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Concepción A, Ricardo A, Enrique SL. Biodegradation of Choline NTF 2 by Pantoea agglomerans in Different Osmolarity. Characterization and Environmental Implications of the Produced Exopolysaccharide. Polymers (Basel) 2023; 15:3974. [PMID: 37836024 PMCID: PMC10575057 DOI: 10.3390/polym15193974] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 09/24/2023] [Accepted: 09/30/2023] [Indexed: 10/15/2023] Open
Abstract
A specific microorganism, Pantoea agglomerans uam8, was isolated from the ionic liquid (IL) Choline NTF2 and identified by molecular biology. A biodegradation study was performed at osmolarity conditions (0.2, 0.6, 1.0 M). These had an important influence on the growth of the strain, exopolysaccharide (EPS) production, and biodegradation (1303 mg/L max production and 80% biodegradation at 0.6 M). These conditions also had an important influence on the morphology of the strain and its EPSs, but not in the chemical composition. The EPS (glucose, mannose and galactose (6:0.5:2)) produced at 0.6 M was further characterized using different techniques. The obtained EPSs presented important differences in the behavior of the emulsifying activity for vegetable oils (olive (86%), sunflower (56%) and coconut (90%)) and hydrocarbons (diesel (62%), hexane (60%)), and were compared with commercial emulsifiers. The EPS produced at 0.6 M had the highest emulsifying activity overall. This EPS did not show cytotoxicity against the tested cell line (<20%) and presented great advantages as an antioxidant (1,1-diphenyl-2-picryl-hydrazyl radical (DPPH) (85%), hydroxyl radical (OH) (99%), superoxide anion (O2-) (94%), chelator (54%), and antimicrobial product (15 mm). The osmolarity conditions directly affected the capacity of the strain to biodegrade IL and the subsequently produced EPS. Furthermore, the EPS produced at 0.6 M has potential for environmental applications, such as the removal of hazardous materials by emulsification, whilst resulting in positive health effects such as antioxidant activity and non-toxicity.
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Affiliation(s)
- Abrusci Concepción
- Departamento de Biología Molecular, Facultad de Ciencias, Universidad Autónoma de Madrid, UAM, Cantoblanco, 28049 Madrid, Spain (S.-L.E.)
- Centro de Biología Molecular Severo Ochoa, CSIC-UAM, 28049 Madrid, Spain
| | - Amils Ricardo
- Departamento de Biología Molecular, Facultad de Ciencias, Universidad Autónoma de Madrid, UAM, Cantoblanco, 28049 Madrid, Spain (S.-L.E.)
- Centro de Biología Molecular Severo Ochoa, CSIC-UAM, 28049 Madrid, Spain
| | - Sánchez-León Enrique
- Departamento de Biología Molecular, Facultad de Ciencias, Universidad Autónoma de Madrid, UAM, Cantoblanco, 28049 Madrid, Spain (S.-L.E.)
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Chang W, Wang X, Zheng H, Cui T, Qian H, Lou Y, Gao J, Zhang S, Guo D. Extracellular Electron Transfer in Microbiologically Influenced Corrosion of 201 Stainless Steel by Shewanella algae. MATERIALS (BASEL, SWITZERLAND) 2023; 16:5209. [PMID: 37569913 PMCID: PMC10419932 DOI: 10.3390/ma16155209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2023] [Revised: 07/11/2023] [Accepted: 07/15/2023] [Indexed: 08/13/2023]
Abstract
The microbiologically influenced corrosion of 201 stainless steel by Shewanella algae was investigated via modulating the concentration of fumarate (electron acceptor) in the medium and constructing mutant strains induced by ΔOmcA. The ICP-MS and electrochemical tests showed that the presence of S. algae enhanced the degradation of the passive film; the lack of an electron acceptor further aggravated the effect and mainly affected the early stage of MIC. The electrochemical tests and atomic force microscopy characterization revealed that the ability of ΔOmcA to transfer electrons to the passive film was significantly reduced in the absence of the c-type cytochrome OmcA related to EET progress, leading to the lower corrosion rate of the steel.
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Affiliation(s)
- Weiwei Chang
- National Materials Corrosion and Protection Data Center, Institute for Advanced Materials and Technology, University of Science and Technology Beijing, Beijing 100083, China; (W.C.)
- BRI Southeast Asia Network for Corrosion and Protection (MOE), Shunde Graduate School of University of Science and Technology Beijing, Foshan 528399, China
| | - Xiaohan Wang
- Shanghai Aerospace Equipments Manufacturer Co., Ltd., Shanghai 200245, China
| | - Huaibei Zheng
- State Key Laboratory of Metal Material for Marine Equipment and Application, Anshan 114002, China
| | - Tianyu Cui
- National Materials Corrosion and Protection Data Center, Institute for Advanced Materials and Technology, University of Science and Technology Beijing, Beijing 100083, China; (W.C.)
- BRI Southeast Asia Network for Corrosion and Protection (MOE), Shunde Graduate School of University of Science and Technology Beijing, Foshan 528399, China
| | - Hongchang Qian
- National Materials Corrosion and Protection Data Center, Institute for Advanced Materials and Technology, University of Science and Technology Beijing, Beijing 100083, China; (W.C.)
- BRI Southeast Asia Network for Corrosion and Protection (MOE), Shunde Graduate School of University of Science and Technology Beijing, Foshan 528399, China
| | - Yuntian Lou
- National Materials Corrosion and Protection Data Center, Institute for Advanced Materials and Technology, University of Science and Technology Beijing, Beijing 100083, China; (W.C.)
- BRI Southeast Asia Network for Corrosion and Protection (MOE), Shunde Graduate School of University of Science and Technology Beijing, Foshan 528399, China
| | - Jianguo Gao
- National Materials Corrosion and Protection Data Center, Institute for Advanced Materials and Technology, University of Science and Technology Beijing, Beijing 100083, China; (W.C.)
- BRI Southeast Asia Network for Corrosion and Protection (MOE), Shunde Graduate School of University of Science and Technology Beijing, Foshan 528399, China
| | - Shuyuan Zhang
- National Materials Corrosion and Protection Data Center, Institute for Advanced Materials and Technology, University of Science and Technology Beijing, Beijing 100083, China; (W.C.)
- BRI Southeast Asia Network for Corrosion and Protection (MOE), Shunde Graduate School of University of Science and Technology Beijing, Foshan 528399, China
| | - Dawei Guo
- Institute for the Development and Quality Macau, Macau 999078, China
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Shen J, Liu Y, Qiao L. Photodriven Chemical Synthesis by Whole-Cell-Based Biohybrid Systems: From System Construction to Mechanism Study. ACS APPLIED MATERIALS & INTERFACES 2023; 15:6235-6259. [PMID: 36702806 DOI: 10.1021/acsami.2c19528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
By simulating natural photosynthesis, the desirable high-value chemical products and clean fuels can be sustainably generated with solar energy. Whole-cell-based photosensitized biohybrid system, which innovatively couples the excellent light-harvesting capacity of semiconductor materials with the efficient catalytic ability of intracellular biocatalysts, is an appealing interdisciplinary creature to realize photodriven chemical synthesis. In this review, we summarize the constructed whole-cell-based biohybrid systems in different application fields, including carbon dioxide fixation, nitrogen fixation, hydrogen production, and other chemical synthesis. Moreover, we elaborate the charge transfer mechanism studies of representative biohybrids, which can help to deepen the current understanding of the synergistic process between photosensitizers and microorganisms, and provide schemes for building novel biohybrids with less electron transfer resistance, advanced productive efficiency, and functional diversity. Further exploration in this field has the prospect of making a breakthrough on the biotic-abiotic interface that will provide opportunities for multidisciplinary research.
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Affiliation(s)
- Jiayuan Shen
- Department of Chemistry, and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
| | - Yun Liu
- Department of Chemistry, and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
| | - Liang Qiao
- Department of Chemistry, and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
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Zhang K, Zhu Z, Luo S, Xu Z, Lei P, Gan M, Chen P, Zhu J. One-step synthesis of a novel natural mineral-derived Fe@BC for enhancing Cr(VI) bioreduction: Synergistic role of electron transfer and microbial metabolism. CHEMOSPHERE 2022; 308:136439. [PMID: 36115474 DOI: 10.1016/j.chemosphere.2022.136439] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Revised: 07/16/2022] [Accepted: 09/10/2022] [Indexed: 06/15/2023]
Abstract
Iron minerals, which exert excellent biocompatibility and reactivity with redox-active microorganisms, have attracted attention as a precursor to synthesizing composite materials with higher catalytic efficiency in driving redox-active microorganisms to reduce Cr(VI). However, researches on the effective preparation method of composites, the interaction between bacteria and composite materials and the mechanism of electron transfer are still scarce. In this work, Fe-complex@BC prepared by a one-step method using goethite was used for chromium treatment together with soil microorganisms. The composite was the best-performing in promoting Cr(VI) bioreduction (up to 3.48 mg (L·h)-1) than Fe-complex (2.26 mg (L·h)-1) and biochar (0.5 mg (L·h)-1), even about 19 times higher than that of bioreduction without materials. Specifically, Fe-complex@BC shortened the electron transfer distance due to its excellent adsorption properties for bacteria and Cr(VI). Its high redox activity also promoted Cr(VI) bioreduction by directly enhancing electron transfer. In addition, the presence of the Fe(III)/Fe(II) cycle proved that the active sites of composite could be regenerated to reduce Cr(VI) persistently by receiving extracellular electrons from bacteria. High-throughput 16 S rDNA gene sequencing indicated the composite could promote the proliferation of electrochemically active bacteria, which directly enhanced bioreduction. This study developed the low-cost Fe@BC material prepared by a one-step co-pyrolysis method, which exerts a synergistic effect with soil microorganisms and presents a promising potential for chromium pollution treatment.
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Affiliation(s)
- Ke Zhang
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha, 410083, China
| | - Zhenyu Zhu
- Faculty of Agriculture, Forestry and Food Engineering, Yibin University, Yibin, 644000, China
| | - Sheng Luo
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha, 410083, China
| | - Zichao Xu
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha, 410083, China
| | - Pan Lei
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha, 410083, China
| | - Min Gan
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha, 410083, China.
| | - Pan Chen
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha, 410083, China.
| | - Jianyu Zhu
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha, 410083, China
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Guo J, Jiang Y, Hu Y, Jiang Z, Dong Y, Shi L. The Roles of DmsEFAB and MtrCAB in Extracellular Reduction of Iodate by Shewanella oneidensis MR-1 with Lactate as the Sole Electron Donor. Environ Microbiol 2022; 24:5039-5050. [PMID: 35837844 DOI: 10.1111/1462-2920.16130] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Revised: 06/27/2022] [Accepted: 07/06/2022] [Indexed: 11/26/2022]
Abstract
To investigate their roles in extracellular reduction of iodate (IO3 - ) with lactate as an electron donor, the gene clusters of dmsEFAB, mtrCAB, mtrDEF, and so4360-4357 in Shewanella oneidensis MR-1were systematically deleted. Deletions of dmsEFAB and/or mtrCAB gene clusters diminished the bacterial ability to reduce IO3 - . Furthermore, DmsEFAB and MtrCAB worked collaboratively to reduce IO3 - of which DmsEFAB played a more dominant role than MtrCAB. MtrCAB was involved in detoxifying the reaction intermediate hydrogen peroxide (H2 O2 ). The reaction intermediate hypoiodous acid (HIO) was also found to inhibit microbial IO3 - reduction. SO4360-4357 and MtrDEF, however, were not involved in IO3 - reduction. Collectively, these results suggest a novel mechanism of extracellular reduction of IO3 - at molecular level, in which DmsEFAB reduces IO3 - to HIO and H2 O2 . The latter is further reduced to H2 O by MtrCAB to facilitate the DmsEFAB-mediated IO3 - reduction. The extracellular electron transfer pathway of S. oneidensis MR-1is believed to mediate electron transfer from bacterial cytoplasmic membrane, across the cell envelope to the DmsEFAB and MtrCAB on the bacterial outer membrane.
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Affiliation(s)
- Jinzhi Guo
- Department of Biological Sciences and Technology, School of Environmental Studies, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China
| | - Yongguang Jiang
- Department of Biological Sciences and Technology, School of Environmental Studies, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China
| | - Yidan Hu
- Department of Biological Sciences and Technology, School of Environmental Studies, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China
| | - Zhou Jiang
- Department of Biological Sciences and Technology, School of Environmental Studies, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China
| | - Yiran Dong
- Department of Biological Sciences and Technology, School of Environmental Studies, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China.,State Key Laboratory of Biogeology and Environmental Geology, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China.,Hubei Key Laboratory of Yangtze Catchment Environmental Aquatic Science, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China
| | - Liang Shi
- Department of Biological Sciences and Technology, School of Environmental Studies, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China.,State Key Laboratory of Biogeology and Environmental Geology, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China.,Hubei Key Laboratory of Yangtze Catchment Environmental Aquatic Science, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China.,State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, Ministry of Ecology and Environment, China University of Geosciences, Wuhan, Hubei, China
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Chen Y, Cheng M, Song H, Cao Y. Type I-F CRISPR-PAIR platform for multi-mode regulation to boost extracellular electron transfer in Shewanella oneidensis. iScience 2022; 25:104491. [PMID: 35712075 PMCID: PMC9194131 DOI: 10.1016/j.isci.2022.104491] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 04/25/2022] [Accepted: 05/20/2022] [Indexed: 11/19/2022] Open
Abstract
Bio-electrochemical systems are based on extracellular electron transfer (EET), whose efficiency relates to the expression level of numerous genes. However, the lack of multi-functional tools for gene activation and repression hampers the enhancement of EET in electroactive microorganisms (EAMs). We thus develop a type I-F CRISPR/PaeCascade-RpoD-mediated activation and inhibition regulation (CRISPR-PAIR) platform in the model EAM, Shewanella oneidensis MR-1. Gene activation is achieved (3.8-fold) through fusing activator RpoD (σ70) to Cas7 when targeting the prioritized loci upstream of the transcription start site. Gene inhibition almost has no position preference when targeting the open reading frame, which makes the design of crRNAs easy and flexible. Then CRISPR-PAIR platform is applied to up-/down-regulate the expression of six endogenous genes, resulting in the improved EET efficiency. Moreover, simultaneous gene activation and inhibition are achieved in S. oneidensis MR-1. CRISPR-PAIR platform offers a programmable methodology for dual regulation, facilitating in-depth EET studies in Shewanella spp. CRISPR-PAIR platform enables both gene activation and inhibition in Shewanella oneidensis An efficient type I-F CRISPR-Cas tool is developed for S. oneidensis Transcription regulation of endogenous genes enhances extracellular electron transfer (EET)
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Affiliation(s)
- Yaru Chen
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
- Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin 300072, China
| | - Meijie Cheng
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
- Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin 300072, China
| | - Hao Song
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
- Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin 300072, China
- Corresponding author
| | - Yingxiu Cao
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
- Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin 300072, China
- Corresponding author
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Darma A, Yang J, Zandi P, Liu J, Możdżeń K, Xia X, Sani A, Wang Y, Schnug E. Significance of Shewanella Species for the Phytoavailability and Toxicity of Arsenic-A Review. BIOLOGY 2022; 11:biology11030472. [PMID: 35336844 PMCID: PMC8944983 DOI: 10.3390/biology11030472] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/18/2022] [Revised: 03/14/2022] [Accepted: 03/16/2022] [Indexed: 12/02/2022]
Abstract
Simple Summary The availability of some toxic heavy metals, such as arsenic (As), is related to increased human and natural activities. This type of metal availability in the environment is associated with various health and environmental issues. Such problems may arise due to direct contact with or consumption of plant products containing this metal in some of their parts. A microbial approach that employs a group of bacteria (Shewanella species) is proposed to reduce the negative consequences of the availability of this metal (As) in the environment. This innovative strategy can reduce As mobility, its spread, and uptake by plants in the environment. The benefits of this approach include its low cost and the possibility of not exposing other components of the environment to unfavourable consequences. Abstract The distribution of arsenic continues due to natural and anthropogenic activities, with varying degrees of impact on plants, animals, and the entire ecosystem. Interactions between iron (Fe) oxides, bacteria, and arsenic are significantly linked to changes in the mobility, toxicity, and availability of arsenic species in aquatic and terrestrial habitats. As a result of these changes, toxic As species become available, posing a range of threats to the entire ecosystem. This review elaborates on arsenic toxicity, the mechanisms of its bioavailability, and selected remediation strategies. The article further describes how the detoxification and methylation mechanisms used by Shewanella species could serve as a potential tool for decreasing phytoavailable As and lessening its contamination in the environment. If taken into account, this approach will provide a globally sustainable and cost-effective strategy for As remediation and more information to the literature on the unique role of this bacterial species in As remediation as opposed to conventional perception of its role as a mobiliser of As.
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Affiliation(s)
- Aminu Darma
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
- Department of Biological Sciences, Faculty of Life Science, Bayero University, Kano 700006, Nigeria;
| | - Jianjun Yang
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
- Correspondence: (J.Y.); (E.S.); Tel.: +86-010-82105996 (J.Y.)
| | - Peiman Zandi
- International Faculty of Applied Technology, Yibin University, Yibin 644600, China;
| | - Jin Liu
- College of Agronomy and Biotechnology, China Agricultural University, Beijing 100094, China;
| | - Katarzyna Możdżeń
- Institute of Biology, Pedagogical University of Krakow, Podchorążych 2 St., 30-084 Krakow, Poland;
| | - Xing Xia
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
| | - Ali Sani
- Department of Biological Sciences, Faculty of Life Science, Bayero University, Kano 700006, Nigeria;
| | - Yihao Wang
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing 100081, China; (A.D.); (X.X.); (Y.W.)
| | - Ewald Schnug
- Department of Life Sciences, Institute for Plant Biology, Technical University of Braunschweig, 38106 Braunschweig, Germany
- Correspondence: (J.Y.); (E.S.); Tel.: +86-010-82105996 (J.Y.)
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Liao X, Pan Q, Tian X, Wu X, Zhao F. Proteomic analysis of the electron uptake pathway of Rhodopseudomonas palustris CGA009 under different cathodic potentials. Process Biochem 2022. [DOI: 10.1016/j.procbio.2022.01.026] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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9
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Egan-Morriss C, Kimber RL, Powell NA, Lloyd JR. Biotechnological synthesis of Pd-based nanoparticle catalysts. NANOSCALE ADVANCES 2022; 4:654-679. [PMID: 35224444 PMCID: PMC8805459 DOI: 10.1039/d1na00686j] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Accepted: 11/22/2021] [Indexed: 06/02/2023]
Abstract
Palladium metal nanoparticles are excellent catalysts used industrially for reactions such as hydrogenation and Heck and Suzuki C-C coupling reactions. However, the global demand for Pd far exceeds global supply, therefore the sustainable use and recycling of Pd is vital. Conventional chemical synthesis routes of Pd metal nanoparticles do not meet sustainability targets due to the use of toxic chemicals, such as organic solvents and capping agents. Microbes are capable of bioreducing soluble high oxidation state metal ions to form metal nanoparticles at ambient temperature and pressure, without the need for toxic chemicals. Microbes can also reduce metal from waste solutions, revalorising these waste streams and allowing the reuse of precious metals. Pd nanoparticles supported on microbial cells (bio-Pd) can catalyse a wide array of reactions, even outperforming commercial heterogeneous Pd catalysts in several studies. However, to be considered a viable commercial option, the intrinsic activity and selectivity of bio-Pd must be enhanced. Many types of microorganisms can produce bio-Pd, although most studies so far have been performed using bacteria, with metal reduction mediated by hydrogenase or formate dehydrogenase enzymes. Dissimilatory metal-reducing bacteria (DMRB) possess additional enzymes adapted for extracellular electron transport that potentially offer greater control over the properties of the nanoparticles produced. A recent and important addition to the field are bio-bimetallic nanoparticles, which significantly enhance the catalytic properties of bio-Pd. In addition, systems biology can integrate bio-Pd into biocatalytic processes, and processing techniques may enhance the catalytic properties further, such as incorporating additional functional nanomaterials. This review aims to highlight aspects of enzymatic metal reduction processes that can be bioengineered to control the size, shape, and cellular location of bio-Pd in order to optimise its catalytic properties.
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Affiliation(s)
- Christopher Egan-Morriss
- Department of Earth and Environmental Sciences, Williamson Research Centre for Molecular Environmental Science, University of Manchester UK
| | - Richard L Kimber
- Department of Environmental Geosciences, Centre for Microbiology and Environmental Systems Science, University of Vienna 1090 Vienna Austria
| | | | - Jonathan R Lloyd
- Department of Earth and Environmental Sciences, Williamson Research Centre for Molecular Environmental Science, University of Manchester UK
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Zhang YT, Zhang Y, Peng L. Electrochemical fluorescence microscopy reveals insignificant long-range extracellular electron transfer in Shewanella oneidensis anodic processes. Electrochim Acta 2021. [DOI: 10.1016/j.electacta.2021.139305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Nanosecond heme-to-heme electron transfer rates in a multiheme cytochrome nanowire reported by a spectrally unique His/Met-ligated heme. Proc Natl Acad Sci U S A 2021; 118:2107939118. [PMID: 34556577 PMCID: PMC8488605 DOI: 10.1073/pnas.2107939118] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/05/2021] [Indexed: 11/29/2022] Open
Abstract
Multiheme cytochromes have been identified as essential proteins for electron exchange between bacterial enzymes and redox substrates outside of the cell. In microbiology, these proteins contribute to efficient energy storage and conversion. For biotechnology, multiheme cytochromes contribute to the production of green fuels and electricity. Furthermore, these proteins inspire the design of molecular-scale electronic devices. Here, we report exceptionally high rates of heme-to-heme electron transfer in a multiheme cytochrome. We expect similarly high rates, among the highest reported for ground-state electron transfer in biology, in other multiheme cytochromes as the close-packed hemes adopt similar configurations despite very different amino acid sequences and protein folds. Proteins achieve efficient energy storage and conversion through electron transfer along a series of redox cofactors. Multiheme cytochromes are notable examples. These proteins transfer electrons over distance scales of several nanometers to >10 μm and in so doing they couple cellular metabolism with extracellular redox partners including electrodes. Here, we report pump-probe spectroscopy that provides a direct measure of the intrinsic rates of heme–heme electron transfer in this fascinating class of proteins. Our study took advantage of a spectrally unique His/Met-ligated heme introduced at a defined site within the decaheme extracellular MtrC protein of Shewanella oneidensis. We observed rates of heme-to-heme electron transfer on the order of 109 s−1 (3.7 to 4.3 Å edge-to-edge distance), in good agreement with predictions based on density functional and molecular dynamics calculations. These rates are among the highest reported for ground-state electron transfer in biology. Yet, some fall 2 to 3 orders of magnitude below the Moser–Dutton ruler because electron transfer at these short distances is through space and therefore associated with a higher tunneling barrier than the through-protein tunneling scenario that is usual at longer distances. Moreover, we show that the His/Met-ligated heme creates an electron sink that stabilizes the charge separated state on the 100-μs time scale. This feature could be exploited in future designs of multiheme cytochromes as components of versatile photosynthetic biohybrid assemblies.
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Fan YY, Tang Q, Li FH, Sun H, Min D, Wu JH, Li Y, Li WW, Yu HQ. Enhanced Bioreduction of Radionuclides by Driving Microbial Extracellular Electron Pumping with an Engineered CRISPR Platform. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:11997-12008. [PMID: 34378391 DOI: 10.1021/acs.est.1c03713] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Dissimilatory metal-reducing bacteria (DMRB) with extracellular electron transfer (EET) capability show great potential in bioremediating the subsurface environments contaminated by uranium through bioreduction and precipitation of hexavalent uranium [U(VI)]. However, the low EET efficiency of DMRB remains a bottleneck for their applications. Herein, we develop an engineered CRISPR platform to drive the extracellular electron pumping of Shewanella oneidensis, a representative DMRB species widely present in aquatic environments. The CRISPR platform allows for highly efficient and multiplex genome editing and rapid platform elimination post-editing in S. oneidensis. Enabled by such a platform, a genomic promoter engineering strategy (GPS) for genome-widely engineering the EET-encoding gene network was established. The production of electron conductive Mtr complex, synthesis of electron shuttle flavin, and generation of NADH as intracellular electron carrier are globally optimized and promoted, leading to a significantly enhanced EET ability. Applied to U(VI) bioreduction, the edited strains achieve up to 3.62-fold higher reduction capacity over the control. Our work endows DMRB with an enhanced ability to remediate the radionuclides-contaminated environments and provides a gene editing approach to handle the growing environmental challenges of radionuclide contaminations.
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Affiliation(s)
- Yang-Yang Fan
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Technology, University of Science and Technology of China, Hefei 230026, China
| | - Qiang Tang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Technology, University of Science and Technology of China, Hefei 230026, China
| | - Feng-He Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Technology, University of Science and Technology of China, Hefei 230026, China
| | - Hong Sun
- School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
| | - Di Min
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Technology, University of Science and Technology of China, Hefei 230026, China
| | - Jing-Hang Wu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Technology, University of Science and Technology of China, Hefei 230026, China
| | - Yang Li
- School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
| | - Wen-Wei Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Technology, 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 Technology, University of Science and Technology of China, Hefei 230026, China
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Prados MB, Lescano M, Porzionato N, Curutchet G. Wiring Up Along Electrodes for Biofilm Formation. Front Microbiol 2021; 12:726251. [PMID: 34526980 PMCID: PMC8435748 DOI: 10.3389/fmicb.2021.726251] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Accepted: 08/09/2021] [Indexed: 11/13/2022] Open
Abstract
Millimeter-length cables of bacteria were discovered growing along a graphite-rod electrode serving as an anode of a microbial electrolysis cell (MEC). The MEC had been inoculated with a culture of Fe-reducing microorganisms enriched from a polluted river sediment (Reconquista river, Argentina) and was operated at laboratory controlled conditions for 18 days at an anode poised potential of 240 mV (vs. Ag/AgCl), followed by 23 days at 480 mV (vs. Ag/AgCl). Anode samples were collected for scanning electron microscopy, phylogenetic and electrochemical analyses. The cables were composed of a succession of bacteria covered by a membranous sheath and were distinct from the known "cable-bacteria" (family Desulfobulbaceae). Apparently, the formation of the cables began with the interaction of the cells via nanotubes mostly located at the cell poles. The cables seemed to be further widened by the fusion between them. 16S rRNA gene sequence analysis confirmed the presence of a microbial community composed of six genera, including Shewanella, a well-characterized electrogenic bacteria. The formation of the cables might be a way of colonizing a polarized surface, as determined by the observation of electrodes extracted at different times of MEC operation. Since the cables of bacteria were distinct from any previously described, the results suggest that bacteria capable of forming cables are more diverse in nature than already thought. This diversity might render different electrical properties that could be exploited for various applications.
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Affiliation(s)
- María Belén Prados
- Instituto de Energía y Desarrollo Sustentable, Centro Atómico Bariloche, Comisión Nacional de Energía Atómica, Buenos Aires, Argentina
| | - Mariela Lescano
- Instituto de Energía y Desarrollo Sustentable, Centro Atómico Bariloche, Comisión Nacional de Energía Atómica, Buenos Aires, Argentina
| | - Natalia Porzionato
- Instituto de Investigaciones e Ingeniería Ambiental y Escuela de Ciencia y Tecnología, Universidad Nacional de San Martín, Buenos Aires, Argentina
| | - Gustavo Curutchet
- Instituto de Investigaciones e Ingeniería Ambiental y Escuela de Ciencia y Tecnología, Universidad Nacional de San Martín, Buenos Aires, Argentina
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Sanchez JL, Pinto D, Laberty-Robert C. Electrospun carbon fibers for microbial fuel cells: A novel bioanode design applied to wastewater treatment. Electrochim Acta 2021. [DOI: 10.1016/j.electacta.2021.137864] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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15
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Outer Membrane c-Type Cytochromes OmcA and MtrC Play Distinct Roles in Enhancing the Attachment of Shewanella oneidensis MR-1 Cells to Goethite. Appl Environ Microbiol 2020; 86:AEM.01941-20. [PMID: 32978123 DOI: 10.1128/aem.01941-20] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Accepted: 09/12/2020] [Indexed: 12/12/2022] Open
Abstract
The outer membrane c-type cytochromes (c-Cyts) OmcA and MtrC in Shewanella are key terminal reductases that bind and transfer electrons directly to iron (hydr)oxides. Although the amounts of OmcA and MtrC at the cell surface and their molecular structures are largely comparable, MtrC is known to play a more important role in dissimilatory iron reduction. To explore the roles of these outer membrane c-Cyts in the interaction of Shewanella oneidensis MR-1 with iron oxides, the processes of attachment of S. oneidensis MR-1 wild type and c-type cytochrome-deficient mutants (the ΔomcA, ΔmtrC, and ΔomcA ΔmtrC mutants) to goethite are compared via quartz crystal microbalance with dissipation monitoring (QCM-D). Strains with OmcA exhibit a rapid initial attachment. The quantitative model for QCM-D responses reveals that MtrC enhances the contact area and contact elasticity of cells with goethite by more than one and two times, respectively. In situ attenuated total reflectance Fourier transform infrared two-dimensional correlation spectroscopic (ATR-FTIR 2D-CoS) analysis shows that MtrC promotes the initial interfacial reaction via an inner-sphere coordination. Atomic force microscopy (AFM) analysis demonstrates that OmcA enhances the attractive force between cells and goethite by about 60%. As a result, OmcA contributes to a higher attractive force with goethite and induces a rapid short-term attachment, while MtrC is more important in the longer-term interaction through an enhanced contact area, which promotes interfacial reactions. These results reveal that c-Cyts OmcA and MtrC adopt different mechanisms for enhancing the attachment of S. oneidensis MR-1 cells to goethite. It improves our understanding of the function of outer membrane c-Cyts and the influence of cell surface macromolecules in cell-mineral interactions.IMPORTANCE Shewanella species are one group of versatile and widespread dissimilatory iron-reducing bacteria, which are capable of respiring insoluble iron minerals via six multiheme c-type cytochromes. Outer membrane c-type cytochromes (c-Cyts) OmcA and MtrC are the terminal reductases in this pathway and have comparable protein structures. In this study, we elucidate the different roles of OmcA and MtrC in the interaction of S. oneidensis MR-1 with goethite at the whole-cell level. OmcA confers enhanced affinity toward goethite and results in rapid attachment. Meanwhile, MtrC significantly increases the contact area of bacterial cells with goethite and promotes the interfacial reaction, which may explain its central role in extracellular electron transfer. This study provides novel insights into the role of bacterial surface macromolecules in the interfacial interaction of bacteria with minerals, which is critical to the development of a comprehensive understanding of cell-mineral interactions.
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Michelson K, Alcalde RE, Sanford RA, Valocchi AJ, Werth CJ. Diffusion-Based Recycling of Flavins Allows Shewanella oneidensis MR-1 To Yield Energy from Metal Reduction Across Physical Separations. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2019; 53:3480-3487. [PMID: 30840821 DOI: 10.1021/acs.est.8b04718] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
We fabricated a microfluidic reactor with a nanoporous barrier to characterize electron transport between Shewanella oneidensis MR-1 and the metal oxide birnessite across a physical separation. Real-time quantification of electron flux across this barrier by strains with different electron transfer capabilities revealed that this bacterium exports flavins to its surroundings when faced with no direct physical access to an electron acceptor, allowing it to reduce metals at distances exceeding 60 μm. An energy balance indicates that flavins must be recycled for S. oneidensis MR-1 to yield energy from lactate oxidation coupled to flavin reduction. In our system, we find that flavins are recycled between 24 and 60 times depending on flow conditions. This energy saving strategy, which until now had not been systematically tested or captured in environmentally relevant systems, suggests that electron shuttling microorganisms have the capacity to access and reduce metals in physically distant or potentially toxic microenvironments (i.e., pores with soluble and transiently sorbed toxins) where direct contact is limited or unfavorable. Our results challenge the prediction that diffusion-based electron shuttling is only effective across short distances and may lead to improved bioremediation strategies or advance biogeochemical models of electron transfer in anaerobic sediments.
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Affiliation(s)
- Kyle Michelson
- Department of Civil and Environmental Engineering , University of Illinois at Urbana-Champaign , 205 North Mathews Avenue , Urbana , Illinois 61801 , United States
- Department of Civil, Architectural, and Environmental Engineering , University of Texas at Austin , 301 East Dean Keeton Street , Austin , Texas 78712 , United States
| | - Reinaldo E Alcalde
- Department of Civil, Architectural, and Environmental Engineering , University of Texas at Austin , 301 East Dean Keeton Street , Austin , Texas 78712 , United States
| | - Robert A Sanford
- Department of Geology , University of Illinois at Urbana-Champaign , 605 East Springfield Avenue , Champaign , Illinois 61820 , United States
| | - Albert J Valocchi
- Department of Civil and Environmental Engineering , University of Illinois at Urbana-Champaign , 205 North Mathews Avenue , Urbana , Illinois 61801 , United States
| | - Charles J Werth
- Department of Civil, Architectural, and Environmental Engineering , University of Texas at Austin , 301 East Dean Keeton Street , Austin , Texas 78712 , United States
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LUO X, WU Y, LIU T, LI F, LI X, CHEN D, WANG Y. Quantifying Redox Dynamics of c-Type Cytochromes in a Living Cell Suspension of Dissimilatory Metal-reducing Bacteria. ANAL SCI 2019; 35:315-321. [DOI: 10.2116/analsci.18p394] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Xiaobo LUO
- Guangzhou Institute of Geochemistry, Chinese Academy of Sciences
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
- University of Chinese Academy of Sciences
| | - Yundang WU
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Tongxu LIU
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Fangbai LI
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Xiaomin LI
- The Environmental Research Institute, MOE Key Laboratory of Theoretical Chemistry of Environment, South China Normal University
| | - Dandan CHEN
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
| | - Ying WANG
- Guangdong Institute of Eco-environmental Science & Technology, Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management
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18
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Molecular and Microscopic Insights into the Formation of Soil Organic Matter in a Red Pine Rhizosphere. SOILS 2017. [DOI: 10.3390/soils1010004] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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19
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Reverse Methanogenesis and Respiration in Methanotrophic Archaea. ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL 2017; 2017:1654237. [PMID: 28154498 PMCID: PMC5244752 DOI: 10.1155/2017/1654237] [Citation(s) in RCA: 151] [Impact Index Per Article: 21.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/03/2016] [Revised: 10/11/2016] [Accepted: 10/31/2016] [Indexed: 12/21/2022]
Abstract
Anaerobic oxidation of methane (AOM) is catalyzed by anaerobic methane-oxidizing archaea (ANME) via a reverse and modified methanogenesis pathway. Methanogens can also reverse the methanogenesis pathway to oxidize methane, but only during net methane production (i.e., “trace methane oxidation”). In turn, ANME can produce methane, but only during net methane oxidation (i.e., enzymatic back flux). Net AOM is exergonic when coupled to an external electron acceptor such as sulfate (ANME-1, ANME-2abc, and ANME-3), nitrate (ANME-2d), or metal (oxides). In this review, the reversibility of the methanogenesis pathway and essential differences between ANME and methanogens are described by combining published information with domain based (meta)genome comparison of archaeal methanotrophs and selected archaea. These differences include abundances and special structure of methyl coenzyme M reductase and of multiheme cytochromes and the presence of menaquinones or methanophenazines. ANME-2a and ANME-2d can use electron acceptors other than sulfate or nitrate for AOM, respectively. Environmental studies suggest that ANME-2d are also involved in sulfate-dependent AOM. ANME-1 seem to use a different mechanism for disposal of electrons and possibly are less versatile in electron acceptors use than ANME-2. Future research will shed light on the molecular basis of reversal of the methanogenic pathway and electron transfer in different ANME types.
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20
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Sheng A, Liu F, Shi L, Liu J. Aggregation Kinetics of Hematite Particles in the Presence of Outer Membrane Cytochrome OmcA of Shewanella oneidenesis MR-1. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2016; 50:11016-11024. [PMID: 27648604 DOI: 10.1021/acs.est.6b02963] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The aggregation behavior of 9, 36, and 112 nm hematite particles was studied in the presence of OmcA, a bacterial extracellular protein, in aqueous dispersions at pH 5.7 through time-resolved dynamic light scattering, electrophoretic mobility, and circular dichroism spectra, respectively. At low salt concentration, the attachment efficiencies of hematite particles in all sizes first increased, then decreased, and finally remained stable with the increase of OmcA concentration, indicating the dominant interparticle interaction changed along with the increase in the protein-to-particle ratio. Nevertheless, at high salt concentration, the attachment efficiencies of all hematite samples gradually decreased with increasing OmcA concentration, which can be attributed to increasing steric force. Additionally, the aggregation behavior of OmcA-hematite conjugates was more correlated to total particle-surface area than primary particle size. It was further established that OmcA could stabilize hematite nanoparticles more efficiently than bovine serum albumin (BSA), a model plasma protein, due to the higher affinity of OmcA to hematite surface. This study highlighted the effects of particle properties, solution conditions, and protein properties on the complicated aggregation behavior of protein-nanoparticle conjugates in aqueous environments.
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Affiliation(s)
- Anxu Sheng
- The Key Laboratory of Water and Sediment Sciences, Ministry of Education, College of Environmental Sciences and Engineering, Peking University , Beijing 100871, P. R. China
| | - Feng Liu
- The Key Laboratory of Water and Sediment Sciences, Ministry of Education, College of Environmental Sciences and Engineering, Peking University , Beijing 100871, P. R. China
| | - Liang Shi
- Department of Biological Sciences and Technology, School of Environmental Studies, China University of Geoscience in Wuhan , Wuhan, Hubei 430074, China
- Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Juan Liu
- The Key Laboratory of Water and Sediment Sciences, Ministry of Education, College of Environmental Sciences and Engineering, Peking University , Beijing 100871, P. R. China
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21
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Yuan Y, Guo T, Qiu X, Tang J, Huang Y, Zhuang L, Zhou S, Li Z, Guan BO, Zhang X, Albert J. Electrochemical Surface Plasmon Resonance Fiber-Optic Sensor: In Situ Detection of Electroactive Biofilms. Anal Chem 2016; 88:7609-16. [DOI: 10.1021/acs.analchem.6b01314] [Citation(s) in RCA: 50] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Yong Yuan
- Guangdong
Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, China
| | - Tuan Guo
- Guangdong
Key Laboratory of Optical Fiber Sensing and Communications, Institute
of Photonics Technology, Jinan University, Guangzhou 510632, China
| | - Xuhui Qiu
- Guangdong
Key Laboratory of Optical Fiber Sensing and Communications, Institute
of Photonics Technology, Jinan University, Guangzhou 510632, China
| | - Jiahuan Tang
- Guangdong
Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, China
| | - Yunyun Huang
- Guangdong
Key Laboratory of Optical Fiber Sensing and Communications, Institute
of Photonics Technology, Jinan University, Guangzhou 510632, China
| | - Li Zhuang
- Guangdong
Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, China
| | - Shungui Zhou
- Guangdong
Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, China
| | - Zhaohui Li
- Guangdong
Key Laboratory of Optical Fiber Sensing and Communications, Institute
of Photonics Technology, Jinan University, Guangzhou 510632, China
| | - Bai-Ou Guan
- Guangdong
Key Laboratory of Optical Fiber Sensing and Communications, Institute
of Photonics Technology, Jinan University, Guangzhou 510632, China
| | - Xuming Zhang
- Department
of Applied Physics, Hong Kong Polytechnic University, Hong Kong, People’s Republic of China
| | - Jacques Albert
- Department
of Electronics, Carleton University, Ottawa K1S5B6, Canada
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22
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Yuan Y, Li L, Zhou S. Axial Ligation of Heme in c-Type Cytochromes of LivingShewanella oneidensis: A New Insight into Enhanced Extracellular Electron Transfer. ChemElectroChem 2015. [DOI: 10.1002/celc.201500234] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Yong Yuan
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control; Guangdong Institute of Eco-Environmental and Soil Sciences; Guangzhou 510650 China
| | - Laicai Li
- College of Chemistry and Material Science; Sichuan Normal University; Chengdu 610066 China
| | - Shungui Zhou
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control; Guangdong Institute of Eco-Environmental and Soil Sciences; Guangzhou 510650 China
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23
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Breuer M, Rosso KM, Blumberger J, Butt JN. Multi-haem cytochromes in Shewanella oneidensis MR-1: structures, functions and opportunities. J R Soc Interface 2015; 12:20141117. [PMID: 25411412 DOI: 10.1098/rsif.2014.1117] [Citation(s) in RCA: 129] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Abstract
Multi-haem cytochromes are employed by a range of microorganisms to transport electrons over distances of up to tens of nanometres. Perhaps the most spectacular utilization of these proteins is in the reduction of extracellular solid substrates, including electrodes and insoluble mineral oxides of Fe(III) and Mn(III/IV), by species of Shewanella and Geobacter. However, multi-haem cytochromes are found in numerous and phylogenetically diverse prokaryotes where they participate in electron transfer and redox catalysis that contributes to biogeochemical cycling of N, S and Fe on the global scale. These properties of multi-haem cytochromes have attracted much interest and contributed to advances in bioenergy applications and bioremediation of contaminated soils. Looking forward, there are opportunities to engage multi-haem cytochromes for biological photovoltaic cells, microbial electrosynthesis and developing bespoke molecular devices. As a consequence, it is timely to review our present understanding of these proteins and we do this here with a focus on the multitude of functionally diverse multi-haem cytochromes in Shewanella oneidensis MR-1. We draw on findings from experimental and computational approaches which ideally complement each other in the study of these systems: computational methods can interpret experimentally determined properties in terms of molecular structure to cast light on the relation between structure and function. We show how this synergy has contributed to our understanding of multi-haem cytochromes and can be expected to continue to do so for greater insight into natural processes and their informed exploitation in biotechnologies.
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Affiliation(s)
- Marian Breuer
- Department of Physics and Astronomy, University College London, London WC1E 6BT, UK
| | - Kevin M Rosso
- Pacific Northwest National Laboratory, Richland, WA, USA
| | - Jochen Blumberger
- Department of Physics and Astronomy, University College London, London WC1E 6BT, UK
| | - Julea N Butt
- School of Biological Sciences and School of Chemistry, University of East Anglia, Norwich NR4 7TJ, UK
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Redox Linked Flavin Sites in Extracellular Decaheme Proteins Involved in Microbe-Mineral Electron Transfer. Sci Rep 2015; 5:11677. [PMID: 26126857 PMCID: PMC4486940 DOI: 10.1038/srep11677] [Citation(s) in RCA: 119] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2014] [Accepted: 06/02/2015] [Indexed: 11/29/2022] Open
Abstract
Extracellular microbe-mineral electron transfer is a major driving force for the oxidation of organic carbon in many subsurface environments. Extracellular multi-heme cytochromes of the Shewenella genus play a major role in this process but the mechanism of electron exchange at the interface between cytochrome and acceptor is widely debated. The 1.8 Å x-ray crystal structure of the decaheme MtrC revealed a highly conserved CX8C disulfide that, when substituted for AX8A, severely compromised the ability of S. oneidensis to grow under aerobic conditions. Reductive cleavage of the disulfide in the presence of flavin mononucleotide (FMN) resulted in the reversible formation of a stable flavocytochrome. Similar results were also observed with other decaheme cytochromes, OmcA, MtrF and UndA. The data suggest that these decaheme cytochromes can transition between highly reactive flavocytochromes or less reactive cytochromes, and that this transition is controlled by a redox active disulfide that responds to the presence of oxygen.
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25
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Lu Q, Chang M, Yu Z, Zhou S. The effects of three commonly used extraction methods on the redox properties of extracellular polymeric substances from activated sludge. ENVIRONMENTAL TECHNOLOGY 2015; 36:2884-2891. [PMID: 26027459 DOI: 10.1080/09593330.2015.1051590] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2014] [Accepted: 05/12/2015] [Indexed: 06/04/2023]
Abstract
Recently, the redox properties of extracellular polymeric substances (EPS) have attracted the attention of scientists due to their associated environmental significance, such as organic pollutant (e.g. nitroaromatics and substituted nitrobenzenes) degradation and heavy metal (e.g. Cr(VI) and U(VI)) detoxification. Although the separation of EPS from bacterial cells is more often the first step in studies on EPS, and studies have demonstrated that extraction procedures can influence the sorption properties of EPS, few attempts have been made to investigate how separation methods affect the redox properties of the obtained EPS. In this study, three common extraction approaches, that is, centrifugation, formaldehyde+NaOH and ethylene diamine tetra-acetic acid (EDTA), were employed to extract EPS from activated sludge, and the obtained EPS were evaluated for their redox properties using electrochemical means, including cyclic voltammetry and chronoamperometry. In addition, spectroscopic techniques were utilized to explore the structural characteristics and composition of EPS. The results indicated that EPS extracted by EDTA clearly displayed reversible oxidation-reduction peaks in cyclic voltammograms and significantly higher electron-accepting capacity compared with EPS extracted using the other two approaches. Fourier transform infrared spectra and three-dimensional excitation-emission matrix spectra suggested that the EPS extracted with EDTA presented better redox properties because of the effective and efficient extraction of the humic substances, which are important components of the EPS of activated sludge. Therefore, extraction method has an impact on the composition and redox properties of EPS and should be chosen according to research purpose and EPS source.
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Affiliation(s)
- Qin Lu
- a Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control , Guangdong Institute of Eco-environmental and Soil Sciences , Guangzhou 510650 , People's Repubic of China
| | - Ming Chang
- b Chinese Research Academy of Environmental Sciences , Beijing 100012 , People's Republic of China
| | - Zhen Yu
- a Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control , Guangdong Institute of Eco-environmental and Soil Sciences , Guangzhou 510650 , People's Repubic of China
| | - Shungui Zhou
- a Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control , Guangdong Institute of Eco-environmental and Soil Sciences , Guangzhou 510650 , People's Repubic of China
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Shi L, Fredrickson JK, Zachara JM. Genomic analyses of bacterial porin-cytochrome gene clusters. Front Microbiol 2014; 5:657. [PMID: 25505896 PMCID: PMC4245776 DOI: 10.3389/fmicb.2014.00657] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2014] [Accepted: 11/13/2014] [Indexed: 11/13/2022] Open
Abstract
The porin-cytochrome (Pcc) protein complex is responsible for trans-outer membrane electron transfer during extracellular reduction of Fe(III) by the dissimilatory metal-reducing bacterium Geobacter sulfurreducens PCA. The identified and characterized Pcc complex of G. sulfurreducens PCA consists of a porin-like outer-membrane protein, a periplasmic 8-heme c-type cytochrome (c-Cyt) and an outer-membrane 12-heme c-Cyt, and the genes encoding the Pcc proteins are clustered in the same regions of genome (i.e., the pcc gene clusters) of G. sulfurreducens PCA. A survey of additionally microbial genomes has identified the pcc gene clusters in all sequenced Geobacter spp. and other bacteria from six different phyla, including Anaeromyxobacter dehalogenans 2CP-1, A. dehalogenans 2CP-C, Anaeromyxobacter sp. K, Candidatus Kuenenia stuttgartiensis, Denitrovibrio acetiphilus DSM 12809, Desulfurispirillum indicum S5, Desulfurivibrio alkaliphilus AHT2, Desulfurobacterium thermolithotrophum DSM 11699, Desulfuromonas acetoxidans DSM 684, Ignavibacterium album JCM 16511, and Thermovibrio ammonificans HB-1. The numbers of genes in the pcc gene clusters vary, ranging from two to nine. Similar to the metal-reducing (Mtr) gene clusters of other Fe(III)-reducing bacteria, such as Shewanella spp., additional genes that encode putative c-Cyts with predicted cellular localizations at the cytoplasmic membrane, periplasm and outer membrane often associate with the pcc gene clusters. This suggests that the Pcc-associated c-Cyts may be part of the pathways for extracellular electron transfer reactions. The presence of pcc gene clusters in the microorganisms that do not reduce solid-phase Fe(III) and Mn(IV) oxides, such as D. alkaliphilus AHT2 and I. album JCM 16511, also suggests that some of the pcc gene clusters may be involved in extracellular electron transfer reactions with the substrates other than Fe(III) and Mn(IV) oxides.
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Affiliation(s)
- Liang Shi
- Pacific Northwest National Laboratory Richland, WA, USA
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28
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Melton ED, Swanner ED, Behrens S, Schmidt C, Kappler A. The interplay of microbially mediated and abiotic reactions in the biogeochemical Fe cycle. Nat Rev Microbiol 2014; 12:797-808. [DOI: 10.1038/nrmicro3347] [Citation(s) in RCA: 503] [Impact Index Per Article: 50.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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29
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Kinetic Monte Carlo Simulations and Molecular Conductance Measurements of the Bacterial Decaheme Cytochrome MtrF. ChemElectroChem 2014. [DOI: 10.1002/celc.201402211] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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30
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Shewanella oneidensis MR-1 nanowires are outer membrane and periplasmic extensions of the extracellular electron transport components. Proc Natl Acad Sci U S A 2014; 111:12883-8. [PMID: 25143589 DOI: 10.1073/pnas.1410551111] [Citation(s) in RCA: 350] [Impact Index Per Article: 35.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Bacterial nanowires offer an extracellular electron transport (EET) pathway for linking the respiratory chain of bacteria to external surfaces, including oxidized metals in the environment and engineered electrodes in renewable energy devices. Despite the global, environmental, and technological consequences of this biotic-abiotic interaction, the composition, physiological relevance, and electron transport mechanisms of bacterial nanowires remain unclear. We report, to our knowledge, the first in vivo observations of the formation and respiratory impact of nanowires in the model metal-reducing microbe Shewanella oneidensis MR-1. Live fluorescence measurements, immunolabeling, and quantitative gene expression analysis point to S. oneidensis MR-1 nanowires as extensions of the outer membrane and periplasm that include the multiheme cytochromes responsible for EET, rather than pilin-based structures as previously thought. These membrane extensions are associated with outer membrane vesicles, structures ubiquitous in Gram-negative bacteria, and are consistent with bacterial nanowires that mediate long-range EET by the previously proposed multistep redox hopping mechanism. Redox-functionalized membrane and vesicular extensions may represent a general microbial strategy for electron transport and energy distribution.
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McMillan DGG, Marritt SJ, Firer-Sherwood MA, Shi L, Richardson DJ, Evans SD, Elliott SJ, Butt JN, Jeuken LJC. Protein-protein interaction regulates the direction of catalysis and electron transfer in a redox enzyme complex. J Am Chem Soc 2013; 135:10550-6. [PMID: 23799249 PMCID: PMC3823026 DOI: 10.1021/ja405072z] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
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Protein–protein interactions
are well-known to regulate
enzyme activity in cell signaling and metabolism. Here, we show that
protein–protein interactions regulate the activity of a respiratory-chain
enzyme, CymA, by changing the direction or bias of catalysis. CymA,
a member of the widespread NapC/NirT superfamily, is a menaquinol-7
(MQ-7) dehydrogenase that donates electrons to several distinct terminal
reductases in the versatile respiratory network of Shewanella oneidensis. We report the incorporation
of CymA within solid-supported membranes that mimic the inner membrane
architecture of S. oneidensis. Quartz-crystal
microbalance with dissipation (QCM-D) resolved the formation of a
stable complex between CymA and one of its native redox partners,
flavocytochrome c3 (Fcc3) fumarate reductase.
Cyclic voltammetry revealed that CymA alone could only reduce MQ-7,
while the CymA-Fcc3 complex catalyzed the reaction required
to support anaerobic respiration, the oxidation of MQ-7. We propose
that MQ-7 oxidation in CymA is limited by electron transfer to the
hemes and that complex formation with Fcc3 facilitates
the electron-transfer rate along the heme redox chain. These results
reveal a yet unexplored mechanism by which bacteria can regulate multibranched
respiratory networks through protein–protein interactions.
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Affiliation(s)
- Duncan G G McMillan
- School of Biomedical Sciences, University of Leeds, Leeds LS2 9JT, United Kingdom
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The mxd operon in Shewanella oneidensis MR-1 is induced in response to starvation and regulated by ArcS/ArcA and BarA/UvrY. BMC Microbiol 2013; 13:119. [PMID: 23705927 PMCID: PMC3691769 DOI: 10.1186/1471-2180-13-119] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2013] [Accepted: 05/15/2013] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND S. oneidensis MR-1 is a dissimilatory metal-reducing bacterium. Under anoxic conditions S. oneidensis MR-1 attaches to and uses insoluble minerals such as Fe(III) and Mn(IV) oxides as electron acceptors. In the laboratory, S. oneidensis MR-1 forms biofilms under hydrodynamic flow conditions on a borosilicate glass surface; formation of biofilms was previously found to be dependent on the mxd gene cluster (mxdABCD). RESULTS This study revealed environmental and genetic factors regulating expression of the mxd genes in S. oneidensis MR-1. Physiological experiments conducted with a S. oneidensis MR-1 strain carrying a transcriptional lacZ fusion to the mxd promoter identified electron donor starvation as a key factor inducing mxd gene expression. Tn5 mutagenesis identified the ArcS/ArcA two-component signaling system as a repressor of mxd expression in S. oneidensis MR-1 under planktonic conditions. Biofilms of ∆arcS and ∆arcA strains carrying a transcriptional gfp -reporter fused to the mxd promoter revealed a reduced mxd expression, suggesting that ArcS/ArcA are necessary for activation of mxd expression under biofilm conditions. Biofilms of ∆arcS and ∆arcA mutants were unable to form a compact three-dimensional structure consistent with a low level of mxd expression. In addition, BarA/UvrY was identified as a major regulator of mxd expression under planktonic conditions. Interestingly, biofilms of ∆barA and ∆uvrY mutants were able to form three-dimensional structures that were, however, less compact compared to wild type biofilms. CONCLUSIONS We have shown here that the mxd genes in S. oneidensis MR-1 are controlled transcriptionally in response to carbon starvation and by the ArcS/ArcA and the BarA/UvrY signaling system. BarA might function as a sensor to assess the metabolic state of the cell, including carbon starvation, leading to expression of the mxd operon and therefore control biofilm formation.
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Controlling electron transfer at the microbe-mineral interface. Proc Natl Acad Sci U S A 2013; 110:7537-8. [PMID: 23630260 DOI: 10.1073/pnas.1305244110] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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Rapid electron exchange between surface-exposed bacterial cytochromes and Fe(III) minerals. Proc Natl Acad Sci U S A 2013; 110:6346-51. [PMID: 23538304 DOI: 10.1073/pnas.1220074110] [Citation(s) in RCA: 133] [Impact Index Per Article: 12.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The mineral-respiring bacterium Shewanella oneidensis uses a protein complex, MtrCAB, composed of two decaheme cytochromes, MtrC and MtrA, brought together inside a transmembrane porin, MtrB, to transport electrons across the outer membrane to a variety of mineral-based electron acceptors. A proteoliposome system containing a pool of internalized electron carriers was used to investigate how the topology of the MtrCAB complex relates to its ability to transport electrons across a lipid bilayer to externally located Fe(III) oxides. With MtrA facing the interior and MtrC exposed on the outer surface of the phospholipid bilayer, the established in vivo orientation, electron transfer from the interior electron carrier pool through MtrCAB to solid-phase Fe(III) oxides was demonstrated. The rates were 10(3) times higher than those reported for reduction of goethite, hematite, and lepidocrocite by S. oneidensis, and the order of the reaction rates was consistent with those observed in S. oneidensis cultures. In contrast, established rates for single turnover reactions between purified MtrC and Fe(III) oxides were 10(3) times lower. By providing a continuous flow of electrons, the proteoliposome experiments demonstrate that conduction through MtrCAB directly to Fe(III) oxides is sufficient to support in vivo, anaerobic, solid-phase iron respiration.
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Fitzgerald LA, Petersen ER, Leary DH, Nadeau LJ, Soto CM, Ray RI, Little BJ, Ringeisen BR, Johnson GR, Vora GJ, Biffinger JC. Shewanella frigidimarina microbial fuel cells and the influence of divalent cations on current output. Biosens Bioelectron 2013; 40:102-9. [DOI: 10.1016/j.bios.2012.06.039] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2012] [Revised: 06/13/2012] [Accepted: 06/19/2012] [Indexed: 01/04/2023]
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Luef B, Fakra SC, Csencsits R, Wrighton KC, Williams KH, Wilkins MJ, Downing KH, Long PE, Comolli LR, Banfield JF. Iron-reducing bacteria accumulate ferric oxyhydroxide nanoparticle aggregates that may support planktonic growth. THE ISME JOURNAL 2013; 7:338-50. [PMID: 23038172 PMCID: PMC3554402 DOI: 10.1038/ismej.2012.103] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2012] [Revised: 07/30/2012] [Accepted: 07/30/2012] [Indexed: 11/09/2022]
Abstract
Iron-reducing bacteria (FeRB) play key roles in anaerobic metal and carbon cycling and carry out biogeochemical transformations that can be harnessed for environmental bioremediation. A subset of FeRB require direct contact with Fe(III)-bearing minerals for dissimilatory growth, yet these bacteria must move between mineral particles. Furthermore, they proliferate in planktonic consortia during biostimulation experiments. Thus, a key question is how such organisms can sustain growth under these conditions. Here we characterized planktonic microbial communities sampled from an aquifer in Rifle, Colorado, USA, close to the peak of iron reduction following in situ acetate amendment. Samples were cryo-plunged on site and subsequently examined using correlated two- and three-dimensional cryogenic transmission electron microscopy (cryo-TEM) and scanning transmission X-ray microscopy (STXM). The outer membranes of most cells were decorated with aggregates up to 150 nm in diameter composed of ∼3 nm wide amorphous, Fe-rich nanoparticles. Fluorescent in situ hybridization of lineage-specific probes applied to rRNA of cells subsequently imaged via cryo-TEM identified Geobacter spp., a well-studied group of FeRB. STXM results at the Fe L(2,3) absorption edges indicate that nanoparticle aggregates contain a variable mixture of Fe(II)-Fe(III), and are generally enriched in Fe(III). Geobacter bemidjiensis cultivated anaerobically in the laboratory on acetate and hydrous ferric oxyhydroxides also accumulated mixed-valence nanoparticle aggregates. In field-collected samples, FeRB with a wide variety of morphologies were associated with nano-aggregates, indicating that cell surface Fe(III) accumulation may be a general mechanism by which FeRB can grow while in planktonic suspension.
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Affiliation(s)
- Birgit Luef
- Department of Earth and Planetary Science, University of California, Berkeley, Berkeley, CA, USA
- Lawrence Berkeley National Laboratory, Life Sciences Division, Berkeley, CA, USA
| | - Sirine C Fakra
- Department of Earth and Planetary Science, University of California, Berkeley, Berkeley, CA, USA
- Lawrence Berkeley National Laboratory, Advanced Light Source, Berkeley, CA, USA
| | - Roseann Csencsits
- Lawrence Berkeley National Laboratory, Life Sciences Division, Berkeley, CA, USA
| | - Kelly C Wrighton
- Department of Earth and Planetary Science, University of California, Berkeley, Berkeley, CA, USA
| | - Kenneth H Williams
- Lawrence Berkeley National Laboratory, Earth Sciences Division, Berkeley, CA, USA
| | - Michael J Wilkins
- Pacific Northwest National Laboratory, Biological Sciences Division, Richland, WA, USA
| | - Kenneth H Downing
- Lawrence Berkeley National Laboratory, Life Sciences Division, Berkeley, CA, USA
| | - Philip E Long
- Lawrence Berkeley National Laboratory, Earth Sciences Division, Berkeley, CA, USA
| | - Luis R Comolli
- Lawrence Berkeley National Laboratory, Life Sciences Division, Berkeley, CA, USA
| | - Jillian F Banfield
- Department of Earth and Planetary Science, University of California, Berkeley, Berkeley, CA, USA
- Department of Environmental Science, Policy and Management, University of California, Berkeley, Berkeley, CA, USA
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Ng CK, Cai Tan TK, Song H, Cao B. Reductive formation of palladium nanoparticles by Shewanella oneidensis: role of outer membrane cytochromes and hydrogenases. RSC Adv 2013. [DOI: 10.1039/c3ra44143a] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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Mtr extracellular electron-transfer pathways in Fe(III)-reducing or Fe(II)-oxidizing bacteria: a genomic perspective. Biochem Soc Trans 2012; 40:1261-7. [DOI: 10.1042/bst20120098] [Citation(s) in RCA: 109] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Originally discovered in the dissimilatory metal-reducing bacterium Shewanella oneidensis MR-1 (MR-1), key components of the Mtr (i.e. metal-reducing) pathway exist in all strains of metal-reducing Shewanella characterized. The protein components identified to date for the Mtr pathway of MR-1 include four multihaem c-Cyts (c-type cytochromes), CymA, MtrA, MtrC and OmcA, and a porin-like outer membrane protein MtrB. They are strategically positioned along the width of the MR-1 cell envelope to mediate electron transfer from the quinone/quinol pool in the inner membrane to Fe(III)-containing minerals external to the bacterial cells. A survey of microbial genomes has identified homologues of the Mtr pathway in other dissimilatory Fe(III)-reducing bacteria, including Aeromonas hydrophila, Ferrimonas balearica and Rhodoferax ferrireducens, and in the Fe(II)-oxidizing bacteria Dechloromonas aromatica RCB, Gallionella capsiferriformans ES-2 and Sideroxydans lithotrophicus ES-1. The apparent widespread distribution of Mtr pathways in both Fe(III)-reducing and Fe(II)-oxidizing bacteria suggests a bidirectional electron transfer role, and emphasizes the importance of this type of extracellular electron-transfer pathway in microbial redox transformation of iron. The organizational and electron-transfer characteristics of the Mtr pathways may be shared by other pathways used by micro-organisms for exchanging electrons with their extracellular environments.
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Fe(III) reduction and U(VI) immobilization by Paenibacillus sp. strain 300A, isolated from Hanford 300A subsurface sediments. Appl Environ Microbiol 2012; 78:8001-9. [PMID: 22961903 DOI: 10.1128/aem.01844-12] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
A facultative iron-reducing [Fe(III)-reducing] Paenibacillus sp. strain was isolated from Hanford 300A subsurface sediment biofilms that was capable of reducing soluble Fe(III) complexes [Fe(III)-nitrilotriacetic acid and Fe(III)-citrate] but unable to reduce poorly crystalline ferrihydrite (Fh). However, Paenibacillus sp. 300A was capable of reducing Fh in the presence of low concentrations (2 μM) of either of the electron transfer mediators (ETMs) flavin mononucleotide (FMN) or anthraquinone-2,6-disulfonate (AQDS). Maximum initial Fh reduction rates were observed at catalytic concentrations (<10 μM) of either FMN or AQDS. Higher FMN concentrations inhibited Fh reduction, while increased AQDS concentrations did not. We also found that Paenibacillus sp. 300A could reduce Fh in the presence of natural ETMs from Hanford 300A subsurface sediments. In the absence of ETMs, Paenibacillus sp. 300A was capable of immobilizing U(VI) through both reduction and adsorption. The relative contributions of adsorption and microbial reduction to U(VI) removal from the aqueous phase were ∼7:3 in PIPES [piperazine-N,N'-bis(2-ethanesulfonic acid)] and ∼1:4 in bicarbonate buffer. Our study demonstrated that Paenibacillus sp. 300A catalyzes Fe(III) reduction and U(VI) immobilization and that these reactions benefit from externally added or naturally existing ETMs in 300A subsurface sediments.
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Bücking C, Piepenbrock A, Kappler A, Gescher J. Outer-membrane cytochrome-independent reduction of extracellular electron acceptors in Shewanella oneidensis. Microbiology (Reading) 2012; 158:2144-2157. [DOI: 10.1099/mic.0.058404-0] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Clemens Bücking
- Institut für angewandte Biowissenschaften, Angewandte Biologie, Karlsruher Institut für Technologie, Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
| | - Annette Piepenbrock
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Sigwartstrasse 10, D-72076 Tübingen, Germany
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tübingen, Sigwartstrasse 10, D-72076 Tübingen, Germany
| | - Johannes Gescher
- Institut für angewandte Biowissenschaften, Angewandte Biologie, Karlsruher Institut für Technologie, Fritz-Haber-Weg 2, D-76131 Karlsruhe, Germany
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Richardson DJ, Butt JN, Fredrickson JK, Zachara JM, Shi L, Edwards MJ, White G, Baiden N, Gates AJ, Marritt SJ, Clarke TA. The 'porin-cytochrome' model for microbe-to-mineral electron transfer. Mol Microbiol 2012; 85:201-12. [PMID: 22646977 DOI: 10.1111/j.1365-2958.2012.08088.x] [Citation(s) in RCA: 149] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Many species of bacteria can couple anaerobic growth to the respiratory reduction of insoluble minerals containing Fe(III) or Mn(III/IV). It has been suggested that in Shewanella species electrons cross the outer membrane to extracellular substrates via 'porin-cytochrome' electron transport modules. The molecular structure of an outer-membrane extracellular-facing deca-haem terminus for such a module has recently been resolved. It is debated how, once outside the cells, electrons are transferred from outer-membrane cytochromes to insoluble electron sinks. This may occur directly or by assemblies of cytochromes, perhaps functioning as 'nanowires', or via electron shuttles. Here we review recent work in this field and explore whether it allows for unification of the electron transport mechanisms supporting extracellular mineral respiration in Shewanella that may extend into other genera of Gram-negative bacteria.
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Affiliation(s)
- David J Richardson
- Centre for Molecular and Structural Biochemistry, School of Biological Sciences and School of Chemistry, University of East Anglia, Norwich NR47TJ, UK.
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Malvankar NS, Lovley DR. Microbial nanowires: a new paradigm for biological electron transfer and bioelectronics. CHEMSUSCHEM 2012; 5:1039-1046. [PMID: 22614997 DOI: 10.1002/cssc.201100733] [Citation(s) in RCA: 124] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2011] [Revised: 03/06/2012] [Indexed: 06/01/2023]
Abstract
The discovery that Geobacter sulfurreducens can produce protein filaments with metallic-like conductivity, known as microbial nanowires, that facilitate long-range electron transport is a paradigm shift in biological electron transfer and has important implications for biogeochemistry, microbial ecology, and the emerging field of bioelectronics. Although filaments in a wide diversity of microorganisms have been called microbial nanowires, the type IV pili of G. sulfurreducens and G. metallireducens are the only filaments that have been shown to be required for extracellular electron transport to extracellular electron acceptors or for conduction of electrons through biofilms. Studies of G. sulfurreducens pili preparations and intact biofilms under physiologically relevant conditions have provided multiple lines of evidence for metallic-like conduction along the length of pili and for the possibility of pili networks to confer high conductivity within biofilms. This mechanism of electron conduction contrasts with the previously known mechanism for biological electron transfer via electron tunneling or hopping between closely associated molecules, a strategy unlikely to be well adapted for long-range electron transport outside the cell. In addition to promoting electron exchange with abiotic electron acceptors, microbial nanowires have recently been shown to be involved in direct interspecies electron transfer between syntrophic partners. An improved understanding of the mechanisms for metallic-like conductivity in microbial nanowires, as well as engineering microorganisms with desirable catalytic abilities with nanowires, could lead to new applications in microbial electrosynthesis and bioelectronics.
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Affiliation(s)
- Nikhil S Malvankar
- Department of Microbiology, University of Massachusetts, Amherst, 203, Morrill Science Center IVN, 639 North Pleasant Street, Amherst, MA 01003, USA
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Liu H, Matsuda S, Hashimoto K, Nakanishi S. Flavins secreted by bacterial cells of Shewanella catalyze cathodic oxygen reduction. CHEMSUSCHEM 2012; 5:1054-1058. [PMID: 22489008 DOI: 10.1002/cssc.201100824] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2011] [Indexed: 05/31/2023]
Abstract
On Her Majesty's Secrete Service: Oxygen reduction is an important process for microbial fuel cells (MFCs) and microbiologically-influenced corrosion (MIC). We demonstrate that flavins secreted by anode-respiring Shewanella cells can catalyze cathodic oxygen reduction via adsorption on the cathode. The findings will provide new insight for developing methods to improve MFC performance and to prevent MIC.
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Affiliation(s)
- Huan Liu
- Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology of Ministry of Education, School of Chemistry and Environment, BeiHang University, Beijing 100191, PR China
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Exploring the biochemistry at the extracellular redox frontier of bacterial mineral Fe(III) respiration. Biochem Soc Trans 2012; 40:493-500. [DOI: 10.1042/bst20120018] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Many species of the bacterial Shewanella genus are notable for their ability to respire in anoxic environments utilizing insoluble minerals of Fe(III) and Mn(IV) as extracellular electron acceptors. In Shewanella oneidensis, the process is dependent on the decahaem electron-transport proteins that lie at the extracellular face of the outer membrane where they can contact the insoluble mineral substrates. These extracellular proteins are charged with electrons provided by an inter-membrane electron-transfer pathway that links the extracellular face of the outer membrane with the inner cytoplasmic membrane and thereby intracellular electron sources. In the present paper, we consider the common structural features of two of these outer-membrane decahaem cytochromes, MtrC and MtrF, and bring this together with biochemical, spectroscopic and voltammetric data to identify common and distinct properties of these prototypical members of different clades of the outer-membrane decahaem cytochrome superfamily.
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Shi L, Rosso KM, Clarke TA, Richardson DJ, Zachara JM, Fredrickson JK. Molecular Underpinnings of Fe(III) Oxide Reduction by Shewanella Oneidensis MR-1. Front Microbiol 2012; 3:50. [PMID: 22363328 PMCID: PMC3279761 DOI: 10.3389/fmicb.2012.00050] [Citation(s) in RCA: 125] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2011] [Accepted: 01/30/2012] [Indexed: 11/25/2022] Open
Abstract
In the absence of O2 and other electron acceptors, the Gram-negative bacterium Shewanella oneidensis MR-1 can use ferric [Fe(III)] (oxy)(hydr)oxide minerals as the terminal electron acceptors for anaerobic respiration. At circumneutral pH and in the absence of strong complexing ligands, Fe(III) oxides are relatively insoluble and thus are external to the bacterial cells. S. oneidensis MR-1 and related strains of metal-reducing Shewanella have evolved machinery (i.e., metal-reducing or Mtr pathway) for transferring electrons from the inner-membrane, through the periplasm and across the outer-membrane to the surface of extracellular Fe(III) oxides. The protein components identified to date for the Mtr pathway include CymA, MtrA, MtrB, MtrC, and OmcA. CymA is an inner-membrane tetraheme c-type cytochrome (c-Cyt) that belongs to the NapC/NrfH family of quinol dehydrogenases. It is proposed that CymA oxidizes the quinol in the inner-membrane and transfers the released electrons to MtrA either directly or indirectly through other periplasmic proteins. A decaheme c-Cyt, MtrA is thought to be embedded in the trans outer-membrane and porin-like protein MtrB. Together, MtrAB deliver the electrons through the outer-membrane to the MtrC and OmcA on the outmost bacterial surface. MtrC and OmcA are the outer-membrane decaheme c-Cyts that are translocated across the outer-membrane by the bacterial type II secretion system. Functioning as terminal reductases, MtrC and OmcA can bind the surface of Fe(III) oxides and transfer electrons directly to these minerals via their solvent-exposed hemes. To increase their reaction rates, MtrC and OmcA can use the flavins secreted by S. oneidensis MR-1 cells as diffusible co-factors for reduction of Fe(III) oxides. Because of their extracellular location and broad redox potentials, MtrC and OmcA can also serve as the terminal reductases for soluble forms of Fe(III). In addition to Fe(III) oxides, Mtr pathway is also involved in reduction of manganese oxides and other metals. Although our understanding of the Mtr pathway is still far from complete, it is the best characterized microbial pathway used for extracellular electron exchange. Characterizations of the Mtr pathway have made significant contributions to the molecular understanding of microbial reduction of Fe(III) oxides.
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Affiliation(s)
- Liang Shi
- Pacific Northwest National Laboratory Richland, WA, USA
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Liu J, Wang Z, Belchik SM, Edwards MJ, Liu C, Kennedy DW, Merkley ED, Lipton MS, Butt JN, Richardson DJ, Zachara JM, Fredrickson JK, Rosso KM, Shi L. Identification and Characterization of MtoA: A Decaheme c-Type Cytochrome of the Neutrophilic Fe(II)-Oxidizing Bacterium Sideroxydans lithotrophicus ES-1. Front Microbiol 2012; 3:37. [PMID: 22347878 PMCID: PMC3274759 DOI: 10.3389/fmicb.2012.00037] [Citation(s) in RCA: 129] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2011] [Accepted: 01/23/2012] [Indexed: 11/13/2022] Open
Abstract
The Gram-negative bacterium Sideroxydans lithotrophicus ES-1 (ES-1) grows on FeCO(3) or FeS at oxic-anoxic interfaces at circumneutral pH, and the ES-1-mediated Fe(II) oxidation occurs extracellularly. However, the molecular mechanisms underlying ES-1's ability to oxidize Fe(II) remain unknown. Survey of the ES-1 genome for candidate genes for microbial extracellular Fe(II) oxidation revealed that it contained a three-gene cluster encoding homologs of Shewanella oneidensis MR-1 (MR-1) MtrA, MtrB, and CymA that are involved in extracellular Fe(III) reduction. Homologs of MtrA and MtrB were also previously shown to be involved in extracellular Fe(II) oxidation by Rhodopseudomonas palustris TIE-1. To distinguish them from those found in MR-1, the identified homologs were named MtoAB and CymA(ES-1). Cloned mtoA partially complemented an MR-1 mutant without MtrA with regards to ferrihydrite reduction. Characterization of purified MtoA showed that it was a decaheme c-type cytochrome and oxidized soluble Fe(II). Oxidation of Fe(II) by MtoA was pH- and Fe(II)-complexing ligand-dependent. Under conditions tested, MtoA oxidized Fe(II) from pH 7 to pH 9 with the optimal rate at pH 9. MtoA oxidized Fe(II) complexed with different ligands at different rates. The reaction rates followed the order Fe(II)Cl(2) > Fe(II)-citrate > Fe(II)-NTA > Fe(II)-EDTA with the second-order rate constants ranging from 6.3 × 10(-3) μM(-1) s(-1) for oxidation of Fe(II)Cl(2) to 1.0 × 10(-3) μM(-1) s(-1) for oxidation of Fe(II)-EDTA. Thermodynamic modeling showed that redox reaction rates for the different Fe(II)-complexes correlated with their respective estimated reaction-free energies. Collectively, these results demonstrate that MtoA is a functional Fe(II)-oxidizing protein that, by working in concert with MtoB and CymA(ES-1), may oxidize Fe(II) at the bacterial surface and transfer released electrons across the bacterial cell envelope to the quinone pool in the inner membrane during extracellular Fe(II) oxidation by ES-1.
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Affiliation(s)
- Juan Liu
- Pacific Northwest National Laboratory Richland, WA, USA
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Hubbard CG, West LJ, Morris K, Kulessa B, Brookshaw D, Lloyd JR, Shaw S. In search of experimental evidence for the biogeobattery. ACTA ACUST UNITED AC 2011. [DOI: 10.1029/2011jg001713] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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48
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Xiong Y, Chen B, Shi L, Fredrickson JK, Bigelow DJ, Squier TC. Targeted Protein Degradation of Outer Membrane Decaheme Cytochrome MtrC Metal Reductase in Shewanella oneidensis MR-1 Measured Using Biarsenical Probe CrAsH-EDT2. Biochemistry 2011; 50:9738-51. [DOI: 10.1021/bi200602f] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yijia Xiong
- Biological Sciences Division, Fundamental
Sciences
Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Baowei Chen
- Biological Sciences Division, Fundamental
Sciences
Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Liang Shi
- Biological Sciences Division, Fundamental
Sciences
Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - James K. Fredrickson
- Biological Sciences Division, Fundamental
Sciences
Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Diana J. Bigelow
- Biological Sciences Division, Fundamental
Sciences
Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Thomas C. Squier
- Biological Sciences Division, Fundamental
Sciences
Directorate, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
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Bird LJ, Bonnefoy V, Newman DK. Bioenergetic challenges of microbial iron metabolisms. Trends Microbiol 2011; 19:330-40. [DOI: 10.1016/j.tim.2011.05.001] [Citation(s) in RCA: 264] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2011] [Revised: 04/30/2011] [Accepted: 05/03/2011] [Indexed: 11/24/2022]
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50
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Identification and characterization of UndAHRCR-6, an outer membrane endecaheme c-type cytochrome of Shewanella sp. strain HRCR-6. Appl Environ Microbiol 2011; 77:5521-3. [PMID: 21652739 DOI: 10.1128/aem.00614-11] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
UndA(HRCR-6) was identified from the metal-reducing bacterium Shewanella sp. strain HRCR-6. Both in vivo and in vitro characterization results indicate that UndA(HRCR-6) is an outer membrane endecaheme c-type cytochrome and probably has a key functional role in the extracellular reduction of iron [Fe(III)] oxides and uranium [U(VI)] by Shewanella sp. HRCR-6.
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