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Chen H, Wu X, Sun R, Lu H, Lin R, Gao X, Li G, Feng Z, Zhu R, Yao Y, Feng B, Liu Z. Dysregulation of CD177 + neutrophils on intraepithelial lymphocytes exacerbates gut inflammation via decreasing microbiota-derived DMF. Gut Microbes 2023; 15:2172668. [PMID: 36729914 PMCID: PMC9897772 DOI: 10.1080/19490976.2023.2172668] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/03/2023] Open
Abstract
Neutrophils synergize with intestinal resident intraepithelial lymphocytes (IELs) to serve as the first-line defense and maintain intestinal homeostasis. However, the underlying mechanisms whereby neutrophils regulate IELs to inhibit intestinal inflammation are still not completely understood. Here, we found that depletion of neutrophils (especially CD177+ subset) caused expansion of colitogenic TCRγδ+CD8αα+ IELs, increased intestinal inflammation, and dysbiosis after dextran sulfate sodium exposure or Citrobacter rodentium infection in mice. scRNA-seq analysis revealed a pyroptosis-related gene signature and hyperresponsiveness to microbiota in TCRγδ+CD8αα+ IELs from colitic Cd177-/- mice. Microbiota-derived fumarate and its derivative dimethyl fumarate (DMF), as well as fumarate-producing microbiotas, decreased in the feces of colitic Cd177-/- mice. Elimination of dysbiosis by antibiotics treatment or co-housing procedure and DMF supplementation restrained TCRγδ+CD8αα+ IEL activation. Consistently, DMF significantly alleviated intestinal mucosal inflammation in mice through restricting gasdermin D (GSDMD)-induced pyroptosis of TCRγδ+CD8αα+ IELs. Therefore, our data reveal that neutrophils inhibit intestinal inflammation by promoting microbiota-derived DMF to regulate TCRγδ+CD8αα+ IEL activation in a GSDMD-mediated pyroptosis-dependent manner, and that DMF may serve as a therapeutic target for the management of intestinal inflammation.
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Affiliation(s)
- Huimin Chen
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Xiaohan Wu
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Ruicong Sun
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Huiying Lu
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Ritian Lin
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Xiang Gao
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Gengfeng Li
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Zhongsheng Feng
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China
| | - Ruixin Zhu
- Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, China
| | - Yao Yao
- Department of Gastroenterology, The Second Affiliated Hospital of Zhengzhou University, Zhengzhou, China
| | - Baisui Feng
- Department of Gastroenterology, The Second Affiliated Hospital of Zhengzhou University, Zhengzhou, China
| | - Zhanju Liu
- Center for Inflammatory Bowel Disease Research, The Shanghai Tenth People’s Hospital, Tongji University School of Medicine, Shanghai, China,Department of Gastroenterology, The Second Affiliated Hospital of Zhengzhou University, Zhengzhou, China,Division of Immunology, School of Basic Medical Sciences, Henan University of Science and Technology, Luoyang, China,CONTACT Zhanju Liu Center for IBD Research, The Shanghai Tenth People’s Hospital of Tongji University, Shanghai, China
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Qian J, Zhang Y, Wang P, Lu B, He Y, Tang S, Yi Z. Light alters microbiota and electron transport: Evidence for enhanced mesophilic digestion of municipal sludge. WATER RESEARCH 2022; 217:118447. [PMID: 35429889 DOI: 10.1016/j.watres.2022.118447] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2021] [Revised: 04/06/2022] [Accepted: 04/08/2022] [Indexed: 06/14/2023]
Abstract
Light as an environmental factor can affect the process of anaerobic digestion, but there is no systematic study in municipal wastewater sludge mesophilic digestion. In this study, the effects of light on the performance of the anaerobic digestion system and photo-anaerobic microbiota (PAM) were evaluated in lighted anaerobic batch digesters (LABRs). The methane yield from the reactor under the dark condition (LABR0) was 179.2 mL CH4/g COD, which was lower than 305.4 mL CH4/g COD and 223.0 mL CH4/g COD (n = 3, p < 0.05) from reactors under the light intensity of 3600 lm (LABR1) and 7200 lm (LABR2), respectively. The dominant genera in the bacterial and archaeal communities were Bacillus and Methanosarcina under light conditions, Enterococcus and Methanobacterium under dark conditions. And these two bacteria acted as electroactive bacterial genera, indicating that light changes the combination of direct interspecies electron transfer (DIET) microbial partners and activates the DIET pathway for methane production. The electron conduction pathways analysis further suggests that biological DIET (bDIET) between microbial biomass, rather than DIET via conductive material (cDIET) between microbes and conductive materials, is promoted and behaves as the dominant factor enhancing methane production under light conditions. The morphology of microorganisms and the amount and properties of EPS corroborate these views. Our findings are guided to anaerobic digester constructions under the outdoor environment with light exposure.
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Affiliation(s)
- Jin Qian
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, P. R. China; College of Environment, Hohai University, Nanjing 210098, P. R. China.
| | - Yuhang Zhang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, P. R. China; College of Environment, Hohai University, Nanjing 210098, P. R. China
| | - Peifang Wang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, P. R. China; College of Environment, Hohai University, Nanjing 210098, P. R. China
| | - Bianhe Lu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, P. R. China; College of Environment, Hohai University, Nanjing 210098, P. R. China
| | - Yuxuan He
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, P. R. China; College of Environment, Hohai University, Nanjing 210098, P. R. China
| | - Sijing Tang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, P. R. China; College of Environment, Hohai University, Nanjing 210098, P. R. China
| | - Ziyang Yi
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, P. R. China; College of Environment, Hohai University, Nanjing 210098, P. R. China
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Murphy CWM, Davis GB, Rayner JL, Walsh T, Bastow TP, Butler AP, Puzon GJ, Morgan MJ. The role of predicted chemotactic and hydrocarbon degrading taxa in natural source zone depletion at a legacy petroleum hydrocarbon site. JOURNAL OF HAZARDOUS MATERIALS 2022; 430:128482. [PMID: 35739665 DOI: 10.1016/j.jhazmat.2022.128482] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2021] [Revised: 02/10/2022] [Accepted: 02/10/2022] [Indexed: 06/15/2023]
Abstract
Petroleum hydrocarbon contamination is a global problem which can cause long-term environmental damage and impacts water security. Natural source zone depletion (NSZD) is the natural degradation of such contaminants. Chemotaxis is an aspect of NSZD which is not fully understood, but one that grants microorganisms the ability to alter their motion in response to a chemical concentration gradient potentially enhancing petroleum NSZD mass removal rates. This study investigates the distribution of potentially chemotactic and hydrocarbon degrading microbes (CD) across the water table of a legacy petroleum hydrocarbon site near Perth, Western Australia in areas impacted by crude oil, diesel and jet fuel. Core samples were recovered and analysed for hydrocarbon contamination using gas chromatography. Predictive metagenomic profiling was undertaken to infer functionality using a combination of 16 S rRNA sequencing and PICRUSt2 analysis. Naphthalene contamination was found to significantly increase the occurrence of potential CD microbes, including members of the Comamonadaceae and Geobacteraceae families, which may enhance NSZD. Further work to explore and define this link is important for reliable estimation of biodegradation of petroleum hydrocarbon fuels. Furthermore, the outcomes suggest that the chemotactic parameter within existing NSZD models should be reviewed to accommodate CD accumulation in areas of naphthalene contamination, thereby providing a more accurate quantification of risk from petroleum impacts in subsurface environments, and the scale of risk mitigation due to NSZD.
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Affiliation(s)
- Cameron W M Murphy
- Environmental and Water Resources Section, Department of Civil and Environmental Engineering, Imperial College of Science,Technology and Medicine, Exhibition Road, London, United Kingdom; Centre for Environment and Life Sciences, CSIRO Land and Water, Private Bag No 5, Wembley, WA 6913, Australia
| | - Greg B Davis
- Centre for Environment and Life Sciences, CSIRO Land and Water, Private Bag No 5, Wembley, WA 6913, Australia
| | - John L Rayner
- Centre for Environment and Life Sciences, CSIRO Land and Water, Private Bag No 5, Wembley, WA 6913, Australia
| | - Tom Walsh
- Black Mountain Laboratories, CSIRO Land and Water, Acton, P.O. Box 1700, Canberra, ACT 2601, Australia
| | - Trevor P Bastow
- Centre for Environment and Life Sciences, CSIRO Land and Water, Private Bag No 5, Wembley, WA 6913, Australia
| | - Adrian P Butler
- Environmental and Water Resources Section, Department of Civil and Environmental Engineering, Imperial College of Science,Technology and Medicine, Exhibition Road, London, United Kingdom
| | - Geoffrey J Puzon
- Centre for Environment and Life Sciences, CSIRO Land and Water, Private Bag No 5, Wembley, WA 6913, Australia.
| | - Matthew J Morgan
- Black Mountain Laboratories, CSIRO Land and Water, Acton, P.O. Box 1700, Canberra, ACT 2601, Australia
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Mukherjee P, Pichiah S, Packirisamy G, Jang M. Biocatalyst physiology and interplay: a protagonist of MFC operation. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:43217-43233. [PMID: 34165738 DOI: 10.1007/s11356-021-15015-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Accepted: 06/16/2021] [Indexed: 06/13/2023]
Abstract
Microbial fuel cells (MFC) have been foreseen as a sustainable renewable energy resource to meet future energy demand. In the past, several studies have been executed in both benchtop and pilot scale to produce electrical energy from wastewater. The key role players in this technology that leads to the operation are microbes, mainly bacteria. The dominant among them is termed as "exoelectrogens" that have the capability to produce and transport electron by utilizing waste source. The current review focuses on such electrogenic bacteria's involvement for enhanced power generation of MFC. The pathway of electron transfer in their cell along and its conduction to the extracellular environment of the MFC system are critically discussed. The interaction of the microbes in various MFC operational conditions, including the role of substrate and solid electron acceptors, i.e., anode, external resistance, temperature, and pH, was also discussed in depth along with biotechnological advancement and future research perspective.
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Affiliation(s)
- Priya Mukherjee
- Environmental Nanotechnology Laboratory, Department of Environmental Science and Engineering, Indian Institute of Technology (ISM), Dhanbad, Jharkhand, 826004, India
| | - Saravanan Pichiah
- Environmental Nanotechnology Laboratory, Department of Environmental Science and Engineering, Indian Institute of Technology (ISM), Dhanbad, Jharkhand, 826004, India.
| | - Gopinath Packirisamy
- Department of Biotechnology, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, 247667, India
| | - Min Jang
- Department of Environmental Engineering, Kwangwoon University, 447-1, Wolgye-dong Nowon-Gu, Seoul, South Korea
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5
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Liu X, Zhan J, Liu L, Gan F, Ye J, Nealson KH, Rensing C, Zhou S. In Situ Spectroelectrochemical Characterization Reveals Cytochrome-Mediated Electric Syntrophy in Geobacter Coculture. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:10142-10151. [PMID: 34196176 DOI: 10.1021/acs.est.1c00356] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Direct interspecies electron transfer (DIET) between microbial species prevails in some key microbial consortia. However, the electron transfer mechanism(s) in these consortia is controversial due to lack of efficient characterization methods. Here, we provide an in situ anaerobic spectroelectrochemical coculture cell (in situ ASCC) to induce the formation of DIET coculture biofilm on the interdigitated microelectrode arrays and characterize the electron transfer directly. Two typical Geobacter DIET cocultures, Geobacter metallireducens and wild-type Geobacter sulfurreducens (G.m&G.s) and G. metallireducens and a G. sulfurreducens strain deficient in citrate synthase (G.m&G.s-ΔgltA), were selected. In situ Raman and electrochemical Fourier transform infrared (FTIR) spectroscopy indicated that cytochromes are abundant in the electric syntrophic coculture. Cyclic voltammetry and potential step experiment revealed a diffusion-controlled electron transfer process and the electrochemical gating measurements further demonstrated a cytochrome-mediated electron transfer in the DIET coculture. Furthermore, the G.m&G.s-ΔgltA coculture displayed a higher redox conductivity than the G.m&G.s coculture, consistent with the existence of an intimate and efficient electrical connection between these two species. Our findings provide the first report of a redox-gradient-driven electron transport facilitated by c-type cytochromes in DIET coculture, supporting the model that DIET is mediated by cytochromes and suggest a platform to explore the other DIET consortia.
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Affiliation(s)
- Xing Liu
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Ji Zhan
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Lu Liu
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Feiting Gan
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Jie Ye
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Kenneth H Nealson
- Department of Earth Science, University of Southern California, Los Angeles, California 90007, United States
| | - Christopher Rensing
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Shungui Zhou
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
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Electrochemical enrichment of haloalkaliphilic nitrate-reducing microbial biofilm at the cathode of bioelectrochemical systems. iScience 2021; 24:102682. [PMID: 34195563 PMCID: PMC8233197 DOI: 10.1016/j.isci.2021.102682] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2020] [Revised: 01/25/2021] [Accepted: 05/31/2021] [Indexed: 12/01/2022] Open
Abstract
Electrotrophic microorganisms have not been well studied in extreme environments. Here, we report on the nitrate-reducing cathodic microbial biofilm from a haloalkaline environment. The biofilm enriched via electrochemical approach under 9.5 pH and 20 g NaCl/L salinity conditions achieved −43.5±7.2μA/cm2 current density and 49.5±13.2%nitrate reduction efficiency via partial and complete denitrification. Voltammetric characterization of the biocathodes revealed a redox center with −0.294±0.003V (vs. Ag/AgCl) formal potential putatively involved in the electron uptake process. The lack of soluble redox mediators and hydrogen-driven nitrate reduction suggests direct-contact cathodic electron uptake by the nitrate-reducing microorganisms in the enriched biofilm. 16S-rRNA amplicon sequencing of the cathodic biofilm revealed the presence of unreported Pseudomonas, Natronococcus, and Pseudoalteromonas spp. at 31.45%,11.82%, and 9.69% relative sequence abundances, respectively. The enriched nitrate-reducing microorganisms also reduced nitrate efficiently using soluble electron donors found in the lake sediments, thereby suggesting their role in N-cycling in such environments. Enrichment of haloalkaliphilic nitrate-reducing microbial biofilm at the cathode Cathodic reduction current corresponded to the nitrate reduction process Pseudomonas, Natronococcus, and Pseudoalteromonas spp. enriched in the cathodic biofilm Enriched culture reduced nitrate efficiently with soluble electron donor sources
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Rotaru AE, Yee MO, Musat F. Microbes trading electricity in consortia of environmental and biotechnological significance. Curr Opin Biotechnol 2021; 67:119-129. [PMID: 33540362 DOI: 10.1016/j.copbio.2021.01.014] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Revised: 01/15/2021] [Accepted: 01/19/2021] [Indexed: 02/08/2023]
Abstract
Favorable interspecies associations prevail in natural microbial assemblages. Some of these favorable associations are co-metabolic dependent partnerships in which extracellular electrons are exchanged between species. For such electron exchange to occur, the cells must exhibit electroactive interfaces and get involved in direct cell-to-cell contact (Direct Interspecies Electron Transfer/DIET) or use available conductive mineral grains from their environment (Conductive-particle-mediated Interspecies Electron Transfer/CIET). This review will highlight recent discoveries and knowledge gaps regarding DIET and CIET interspecies associations in artificial co-cultures and consortia from natural and man-made environments and emphasize approaches to validate DIET and CIET. Additionally, we acknowledge the initiation of a movement towards applying electric syntrophies in biotechnology, bioremediation and geoengineering for natural attenuation of toxic compounds. Next, we have highlighted the urgent research needs that must be met to develop such technologies.
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Affiliation(s)
| | - Mon Oo Yee
- Lawrence Berkley National Laboratories, Cyclotron Rd. 1, Berkeley, CA, United States
| | - Florin Musat
- Helmholtz Center for Environmental Research, Permoserstraße 15, Leipzig, Germany
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Hamdan HZ, Salam DA. Response of sediment microbial communities to crude oil contamination in marine sediment microbial fuel cells under ferric iron stimulation. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 263:114658. [PMID: 33618484 DOI: 10.1016/j.envpol.2020.114658] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Revised: 04/22/2020] [Accepted: 04/22/2020] [Indexed: 06/12/2023]
Abstract
In this study, response of the microbial communities associated with the bioremediation of crude oil contaminated marine sediments was addressed using sediment microbial fuel cells (SMFCs). Crude oil was spiked into marine sediments at 1 g/kg of dry sediment to simulate a heavily contaminated marine environment. Conventional SMFCs were used with carbon fiber brushes as the electrode components and were enhanced with ferric iron to stimulate electrochemically active bacteria. Controls were operated under open circuit with and without ferric iron stimulation, with the latter condition simulating natural attenuation. Crude oil removal in the Fe enhanced SMFCs reached 22.0 ± 5.5% and was comparable to the measured removal in the control treatments (19.2 ± 7.4% in natural attenuation SMFCs and 15.2 ± 2.7% in Fe stimulated open circuit SMFCs), indicating no major enhancement to biodegradation under the applied experimental conditions. The low removal efficiency could be due to limitations in the mass transfer of the electron donor to the microbes and the anodes. The microbial community structure showed similarity between the iron stimulated SMFCs operated under the open and closed circuit. Natural attenuation SMFCs showed a unique profile. All SMFCs showed high relative abundances of hydrocarbon degrading bacteria rather than anode reducers, such as Marinobacter and Arthrobacter in the case of the natural attenuation SMFCs, and Gordonia in the case of iron stimulated SMFCs. This indicated that the microbial structure during the bioremediation process was mainly determined by the presence of petroleum contamination and to a lesser extent the presence of the ferric iron, with no major involvement of the anode as a terminal electron acceptor. Under the adopted experimental conditions, the absence of electrochemically active microbes throughout the biodegradation process indicates that the use of SMFCs in crude oil bioremediation is not a successful approach. Further studies are required to optimize SMFCs systems for this aim.
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Affiliation(s)
- Hamdan Z Hamdan
- Department of Civil and Environmental Engineering, Maroun Semaan Faculty of Engineering and Architecture, American University of Beirut, Beirut, Lebanon
| | - Darine A Salam
- Department of Civil and Environmental Engineering, Maroun Semaan Faculty of Engineering and Architecture, American University of Beirut, Beirut, Lebanon.
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Abstract
Geobacter and Pseudomonas spp. cohabit many of the same environments, where Geobacter spp. often dominate. Both bacteria are capable of extracellular electron transfer (EET) and play important roles in biogeochemical cycling. Although they recently in 2017 were demonstrated to undergo direct interspecies electron transfer (DIET) with one another, the genetic evolution of this syntrophic interaction has not been examined. Here, we use whole-genome sequencing of the cocultures before and after adaptive evolution to determine whether genetic selection is occurring. We also probe their interaction on a temporal level and determine whether their interaction dynamics change over the course of adaptive evolution. This study brings to light the multifaceted nature of interactions between just two microorganisms within a controlled environment and will aid in improving metabolic models of microbial communities comprising these two bacteria. Interactions between microorganisms in mixed communities are highly complex, being either syntrophic, neutral, predatory, or competitive. Evolutionary changes can occur in the interaction dynamics between community members as they adapt to coexistence. Here, we report that the syntrophic interaction between Geobacter sulfurreducens and Pseudomonas aeruginosa coculture change in their dynamics over evolutionary time. Specifically, Geobacter sp. dominance increases with adaptation within the cocultures, as determined through quantitative PCR and fluorescence in situ hybridization. This suggests a transition from syntrophy to competition and demonstrates the rapid adaptive capacity of Geobacter spp. to dominate in cocultures with P. aeruginosa. Early in coculture establishment, two single-nucleotide variants in the G. sulfurreducensfabI and tetR genes emerged that were strongly selected for throughout coculture evolution with P. aeruginosa phenazine wild-type and phenazine-deficient mutants. Sequential window acquisition of all theoretical spectra-mass spectrometry (SWATH-MS) proteomics revealed that the tetR variant cooccurred with the upregulation of an adenylate cyclase transporter, CyaE, and a resistance-nodulation-division (RND) efflux pump notably known for antibiotic efflux. To determine whether antibiotic production was driving the increased expression of the multidrug efflux pump, we tested Pseudomonas-derived phenazine-1-carboxylic acid (PHZ-1-CA) for its potential to inhibit Geobacter growth and drive selection of the tetR and fabI genetic variants. Despite its inhibitory properties, PHZ-1-CA did not drive variant selection, indicating that other antibiotics may drive overexpression of the efflux pump and CyaE or that a novel role exists for these proteins in the context of this interaction.
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Moscoviz R, Quéméner EDL, Trably E, Bernet N, Hamelin J. Novel Outlook in Microbial Ecology: Nonmutualistic Interspecies Electron Transfer. Trends Microbiol 2020; 28:245-253. [PMID: 32155432 DOI: 10.1016/j.tim.2020.01.008] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Revised: 01/16/2020] [Accepted: 01/21/2020] [Indexed: 02/06/2023]
Abstract
Recent advances in microbial electrochemical technologies have revealed the existence of numerous and highly diverse microorganisms able to exchange electrons with electrodes. This diversity could reflect the capacity of microorganisms to release and/or retrieve electrons with each other in natural environments. So far, this interspecies electron transfer has been studied with a special focus on syntrophy and was successfully demonstrated for several couples of species. In this article we argue that electron exchange between microbes exists beyond syntrophy or mutualism and could also promote competitive and even parasitic behaviour. Based on three interesting case studies identified from the literature, we also highlight that such nonmutualistic interactions could be widespread and of particular significance for the survival of pathogens or the shaping of complex microbial communities.
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Affiliation(s)
- Roman Moscoviz
- SUEZ, Centre International de Recherche Sur l'Eau et l'Environnement (CIRSEE), Le Pecq, France.
| | | | - Eric Trably
- INRAE, Université Montpellier, LBE, Narbonne, France
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Semenec L, Vergara IA, Laloo AE, Mathews ER, Bond PL, Franks AE. Enhanced Growth of Pilin-Deficient Geobacter sulfurreducens Mutants in Carbon Poor and Electron Donor Limiting Conditions. MICROBIAL ECOLOGY 2019; 78:618-630. [PMID: 30759269 DOI: 10.1007/s00248-019-01316-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/08/2018] [Accepted: 01/01/2019] [Indexed: 06/09/2023]
Abstract
Geobacter sulfurreducens pili enable extracellular electron transfer and play a role in secretion of c-type cytochromes such as OmcZ. PilA-deficient mutants of G. sulfurreducens have previously been shown to accumulate cytochromes within their membranes. This cytochrome retaining phenotype allowed for enhanced growth of PilA-deficient mutants in electron donor and carbon-limited conditions where formate and fumarate are provided as the sole electron donor and acceptor with no supplementary carbon source. Conversely, wild-type G. sulfurreducens, which has normal secretion of cytochromes, has comparative limited growth in these conditions. This growth is further impeded for OmcZ-deficient and OmcS-deficient mutants. A PilB-deficient mutant which prevents pilin production but allows for secretion of OmcZ had moderate growth in these conditions, indicating a role for cytochrome localization to enabling survival in the electron donor and carbon-limited conditions. To determine which pathways enhanced growth using formate, Sequential Window Acquisition of all Theoretical Mass Spectra mass spectrometry (SWATH-MS) proteomics of formate adapted PilA-deficient mutants and acetate grown wild type was performed. PilA-deficient mutants had an overall decrease in tricarboxylic acid (TCA) cycle enzymes and significant upregulation of electron transport chain associated proteins including many c-type cytochromes and [NiFe]-hydrogenases. Whole genome sequencing of the mutants shows strong convergent evolution and emergence of genetic subpopulations during adaptation to growth on formate. The results described here suggest a role for membrane constrained c-type cytochromes to the enhancement of survival and growth in electron donor and carbon-limited conditions.
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Affiliation(s)
- Lucie Semenec
- Department of Physiology, Anatomy and Microbiology, La Trobe University, Melbourne, Victoria, Australia
| | - Ismael A Vergara
- Bioinformatics and Cancer Genomics, Research Division, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia
| | - Andrew E Laloo
- Advanced Water Management Centre, The University of Queensland, Brisbane, Queensland, Australia
| | - Elizabeth R Mathews
- Department of Physiology, Anatomy and Microbiology, La Trobe University, Melbourne, Victoria, Australia
| | - Philip L Bond
- Advanced Water Management Centre, The University of Queensland, Brisbane, Queensland, Australia
| | - Ashley E Franks
- Department of Physiology, Anatomy and Microbiology, La Trobe University, Melbourne, Victoria, Australia.
- Centre for Future Landscapes, La Trobe University, Melbourne, Australia.
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Sequential window acquisition of all theoretical fragments versus information dependent acquisition for suspected-screening of pharmaceuticals in sediments and mussels by ultra-high pressure liquid chromatography-quadrupole time-of-flight-mass spectrometry. J Chromatogr A 2019; 1595:81-90. [DOI: 10.1016/j.chroma.2019.02.041] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2018] [Revised: 02/06/2019] [Accepted: 02/18/2019] [Indexed: 01/28/2023]
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13
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Van Steendam C, Smets I, Skerlos S, Raskin L. Improving anaerobic digestion via direct interspecies electron transfer requires development of suitable characterization methods. Curr Opin Biotechnol 2019; 57:183-190. [DOI: 10.1016/j.copbio.2019.03.018] [Citation(s) in RCA: 60] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2019] [Revised: 03/27/2019] [Accepted: 03/27/2019] [Indexed: 02/06/2023]
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Zeng D, Yin Q, Du Q, Wu G. System performance and microbial community in ethanol-fed anaerobic reactors acclimated with different organic carbon to sulfate ratios. BIORESOURCE TECHNOLOGY 2019; 278:34-42. [PMID: 30669029 DOI: 10.1016/j.biortech.2019.01.047] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2018] [Revised: 01/09/2019] [Accepted: 01/11/2019] [Indexed: 06/09/2023]
Abstract
Sulfate influences the organics removal and methanogenic performance during anaerobic wastewater treatment. System performance, microbial community and metabolic pathways in ethanol-fed anaerobic reactors were investigated under different COD/SO42- ratios (2, 1 and 0.67) and control without sulfate addition. The sulfate removal percentages declined (99%, 60% and 49%) with decreasing COD/SO42- ratios, and methanogenesis was completely inhibited. Acetate accumulated to 903-734 mg/L, though propionate was constantly lower than 30 mg/L. Without sulfate, acetate and propionate did not accumulate, despite the extended time for propionate degradation. Incomplete oxidizing sulfate reducing bacteria (Desulfobulbus and Desulfomicrobium) and hydrolysis-acidification genera (Treponema and Bacteroidales) predominated but could not degrade acetate. Desulfobulbus was the key genus for propionate degradation through the pyruvate & propanoate metabolism pathway. Pseudomonas and Desulfobulbus, possessing genes encoding Type IV pili and cytochrome c6 OmcF, respectively, potentially participated in the direct interspecies electron transfer in sulfate-rich conditions.
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Affiliation(s)
- Danfei Zeng
- Guangdong Province Engineering Research Center for Urban Water Recycling and Environmental Safety, Graduate School at Shenzhen, Tsinghua University, Shenzhen 518055, Guangdong, China
| | - Qidong Yin
- Guangdong Province Engineering Research Center for Urban Water Recycling and Environmental Safety, Graduate School at Shenzhen, Tsinghua University, Shenzhen 518055, Guangdong, China
| | - Qing Du
- Guangdong Province Engineering Research Center for Urban Water Recycling and Environmental Safety, Graduate School at Shenzhen, Tsinghua University, Shenzhen 518055, Guangdong, China
| | - Guangxue Wu
- Guangdong Province Engineering Research Center for Urban Water Recycling and Environmental Safety, Graduate School at Shenzhen, Tsinghua University, Shenzhen 518055, Guangdong, China.
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Wan Y, Zhou L, Wang S, Liao C, Li N, Liu W, Wang X. Syntrophic Growth of Geobacter sulfurreducens Accelerates Anaerobic Denitrification. Front Microbiol 2018; 9:1572. [PMID: 30065708 PMCID: PMC6056638 DOI: 10.3389/fmicb.2018.01572] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2018] [Accepted: 06/25/2018] [Indexed: 12/31/2022] Open
Abstract
Nitrate is considered as a contamination since it's over discharging to water incurs environmental problems. However, nitrate is an ideal electron sink for anaerobic pollutant degraders desiring electron acceptors due to the high redox potential. Unfortunately, not all degraders can directly reduce nitrate, and the anaerobic direct interspecies electron transfer (DIET) between degraders and denitrifiers has not been confirmed yet. Here we demonstrated that syntrophic growth of Geobacter sulfurreducens PCA with denitrifying microbial community at anaerobic condition eliminated the lag phase of 15 h and improved the denitrification rate by 13∼51% over a broad C/N ratio of 0.5 to 9. Quantitative PCR revealed that G. sulfurreducens selectively enhanced the expression of nirS coding for a cytochrome cd1-nitrite reductase, resulting in a fast and more complete denitrification. Geobacter also selectively enriched its potential denitrifying partners - Diaphorobacter, Delftia, and Shinella - to form spherical aggregates. More studies of the binary culture system need to be carried out to confirm the syntrophic mechanism of Geobacter and denitrifiers in the future. These findings extend our knowledge on understanding the anaerobic bacterial interspecies electron transfer in the denitrification process, which has broader implications in fast selection and stabilization of denitrifiers in wastewater treatment plant, and general understanding of ecology for nitrogen and metal cycling.
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Affiliation(s)
- Yuxuan Wan
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, Nankai University, Tianjin, China
| | - Lean Zhou
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, Nankai University, Tianjin, China
| | - Shu Wang
- School of Environmental Science and Engineering, Tianjin University, Tianjin, China
| | - Chengmei Liao
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, Nankai University, Tianjin, China
| | - Nan Li
- School of Environmental Science and Engineering, Tianjin University, Tianjin, China
| | - Weitao Liu
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, Nankai University, Tianjin, China
| | - Xin Wang
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, Nankai University, Tianjin, China
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Liao M, Diao X, Cheng X, Sun Y, Zhang L. Nontargeted SWATH acquisition mode for metabolites identification of osthole in rats using ultra-high-performance liquid chromatography coupled to quadrupole time-of-flight mass spectrometry. RSC Adv 2018; 8:14925-14935. [PMID: 35541352 PMCID: PMC9079938 DOI: 10.1039/c8ra01221k] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2018] [Accepted: 03/23/2018] [Indexed: 12/12/2022] Open
Abstract
Osthole (OST), 7-methoxy-8-isopentenoxycoumarin, is the characteristic constituent found in Cnidium monnieri (L.) Cuss. and possesses excellent pharmacological activities, including anticancer, anti-apoptosis and neuroprotection. In this study, a rapid and reliable method based on ultra-high-performance liquid chromatography coupled to quadrupole time-of-flight mass spectrometry (UHPLC-Q-TOF-MS) and MetabolitePilot2.0™ software with principal component variable grouping (PCVG) filtering was developed to observe probable metabolites of OST firstly. The high resolution mass data were acquired by data-independent acquisition mode (DIA), i.e., sequential window acquisition of all theoretical fragmentation spectra (SWATH), which could significantly improved the hit rate of low-level and trace metabolites. A novel data processing method ‘key product ions (KPIs)’ were employed for metabolites rapid hunting and identification as an assistant tool. A total of 72 metabolites of OST were detected in vitro and in vivo, including 39 metabolites in rat liver microsomes (RLMs), 20 metabolites in plasma, 32 metabolites in bile, 32 metabolites in urine and 37 metabolites in feces. The results showed that mono-oxidation, demethylation, dehydrogenation, sulfate conjugation and glucuronide conjugation were major metabolic reactions of OST. More significant, oxydrolysis, 3,4-epoxide-aldehylation, phosphorylation, S-cysteine conjugation and N-acetylcysteine conjugation were considered as unique metabolic pathways of OST, and phosphorylation, S-cysteine conjugation and N-acetylcysteine conjugation reactions were characterized in rat biological samples for the first time. Preparation of active metabolites will be greatly helpful in elucidating the potential biological mechanism of OST, and the proposed metabolic pathways of it might provide further understanding of the safety and efficacy of simple coumarins. Osthole (OST), 7-methoxy-8-isopentenoxycoumarin, is the characteristic constituent found in Cnidium monnieri (L.) Cuss. and possesses excellent pharmacological activities, including anticancer, anti-apoptosis and neuroprotection.![]()
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Affiliation(s)
- Man Liao
- Department of Pharmaceutical Analysis
- School of Pharmacy
- Hebei Medical University
- Shijiazhuang
- P. R. China
| | - Xinpeng Diao
- Department of Pharmaceutical Analysis
- School of Pharmacy
- Hebei Medical University
- Shijiazhuang
- P. R. China
| | - Xiaoye Cheng
- Department of Pharmaceutical Analysis
- School of Pharmacy
- Hebei Medical University
- Shijiazhuang
- P. R. China
| | - Yupeng Sun
- Department of Pharmaceutical Analysis
- School of Pharmacy
- Hebei Medical University
- Shijiazhuang
- P. R. China
| | - Lantong Zhang
- Department of Pharmaceutical Analysis
- School of Pharmacy
- Hebei Medical University
- Shijiazhuang
- P. R. China
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