51
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Gong Z, Yu H, Zhang J, Li F, Song H. Microbial electro-fermentation for synthesis of chemicals and biofuels driven by bi-directional extracellular electron transfer. Synth Syst Biotechnol 2020; 5:304-313. [PMID: 32995586 PMCID: PMC7490822 DOI: 10.1016/j.synbio.2020.08.004] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2020] [Revised: 07/23/2020] [Accepted: 08/25/2020] [Indexed: 11/16/2022] Open
Abstract
Electroactive bacteria could perform bi-directional extracellular electron transfer (EET) to exchange electrons and energy with extracellular environments, thus playing a central role in microbial electro-fermentation (EF) process. Unbalanced fermentation and microbial electrosynthesis are the main pathways to produce value-added chemicals and biofuels. However, the low efficiency of the bi-directional EET is a dominating bottleneck in these processes. In this review, we firstly demonstrate the main bi-directional EET mechanisms during EF, including the direct EET and the shuttle-mediated EET. Then, we review representative milestones and progresses in unbalanced fermentation via anode outward EET and microbial electrosynthesis via inward EET based on these two EET mechanisms in detail. Furthermore, we summarize the main synthetic biology strategies in improving the bi-directional EET and target products synthesis, thus to enhance the efficiencies in unbalanced fermentation and microbial electrosynthesis. Lastly, a perspective on the applications of microbial electro-fermentation is provided.
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Affiliation(s)
- Ziying Gong
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin, 300072, China.,Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, China
| | - Huan Yu
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin, 300072, China.,Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, China
| | - Junqi Zhang
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin, 300072, China.,Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, China
| | - Feng Li
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin, 300072, China.,Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, China
| | - Hao Song
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), Tianjin University, Tianjin, 300072, China.,Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, China
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52
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Mukherjee M, Zaiden N, Teng A, Hu Y, Cao B. Shewanella biofilm development and engineering for environmental and bioenergy applications. Curr Opin Chem Biol 2020; 59:84-92. [PMID: 32750675 DOI: 10.1016/j.cbpa.2020.05.004] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Revised: 05/10/2020] [Accepted: 05/12/2020] [Indexed: 12/31/2022]
Abstract
The genus Shewanella comprises about 70 species of Gram-negative, facultative anaerobic bacteria inhabiting various environments, which have shown great potential in various biotechnological applications ranging from environmental bioremediation, metal(loid) recovery and material synthesis to bioenergy generation. Most environmental and energy applications of Shewanella involve the biofilm mode of growth on surfaces of solid minerals or electrodes. In this article, we first provide an overview of Shewanella biofilm biology with the focus on biofilm dynamics, biofilm matrix, and key signalling systems involved in Shewanella biofilm development. Then we review strategies recently exploited to engineer Shewanella biofilms to improve biofilm-mediated bioprocesses.
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Affiliation(s)
- Manisha Mukherjee
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 637551, Singapore; School of Civil and Environmental Engineering, Nanyang Technological University, 639798, Singapore
| | - Norazean Zaiden
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 637551, Singapore; Interdisciplinary Graduate Programme, Graduate College, Nanyang Technological University, 637335, Singapore
| | - Aloysius Teng
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 637551, Singapore; Interdisciplinary Graduate Programme, Graduate College, Nanyang Technological University, 637335, Singapore
| | - Yidan Hu
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 637551, Singapore; Interdisciplinary Graduate Programme, Graduate College, Nanyang Technological University, 637335, Singapore
| | - Bin Cao
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 637551, Singapore; School of Civil and Environmental Engineering, Nanyang Technological University, 639798, Singapore.
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53
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Philipp LA, Edel M, Gescher J. Genetic engineering for enhanced productivity in bioelectrochemical systems. ADVANCES IN APPLIED MICROBIOLOGY 2020; 111:1-31. [PMID: 32446410 DOI: 10.1016/bs.aambs.2020.01.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
A shift from petrochemical processes toward a bio-based economy is one of the most advocated developments for a sustainable future. To achieve this will require the biotechnological production of platform chemicals that can be further processed by chemical engineering. Bioelectrochemical systems (BESs) are a novel tool within the biotechnology field. In BESs, microbes serve as biocatalysts for the production of biofuels and value-added compounds, as well as for the production of electricity. Although the general feasibility of bioelectrochemical processes has been demonstrated in recent years, much research has been conducted to develop biocatalysts better suited to meet industrial demands. Initially, mainly natural exoelectrogenic organisms were investigated for their performance in BESs. Driven by possibilities of recent developments in genetic engineering and synthetic biology, the spectrum of microbial catalysts and their versatility (substrate and product range) have expanded significantly. Despite these developments, there is still a tremendous gap between currently achievable space-time yields and current densities on the one hand and the theoretical limits of BESs on the other. It will be necessary to move the performance of the biocatalysts closer to the theoretical possibilities in order to establish viable production routines. This review summarizes the status quo of engineering microbial biocatalysts for anode-applications with high space-time yields. Furthermore, we will address some of the theoretical limitations of these processes exemplarily and discuss which of the present strategies might be combined to achieve highly synergistic effects and, thus, meet industrial demands.
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Affiliation(s)
- Laura-Alina Philipp
- Karlsruhe Institute of Technology, Institute for Applied Biosciences-Department of Applied Biology, Karlsruhe, Germany
| | - Miriam Edel
- Karlsruhe Institute of Technology, Institute for Applied Biosciences-Department of Applied Biology, Karlsruhe, Germany
| | - Johannes Gescher
- Karlsruhe Institute of Technology, Institute for Applied Biosciences-Department of Applied Biology, Karlsruhe, Germany; Karlsruhe Institute of Technology, Institute for Biological Interfaces, Eggenstein-Leopoldshafen, Germany.
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54
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Silva AV, Edel M, Gescher J, Paquete CM. Exploring the Effects of bolA in Biofilm Formation and Current Generation by Shewanella oneidensis MR-1. Front Microbiol 2020; 11:815. [PMID: 32457717 PMCID: PMC7225295 DOI: 10.3389/fmicb.2020.00815] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Accepted: 04/06/2020] [Indexed: 12/15/2022] Open
Abstract
Microbial electrochemical technologies (METs) have emerged in recent years as a promising alternative green source of energy, with microbes consuming organic matter to produce energy or valuable byproducts. It is the ability of performing extracellular electron transfer that allows these microbes to exchange electrons with an electrode in these systems. The low levels of current achieved have been the limiting factor for the large-scale application of METs. Shewanella oneidensis MR-1 is one of the most studied electroactive organisms regarding extracellular electron transfer, and it has been shown that biofilm formation is a key factor for current generation. The transcription factor bolA has been identified as a central player in biofilm formation in other organisms, with its overexpression leading to increased biofilm. In this work we explore the effect of this gene in biofilm formation and current production by S. oneidensis MR-1. Our results demonstrate that an increased biofilm formation and consequent current generation was achieved by the overexpression of this gene. This information is crucial to optimize electroactive organisms toward their practical application in METs.
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Affiliation(s)
- Ana V. Silva
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Oeiras, Portugal
| | - Miriam Edel
- Department of Applied Biology, Institute for Applied Biology, Karlsruhe Institute of Technology, Karlsruhe, Germany
| | - Johannes Gescher
- Department of Applied Biology, Institute for Applied Biology, Karlsruhe Institute of Technology, Karlsruhe, Germany
- Institute for Biological Interfaces, Karlsruhe Institute of Technology, Karlsruhe, Germany
| | - Catarina M. Paquete
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Oeiras, Portugal
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55
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Li J, Tang Q, Li Y, Fan YY, Li FH, Wu JH, Min D, Li WW, Lam PKS, Yu HQ. Rediverting Electron Flux with an Engineered CRISPR-ddAsCpf1 System to Enhance the Pollutant Degradation Capacity of Shewanella oneidensis. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2020; 54:3599-3608. [PMID: 32062962 DOI: 10.1021/acs.est.9b06378] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Pursuing efficient approaches to promote the extracellular electron transfer (EET) of extracellular respiratory bacteria is essential to their application in environmental remediation and waste treatment. Here, we report a new strategy of tuning electron flux by clustered regularly interspaced short palindromic repeat (CRISPR)-ddAsCpf1-based rediverting (namely STAR) to enhance the EET capacity of Shewanella oneidensis MR-1, a model extracellular respiratory bacterium widely present in the environment. The developed CRISPR-ddAsCpf1 system enabled approximately 100% gene repression with the green fluorescent protein (GFP) as a reporter. Using a WO3 probe, 10 representative genes encoding for putative competitive electron transfer proteins were screened, among which 7 genes were identified as valid targets for EET enhancement. Repressing the valid genes not only increased the transcription level of the l-lactate metabolism genes but also affected the genes involved in direct and indirect EET. Increased riboflavin production was also observed. The feasibility of this strategy to enhance the bioreduction of methyl orange, an organic pollutant, and chromium, a typical heavy metal, was demonstrated. This work implies a great potential of the STAR strategy with the CIRPSR-ddAsCpf1 system for enhancing bacterial EET to favor more efficient environmental remediation applications.
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Affiliation(s)
- Jie Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
- University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
- State Key Laboratory in Marine Pollution, Department of Chemistry, City University of Hong Kong, Kowloon 999077, Hong Kong SAR, China
| | - Qiang Tang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Yang Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Yang-Yang Fan
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Feng-He Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Jing-Hang Wu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Di Min
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Wen-Wei Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
- University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
| | - Paul K S Lam
- University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
- State Key Laboratory in Marine Pollution, Department of Chemistry, City University of Hong Kong, Kowloon 999077, Hong Kong SAR, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei 230026, China
- University of Science and Technology of China-City University of Hong Kong Joint Advanced Research Center, Suzhou 215123, China
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56
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Cheng L, Min D, Liu DF, Zhu TT, Wang KL, Yu HQ. Deteriorated biofilm-forming capacity and electroactivity of Shewanella oneidnsis MR-1 induced by insertion sequence (IS) elements. Biosens Bioelectron 2020; 156:112136. [PMID: 32174561 DOI: 10.1016/j.bios.2020.112136] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2020] [Revised: 03/04/2020] [Accepted: 03/05/2020] [Indexed: 12/17/2022]
Abstract
Shewanella oneidensis MR-1, a model species of exoelectrogenic bacteria (EEB), has been widely applied in bioelectrochemical systems. Biofilms of EEB grown on electrodes are essential in governing the current output and power density of bioelectrochemical systems. The MR-1 genome is exceptionally dynamic due to the existence of a large number of insertion sequence (IS) elements. However, to date, the impacts of IS elements on the biofilm-forming capacity of EEB and performance of bioelectrochemical systems remain unrevealed. Herein, we isolated a non-motile mutant (NMM) with biofilm-deficient phenotype from MR-1. We found that the insertion of an ISSod2 element into the flrA (encoding the master regulator for flagella synthesis and assembly) of MR-1 resulted in the non-motile and biofilm-deficient phenotypes in NMM cells. Notably, such a variant was readily confused with the wild-type strain because there were no obvious differences in growth rates and colonial morphologies between the two strains. However, the reduced biofilm formation on the electrodes and the deteriorated performances of bioelectrochemical systems and Cr(VI) immobilization for the strain NMM were observed. Given the wide distribution of IS elements in EEB, appropriate cultivation and preservation conditions should be adopted to reduce the likelihood that IS elements-mediated mutation occurs in EEB. These findings reveal the negative impacts of IS elements on the biofilm-forming capacity of EEB and performance of bioelectrochemical systems and suggest that great attention should be given to the actual physiological states of EEB before their applications.
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Affiliation(s)
- Lei Cheng
- 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 Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Dong-Feng Liu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China.
| | - Ting-Ting Zhu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Kai-Li Wang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science and Technology of China, Hefei, 230026, China.
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57
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Cheng ZH, Xiong JR, Min D, Cheng L, Liu DF, Li WW, Jin F, Yang M, Yu HQ. Promoting bidirectional extracellular electron transfer of Shewanella oneidensis MR-1 for hexavalent chromium reduction via elevating intracellular cAMP level. Biotechnol Bioeng 2020; 117:1294-1303. [PMID: 32048726 DOI: 10.1002/bit.27305] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Revised: 01/29/2020] [Accepted: 02/10/2020] [Indexed: 12/29/2022]
Abstract
The bioreduction capacity of Cr(VI) by Shewanella is mainly governed by its bidirectional extracellular electron transfer (EET). However, the low bidirectional EET efficiency restricts its wider applications in remediation of the environments contaminated by Cr(VI). Cyclic adenosine 3',5'-monophosphate (cAMP) commonly exists in Shewanella strains and cAMP-cyclic adenosine 3',5'-monophosphate receptor protein (CRP) system regulates multiple bidirectional EET-related pathways. This inspires us to strengthen the bidirectional EET through elevating the intracellular cAMP level in Shewanella strains. In this study, an exogenous gene encoding adenylate cyclase from the soil bacterium Beggiatoa sp. PS is functionally expressed in Shewanella oneidensis MR-1 (the strain MR-1/pbPAC) and a MR-1 mutant lacking all endogenous adenylate cyclase encoding genes (the strain Δca/pbPAC). The engineered strains exhibit the enhanced bidirectional EET capacities in microbial electrochemical systems compared with their counterparts. Meanwhile, a three times more rapid reduction rate of Cr(VI) is achieved by the strain MR-1/pbPAC than the control in batch experiments. Furthermore, a higher Cr(VI) reduction efficiency is also achieved by the strain MR-1/pbPAC in the Cr(VI)-reducing biocathode experiments. Such a bidirectional enhancement is attributed to the improved production of cAMP-CRP complex, which upregulates the expression levels of the genes encoding the c-type cytochromes and flavins synthetic pathways. Specially, this strategy could be used as a broad-spectrum approach for the other Shewanella strains. Our results demonstrate that elevating the intracellular cAMP levels could be an efficient strategy to enhance the bidirectional EET of Shewanella strains and improve their pollutant transformation capacity.
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Affiliation(s)
- Zhou-Hua Cheng
- School of Life Sciences, University of Science & Technology of China, Hefei, China
| | - Jia-Rui Xiong
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, China
| | - Di Min
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science & Technology of China, Hefei, China
| | - Lei Cheng
- School of Life Sciences, University of Science & Technology of China, Hefei, China
| | - Dong-Feng Liu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science & Technology of China, Hefei, China
| | - Wen-Wei Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science & Technology of China, Hefei, China
| | - Fan Jin
- Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, China
| | - Min Yang
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Applied Chemistry, University of Science & Technology of China, Hefei, China
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58
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Suo D, Fang Z, Yu Y, Yong Y. Synthetic curli enables efficient microbial electrocatalysis with stainless‐steel electrode. AIChE J 2019. [DOI: 10.1002/aic.16897] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Di Suo
- Biofuels Institute, School of Environment and Safety EngineeringJiangsu University Zhenjiang China
| | - Zhen Fang
- Biofuels Institute, School of Environment and Safety EngineeringJiangsu University Zhenjiang China
| | - Yang‐Yang Yu
- Biofuels Institute, School of Environment and Safety EngineeringJiangsu University Zhenjiang China
| | - Yang‐Chun Yong
- Biofuels Institute, School of Environment and Safety EngineeringJiangsu University Zhenjiang China
- Zhenjiang Key Laboratory of Advanced Sensing Materials and Devices, School of Mechanical Engineering, Jiangsu University Zhenjiang China
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59
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Suravaram SK, Smith DK, Parkin A, Chechik V. Conductive Gels Based on Modified Agarose Embedded with Gold Nanoparticles and their Application as a Conducting Support for
Shewanella Oneidensis
MR‐1. ChemElectroChem 2019. [DOI: 10.1002/celc.201901618] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
| | - David K. Smith
- Department of ChemistryUniversity of York Heslington York YO10 5DD UK
| | - Alison Parkin
- Department of ChemistryUniversity of York Heslington York YO10 5DD UK
| | - Victor Chechik
- Department of ChemistryUniversity of York Heslington York YO10 5DD UK
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60
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Hu Y, Liu X, Ren ATM, Gu JD, Cao B. Optogenetic Modulation of a Catalytic Biofilm for the Biotransformation of Indole into Tryptophan. CHEMSUSCHEM 2019; 12:5142-5148. [PMID: 31621183 DOI: 10.1002/cssc.201902413] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2019] [Revised: 10/15/2019] [Indexed: 06/10/2023]
Abstract
In green chemical synthesis, biofilms as biocatalysts have shown great promise. Efficient biofilm-mediated biocatalysis requires the modulation of biofilm formation. Optogenetic tools are ideal to control biofilms because light is noninvasive, easily controllable, and cost-efficient. In this study, a gene circuit responsive to near-infrared (NIR) light was used to modulate the cellular level of bis-(3'-5') cyclic dimeric guanosine monophosphate (c-di-GMP), a central regulator of the prokaryote biofilm lifestyle, which allowed the regulation of biofilm formation by using NIR light. The engineered biofilm was applied to catalyze the biotransformation of indole into tryptophan in submerged biofilm reactors and NIR-light-enhanced biofilm formation resulted in an approximately 30 % increase in tryptophan yield, which demonstrates the feasibility of the application of light to modulate the formation and performance of catalytic biofilms for chemical production. The c-di-GMP-targeted optogenetic approach to modulate catalytic biofilms showcases applications for biofilm-mediated biocatalysis.
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Affiliation(s)
- Yidan Hu
- Singapore Centre for Environmental Life Sciences Engineering, Interdisciplinary Graduate School, Nanyang Technological University, 60 Nanyang Dr, Singapore, 637551, Singapore
| | - Xiaobo Liu
- Singapore Centre for Environmental Life Sciences Engineering, Interdisciplinary Graduate School, Nanyang Technological University, 60 Nanyang Dr, Singapore, 637551, Singapore
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, The University of Hong Kong, Hong Kong, P.R. China
| | - Aloysius Teng Min Ren
- Singapore Centre for Environmental Life Sciences Engineering, Interdisciplinary Graduate School, Nanyang Technological University, 60 Nanyang Dr, Singapore, 637551, Singapore
| | - Ji-Dong Gu
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, The University of Hong Kong, Hong Kong, P.R. China
| | - Bin Cao
- Singapore Centre for Environmental Life Sciences Engineering, Interdisciplinary Graduate School, Nanyang Technological University, 60 Nanyang Dr, Singapore, 637551, Singapore
- School of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Ave, Singapore, 639798, Singapore
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61
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Strategies for improving the electroactivity and specific metabolic functionality of microorganisms for various microbial electrochemical technologies. Biotechnol Adv 2019; 39:107468. [PMID: 31707076 DOI: 10.1016/j.biotechadv.2019.107468] [Citation(s) in RCA: 55] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2019] [Revised: 11/02/2019] [Accepted: 11/04/2019] [Indexed: 01/31/2023]
Abstract
Electroactive microorganisms, which possess extracellular electron transfer (EET) capabilities, are the basis of microbial electrochemical technologies (METs) such as microbial fuel and electrolysis cells. These are considered for several applications ranging from the energy-efficient treatment of waste streams to the production of value-added chemicals and fuels, bioremediation, and biosensing. Various aspects related to the microorganisms, electrodes, separators, reactor design, and operational or process parameters influence the overall functioning of METs. The most fundamental and critical performance-determining factor is, however, the microorganism-electrode interactions. Modification of the electrode surfaces and microorganisms for optimizing their interactions has therefore been the major MET research focus area over the last decade. In the case of microorganisms, primarily their EET mechanisms and efficiencies along with the biofilm formation capabilities, collectively considered as microbial electroactivity, affect their interactions with the electrodes. In addition to electroactivity, the specific metabolic or biochemical functionality of microorganisms is equally crucial to the target MET application. In this article, we present the major strategies that are used to enhance the electroactivity and specific functionality of microorganisms pertaining to both anodic and cathodic processes of METs. These include simple physical methods based on the use of heat and magnetic field along with chemical, electrochemical, and growth media amendment approaches to the complex procedure-based microbial bioaugmentation, co-culture, and cell immobilization or entrapment, and advanced toolkit-based biofilm engineering, genetic modifications, and synthetic biology strategies. We further discuss the applicability and limitations of these strategies and possible future research directions for advancing the highly promising microbial electrochemistry-driven biotechnology.
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62
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Zhai DD, Fang Z, Jin H, Hui M, Kirubaharan CJ, Yu YY, Yong YC. Vertical alignment of polyaniline nanofibers on electrode surface for high-performance microbial fuel cells. BIORESOURCE TECHNOLOGY 2019; 288:121499. [PMID: 31128545 DOI: 10.1016/j.biortech.2019.121499] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2019] [Revised: 05/15/2019] [Accepted: 05/16/2019] [Indexed: 06/09/2023]
Abstract
Electrode modifications with conductive and nanostructured polyaniline (PANI) were recognized as efficient approach to improve interaction between electrode surface and electrogenic bacteria for boosting the performance of microbial fuel cell (MFC). However, it still showed undesirable performance because of the challenge to control the orientation (such as vertical alignment) of PANI nanostructure for extracellular electron transfer (EET). In this work, vertically aligned polyaniline (VA-PANI) on carbon cloth electrode surface were prepared by in-situ polymerization method (simply tuning the ratio of tartaric acid (TA) dopant). Impressively, the VA-PANI greatly improved the EET due to the increased opportunity to connect with conductive proteins. Eventually, MFC equipped with the VA-PANI electrodes delivered a power output of 853 mW/m2, which greatly outperformed those electrodes modified with un-oriented PANI. This work provided the possibility to control the orientation of PANI for EET and promise to harvest energy from wastewater with MFC.
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Affiliation(s)
- Dan-Dan Zhai
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang 212013, China; College of Biological Engineering, Henan University of Technology, Zhengzhou 450001, China
| | - Zhen Fang
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang 212013, China
| | - Hongwei Jin
- College of Biological Engineering, Henan University of Technology, Zhengzhou 450001, China
| | - Ming Hui
- College of Biological Engineering, Henan University of Technology, Zhengzhou 450001, China
| | | | - Yang-Yang Yu
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang 212013, China
| | - Yang-Chun Yong
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang 212013, China; Zhenjiang Key Laboratory of Advanced Sensing Materials and Devices, School of Mechanical Engineering, Jiangsu University, Zhenjiang 212013, China.
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63
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Biofilm systems as tools in biotechnological production. Appl Microbiol Biotechnol 2019; 103:5095-5103. [PMID: 31079168 DOI: 10.1007/s00253-019-09869-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2019] [Revised: 04/23/2019] [Accepted: 04/24/2019] [Indexed: 01/08/2023]
Abstract
The literature provides more and more examples of research projects that develop novel production processes based on microorganisms organized in the form of biofilms. Biofilms are aggregates of microorganisms that are attached to interfaces. These viscoelastic aggregates of cells are held together and are embedded in a matrix consisting of multiple carbohydrate polymers as well as proteins. Biofilms are characterized by a very high cell density and by a natural retentostat behavior. Both factors can contribute to high productivities and a facilitated separation of the desired end-product from the catalytic biomass. Within the biofilm matrix, stable gradients of substrates and products form, which can lead to a differentiation and adaptation of the microorganisms' physiology to the specific process conditions. Moreover, growth in a biofilm state is often accompanied by a higher resistance and resilience towards toxic or growth inhibiting substances and factors. In this short review, we summarize how biofilms can be studied and what most promising niches for their application can be. Moreover, we highlight future research directions that will accelerate the advent of productive biofilms in biology-based production processes.
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Logan BE, Rossi R, Ragab A, Saikaly PE. Electroactive microorganisms in bioelectrochemical systems. Nat Rev Microbiol 2019; 17:307-319. [DOI: 10.1038/s41579-019-0173-x] [Citation(s) in RCA: 546] [Impact Index Per Article: 109.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Cao Y, Mu H, Liu W, Zhang R, Guo J, Xian M, Liu H. Electricigens in the anode of microbial fuel cells: pure cultures versus mixed communities. Microb Cell Fact 2019; 18:39. [PMID: 30782155 PMCID: PMC6380051 DOI: 10.1186/s12934-019-1087-z] [Citation(s) in RCA: 82] [Impact Index Per Article: 16.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Accepted: 02/12/2019] [Indexed: 11/10/2022] Open
Abstract
Microbial fuel cell (MFC) is an environmentally friendly technology for electricity harvesting from a variety of substrates. Microorganisms used as catalysts in the anodic chamber, which are termed as electricigens, play a major role in the operation of MFCs. This review provides an introduction to the currently identified electricigens on their taxonomical groups and electricity producing abilities. The mechanism of electron transfer from electricigens to electrode is highlighted. The performances of pure culture and mixed communities are compared particularly. It has been proved that the electricity generation capacity and the ability to adapt to the complex environment of MFC systems constructed by pure microbial cultures are less than the systems constructed by miscellaneous consortia. However, pure cultures are useful to clarify the electron transfer mechanism at the microbiological level and further reduce the complexity of mixed communities. Future research trends of electricigens in MFCs should be focused on screening, domestication, modification and optimization of multi-strains to improve their electrochemical activities. Although the MFC techniques have been greatly advanced during the past few years, the present state of this technology still requires to be combined with other processes for cost reduction.
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Affiliation(s)
- Yujin Cao
- CAS Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China.
| | - Hui Mu
- Shandong Key Laboratory of Biomass Gasification Technology, Energy Research Institute, Qilu University of Technology (Shandong Academy of Sciences), Jinan, China
| | - Wei Liu
- CAS Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
| | - Rubing Zhang
- CAS Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
| | - Jing Guo
- CAS Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China
| | - Mo Xian
- CAS Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China.
| | - Huizhou Liu
- CAS Key Laboratory of Biobased Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, 266101, China.
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Zou L, Huang YH, Long ZE, Qiao Y. On-going applications of Shewanella species in microbial electrochemical system for bioenergy, bioremediation and biosensing. World J Microbiol Biotechnol 2018; 35:9. [PMID: 30569420 DOI: 10.1007/s11274-018-2576-7] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2018] [Accepted: 12/07/2018] [Indexed: 11/24/2022]
Abstract
Microbial electrochemical system (MES) has attracted ever-growing interest as a promising platform for renewable energy conversion and bioelectrochemical remediation. Shewanella species, the dissimilatory metal reduction model bacteria with versatile extracellular electron transfer (EET) strategies, are the well-received microorganisms in diverse MES devices for various practical applications as well as microbial EET mechanism investigation. Meanwhile, the available genomic information and the unceasing established gene-editing toolbox offer an unprecedented opportunity to boost the applications of Shewanella species in MES. This review thoroughly summarizes the status quo of the applications of Shewanella species in microbial fuel cells for bioelectricity generation, microbial electrosynthesis for biotransformation of valuable chemicals and bioremediation of environment-hazardous pollutants with synoptical discussion on their EET mechanism. Recent advances in rational design and genetic engineering of Shewanella strains for either promoting the MES performance or broadening their applications are surveyed. Moreover, some emerging applications beyond electricity generation, such as biosensing and biocomputing, are also documented. The challenges and perspectives for Shewanella-based MES are also discussed elaborately for the sake of not only discovering new scientific lights on microbial extracellular respiratory but also propelling practical applications.
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Affiliation(s)
- Long Zou
- College of Life Sciences, Jiangxi Normal University, Nanchang, 330022, China
| | - Yun-Hong Huang
- College of Life Sciences, Jiangxi Normal University, Nanchang, 330022, China
| | - Zhong-Er Long
- College of Life Sciences, Jiangxi Normal University, Nanchang, 330022, China.
| | - Yan Qiao
- Institute for Clean Energy and Advanced Materials, Faculty of Materials and Energy, Southwest University, Chongqing, 400715, China.
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Smith TJ, Sondermann H, O’Toole GA. Co-opting the Lap System of Pseudomonas fluorescens To Reversibly Customize Bacterial Cell Surfaces. ACS Synth Biol 2018; 7:2612-2617. [PMID: 30278125 DOI: 10.1021/acssynbio.8b00278] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Initial attachment to a surface is a key and highly regulated step in biofilm formation. In this study, we present a platform for reversibly functionalizing bacterial cell surfaces with an emphasis on designing biofilms. We engineered the Lap system of Pseudomonas fluorescens Pf0-1, which is normally used to regulate initial cell surface attachment, to display various protein cargo at the bacterial cell surface and control extracellular release of the cargo in response to changing levels of the second messenger c-di-GMP. To accomplish this goal, we fused the protein cargo between the N-terminal retention module and C-terminal secretion signal of LapA and controlled surface localization of the cargo with natural signals known to stimulate or deplete c-di-GMP levels in P. fluorescens Pf0-1. We show this system can tolerate large cargo in excess of 500 amino acids, direct P. fluorescens Pf0-1 to surfaces it does not typically colonize, and program this microbe to sequester the toxic medal cadmium.
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Affiliation(s)
- T. Jarrod Smith
- Department of Microbiology and Immunology, Geisel School of Medicine at Dartmouth, Room 202 Remsen
Building, Hanover, New Hampshire 03755, United States
| | - Holger Sondermann
- Department of Molecular Medicine, College of Veterinary Medicine, Cornell University, Ithaca, New York 14853, United States
| | - George A. O’Toole
- Department of Microbiology and Immunology, Geisel School of Medicine at Dartmouth, Room 202 Remsen
Building, Hanover, New Hampshire 03755, United States
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Yang LH, Zhu TT, Cai WW, Haider MR, Wang HC, Cheng HY, Wang AJ. Micro-oxygen bioanode: An efficient strategy for enhancement of phenol degradation and current generation in mix-cultured MFCs. BIORESOURCE TECHNOLOGY 2018; 268:176-182. [PMID: 30077174 DOI: 10.1016/j.biortech.2018.07.025] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2018] [Revised: 07/03/2018] [Accepted: 07/06/2018] [Indexed: 06/08/2023]
Abstract
It is controversial to introduce oxygen into anode chamber as oxygen would decrease the CE (Coulombic efficiency) while it could also enhance the degradation of aromatics in microbial fuel cell (MFCs). Therefore, it is important to balance the pros and cons of oxygen in aromatics driven MFCs. A RMO (micro-oxygen bioanode MFC) was designed to determine the effect of oxygen on electricity output and phenol degradation. The RMO showed 6-fold higher phenol removal efficiency, 4-fold higher current generation than the RAN (anaerobic bioanode MFC) at a cost of 26.9% decline in CE. The Zoogloea and Geobacter, which account for phenol degradation and current generation, respectively, were dominated in the RMO bioanode biofilm. The biomass also showed great difference between RMO and RAN (114.3 ± 14.1 vs. 2.2 ± 0.5 nmol/g). Therefore, different microbial community, higher biomass as well as the different degradation pathway were suggested as reasons for the better performance in RMO.
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Affiliation(s)
- Li-Hui Yang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Ting-Ting Zhu
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Wei-Wei Cai
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China
| | - Muhammad Rizwan Haider
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Hong-Cheng Wang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Hao-Yi Cheng
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Ai-Jie Wang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin 150090, PR China.
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Zou L, Qiao Y, Li CM. Boosting Microbial Electrocatalytic Kinetics for High Power Density: Insights into Synthetic Biology and Advanced Nanoscience. ELECTROCHEM ENERGY R 2018. [DOI: 10.1007/s41918-018-0020-1] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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Li F, Li YX, Cao YX, Wang L, Liu CG, Shi L, Song H. Modular engineering to increase intracellular NAD(H/ +) promotes rate of extracellular electron transfer of Shewanella oneidensis. Nat Commun 2018; 9:3637. [PMID: 30194293 PMCID: PMC6128845 DOI: 10.1038/s41467-018-05995-8] [Citation(s) in RCA: 81] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2017] [Accepted: 08/07/2018] [Indexed: 01/08/2023] Open
Abstract
The slow rate of extracellular electron transfer (EET) of electroactive microorganisms remains a primary bottleneck that restricts the practical applications of bioelectrochemical systems. Intracellular NAD(H/+) (i.e., the total level of NADH and NAD+) is a crucial source of the intracellular electron pool from which intracellular electrons are transferred to extracellular electron acceptors via EET pathways. However, how the total level of intracellular NAD(H/+) impacts the EET rate in Shewanella oneidensis has not been established. Here, we use a modular synthetic biology strategy to redirect metabolic flux towards NAD+ biosynthesis via three modules: de novo, salvage, and universal biosynthesis modules in S. oneidensis MR-1. The results demonstrate that an increase in intracellular NAD(H/+) results in the transfer of more electrons from the increased oxidation of the electron donor to the EET pathways of S. oneidensis, thereby enhancing intracellular electron flux and the EET rate. A bottleneck for the application of bioelectrochemical systems is the slow rate of extracellular electron transfer. Here the authors use a synthetic biology approach to redirect metabolic flux to NAD+ biosynthesis, which enhances the intracellular electron flux and the extracellular electron transfer rate.
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Affiliation(s)
- Feng Li
- Key Laboratory of Systems Bioengineering (Ministry of Education), SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
| | - Yuan-Xiu Li
- Key Laboratory of Systems Bioengineering (Ministry of Education), SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
| | - Ying-Xiu Cao
- Key Laboratory of Systems Bioengineering (Ministry of Education), SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
| | - Lei Wang
- State Key Laboratory of Marine Resource Utilization in South China Sea, College of Information Science & Technology, Hainan University, Haikou, 570228, PR China
| | - Chen-Guang Liu
- State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, 200240, PR China
| | - Liang Shi
- Department of Biological Sciences and Technology, School of Environmental Studies, China University of Geoscience in Wuhan, Wuhan, 430074, Hubei, PR China
| | - Hao Song
- Key Laboratory of Systems Bioengineering (Ministry of Education), SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China.
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An N-Terminal Retention Module Anchors the Giant Adhesin LapA of Pseudomonas fluorescens at the Cell Surface: a Novel Subfamily of Type I Secretion Systems. J Bacteriol 2018; 200:JB.00734-17. [PMID: 29437852 DOI: 10.1128/jb.00734-17] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Accepted: 01/31/2018] [Indexed: 11/20/2022] Open
Abstract
LapA of Pseudomonas fluorescens Pf0-1 belongs to a diverse family of cell surface-associated bacterial adhesins that are secreted via the type I secretion system (T1SS). We previously reported that the periplasmic protease LapG cleaves the N terminus of LapA at a canonical dialanine motif to release the adhesin from the cell surface under conditions unfavorable to biofilm formation, thus decreasing biofilm formation. Here, we characterize LapA as the first type I secreted substrate that does not follow the "one-step" rule of T1SS. Rather, a novel N-terminal element, called the retention module (RM), localizes LapA at the cell surface as a secretion intermediate. Our genetic, biochemical, and molecular modeling analyses support a model wherein LapA is tethered to the cell surface through its T1SS outer membrane TolC-like pore, LapE, until LapG cleaves LapA in the periplasm. We further demonstrate that this unusual retention strategy is likely conserved among LapA-like proteins, and it reveals a new subclass of T1SS ABC transporters involved in transporting this group of surface-associated LapA-like adhesins. These studies demonstrate a novel cell surface retention strategy used throughout the Proteobacteria and highlight a previously unappreciated flexibility of function for T1SS.IMPORTANCE Bacteria have evolved multiple secretion strategies to interact with their environment. For many bacteria, the secretion of cell surface-associated adhesins is key for initiating contact with a preferred substratum to facilitate biofilm formation. Our work demonstrates that P. fluorescens uses a previously unrecognized secretion strategy to retain the giant adhesin LapA at its cell surface. Further, we identify likely LapA-like adhesins in various pathogenic and commensal proteobacteria and provide phylogenetic evidence that these adhesins are secreted by a new subclass of T1SS ABC transporters.
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Li F, Li Y, Sun L, Chen X, An X, Yin C, Cao Y, Wu H, Song H. Modular Engineering Intracellular NADH Regeneration Boosts Extracellular Electron Transfer of Shewanella oneidensis MR-1. ACS Synth Biol 2018; 7:885-895. [PMID: 29429342 DOI: 10.1021/acssynbio.7b00390] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Efficient extracellular electron transfer (EET) of exoelectrogens is essentially for practical applications of versatile bioelectrochemical systems. Intracellular electrons flow from NADH to extracellular electron acceptors via EET pathways. However, it was yet established how the manipulation of intracellular NADH impacted the EET efficiency. Strengthening NADH regeneration from NAD+, as a feasible approach for cofactor engineering, has been used in regulating the intracellular NADH pool and the redox state (NADH/NAD+ ratio) of cells. Herein, we first adopted a modular metabolic engineering strategy to engineer and drive the metabolic flux toward the enhancement of intracellular NADH regeneration. We systematically studied 16 genes related to the NAD+-dependent oxidation reactions for strengthening NADH regeneration in the four metabolic modules of S. oneidensis MR-1, i.e., glycolysis, C1 metabolism, pyruvate fermentation, and tricarboxylic acid cycle. Among them, three endogenous genes mostly responsible for increasing NADH regeneration were identified, namely gapA2 encoding a NAD+-dependent glyceraldehyde-3-phosphate dehydrogenase in the glycolysis module, mdh encoding a NAD+-dependent malate dehydrogenase in the TCA cycle, and pflB encoding a pyruvate-formate lyase that converted pyruvate to formate in the pyruvate fermentation module. An exogenous gene fdh* from Candida boidinii encoding a NAD+-dependent formate dehydrogenase to increase NADH regeneration in the pyruvate fermentation module was further identified. Upon assembling these four genes in S. oneidensis MR-1, ∼4.3-fold increase in NADH/NAD+ ratio, and ∼1.2-fold increase in intracellular NADH pool were obtained under anaerobic conditions without discharge, which elicited ∼3.0-fold increase in the maximum power output in microbial fuel cells, from 26.2 ± 2.8 (wild-type) to 105.8 ± 4.1 mW/m2 (recombinant S. oneidensis), suggesting a boost in the EET efficiency. This modular engineering method in controlling the intracellular reducing equivalents would be a general approach in tuning the EET efficiency of exoelectrogens.
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Affiliation(s)
- Feng Li
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072, China
| | - Yuanxiu Li
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072, China
| | - Liming Sun
- Petrochemical Research Institute, PetroChina Company Limited, Beijing 102206, China
| | - Xiaoli Chen
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072, China
| | - Xingjuan An
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072, China
| | - Changji Yin
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072, China
| | - Yingxiu Cao
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072, China
| | - Hui Wu
- State Key Laboratory of Bioreactor Engineering, Key Laboratory of Bio-based Material Engineering of China National Light Industry Council, East China University of Science and Technology, 130 Meilong Road, Shanghai 200237, China
| | - Hao Song
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072, China
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Hu Y, Wu Y, Mukherjee M, Cao B. A near-infrared light responsive c-di-GMP module-based AND logic gate in Shewanella oneidensis. Chem Commun (Camb) 2018; 53:1646-1648. [PMID: 28098272 DOI: 10.1039/c6cc08584a] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
A novel, biofilm-based AND logic gate was constructed in Shewanella oneidensis through a near-infrared (NIR) light responsive c-di-GMP module. The logic gate was demonstrated in microbial fuel cells with isopropyl β-d-thiogalactoside (IPTG) and NIR light as the inputs and electrical signals as the output.
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Affiliation(s)
- Yidan Hu
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551
| | - Yichao Wu
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551 and School of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798.
| | - Manisha Mukherjee
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551 and School of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798.
| | - Bin Cao
- Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551 and School of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798.
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74
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Ding D, Sun X. Network-Based Methods for Identifying Key Active Proteins in the Extracellular Electron Transfer Process in Shewanella oneidensis MR-1. Genes (Basel) 2018; 9:E41. [PMID: 29337910 PMCID: PMC5793192 DOI: 10.3390/genes9010041] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2017] [Revised: 01/07/2018] [Accepted: 01/12/2018] [Indexed: 12/22/2022] Open
Abstract
Shewanella oneidensis MR-1 can transfer electrons from the intracellular environment to the extracellular space of the cells to reduce the extracellular insoluble electron acceptors (Extracellular Electron Transfer, EET). Benefiting from this EET capability, Shewanella has been widely used in different areas, such as energy production, wastewater treatment, and bioremediation. Genome-wide proteomics data was used to determine the active proteins involved in activating the EET process. We identified 1012 proteins with decreased expression and 811 proteins with increased expression when the EET process changed from inactivation to activation. We then networked these proteins to construct the active protein networks, and identified the top 20 key active proteins by network centralization analysis, including metabolism- and energy-related proteins, signal and transcriptional regulatory proteins, translation-related proteins, and the EET-related proteins. We also constructed the integrated protein interaction and transcriptional regulatory networks for the active proteins, then found three exclusive active network motifs involved in activating the EET process-Bi-feedforward Loop, Regulatory Cascade with a Feedback, and Feedback with a Protein-Protein Interaction (PPI)-and identified the active proteins involved in these motifs. Both enrichment analysis and comparative analysis to the whole-genome data implicated the multiheme c-type cytochromes and multiple signal processing proteins involved in the process. Furthermore, the interactions of these motif-guided active proteins and the involved functional modules were discussed. Collectively, by using network-based methods, this work reported a proteome-wide search for the key active proteins that potentially activate the EET process.
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Affiliation(s)
- Dewu Ding
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing 210096, China.
- Department of Mathematics and Computer Science, Chizhou College, Chizhou 247000, China.
| | - Xiao Sun
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing 210096, China.
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Yu YY, Fang Z, Gao L, Song H, Yang L, Mao B, Shi W, Yong YC. Engineering of bacterial electrochemical activity with global regulator manipulation. Electrochem commun 2018. [DOI: 10.1016/j.elecom.2017.12.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
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76
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Balancing cellular redox metabolism in microbial electrosynthesis and electro fermentation - A chance for metabolic engineering. Metab Eng 2017; 45:109-120. [PMID: 29229581 DOI: 10.1016/j.ymben.2017.12.003] [Citation(s) in RCA: 54] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2017] [Revised: 09/15/2017] [Accepted: 12/06/2017] [Indexed: 01/05/2023]
Abstract
More and more microbes are discovered that are capable of extracellular electron transfer, a process in which they use external electrodes as electron donors or acceptors for metabolic reactions. This feature can be used to overcome cellular redox limitations and thus optimizing microbial production. The technologies, termed microbial electrosynthesis and electro-fermentation, have the potential to open novel bio-electro production platforms from sustainable energy and carbon sources. However, the performance of reported systems is currently limited by low electron transport rates between microbes and electrodes and our limited ability for targeted engineering of these systems due to remaining knowledge gaps about the underlying fundamental processes. Metabolic engineering offers many opportunities to optimize these processes, for instance by genetic engineering of pathways for electron transfer on the one hand and target product synthesis on the other hand. With this review, we summarize the status quo of knowledge and engineering attempts around chemical production in bio-electrochemical systems from a microbe perspective. Challenges associated with the introduction or enhancement of extracellular electron transfer capabilities into production hosts versus the engineering of target compound synthesis pathways in natural exoelectrogens are discussed. Recent advances of the research community in both directions are examined critically. Further, systems biology approaches, for instance using metabolic modelling, are examined for their potential to provide insight into fundamental processes and to identify targets for metabolic engineering.
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Shin HJ, Jung KA, Nam CW, Park JM. A genetic approach for microbial electrosynthesis system as biocommodities production platform. BIORESOURCE TECHNOLOGY 2017; 245:1421-1429. [PMID: 28550992 DOI: 10.1016/j.biortech.2017.05.077] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2017] [Revised: 05/12/2017] [Accepted: 05/14/2017] [Indexed: 06/07/2023]
Abstract
Microbial electrosynthesis is a process that can produce biocommodities from the reduction of substrates with microbial catalysts and an external electron supply. This process is expected to become a new application of a cell factory for novel chemical production, wastewater treatment, and carbon capture and utilization. However, microbial electrosynthesis is still subject to several problems that need to be overcome for commercialization, so continuous development such as metabolic engineering is essential. The development of microbial electrosynthesis can open up new opportunities for sustainable biocommodities production platforms. This review provides significant information on the current state of MES development, focusing on extracellularly electron transfer and metabolic engineering.
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Affiliation(s)
- Hyo Jeong Shin
- Department of Chemical Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea
| | - Kyung A Jung
- Bioenergy Research Center, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea
| | - Chul Woo Nam
- Department of Chemical Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea
| | - Jong Moon Park
- Department of Chemical Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea; Bioenergy Research Center, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea; Division of Advanced Nuclear Engineering, POSTECH, 77 Cheongam-ro, Nam-gu, Pohang 37673, South Korea.
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Cao Y, Li X, Li F, Song H. CRISPRi-sRNA: Transcriptional-Translational Regulation of Extracellular Electron Transfer in Shewanella oneidensis. ACS Synth Biol 2017; 6:1679-1690. [PMID: 28616968 DOI: 10.1021/acssynbio.6b00374] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Extracellular electron transfer (EET) in Shewanella oneidensis MR-1, which is one of the most well-studied exoelectrogens, underlies many microbial electrocatalysis processes, including microbial fuel cells, microbial electrolysis cells, and microbial electrosynthesis. However, regulating the efficiency of EET remains challenging due to the lack of efficient genome regulation tools that regulate gene expression levels in S. oneidensis. Here, we systematically established a transcriptional regulation technology, i.e., clustered regularly interspaced short palindromic repeats interference (CRISPRi), in S. oneidensis MR-1 using green fluorescent protein (GFP) as a reporter. We used this CRISPRi technology to repress the expression levels of target genes, individually and in combination, in the EET pathways (e.g., the MtrCAB pathway and genes affecting the formation of electroactive biofilms in S. oneidensis), which in turn enabled the efficient regulation of EET efficiency. We then established a translational regulation technology, i.e., Hfq-dependent small regulatory RNA (sRNA), in S. oneidensis by repressing the GFP reporter and mtrA, which is a critical gene in the EET pathways in S. oneidensis. To achieve coordinated transcriptional and translational regulation at the genomic level, the CRISPRi and Hfq-dependent sRNA systems were incorporated into a single plasmid harbored in a recombinant S. oneidensis strain, which enabled an even higher efficiency of mtrA gene repression in the EET pathways than that achieved by the CRISPRi and Hfq-dependent sRNA system alone, as exhibited by the reduced electricity output. Overall, we developed a combined CRISPRi-sRNA method that enabled the synergistic transcriptional and translational regulation of target genes in S. oneidensis. This technology involving CRISPRi-sRNA transcriptional-translational regulation of gene expression at the genomic level could be applied to other microorganisms.
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Affiliation(s)
- Yingxiu Cao
- Key Laboratory of Systems
Bioengineering (Ministry of Education), SynBio Research Platform,
Collaborative Innovation Center of Chemical Science and Engineering
(Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P.R. China
| | - Xiaofei Li
- Key Laboratory of Systems
Bioengineering (Ministry of Education), SynBio Research Platform,
Collaborative Innovation Center of Chemical Science and Engineering
(Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P.R. China
| | - Feng Li
- Key Laboratory of Systems
Bioengineering (Ministry of Education), SynBio Research Platform,
Collaborative Innovation Center of Chemical Science and Engineering
(Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P.R. China
| | - Hao Song
- Key Laboratory of Systems
Bioengineering (Ministry of Education), SynBio Research Platform,
Collaborative Innovation Center of Chemical Science and Engineering
(Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P.R. China
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79
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Uno M, Phansroy N, Aso Y, Ohara H. Starch-fueled microbial fuel cells by two-step and parallel fermentation using Shewanella oneidensis MR-1 and Streptococcus bovis 148. J Biosci Bioeng 2017; 124:189-194. [DOI: 10.1016/j.jbiosc.2017.03.016] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2016] [Accepted: 03/27/2017] [Indexed: 12/31/2022]
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80
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Min D, Cheng L, Zhang F, Huang XN, Li DB, Liu DF, Lau TC, Mu Y, Yu HQ. Enhancing Extracellular Electron Transfer of Shewanella oneidensis MR-1 through Coupling Improved Flavin Synthesis and Metal-Reducing Conduit for Pollutant Degradation. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:5082-5089. [PMID: 28414427 DOI: 10.1021/acs.est.6b04640] [Citation(s) in RCA: 93] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Dissimilatory metal reducing bacteria (DMRB) are capable of extracellular electron transfer (EET) to insoluble metal oxides, which are used as external electron acceptors by DMRB for their anaerobic respiration. The EET process has important contribution to environmental remediation mineral cycling, and bioelectrochemical systems. However, the low EET efficiency remains to be one of the major bottlenecks for its practical applications for pollutant degradation. In this work, Shewanella oneidensis MR-1, a model DMRB, was used to examine the feasibility of enhancing the EET and its biodegradation capacity through genetic engineering. A flavin biosynthesis gene cluster ribD-ribC-ribBA-ribE and metal-reducing conduit biosynthesis gene cluster mtrC-mtrA-mtrB were coexpressed in S. oneidensis MR-1. Compared to the control strain, the engineered strain was found to exhibit an improved EET capacity in microbial fuel cells and potentiostat-controlled electrochemical cells, with an increase in maximum current density by approximate 110% and 87%, respectively. The electrochemical impedance spectroscopy (EIS) analysis showed that the current increase correlated with the lower interfacial charge-transfer resistance of the engineered strain. Meanwhile, a three times more rapid removal rate of methyl orange by the engineered strain confirmed the improvement of its EET and biodegradation ability. Our results demonstrate that coupling of improved synthesis of mediators and metal-reducing conduits could be an efficient strategy to enhance EET in S. oneidensis MR-1, which is essential to the applications of DMRB for environmental remediation, wastewater treatment, and bioenergy recovery from wastes.
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Affiliation(s)
- Di Min
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
- USTC-CityU Joint Advanced Research Center , Suzhou, China
| | - Lei Cheng
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
| | - Feng Zhang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
| | - Xue-Na Huang
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
| | - Dao-Bo Li
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
| | - Dong-Feng Liu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
| | - Tai-Chu Lau
- USTC-CityU Joint Advanced Research Center , Suzhou, China
- Department of Biology and Chemistry, City University of Hong Kong , Hong Kong, China
| | - Yang Mu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
| | - Han-Qing Yu
- CAS Key Laboratory of Urban Pollutant Conversion, Department of Chemistry, University of Science and Technology of China , Hefei, 230026, China
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81
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Yu YY, Zhai DD, Si RW, Sun JZ, Liu X, Yong YC. Three-Dimensional Electrodes for High-Performance Bioelectrochemical Systems. Int J Mol Sci 2017; 18:ijms18010090. [PMID: 28054970 PMCID: PMC5297724 DOI: 10.3390/ijms18010090] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2016] [Revised: 12/15/2016] [Accepted: 12/23/2016] [Indexed: 02/02/2023] Open
Abstract
Bioelectrochemical systems (BES) are groups of bioelectrochemical technologies and platforms that could facilitate versatile environmental and biological applications. The performance of BES is mainly determined by the key process of electron transfer at the bacteria and electrode interface, which is known as extracellular electron transfer (EET). Thus, developing novel electrodes to encourage bacteria attachment and enhance EET efficiency is of great significance. Recently, three-dimensional (3D) electrodes, which provide large specific area for bacteria attachment and macroporous structures for substrate diffusion, have emerged as a promising electrode for high-performance BES. Herein, a comprehensive review of versatile methodology developed for 3D electrode fabrication is presented. This review article is organized based on the categorization of 3D electrode fabrication strategy and BES performance comparison. In particular, the advantages and shortcomings of these 3D electrodes are presented and their future development is discussed.
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Affiliation(s)
- Yang-Yang Yu
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang 212013, China.
| | - Dan-Dan Zhai
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang 212013, China.
| | - Rong-Wei Si
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang 212013, China.
| | - Jian-Zhong Sun
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang 212013, China.
| | - Xiang Liu
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang 212013, China.
| | - Yang-Chun Yong
- Biofuels Institute, School of Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang 212013, China.
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82
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Sun DZ, Yu YY, Xie RR, Zhang CL, Yang Y, Zhai DD, Yang G, Liu L, Yong YC. In-situ growth of graphene/polyaniline for synergistic improvement of extracellular electron transfer in bioelectrochemical systems. Biosens Bioelectron 2017; 87:195-202. [DOI: 10.1016/j.bios.2016.08.037] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Revised: 08/10/2016] [Accepted: 08/13/2016] [Indexed: 01/20/2023]
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83
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Li F, Li Y, Sun L, Li X, Yin C, An X, Chen X, Tian Y, Song H. Engineering Shewanella oneidensis enables xylose-fed microbial fuel cell. BIOTECHNOLOGY FOR BIOFUELS 2017; 10:196. [PMID: 28804512 PMCID: PMC5549365 DOI: 10.1186/s13068-017-0881-2] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2017] [Accepted: 08/01/2017] [Indexed: 05/22/2023]
Abstract
BACKGROUND The microbial fuel cell (MFC) is a green and sustainable technology for electricity energy harvest from biomass, in which exoelectrogens use metabolism and extracellular electron transfer pathways for the conversion of chemical energy into electricity. However, Shewanella oneidensis MR-1, one of the most well-known exoelectrogens, could not use xylose (a key pentose derived from hydrolysis of lignocellulosic biomass) for cell growth and power generation, which limited greatly its practical applications. RESULTS Herein, to enable S. oneidensis to directly utilize xylose as the sole carbon source for bioelectricity production in MFCs, we used synthetic biology strategies to successfully construct four genetically engineered S. oneidensis (namely XE, GE, XS, and GS) by assembling one of the xylose transporters (from Candida intermedia and Clostridium acetobutylicum) with one of intracellular xylose metabolic pathways (the isomerase pathway from Escherichia coli and the oxidoreductase pathway from Scheffersomyces stipites), respectively. We found that among these engineered S. oneidensis strains, the strain GS (i.e. harbouring Gxf1 gene encoding the xylose facilitator from C. intermedi, and XYL1, XYL2, and XKS1 genes encoding the xylose oxidoreductase pathway from S. stipites) was able to generate the highest power density, enabling a maximum electricity power density of 2.1 ± 0.1 mW/m2. CONCLUSION To the best of our knowledge, this was the first report on the rationally designed Shewanella that could use xylose as the sole carbon source and electron donor to produce electricity. The synthetic biology strategies developed in this study could be further extended to rationally engineer other exoelectrogens for lignocellulosic biomass utilization to generate electricity power.
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Affiliation(s)
- Feng Li
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
| | - Yuanxiu Li
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
| | - Liming Sun
- Petrochemical Research Institute, PetroChina Company Limited, Beijing, 102206 People’s Republic of China
| | - Xiaofei Li
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
| | - Changji Yin
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
| | - Xingjuan An
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
| | - Xiaoli Chen
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
| | - Yao Tian
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
| | - Hao Song
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072 China
- SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering, Tianjin University, Tianjin, 300072 China
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84
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Liu T, Yu YY, Chen T, Chen WN. A synthetic microbial consortium of Shewanella
and Bacillus
for enhanced generation of bioelectricity. Biotechnol Bioeng 2016; 114:526-532. [DOI: 10.1002/bit.26094] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2016] [Revised: 08/23/2016] [Accepted: 08/29/2016] [Indexed: 01/26/2023]
Affiliation(s)
- Ting Liu
- School of Chemical and Biomedical Engineering; Nanyang Technological University; 62 Nanyang Drive 637457 Singapore
- Residues and Resource Reclamation Centre; Nanyang Environment and Water Research Institute; Nanyang Technological University; Singapore
| | - Yang-Yang Yu
- School of the Environment; Biofuels Institute; Jiangsu University; Zhenjiang Jiangsu China
| | - Tao Chen
- Key Laboratory of Systems Bioengineering (Ministry of Education); School of Chemical Engineering & Technology; Tianjin University; Tianjin China
| | - Wei Ning Chen
- School of Chemical and Biomedical Engineering; Nanyang Technological University; 62 Nanyang Drive 637457 Singapore
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85
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Ding MZ, Song H, Wang EX, Liu Y, Yuan YJ. Design and construction of synthetic microbial consortia in China. Synth Syst Biotechnol 2016; 1:230-235. [PMID: 29062948 PMCID: PMC5625796 DOI: 10.1016/j.synbio.2016.08.004] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2016] [Revised: 08/26/2016] [Accepted: 08/26/2016] [Indexed: 11/25/2022] Open
Abstract
The rapid development of synthetic biology enables the design, construction and optimization of synthetic microbial consortia to achieve specific functions. In China, the "973" project-"Design and Construction of Microbial Consortia" was funded by the National Basic Research Program of China in January 2014. It was proposed to address the fundamental challenges in engineering natural microbial consortia and reconstructing microbial consortia to meet industrial demands. In this review, we will introduce this "973" project, including the significance of microbial consortia, the fundamental scientific issues, the recent research progresses, and some case studies about synthetic microbial consortia in the past two and a half years.
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Affiliation(s)
- Ming-Zhu Ding
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China.,SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
| | - Hao Song
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China.,SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
| | - En-Xu Wang
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China.,SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
| | - Yue Liu
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China.,SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
| | - Ying-Jin Yuan
- Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China.,SynBio Research Platform, Collaborative Innovation Centre of Chemical Science and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin, 300072, PR China
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86
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Lu M, Chan S, Babanova S, Bretschger O. Effect of oxygen on the per-cell extracellular electron transfer rate of Shewanella oneidensis MR-1 explored in bioelectrochemical systems. Biotechnol Bioeng 2016; 114:96-105. [PMID: 27399911 PMCID: PMC5132103 DOI: 10.1002/bit.26046] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2016] [Accepted: 07/06/2016] [Indexed: 02/03/2023]
Abstract
Extracellular electron transfer (EET) is a mechanism that enables microbes to respire solid‐phase electron acceptors. These EET reactions most often occur in the absence of oxygen, since oxygen can act as a competitive electron acceptor for many facultative microbes. However, for Shewanella oneidensis MR‐1, oxygen may increase biomass development, which could result in an overall increase in EET activity. Here, we studied the effect of oxygen on S. oneidensis MR‐1 EET rates using bioelectrochemical systems (BESs). We utilized optically accessible BESs to monitor real‐time biomass growth, and studied the per‐cell EET rate as a function of oxygen and riboflavin concentrations in BESs of different design and operational conditions. Our results show that oxygen exposure promotes biomass development on the electrode, but significantly impairs per‐cell EET rates even though current production does not always decrease with oxygen exposure. Additionally, our results indicated that oxygen can affect the role of riboflavin in EET. Under anaerobic conditions, both current density and per‐cell EET rate increase with the riboflavin concentration. However, as the dissolved oxygen (DO) value increased to 0.42 mg/L, riboflavin showed very limited enhancement on per‐cell EET rate and current generation. Since it is known that oxygen can promote flavins secretion in S. oneidensis, the role of riboflavin may change under anaerobic and aerobic conditions. Biotechnol. Bioeng. 2017;114: 96–105. © 2016 The Authors. Biotechnology and Bioengineering Published by Wiley Periodicals, Inc.
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Affiliation(s)
- Mengqian Lu
- Department of Microbial and Environmental Genomics, J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, California 92037
| | - Shirley Chan
- Department of Microbial and Environmental Genomics, J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, California 92037
| | - Sofia Babanova
- Department of Microbial and Environmental Genomics, J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, California 92037.,Chemical and Biological Engineering, University of New Mexico, Albuquerque, New Mexico
| | - Orianna Bretschger
- Department of Microbial and Environmental Genomics, J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, California 92037
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87
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Liu T, Yu YY, Li D, Song H, Yan X, Chen WN. The effect of external resistance on biofilm formation and internal resistance in Shewanella inoculated microbial fuel cells. RSC Adv 2016. [DOI: 10.1039/c5ra26125b] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
External resistance has a significant impact on the bioelectrochemical property and biofilm formation of Shewanella oneidensis MR-1 on MFC anodes.
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Affiliation(s)
- Ting Liu
- School of Chemical and Biomedical Engineering
- Nanyang Technological University
- Singapore 637457
- Residues & Resource Reclamation Centre
- Nanyang Environment and Water Research Institute
| | - Yang-yang Yu
- Environmental Chemistry and Materials Group
- Nanyang Environment and Water Research Institute
- Nanyang Technological University
- Singapore 637141
| | - Dongzhe Li
- Advanced Environmental Biotechnology Centre
- Nanyang Environment and Water Research Institute
- Nanyang Technological University
- Singapore 637141
| | - Hao Song
- Key Laboratory of Systems Bioengineering (Ministry of Education)
- SynBio Research Platform
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin)
- School of Chemical Engineering and Technology
- Tianjin University
| | - Xiaoli Yan
- Environmental Chemistry and Materials Group
- Nanyang Environment and Water Research Institute
- Nanyang Technological University
- Singapore 637141
| | - Wei Ning Chen
- School of Chemical and Biomedical Engineering
- Nanyang Technological University
- Singapore 637457
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88
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Yang Y, Wu Y, Hu Y, Cao Y, Poh CL, Cao B, Song H. Engineering Electrode-Attached Microbial Consortia for High-Performance Xylose-Fed Microbial Fuel Cell. ACS Catal 2015. [DOI: 10.1021/acscatal.5b01733] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Yun Yang
- School
of Chemical and Biomedical Engineering, Nanyang Technological University, 70 Nanyang Drive, 637457, Singapore
- Singapore
Centre on Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, 637551, Singapore
| | - Yichao Wu
- Singapore
Centre on Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, 637551, Singapore
- School
of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, 637798, Singapore
| | - Yidan Hu
- Singapore
Centre on Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, 637551, Singapore
| | - Yingxiu Cao
- Key
Laboratory of Systems Bioengineering (Ministry of Education), SynBio
Research Platform, Collaborative Innovation Center of Chemical Science
and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, P.R. China
| | - Chueh Loo Poh
- School
of Chemical and Biomedical Engineering, Nanyang Technological University, 70 Nanyang Drive, 637457, Singapore
| | - Bin Cao
- Singapore
Centre on Environmental Life Sciences Engineering, Nanyang Technological University, 60 Nanyang Drive, 637551, Singapore
- School
of Civil and Environmental Engineering, Nanyang Technological University, 50 Nanyang Avenue, 637798, Singapore
| | - Hao Song
- Key
Laboratory of Systems Bioengineering (Ministry of Education), SynBio
Research Platform, Collaborative Innovation Center of Chemical Science
and Engineering (Tianjin), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, P.R. China
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89
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Agostoni M, Waters CM, Montgomery BL. Regulation of biofilm formation and cellular buoyancy through modulating intracellular cyclic di-GMP levels in engineered cyanobacteria. Biotechnol Bioeng 2015; 113:311-9. [PMID: 26192200 DOI: 10.1002/bit.25712] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2015] [Revised: 07/10/2015] [Accepted: 07/16/2015] [Indexed: 12/16/2022]
Abstract
The second messenger cyclic dimeric (3'→5') GMP (cyclic di-GMP or c-di-GMP) has been implicated in the transition between motile and sessile lifestyles in bacteria. In this study, we demonstrate that biofilm formation, cellular aggregation or flocculation, and cellular buoyancy are under the control of c-di-GMP in Synechocystis sp. PCC 6803 (Synechocystis) and Fremyella diplosiphon. Synechocystis is a unicellular cyanobacterium and displays lower levels of c-di-GMP; F. diplosiphon is filamentous and displays higher intracellular c-di-GMP levels. We transformed Synechocystis and F. diplosiphon with a plasmid for constitutive expression of genes encoding diguanylate cylase (DGC) and phosphodiesterase (PDE) proteins from Vibrio cholerae or Escherichia coli, respectively. These engineered strains allowed us to modulate intracellular c-di-GMP levels. Biofilm formation and cellular deposition were induced in the DGC-expressing Synechocystis strain which exhibited high intracellular levels of c-di-GMP; whereas strains expressing PDE in Synechocystis and F. diplosiphon to drive low intracellular levels of c-di-GMP exhibited enhanced cellular buoyancy. In addition, the PDE-expressing F. diplosiphon strain showed elevated chlorophyll levels. These results imply roles for coordinating c-di-GMP homeostasis in regulating native cyanobacterial phenotypes. Engineering exogenous DGC or PDE proteins to regulate intracellular c-di-GMP levels represents an effective tool for uncovering cryptic phenotypes or modulating phenotypes in cyanobacteria for practical applications in biotechnology applicable in photobioreactors and in green biotechnologies, such as energy-efficient harvesting of cellular biomass or the treatment of metal-containing wastewaters.
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Affiliation(s)
- Marco Agostoni
- Cell and Molecular Biology Graduate Program, Michigan State University, East Lansing, Michigan.,Department of Energy Plant Research Laboratory, Michigan State University, Plant Biology Laboratories, 612 Wilson Road, East Lansing, Michigan, 48824
| | - Christopher M Waters
- Cell and Molecular Biology Graduate Program, Michigan State University, East Lansing, Michigan.,Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, Michigan
| | - Beronda L Montgomery
- Cell and Molecular Biology Graduate Program, Michigan State University, East Lansing, Michigan. .,Department of Energy Plant Research Laboratory, Michigan State University, Plant Biology Laboratories, 612 Wilson Road, East Lansing, Michigan, 48824. .,Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, Michigan.
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