Strain BoFeN1 Using Dual N-O Isotope Fractionation. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:12546-12555. [PMID: 37535944 DOI: 10.1021/acs.est.3c02329] [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: 08/05/2023]
Abstract
Microbially mediated nitrate reduction coupled with Fe(II) oxidation (NRFO) plays an important role in the Fe/N interactions in pH-neutral anoxic environments. However, the relative contributions of the chemical and microbial processes to NRFO are still unclear. In this study, N-O isotope fractionation during NRFO was investigated. The ratios of O and N isotope enrichment factors (18ε:15ε)-NO3- indicated that the main nitrate reductase functioning in Acidovorax sp. strain BoFeN1 was membrane-bound dissimilatory nitrate reductase (Nar). N-O isotope fractionation during chemodenitrification [Fe(II) + NO2-], microbial nitrite reduction (cells + NO2-), and the coupled process [cells + NO2- + Fe(II)] was explored. The ratios of (18ε:15ε)-NO2- were 0.58 ± 0.05 during chemodenitrification and -0.41 ± 0.11 during microbial nitrite reduction, indicating that N-O isotopes can be used to distinguish chemical from biological reactions. The (18ε:15ε)-NO2- of 0.70 ± 0.05 during the coupled process was close to that obtained for chemodenitrification, indicating that chemodenitrification played a more important role than biological reactions during the coupled process. The results of kinetic modeling showed that the relative contribution of chemodenitrification was 99.3% during the coupled process, which was consistent with that of isotope fractionation. This study provides a better understanding of chemical and biological mechanisms of NRFO using N-O isotopes and kinetic modeling.
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Affiliation(s)
- Dandan Chen
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agroenvironmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- School of Biological and Chemical Engineering, Panzhihua University, Panzhihua 6170000, China
| | - Kuan Cheng
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agroenvironmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
| | - Tongxu Liu
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agroenvironmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
| | - Guojun Chen
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agroenvironmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
| | - Andreas Kappler
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen 72076, Germany
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight Infection, Tübingen 72074, Germany
| | - Xiaomin Li
- SCNU Environmental Research Institute, Guangdong Provincial Key Laboratory of Chemical Pollution and Environmental Safety & MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University, Guangzhou 510006, China
| | - Raymond Jianxiong Zeng
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Yang Yang
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agroenvironmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
| | - Fujun Yue
- Institute of Surface-Earth System Science, School of Earth System Science, Tianjin University, Tianjin 300072, China
| | - Shiwen Hu
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agroenvironmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
| | - Fang Cao
- Yale-NUIST Center on Atmospheric Environment, International Joint Laboratory on Climate and Environment Change (ILCEC), Nanjing University of Information Science & Technology, Nanjing 210044, China
| | - Fangbai Li
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agroenvironmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
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Ke C, Guo C, Zhang S, Deng Y, Li X, Li Y, Lu G, Ling F, Dang Z. Microbial reduction of schwertmannite by co-cultured iron- and sulfate-reducing bacteria. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 861:160551. [PMID: 36460112 DOI: 10.1016/j.scitotenv.2022.160551] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2022] [Revised: 11/23/2022] [Accepted: 11/24/2022] [Indexed: 06/17/2023]
Abstract
Schwertmannite (Sch) is an iron-hydroxysulfate mineral commonly found in acid mine drainage contaminated environment. The transformation mechanism of Sch mediated by pure cultured iron-reducing bacteria (FeRB) or sulfate-reducing bacteria (SRB) has been studied. However, FeRB and SRB widely coexist in the environment, the mechanism of Sch transformation by the consortia of FeRB and SRB is still unclear. This study investigated the Sch reduction by co-cultured Shewanella oneidensis (FeRB) and Desulfosporosinus meridiei (SRB). The results showed that co-culture of FeRB and SRB could accelerate the reductive dissolution of Sch, but not synergistically, and there were two distinct phases in the reduction of Sch mediated by FeRB and SRB: an initial phase in which FeRB predominated and Fe3+ in Sch was reduced, accompanied with the release of SO42-, and the detected secondary minerals were mainly vivianite; the second phase in which SRB predominated and mediated the reduction of SO42-, producing minerals including mackinawite and siderite in addition to vivianite. Compared to pure culture, the abundance of FeRB and SRB in the consortia decreased, and more minerals aggregated inside and outside the cell; correspondingly, the transcription levels of genes (cymA, omcA, and mtrCBA) related to Fe3+ reduction in co-culture was down-regulated, while the transcription levels of SO42--reducing genes (sat, aprAB, dsr(C)) was generally up-regulated. These phenomena suggested that secondary minerals produced in co-culture limited but did not inhibit bacterial growth, and the presence of SRB was detrimental to dissimilatory Fe3+ reduction, while existed FeRB was in favor of dissimilatory SO42- reduction. SRB mediated SO42- reduction by up-regulating the expression of SO42- reduction-related genes when its abundance was limited, which may be a strategy to cope with external coercion. These findings allow for a better understanding of the process and mechanism of microbial mediated reduction of Sch in the environment.
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Affiliation(s)
- Changdong Ke
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China
| | - Chuling Guo
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China.
| | - Siyu Zhang
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China
| | - Yanping Deng
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China
| | - Xiaofei Li
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China
| | - Yuancheng Li
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China
| | - Guining Lu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China
| | - Fei Ling
- School of Biology and Biological Engineering, South China University of Technology, Guangzhou 510006, China
| | - Zhi Dang
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, China
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Cheng K, Li H, Yuan X, Yin Y, Chen D, Wang Y, Li X, Chen G, Li F, Peng C, Wu Y, Liu T. Hematite-promoted nitrate-reducing Fe(II) oxidation by Acidovorax sp. strain BoFeN1: Roles of mineral catalysis and cell encrustation. GEOBIOLOGY 2022; 20:810-822. [PMID: 35829697 DOI: 10.1111/gbi.12510] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2022] [Revised: 05/29/2022] [Accepted: 06/26/2022] [Indexed: 06/15/2023]
Abstract
Although nitrate-reducing Fe(II) oxidizing (NRFO) bacteria can grow sustainably in natural environments, numerous laboratory studies suggested that cell encrustation-induced metabolism limitations and cell death occurred more seriously in the absence of natural minerals. Hence, a study on how natural minerals could affect NRFO is warranted. This study examined the impact of hematite on NRFO by Acidovorax sp. BoFeN1 with different electron donors (acetate and Fe(II), acetate alone, and Fe(II) alone) and with nitrate as an electron acceptor. When acetate and Fe(II) were used as the electron donors, the amount of Fe(II) oxidation and nitrate reduction was enhanced in the presence of hematite, whereas no promotion was observed when only acetate was added as an electron donor. Under the conditions with only Fe(II) added as an electron donor, the level of Fe(II) oxidation was increased from 3.07 ± 0.06 to 3.92 ± 0.02 mM in the presence of hematite and nitrate reduction was enhanced. This suggests that hematite promotes microbial nitrate reduction by accelerating the biological oxidation of Fe(II). The main secondary minerals were goethite and lepidocrocite. After adding hematite, the assemblage of iron minerals on the cell surface decreased, and the cell crusts became thinner, indicating that hematite effectively mitigated cell encrustation. Furthermore, hematite accelerated the chemical oxidation of Fe(II) by nitrite. Hence, hematite can promote the NRFO of Acidovorax sp. BoFeN1 via two possible pathways: (i) hematite acts as nucleation sites to mitigate cell encrustation; (ii) hematite catalyzes the biological and chemical oxidation of Fe(II) through the mineral catalysis effects. This study highlights the importance of existing iron minerals on NRFO and sheds light on the survival strategy of NRFO bacteria in anoxic subsurface environments.
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Affiliation(s)
- Kuan Cheng
- Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, P. R. China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
- University of Chinese Academy of Sciences, Beijing, P. R. China
| | - Han 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, Guangzhou, P. R. China
| | - Xiu Yuan
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
| | - Yunlu Yin
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
| | - Dandan 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, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
| | - Ying Wang
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
| | - Xiaomin 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, Guangzhou, P. R. China
| | - Guojun 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, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
| | - 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, Guangzhou, P. R. China
| | - Chao Peng
- College of Life Sciences, China West Normal University, Nanchong, P. R. China
| | - Yundang Wu
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
| | - Tongxu Liu
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, P. R. China
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Li MJ, Wei MY, Fan XT, Zhou GW. Underestimation about the Contribution of Nitrate Reducers to Iron Cycling Indicated by Enterobacter Strain. Molecules 2022; 27:molecules27175581. [PMID: 36080348 PMCID: PMC9457790 DOI: 10.3390/molecules27175581] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Revised: 08/19/2022] [Accepted: 08/25/2022] [Indexed: 11/18/2022] Open
Abstract
Nitrate-reducing iron(II) oxidation (NRFO) has been intensively reported in various bacteria. Iron(II) oxidation is found to be involved in both enzymatic and chemical reactions in nitrate-reducing Fe(II)-oxidizing microorganisms (NRFOMs). However, little is known about the relative contribution of biotic and abiotic reactions to iron(II) oxidation for the common nitrate reducers during the NRFO process. In this study, the typical nitrate reducers, four Enterobacter strains E. hormaechei, E. tabaci, E. mori and E. asburiae, were utilized as the model microorganisms. The comparison of the kinetics of nitrate, iron(II) and nitrite and N2O production in setups with and without iron(II) indicates a mixture of enzymatic and abiotic oxidation of iron(II) in all four Enterobacter strains. It was estimated that 22−29% of total oxidized iron(II) was coupled to microbial nitrate reduction by E. hormaechei, E. tabaci, E. mori, and E. asburiae. Enterobacter strains displayed an metabolic inactivity with heavy iron(III) encrustation on the cell surface in the NRFOmedium during days of incubation. Moreover, both respiratory and periplasmic nitrate-reducing genes are encoded by genomes of Enterobacter strains, suggesting that cell encrustation may occur with periplasmic iron(III) oxide precipitation as well as the surface iron(II) mineral coating for nitrate reducers. Overall, this study clarified the potential role of nitrate reducers in the biochemical cycling of iron under anoxic conditions, in turn, re-shaping their activity during denitrification because of cell encrustation with iron(III) minerals.
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Affiliation(s)
- Ming-Jun Li
- School of Resources and Environmental Engineering, Anhui University, Hefei 230601, China
| | - Meng-Yun Wei
- Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China
| | - Xiao-Ting Fan
- Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China
| | - Guo-Wei Zhou
- School of Resources and Environmental Engineering, Anhui University, Hefei 230601, China
- Correspondence:
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Price A, Macey MC, Pearson VK, Schwenzer SP, Ramkissoon NK, Olsson-Francis K. Oligotrophic Growth of Nitrate-Dependent Fe 2+-Oxidising Microorganisms Under Simulated Early Martian Conditions. Front Microbiol 2022; 13:800219. [PMID: 35418959 PMCID: PMC8997339 DOI: 10.3389/fmicb.2022.800219] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2021] [Accepted: 02/24/2022] [Indexed: 11/30/2022] Open
Abstract
Nitrate-dependent Fe2+ oxidation (NDFO) is a microbially mediated process observed in many anaerobic, low-nutrient (oligotrophic) neutral-alkaline environments on Earth, which describes oxidation of Fe2+ to Fe3+ in tandem with microbial nitrate reduction. Evidence suggests that similar environments existed on Mars during the Noachian epoch (4.1-3.7 Ga) and in periodic, localised environments more recently, indicating that NDFO metabolism could have played a role in a potential early martian biosphere. In this paper, three NDFO microorganisms, Acidovorax sp. strain BoFeN1, Pseudogulbenkiania sp. strain 2002 and Paracoccus sp. strain KS1, were assessed for their ability to grow oligotrophically in simulated martian brines and in a minimal medium with olivine as a solid Fe2+ source. These simulant-derived media were developed from modelled fluids based on the geochemistry of Mars sample locations at Rocknest (contemporary Mars soil), Paso Robles (sulphur-rich soil), Haematite Slope (haematite-rich soil) and a Shergottite meteorite (common basalt). The Shergottite medium was able to support growth of all three organisms, while the contemporary Mars medium supported growth of Acidovorax sp. strain BoFeN1 and Pseudogulbenkiania sp. strain 2002; however, growth was not accompanied by significant Fe2+ oxidation. Each of the strains was also able to grow in oligotrophic minimal media with olivine as the sole Fe2+ source. Biomineralised cells of Pseudogulbenkiania sp. strain 2002 were identified on the surface of the olivine, representing a potential biosignature for NDFO microorganisms in martian samples. The results suggest that NDFO microorganisms could have thrived in early martian groundwaters under oligotrophic conditions, depending on the local lithology. This can guide missions in identifying palaeoenvironments of interest for biosignature detection. Indeed, biomineralised cells identified on the olivine surface provide a previously unexplored mechanism for the preservation of morphological biosignatures in the martian geological record.
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Affiliation(s)
- Alex Price
- School of Environment, Earth and Ecosystem Sciences, Faculty of Science, Technology, Engineering, and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Michael C. Macey
- School of Environment, Earth and Ecosystem Sciences, Faculty of Science, Technology, Engineering, and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Victoria K. Pearson
- School of Physical Sciences, Faculty of Science, Technology, Engineering, and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Susanne P. Schwenzer
- School of Environment, Earth and Ecosystem Sciences, Faculty of Science, Technology, Engineering, and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Nisha K. Ramkissoon
- School of Environment, Earth and Ecosystem Sciences, Faculty of Science, Technology, Engineering, and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Karen Olsson-Francis
- School of Environment, Earth and Ecosystem Sciences, Faculty of Science, Technology, Engineering, and Mathematics, The Open University, Milton Keynes, United Kingdom
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9
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Lopez-Adams R, Fairclough SM, Lyon IC, Haigh SJ, Zhang J, Zhao FJ, Moore KL, Lloyd JR. Elucidating heterogeneous iron biomineralization patterns in a denitrifying As(iii)-oxidizing bacterium: implications for arsenic immobilization. ENVIRONMENTAL SCIENCE. NANO 2022; 9:1076-1090. [PMID: 35663418 PMCID: PMC9073584 DOI: 10.1039/d1en00905b] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Accepted: 01/19/2022] [Indexed: 06/15/2023]
Abstract
Anaerobic nitrate-dependent iron(ii) oxidation is a process common to many bacterial species, which promotes the formation of Fe(iii) minerals that can influence the fate of soil and groundwater pollutants, such as arsenic. Herein, we investigated simultaneous nitrate-dependent Fe(ii) and As(iii) oxidation by Acidovorax sp. strain ST3 with the aim of studying the Fe biominerals formed, their As immobilization capabilities and the metabolic effect on cells. X-ray powder diffraction (XRD) and scanning transmission electron microscopy (STEM) nanodiffraction were applied for biomineral characterization in bulk and at the nanoscale, respectively. NanoSIMS (nanoscale secondary ion mass spectrometry) was used to map the intra and extracellular As and Fe distribution at the single-cell level and to trace metabolically active cells, by incorporation of a 13C-labeled substrate (acetate). Metabolic heterogeneity among bacterial cells was detected, with periplasmic Fe mineral encrustation deleterious to cell metabolism. Interestingly, Fe and As were not co-localized in all cells, indicating delocalized sites of As(iii) and Fe(ii) oxidation. The Fe(iii) minerals lepidocrocite and goethite were identified in XRD, although only lepidocrocite was identified via STEM nanodiffraction. Extracellular amorphous nanoparticles were formed earlier and retained more As(iii/v) than crystalline "flakes" of lepidocrocite, indicating that longer incubation periods promote the formation of more crystalline minerals with lower As retention capabilities. Thus, the addition of nitrate promotes Fe(ii) oxidation and formation of Fe(iii) biominerals by ST3 cells which retain As(iii/v), and although this process was metabolically detrimental to some cells, it warrants further examination as a viable mechanism for As removal in anoxic environments by biostimulation with nitrate.
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Affiliation(s)
- Rebeca Lopez-Adams
- Department of Earth and Environmental Sciences, University of Manchester Manchester UK
| | - Simon M Fairclough
- Department of Materials, University of Manchester Manchester UK
- Department of Materials Science and Metallurgy, University of Cambridge Cambridge UK
| | - Ian C Lyon
- Department of Earth and Environmental Sciences, University of Manchester Manchester UK
| | - Sarah J Haigh
- Department of Materials, University of Manchester Manchester UK
| | - Jun Zhang
- College of Resources and Environmental Sciences, Nanjing Agricultural University Nanjing China
| | - Fang-Jie Zhao
- College of Resources and Environmental Sciences, Nanjing Agricultural University Nanjing China
| | - Katie L Moore
- Department of Materials, University of Manchester Manchester UK
- Photon Science Institute, University of Manchester Manchester UK
| | - Jonathan R Lloyd
- Department of Earth and Environmental Sciences, University of Manchester Manchester UK
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10
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Jimenez-Martinez J, Nguyen J, Or D. Controlling pore-scale processes to tame subsurface biomineralization. RE/VIEWS IN ENVIRONMENTAL SCIENCE AND BIO/TECHNOLOGY 2022; 21:27-52. [PMID: 35221831 PMCID: PMC8831379 DOI: 10.1007/s11157-021-09603-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/28/2021] [Accepted: 12/06/2021] [Indexed: 06/14/2023]
Abstract
Microorganisms capable of biomineralization can catalyze mineral precipitation by modifying local physical and chemical conditions. In porous media, such as soil and rock, these microorganisms live and function in highly heterogeneous physical, chemical and ecological microenvironments, with strong local gradients created by both microbial activity and the pore-scale structure of the subsurface. Here, we focus on extracellular bacterial biomineralization, which is sensitive to external heterogeneity, and review the pore-scale processes controlling microbial biomineralization in natural and engineered porous media. We discuss how individual physical, chemical and ecological factors integrate to affect the spatial and temporal control of biomineralization, and how each of these factors contributes to a quantitative understanding of biomineralization in porous media. We find that an improved understanding of microbial behavior in heterogeneous microenvironments would promote understanding of natural systems and output in diverse technological applications, including improved representation and control of fluid mixing from pore to field scales. We suggest a range of directions by which future work can build from existing tools to advance each of these areas to improve understanding and predictability of biomineralization science and technology.
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Affiliation(s)
- Joaquin Jimenez-Martinez
- Department of Water Resources and Drinking Water, Eawag, Dübendorf, Switzerland
- Department of Civil, Environmental and Geomatic Engineering, ETH Zurich, Zürich, Switzerland
| | - Jen Nguyen
- Department of Microbiology and Immunology, University of British Columbia, Vancouver, BC V6T 1Z3 Canada
- School of Biomedical Engineering, University of British Columbia, Vancouver, BC V6T 1Z3 Canada
| | - Dani Or
- Division of Hydrologic Sciences, Desert Research Institute, Reno, NV USA
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11
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Tian T, Zhou K, Li YS, Liu DF, Yu HQ. Recovery of Iron-Dependent Autotrophic Denitrification Activity from Cell-Iron Mineral Aggregation-Induced Reversible Inhibition by Low-Intensity Ultrasonication. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2022; 56:595-604. [PMID: 34932326 DOI: 10.1021/acs.est.1c05553] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Iron-dependent autotrophic denitrification (IDAD) has garnered increasing interests as an efficient method for removing nitrogen from wastewater with a low carbon to nitrogen ratio. However, an inevitable deterioration of IDAD performance casts a shadow over its further development. In this work, the hidden cause for such a deterioration is uncovered, and a viable solution to this problem is provided. Batch test results reveal that the aggregation of microbial cells and iron-bearing minerals induced a cumulative and reversible inhibition on the activity of IDAD sludge. Extracellular polymeric substances were found to play a glue-like role in the cell-iron mineral aggregates, where microbial cells were caged, and their metabolisms were suppressed. Adopting low-intensity ultrasound treatment efficiently restored the IDAD activity by disintegrating such aggregates rather than stimulating the microbial metabolism. Moreover, the ultrasonication-assisted IDAD bioreactor exhibited an advantageous nitrogen removal efficiency (with a maximum enhancement of 72.3%) and operational stability compared to the control one, demonstrating a feasible strategy to achieve long-term stability of the IDAD process. Overall, this work provides a better understanding about the mechanism for the performance deterioration and a simple approach to maintain the stability of IDAD.
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Affiliation(s)
- Tian Tian
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
- Key Laboratory of Industrial Ecology and Environmental Engineering (Ministry of Education, China), School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, China
| | - Ke Zhou
- School of Resources and Environmental Engineering, Hefei University of Technology, Hefei 230009, China
| | - Yu-Sheng Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Dong-Feng Liu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
- School of Resources and Environmental Engineering, Hefei University of Technology, Hefei 230009, China
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12
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Ehrlich H, Bailey E, Wysokowski M, Jesionowski T. Forced Biomineralization: A Review. Biomimetics (Basel) 2021; 6:46. [PMID: 34287234 PMCID: PMC8293141 DOI: 10.3390/biomimetics6030046] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Revised: 05/29/2021] [Accepted: 07/02/2021] [Indexed: 12/31/2022] Open
Abstract
Biologically induced and controlled mineralization of metals promotes the development of protective structures to shield cells from thermal, chemical, and ultraviolet stresses. Metal biomineralization is widely considered to have been relevant for the survival of life in the environmental conditions of ancient terrestrial oceans. Similar behavior is seen among extremophilic biomineralizers today, which have evolved to inhabit a variety of industrial aqueous environments with elevated metal concentrations. As an example of extreme biomineralization, we introduce the category of "forced biomineralization", which we use to refer to the biologically mediated sequestration of dissolved metals and metalloids into minerals. We discuss forced mineralization as it is known to be carried out by a variety of organisms, including polyextremophiles in a range of psychrophilic, thermophilic, anaerobic, alkaliphilic, acidophilic, and halophilic conditions, as well as in environments with very high or toxic metal ion concentrations. While much additional work lies ahead to characterize the various pathways by which these biominerals form, forced biomineralization has been shown to provide insights for the progression of extreme biomimetics, allowing for promising new forays into creating the next generation of composites using organic-templating approaches under biologically extreme laboratory conditions relevant to a wide range of industrial conditions.
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Affiliation(s)
- Hermann Ehrlich
- Institute of Electronic and Sensor Materials, TU Bergakademie Freiberg, 09599 Freiberg, Germany
- Center for Advanced Technology, Adam Mickiewicz University, 61614 Poznan, Poland
- Centre for Climate Change Research, Toronto, ON M4P 1J4, Canada
- ICUBE-University of Toronto Mississauga, Mississauga, ON L5L 1C6, Canada
| | - Elizabeth Bailey
- Department of Astronomy and Astrophysics, University of California, Santa Cruz, CA 95064, USA;
| | - Marcin Wysokowski
- Faculty of Chemical Technology, Institute of Chemical Technology and Engineering, Poznan University of Technology, 60-965 Poznan, Poland
| | - Teofil Jesionowski
- Faculty of Chemical Technology, Institute of Chemical Technology and Engineering, Poznan University of Technology, 60-965 Poznan, Poland
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13
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Mansor M, Xu J. Benefits at the nanoscale: a review of nanoparticle-enabled processes favouring microbial growth and functionality. Environ Microbiol 2020; 22:3633-3649. [PMID: 32705763 DOI: 10.1111/1462-2920.15174] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2020] [Revised: 07/17/2020] [Accepted: 07/21/2020] [Indexed: 11/29/2022]
Abstract
Nanoparticles are ubiquitous and co-occur with microbial life in every environment on Earth. Interactions between microbes and nanoparticles impact the biogeochemical cycles via accelerating various reaction rates and enabling biological processes at the smallest scales. Distinct from microbe-mineral interactions at large, microbe-nanoparticle interactions may involve higher levels of active recognition and utilization of the reactive, changeable, and thereby 'moldable' nano-sized inorganic phases by microbes, which has been given minimal attention in previous reviews. Here we have compiled the various cases of microbe-nanoparticle interactions with clear and potential benefits to the microbial cells and communities. Specifically, we discussed (i) the high bioavailabilities of nanoparticles due to increased specific surface areas and size-dependent solubility, with a focus on environmentally-relevant iron(III) (oxyhydr)oxides and pyrite, (ii) microbial utilization of nanoparticles as 'nano-tools' for electron transfer, chemotaxis, and storage units, and (iii) speculated benefits of precipitating 'moldable' nanoparticles in extracellular biomineralization. We further discussed emergent questions concerning cellular level responses to nanoparticle-associated cues, and the factors that affect nanoparticles' bioavailabilities beyond size-dependent effects. We end the review by proposing a framework towards more quantitative approaches and by highlighting promising techniques to guide future research in this exciting field.
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Affiliation(s)
- Muammar Mansor
- Geomicrobiology, Center for Applied Geoscience, University of Tuebingen, Tuebingen, 72076, Germany
| | - Jie Xu
- Department of Geological Sciences, the University of Texas at El Paso, El Paso, Texas, 79968, USA
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14
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Liu Y, Sheng Y, Feng C, Chen N, Liu T. Distinct functional microbial communities mediating the heterotrophic denitrification in response to the excessive Fe(II) stress in groundwater under wheat-rice stone and rock phosphate amendments. ENVIRONMENTAL RESEARCH 2020; 185:109391. [PMID: 32240841 DOI: 10.1016/j.envres.2020.109391] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2020] [Revised: 03/11/2020] [Accepted: 03/12/2020] [Indexed: 06/11/2023]
Abstract
Denitrifying microbial community can be utilized for eliminating nitrate and Fe(II) combined contamination in groundwater, while excessive amount of Fe(II) limit the process. Natural mineral can be additional substrate for the microbial growth, whereas how it influences the microbial community that mediating the denitrification coupling with Fe(II) oxidation and balancing inhibition of excessive Fe(II) on denitrification remain unclear. In the present study, we conducted a series of microcosm experiments to explore the denitrification and Fe(II) oxidation kinetic, and used RNA-based qPCR and DNA-based high-throughput sequencing to elucidate microbial diversity, co-occurrence and metabolic profiles amended by wheat-rice stone and rock phosphate. The results showed that both minerals could extensively improve and double the denitrification rates (2.0 ± 0.03 to 2.12 ± 0.13 times), decrease the nitrite accumulation and trigger the high resistance of the denitrifiers from the stress of Fe(II), whereas only wheat-rice stone with higher surface area increased the oxidation of Fe(II) (<10%). The addition of both minerals enhanced the microbial alpha-diversity, shaped the beta-diversity and co-occurrence network, and recovered the transcription of nitrate and nitrite reductase (Nar, Nap, NirS, NirK) from the Fe(II) inhibition. Accordingly, heterotroph Methyloversatilis sp., Methylotenra sp. might contribute to the denitrification under wheat-rice stone amendment, Denitratisoma sp. contribute to the denitrification for rock phosphate, and Fe oxidation was partially catalyzed by Dechloromonas sp. or abiotically by the nitrite/nitrous oxide. These findings would be helpful for better understanding the bioremediation of nitrate and Fe contaminated groundwater.
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Affiliation(s)
- Ying Liu
- School of Water Resources and Environment, China University of Geosciences, Beijing, 100083, China; The Key Laboratory of Orogenic Belts and Crustal Evolution, School of Earth and Space Sciences, Peking University, Beijing, 100871, China
| | - Yizhi Sheng
- School of Environment, Tsinghua University, Beijing, 100084, China; Department of Geology and Environmental Earth Science, Miami University, OH, 45056, USA
| | - Chuanping Feng
- School of Water Resources and Environment, China University of Geosciences, Beijing, 100083, China.
| | - Nan Chen
- School of Water Resources and Environment, China University of Geosciences, Beijing, 100083, China
| | - Tong Liu
- School of Water Resources and Environment, China University of Geosciences, Beijing, 100083, China
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15
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Zaki SA, Eltarahony MM, Abd-El-Haleem DA. Disinfection of water and wastewater by biosynthesized magnetite and zerovalent iron nanoparticles via NAP-NAR enzymes of Proteus mirabilis 10B. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2019; 26:23661-23678. [PMID: 31201708 DOI: 10.1007/s11356-019-05479-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2019] [Accepted: 05/14/2019] [Indexed: 06/09/2023]
Abstract
Disinfection of water and wastewater strongly contributes to solving the problem of water shortage in arid/semi-arid areas; cheap and ecofriendly approaches have to be used to meet water quality standards. In the present study, a green synthesis of iron nanoparticles (INPs) under aerobic and anaerobic conditions via nitrate reductases (NAP/NAR) enzymes produced by Proteus mirabilis strain 10B were employed for this target. The biosynthesized INPs were characterized; UV-Vis spectroscopy revealed surface plasmon resonance at 410 (aerobic) and 265 nm (anaerobic). XRD indicated crystalline magnetite ((MNPs) aerobically synthesized) and zerovalent INPs (ZVINPs anaerobically synthesized). EDX demonstrated strong iron signal with atomic percentages 73.3% (MNPs) and 61.7% (ZVINPs). TEM micrographs illustrated tiny, spherical, periplasmic MNPs (1.44-1.92 nm) and cytoplasmic ZVINPs with 11.7-60.8 nm. Zeta potential recorded - 31.8 mV (ZVINPs) and - 66.4 mV (MNPs) affirming colloidal stability. Moreover, the disinfection power of INPs was evaluated for standards organisms and real water (fresh, sea and salt mine) and wastewater (municipal, agricultural and industrial) samples. The results reported that INPs displayed higher antagonistic effect than iron precursor, 700 and 850 μg/mL of MNPs and ZVINPs, respectively, was sufficient to show a drastic algicidal effect on algal growth. Both types of INPs demonstrated obvious dose-dependent antibiofilm efficiency. Due to their smaller size, MNPs were more efficient than ZVINPs at the suppression of microbial growth in all examined water samples. Overall, MNPs showed superior antagonistic activity, which promotes their exploitation in enhancing water/wastewater quality.
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Affiliation(s)
- Sahar A Zaki
- Environmental Biotechnology Department, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications, 21934, New Borg El-Arab City, Alexandria, Egypt.
| | - Marwa Moustafa Eltarahony
- Environmental Biotechnology Department, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications, 21934, New Borg El-Arab City, Alexandria, Egypt
| | - Desouky A Abd-El-Haleem
- Environmental Biotechnology Department, Genetic Engineering and Biotechnology Research Institute, City of Scientific Research and Technological Applications, 21934, New Borg El-Arab City, Alexandria, Egypt
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16
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Sarret G, Guédron S, Acha D, Bureau S, Arnaud-Godet F, Tisserand D, Goni-Urriza M, Gassie C, Duwig C, Proux O, Aucour AM. Extreme Arsenic Bioaccumulation Factor Variability in Lake Titicaca, Bolivia. Sci Rep 2019; 9:10626. [PMID: 31337829 PMCID: PMC6650431 DOI: 10.1038/s41598-019-47183-8] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2018] [Accepted: 06/17/2019] [Indexed: 11/09/2022] Open
Abstract
Latin America, like other areas in the world, is faced with the problem of high arsenic (As) background in surface and groundwater, with impacts on human health. We studied As biogeochemical cycling by periphyton in Lake Titicaca and the mine-impacted Lake Uru Uru. As concentration was measured in water, sediment, totora plants (Schoenoplectus californicus) and periphyton growing on stems, and As speciation was determined by X-ray absorption spectroscopy in bulk and EDTA-extracted periphyton. Dissolved arsenic was between 5.0 and 15 μg L−1 in Lake Titicaca and reached 78.5 μg L−1 in Lake Uru Uru. As accumulation in periphyton was highly variable. We report the highest As bioaccumulation factors ever measured (BAFsperiphyton up to 245,000) in one zone of Lake Titicaca, with As present as As(V) and monomethyl-As (MMA(V)). Non-accumulating periphyton found in the other sites presented BAFsperiphyton between 1281 and 11,962, with As present as As(III), As(V) and arsenosugars. DNA analysis evidenced several taxa possibly related to this phenomenon. Further screening of bacterial and algal isolates would be necessary to identify the organism(s) responsible for As hyperaccumulation. Impacts on the ecosystem and human health appear limited, but such organisms or consortia would be of great interest for the treatment of As contaminated water.
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Affiliation(s)
- Géraldine Sarret
- ISTerre (Institut des Sciences de la Terre), Univ. Grenoble Alpes, CNRS, IRD, IFFSTAR, Univ. Savoie Mont Blanc, 38000, Grenoble, France.
| | - Stéphane Guédron
- ISTerre (Institut des Sciences de la Terre), Univ. Grenoble Alpes, CNRS, IRD, IFFSTAR, Univ. Savoie Mont Blanc, 38000, Grenoble, France
| | - Dario Acha
- Instituto de Ecología, Unidad de Calidad Ambiental (UCA), Carrera de Biología, Universidad Mayor de San Andrés, Campus Universitario de Cota Cota, casilla La Paz, 10077, Bolivia
| | - Sarah Bureau
- ISTerre (Institut des Sciences de la Terre), Univ. Grenoble Alpes, CNRS, IRD, IFFSTAR, Univ. Savoie Mont Blanc, 38000, Grenoble, France
| | - Florent Arnaud-Godet
- Université Lyon 1, ENS de Lyon, CNRS, UMR 5276 LGL-TPE, F-69622, Villeurbanne, France
| | - Delphine Tisserand
- ISTerre (Institut des Sciences de la Terre), Univ. Grenoble Alpes, CNRS, IRD, IFFSTAR, Univ. Savoie Mont Blanc, 38000, Grenoble, France
| | - Marisol Goni-Urriza
- Environmental Microbiology, CNRS/ UNIV PAU & PAYS ADOUR/E2S UPPA, Institut des sciences analytiques et de physicochimie pour l'environnement et les matériaux, IPREM, UMR5254, Pau, France
| | - Claire Gassie
- Environmental Microbiology, CNRS/ UNIV PAU & PAYS ADOUR/E2S UPPA, Institut des sciences analytiques et de physicochimie pour l'environnement et les matériaux, IPREM, UMR5254, Pau, France
| | - Céline Duwig
- Univ. Grenoble Alpes, CNRS, IRD, IGE, Grenoble, F-38 000, France
| | - Olivier Proux
- OSUG (Observatoire des Sciences de l'Univers de Grenoble), Univ. Grenoble Alpes, CNRS, IRD, 38041, Grenoble, France
| | - Anne-Marie Aucour
- Université Lyon 1, ENS de Lyon, CNRS, UMR 5276 LGL-TPE, F-69622, Villeurbanne, France
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17
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Newsome L, Lopez Adams R, Downie HF, Moore KL, Lloyd JR. NanoSIMS imaging of extracellular electron transport processes during microbial iron(III) reduction. FEMS Microbiol Ecol 2019; 94:5033680. [PMID: 29878195 PMCID: PMC6041951 DOI: 10.1093/femsec/fiy104] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2018] [Accepted: 06/05/2018] [Indexed: 01/25/2023] Open
Abstract
Microbial iron(III) reduction can have a profound effect on the fate of contaminants in natural and engineered environments. Different mechanisms of extracellular electron transport are used by Geobacter and Shewanella spp. to reduce insoluble Fe(III) minerals. Here we prepared a thin film of iron(III)-(oxyhydr)oxide doped with arsenic, and allowed the mineral coating to be colonised by Geobacter sulfurreducens or Shewanella ANA3 labelled with 13C from organic electron donors. This preserved the spatial relationship between metabolically active Fe(III)-reducing bacteria and the iron(III)-(oxyhydr)oxide that they were respiring. NanoSIMS imaging showed cells of G. sulfurreducens were co-located with the iron(III)-(oxyhydr)oxide surface and were significantly more 13C-enriched compared to cells located away from the mineral, consistent with Geobacter species requiring direct contact with an extracellular electron acceptor to support growth. There was no such intimate relationship between 13C-enriched S. ANA3 and the iron(III)-(oxyhydr)oxide surface, consistent with Shewanella species being able to reduce Fe(III) indirectly using a secreted endogenous mediator. Some differences were observed in the amount of As relative to Fe in the local environment of G. sulfurreducens compared to the bulk mineral, highlighting the usefulness of this type of analysis for probing interactions between microbial cells and Fe-trace metal distributions in biogeochemical experiments.
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Affiliation(s)
- Laura Newsome
- Williamson Research Centre, School of Earth and Environmental Sciences, University of Manchester, Manchester, M13 9PL, UK
| | - Rebeca Lopez Adams
- Williamson Research Centre, School of Earth and Environmental Sciences, University of Manchester, Manchester, M13 9PL, UK
| | - Helen F Downie
- Williamson Research Centre, School of Earth and Environmental Sciences, University of Manchester, Manchester, M13 9PL, UK
| | - Katie L Moore
- School of Materials, University of Manchester, Manchester, M13 9PL, UK.,Photon Science Institute, University of Manchester, Manchester, M13 9PL, UK
| | - Jonathan R Lloyd
- Williamson Research Centre, School of Earth and Environmental Sciences, University of Manchester, Manchester, M13 9PL, UK
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18
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Chandramohan A, Duprat E, Remusat L, Zirah S, Lombard C, Kish A. Novel Mechanism for Surface Layer Shedding and Regenerating in Bacteria Exposed to Metal-Contaminated Conditions. Front Microbiol 2019; 9:3210. [PMID: 30697196 PMCID: PMC6341005 DOI: 10.3389/fmicb.2018.03210] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2018] [Accepted: 12/11/2018] [Indexed: 12/17/2022] Open
Abstract
Surface layers (S-layers) are components of the cell walls throughout the Bacteria and the Archaea that provide protection for microorganisms against diverse environmental stresses, including metal stress. We have previously characterized the process by which S-layers serve as a nucleation site for metal mineralization in an archaeon for which the S-layer represents the only cell wall component. Here, we test the hypothesis originally proposed in cyanobacteria that a “shedding” mechanism exists for replacing S-layers that have become mineral-encrusted, using Lysinibacillus sp. TchIII 20n38, metallotolerant gram-positive bacterium, as a model organism. We characterize for the first time a mechanism for resistance to metals through S-layer shedding and regeneration. S-layers nucleate the formation of Fe-mineral on the cell surface, depending on physiological state of the cells and metal exposure times, leading to the encrustation of the S-layer and changes in the cell morphology as observed by scanning electron microscopy. Using Nanoscale Secondary Ion Mass Spectrometry, we show that mineral-encrusted S-layers are shed by the bacterial cells after a period of latency (2 days under the conditions tested) in a heterogeneous fashion likely reflecting natural variations in metal stress resistance. The emerging cells regenerate new S-layers as part of their cell wall structure. Given the wide diversity of S-layer bearing prokaryotes, S-layer shedding may represent an important mechanism for microbial survival in metal-contaminated environments.
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Affiliation(s)
- Archjana Chandramohan
- Unité Molécules de Communication et Adaptation des Microorganismes (MCAM), Muséum National d'Histoire Naturelle, CNRS UMR 7245, Paris, France
| | - Elodie Duprat
- Institut de Minéralogie, Physique des Matériaux et de Cosmochimie (IMPMC), Sorbonne Université, Muséum National d'Histoire Naturelle, CNRS UMR 7590, IRD UMR 206, Paris, France
| | - Laurent Remusat
- Institut de Minéralogie, Physique des Matériaux et de Cosmochimie (IMPMC), Sorbonne Université, Muséum National d'Histoire Naturelle, CNRS UMR 7590, IRD UMR 206, Paris, France
| | - Severine Zirah
- Unité Molécules de Communication et Adaptation des Microorganismes (MCAM), Muséum National d'Histoire Naturelle, CNRS UMR 7245, Paris, France
| | - Carine Lombard
- Unité Molécules de Communication et Adaptation des Microorganismes (MCAM), Muséum National d'Histoire Naturelle, CNRS UMR 7245, Paris, France
| | - Adrienne Kish
- Unité Molécules de Communication et Adaptation des Microorganismes (MCAM), Muséum National d'Histoire Naturelle, CNRS UMR 7245, Paris, France
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Bryce C, Blackwell N, Schmidt C, Otte J, Huang YM, Kleindienst S, Tomaszewski E, Schad M, Warter V, Peng C, Byrne JM, Kappler A. Microbial anaerobic Fe(II) oxidation - Ecology, mechanisms and environmental implications. Environ Microbiol 2018; 20:3462-3483. [DOI: 10.1111/1462-2920.14328] [Citation(s) in RCA: 104] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2018] [Revised: 06/15/2018] [Accepted: 06/16/2018] [Indexed: 11/30/2022]
Affiliation(s)
- Casey Bryce
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Nia Blackwell
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | | | - Julia Otte
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Yu-Ming Huang
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | | | | | - Manuel Schad
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Viola Warter
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Chao Peng
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - James M. Byrne
- Geomicrobiology; University of Tübingen; Tübingen Germany
| | - Andreas Kappler
- Geomicrobiology; University of Tübingen; Tübingen Germany
- Center for Geomicrobiology, Department of Bioscience; Aarhus University; Aarhus Denmark
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Draft Genome Sequences of the Nitrate-Dependent Iron-Oxidizing Proteobacteria Acidovorax sp. Strain BoFeN1 and Paracoccus pantotrophus Strain KS1. Microbiol Resour Announc 2018; 7:MRA01050-18. [PMID: 30533623 PMCID: PMC6256601 DOI: 10.1128/mra.01050-18] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2018] [Accepted: 08/15/2018] [Indexed: 12/03/2022] Open
Abstract
The draft genomes of the nitrate-dependent iron-oxidizing bacteria Acidovorax sp. strain BoFeN1 and Paracoccus pantotrophus strain KS1 are presented. The draft genomes of the nitrate-dependent iron-oxidizing bacteria Acidovorax sp. strain BoFeN1 and Paracoccus pantotrophus strain KS1 are presented. These genomes supply supporting data to investigations of the mechanisms underlying this anaerobic form of microbial biogeochemical iron cycling.
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21
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Jamieson J, Prommer H, Kaksonen AH, Sun J, Siade AJ, Yusov A, Bostick B. Identifying and Quantifying the Intermediate Processes during Nitrate-Dependent Iron(II) Oxidation. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2018; 52:5771-5781. [PMID: 29676145 PMCID: PMC6427828 DOI: 10.1021/acs.est.8b01122] [Citation(s) in RCA: 54] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Microbially driven nitrate-dependent iron (Fe) oxidation (NDFO) in subsurface environments has been intensively studied. However, the extent to which Fe(II) oxidation is biologically catalyzed remains unclear because no neutrophilic iron-oxidizing and nitrate reducing autotroph has been isolated to confirm the existence of an enzymatic pathway. While mixotrophic NDFO bacteria have been isolated, understanding the process is complicated by simultaneous abiotic oxidation due to nitrite produced during denitrification. In this study, the relative contributions of biotic and abiotic processes during NDFO were quantified through the compilation and model-based interpretation of previously published experimental data. The kinetics of chemical denitrification by Fe(II) (chemodenitrification) were assessed, and compelling evidence was found for the importance of organic ligands, specifically exopolymeric substances secreted by bacteria, in enhancing abiotic oxidation of Fe(II). However, nitrite alone could not explain the observed magnitude of Fe(II) oxidation, with 60-75% of overall Fe(II) oxidation attributed to an enzymatic pathway for investigated strains: Acidovorax ( A.) strain BoFeN1, 2AN, A. ebreus strain TPSY, Paracoccus denitrificans Pd 1222, and Pseudogulbenkiania sp. strain 2002. By rigorously quantifying the intermediate processes, this study eliminated the potential for abiotic Fe(II) oxidation to be exclusively responsible for NDFO and verified the key contribution from an additional, biological Fe(II) oxidation process catalyzed by NDFO bacteria.
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Affiliation(s)
- James Jamieson
- School of Earth Sciences, University of Western Australia, Crawley, Western Australia 6009, Australia
- CSIRO Land and Water, Private Bag No. 5, Wembley, Western Australia 6913, Australia
| | - Henning Prommer
- School of Earth Sciences, University of Western Australia, Crawley, Western Australia 6009, Australia
- National Centre for Groundwater Research and Training, Adelaide, South Australia 5001, Australia
- CSIRO Land and Water, Private Bag No. 5, Wembley, Western Australia 6913, Australia
- Corresponding Author: .
| | - Anna H. Kaksonen
- CSIRO Land and Water, Private Bag No. 5, Wembley, Western Australia 6913, Australia
- School of Pathology and Laboratory Medicine, University of Western Australia, Crawley, Western Australia 6009, Australia
| | - Jing Sun
- School of Earth Sciences, University of Western Australia, Crawley, Western Australia 6009, Australia
- CSIRO Land and Water, Private Bag No. 5, Wembley, Western Australia 6913, Australia
| | - Adam J. Siade
- School of Earth Sciences, University of Western Australia, Crawley, Western Australia 6009, Australia
- National Centre for Groundwater Research and Training, Adelaide, South Australia 5001, Australia
- CSIRO Land and Water, Private Bag No. 5, Wembley, Western Australia 6913, Australia
| | - Anna Yusov
- Department of Chemistry, Barnard College, 3009 Broadway, New York, New York 10027, United States
| | - Benjamin Bostick
- Lamont-Doherty Earth Observatory, PO Box 1000, 61 Route 9W, Palisades, New York 10964, United States
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22
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Zimmermann M, Escrig S, Lavik G, Kuypers MMM, Meibom A, Ackermann M, Schreiber F. Substrate and electron donor limitation induce phenotypic heterogeneity in different metabolic activities in a green sulphur bacterium. ENVIRONMENTAL MICROBIOLOGY REPORTS 2018; 10:179-183. [PMID: 29393582 DOI: 10.1111/1758-2229.12616] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2017] [Revised: 10/13/2017] [Accepted: 01/14/2018] [Indexed: 06/07/2023]
Abstract
Populations of genetically identical cells can display marked variation in phenotypic traits; such variation is termed phenotypic heterogeneity. Here, we investigate the effect of substrate and electron donor limitation on phenotypic heterogeneity in N2 and CO2 fixation in the green sulphur bacterium Chlorobium phaeobacteroides. We grew populations in chemostats and batch cultures and used stable isotope labelling combined with nanometer-scale secondary ion mass spectrometry (NanoSIMS) to quantify phenotypic heterogeneity. Experiments in H2 S (i.e. electron donor) limited chemostats show that varying levels of NH4+ limitation induce heterogeneity in N2 fixation. Comparison of phenotypic heterogeneity between chemostats and batch (unlimited for H2 S) populations indicates that electron donor limitation drives heterogeneity in N2 and CO2 fixation. Our results demonstrate that phenotypic heterogeneity in a certain metabolic activity can be driven by different modes of limitation and that heterogeneity can emerge in different metabolic processes upon the same mode of limitation. In conclusion, our data suggest that limitation is a general driver of phenotypic heterogeneity in microbial populations.
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Affiliation(s)
- M Zimmermann
- Department of Environmental Systems Science, ETH Zurich - Swiss Federal Institute of Technology, Zurich, Switzerland
- Department of Environmental Microbiology, Eawag - Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
| | - S Escrig
- Laboratory for Biological Geochemistry, School of Architecture, Civil and Environmental Engineering (ENAC), École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - G Lavik
- Department of Biogeochemistry, Max Planck Institute for Marine Microbiology, Bremen, Germany
| | - M M M Kuypers
- Department of Biogeochemistry, Max Planck Institute for Marine Microbiology, Bremen, Germany
| | - A Meibom
- Laboratory for Biological Geochemistry, School of Architecture, Civil and Environmental Engineering (ENAC), École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- Center for Advanced Surface Analysis, Institute of Earth Sciences, University of Lausanne, Lausanne, Switzerland
| | - M Ackermann
- Department of Environmental Systems Science, ETH Zurich - Swiss Federal Institute of Technology, Zurich, Switzerland
- Department of Environmental Microbiology, Eawag - Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
| | - F Schreiber
- Department of Environmental Systems Science, ETH Zurich - Swiss Federal Institute of Technology, Zurich, Switzerland
- Department of Environmental Microbiology, Eawag - Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
- Division Biodeterioration and Reference Organisms, Department of Materials and Environment, Federal Institute for Materials Research and Testing (BAM), Berlin, Germany
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23
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Price A, Pearson VK, Schwenzer SP, Miot J, Olsson-Francis K. Nitrate-Dependent Iron Oxidation: A Potential Mars Metabolism. Front Microbiol 2018; 9:513. [PMID: 29616015 PMCID: PMC5869265 DOI: 10.3389/fmicb.2018.00513] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2017] [Accepted: 03/06/2018] [Indexed: 11/13/2022] Open
Abstract
This work considers the hypothetical viability of microbial nitrate-dependent Fe2+ oxidation (NDFO) for supporting simple life in the context of the early Mars environment. This draws on knowledge built up over several decades of remote and in situ observation, as well as recent discoveries that have shaped current understanding of early Mars. Our current understanding is that certain early martian environments fulfill several of the key requirements for microbes with NDFO metabolism. First, abundant Fe2+ has been identified on Mars and provides evidence of an accessible electron donor; evidence of anoxia suggests that abiotic Fe2+ oxidation by molecular oxygen would not have interfered and competed with microbial iron metabolism in these environments. Second, nitrate, which can be used by some iron oxidizing microorganisms as an electron acceptor, has also been confirmed in modern aeolian and ancient sediment deposits on Mars. In addition to redox substrates, reservoirs of both organic and inorganic carbon are available for biosynthesis, and geochemical evidence suggests that lacustrine systems during the hydrologically active Noachian period (4.1-3.7 Ga) match the circumneutral pH requirements of nitrate-dependent iron-oxidizing microorganisms. As well as potentially acting as a primary producer in early martian lakes and fluvial systems, the light-independent nature of NDFO suggests that such microbes could have persisted in sub-surface aquifers long after the desiccation of the surface, provided that adequate carbon and nitrates sources were prevalent. Traces of NDFO microorganisms may be preserved in the rock record by biomineralization and cellular encrustation in zones of high Fe2+ concentrations. These processes could produce morphological biosignatures, preserve distinctive Fe-isotope variation patterns, and enhance preservation of biological organic compounds. Such biosignatures could be detectable by future missions to Mars with appropriate instrumentation.
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Affiliation(s)
- Alex Price
- Faculty of Science, Technology, Engineering and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Victoria K. Pearson
- Faculty of Science, Technology, Engineering and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Susanne P. Schwenzer
- Faculty of Science, Technology, Engineering and Mathematics, The Open University, Milton Keynes, United Kingdom
| | - Jennyfer Miot
- CNRS, Institut de Minéralogie, de Physique des Matériaux et de Cosmochimie, Muséum National d’Histoire Naturelle, Université Pierre et Marie Curie – Sorbonne Universités, UMR 7590, Paris, France
| | - Karen Olsson-Francis
- Faculty of Science, Technology, Engineering and Mathematics, The Open University, Milton Keynes, United Kingdom
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Sánchez-España J, Wang K, Falagán C, Yusta I, Burgos WD. Microbially mediated aluminosilicate formation in acidic anaerobic environments: A cell-scale chemical perspective. GEOBIOLOGY 2018; 16:88-103. [PMID: 29322690 DOI: 10.1111/gbi.12269] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2017] [Accepted: 11/06/2017] [Indexed: 06/07/2023]
Abstract
Through the use of scanning transmission electron microscopy (STEM) combined with other complementary techniques (SEM, cryo-TEM, HRTEM, and EELS), we have studied the interaction of microorganisms inhabiting deep anoxic waters of acidic pit lakes with dissolved aluminum, silica, sulfate, and ferrous iron. These elements were close to saturation (Al, SiO2 ) or present at very high concentrations (0.12 m Fe(II), 0.12-0.22 m SO42- ) in the studied systems. The anaerobic conditions of these environments allowed investigation of geomicrobial interactions that are difficult to see in oxidized, Fe(III)-rich environments. Detailed chemical maps and through-cell line scans suggest both extra- and intracellular accumulation of Al, Si, S, and Fe(II) in rod-like cells and other structures (e.g., spherical particles and bacteriomorphs) of probable microbial origin. The bacterial rods showed external nanometric coatings of adsorbed Fe(II) and Al on the cell surface and cell interiors with significant presence of Al, Si, and S. These microbial cells coexist with spherical particles showing similar configuration (Fe(II) external coatings and [Al, Si, S]-rich cores). The Al:Si and Al:S ratios and the good Al-Si correlation in the cell interiors suggest the concurrent formation of two amorphous phases, namely a proto-aluminosilicate with imogolite-like composition and proto-hydrobasaluminite. In both cases, the mineralization appears to comprise two stages: a first stage of aluminosilicate and Al-hydroxysulfate precipitation within the cell or around cellular exudates, and a second stage of SO42- and Fe(II) adsorption on surface sites existing on the mineral phases in the case of (SO42- ) or on presumed organic molecules [in the case of Fe(II)]. These microbially related solids could have been formed by permineralization and mineral replacement of senescent microbial cells. However, these features could also denote biomineralization by active bacterial cells as a detoxification mechanism, a possibility which should be further explored. We discuss the significance of the observed Al/microbe and Si/microbe interactions and the implications for clay mineral formation at low pH.
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Affiliation(s)
- J Sánchez-España
- Environmental Hydrogeochemistry, Geological Survey of Spain (IGME), Madrid, Spain
- Department of Geological Resources, Geological Survey of Spain (IGME), Madrid, Spain
| | - K Wang
- Materials Characterization Laboratory (MCL), The Pennsylvania State University, University Park, PA, USA
| | - C Falagán
- College of Natural Sciences, Bangor University, Bangor, UK
| | - I Yusta
- Department of Mineralogy and Petrology, Faculty of Science and Technology, The Basque Country University (UPV/EHU), Bilbao, Spain
| | - W D Burgos
- Department of Civil and Environmental Engineering, The Pennsylvania State University, University Park, PA, USA
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25
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Cam N, Benzerara K, Georgelin T, Jaber M, Lambert JF, Poinsot M, Skouri-Panet F, Moreira D, López-García P, Raimbault E, Cordier L, Jézéquel D. Cyanobacterial formation of intracellular Ca-carbonates in undersaturated solutions. GEOBIOLOGY 2018; 16:49-61. [PMID: 29076282 DOI: 10.1111/gbi.12261] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 09/01/2017] [Indexed: 06/07/2023]
Abstract
Cyanobacteria have long been thought to induce the formation of Ca-carbonates as secondary by-products of their metabolic activity, by shifting the chemical composition of their extracellular environment to conditions favoring mineral precipitation. Some cyanobacterial species forming Ca-carbonates intracellularly were recently discovered. However, the environmental conditions under which this intracellular biomineralization process can occur and the impact of cyanobacterial species forming Ca-carbonates intracellularly on extracellular carbonatogenesis are not known. Here, we show that these cyanobacteria can form Ca-carbonates intracellularly while growing in extracellular solutions undersaturated with respect to all Ca-carbonate phases, that is, conditions thermodynamically unfavorable to mineral precipitation. This shows that intracellular Ca-carbonate biomineralization is an active process; that is, it costs energy provided by the cells. The cost of energy may be due to the active accumulation of Ca intracellularly. Moreover, unlike cyanobacterial strains that have been usually considered before by studies on Ca-carbonate biomineralization, cyanobacteria forming intracellular carbonates may slow down or hamper extracellular carbonatogenesis, by decreasing the saturation index of their extracellular solution following the buffering of the concentration of extracellular calcium to low levels.
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Affiliation(s)
- N Cam
- Institut de Minéralogie, de Physique des Matériaux, et de Cosmochimie (IMPMC), UMR CNRS 7590, Muséum National d'Histoire Naturelle, IRD UMR 206, Sorbonne Universités, UPMC Univ Paris 6, Paris, France
- Laboratoire de Réactivité de Surface (LRS), UMR CNRS 7197, Sorbonne Universités, UPMC Univ Paris 6, Paris, France
| | - K Benzerara
- Institut de Minéralogie, de Physique des Matériaux, et de Cosmochimie (IMPMC), UMR CNRS 7590, Muséum National d'Histoire Naturelle, IRD UMR 206, Sorbonne Universités, UPMC Univ Paris 6, Paris, France
| | - T Georgelin
- Laboratoire de Réactivité de Surface (LRS), UMR CNRS 7197, Sorbonne Universités, UPMC Univ Paris 6, Paris, France
| | - M Jaber
- Laboratoire d'Archéologie Moléculaire et Structurale (LAMS), Sorbonne Universités, UMR CNRS 8220, UPMC Univ Paris 6, Paris, France
| | - J-F Lambert
- Laboratoire de Réactivité de Surface (LRS), UMR CNRS 7197, Sorbonne Universités, UPMC Univ Paris 6, Paris, France
| | - M Poinsot
- Institut de Minéralogie, de Physique des Matériaux, et de Cosmochimie (IMPMC), UMR CNRS 7590, Muséum National d'Histoire Naturelle, IRD UMR 206, Sorbonne Universités, UPMC Univ Paris 6, Paris, France
| | - F Skouri-Panet
- Institut de Minéralogie, de Physique des Matériaux, et de Cosmochimie (IMPMC), UMR CNRS 7590, Muséum National d'Histoire Naturelle, IRD UMR 206, Sorbonne Universités, UPMC Univ Paris 6, Paris, France
| | - D Moreira
- Unité d'Ecologie, Systématique et Evolution, CNRS UMR 8079, AgroParisTech, Université Paris-Sud/Paris-Saclay, Orsay, France
| | - P López-García
- Unité d'Ecologie, Systématique et Evolution, CNRS UMR 8079, AgroParisTech, Université Paris-Sud/Paris-Saclay, Orsay, France
| | - E Raimbault
- Institut de Physique du Globe de Paris (IPGP), Sorbonne Paris Cité-Université Paris Diderot, UMR CNRS 7154, Paris Cedex 05, France
| | - L Cordier
- Institut de Physique du Globe de Paris (IPGP), Sorbonne Paris Cité-Université Paris Diderot, UMR CNRS 7154, Paris Cedex 05, France
| | - D Jézéquel
- Institut de Physique du Globe de Paris (IPGP), Sorbonne Paris Cité-Université Paris Diderot, UMR CNRS 7154, Paris Cedex 05, France
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NanoSIMS chemical imaging combined with correlative microscopy for biological sample analysis. Curr Opin Biotechnol 2016; 41:130-135. [PMID: 27506876 DOI: 10.1016/j.copbio.2016.06.006] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2016] [Revised: 06/17/2016] [Accepted: 06/23/2016] [Indexed: 12/18/2022]
Abstract
Nano-scale Secondary Ion Mass Spectrometry (NanoSIMS) is one of the most powerful in situ elemental and isotopic analysis techniques available to biologists. The combination of stable isotope probing with NanoSIMS (nanoSIP) has opened up new avenues for biological studies over the past decade. However, due to limitations inherent with any analytical methodology, additional information from correlative techniques is usually required to address real biological questions. Here we review recent developments in correlative analysis applied to complex biological systems: first, high-resolution tracking of molecules (e.g. peptides, lipids) by correlation with electron microscopy and atomic force microscopy; second, identification of a specific microbial taxon with fluorescence in situ hybridization and quantification of its metabolic capacities; and, third, molecular specific imaging with new probes.
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27
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Preservation of Archaeal Surface Layer Structure During Mineralization. Sci Rep 2016; 6:26152. [PMID: 27221593 PMCID: PMC4879539 DOI: 10.1038/srep26152] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2015] [Accepted: 04/21/2016] [Indexed: 12/18/2022] Open
Abstract
Proteinaceous surface layers (S-layers) are highly ordered, crystalline structures commonly found in prokaryotic cell envelopes that augment their structural stability and modify interactions with metals in the environment. While mineral formation associated with S-layers has previously been noted, the mechanisms were unconstrained. Using Sulfolobus acidocaldarius a hyperthermophilic archaeon native to metal-enriched environments and possessing a cell envelope composed only of a S-layer and a lipid cell membrane, we describe a passive process of iron phosphate nucleation and growth within the S-layer of cells and cell-free S-layer "ghosts" during incubation in a Fe-rich medium, independently of metabolic activity. This process followed five steps: (1) initial formation of mineral patches associated with S-layer; (2) patch expansion; (3) patch connection; (4) formation of a continuous mineral encrusted layer at the cell surface; (5) early stages of S-layer fossilization via growth of the extracellular mineralized layer and the mineralization of cytosolic face of the cell membrane. At more advanced stages of encrustation, encrusted outer membrane vesicles are formed, likely in an attempt to remove damaged S-layer proteins. The S-layer structure remains strikingly well preserved even upon the final step of encrustation, offering potential biosignatures to be looked for in the fossil record.
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