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Ruiz A, Scicchitano D, Palladino G, Nanetti E, Candela M, Furones D, Sanahuja I, Carbó R, Gisbert E, Andree KB. Microbiome study of a coupled aquaponic system: unveiling the independency of bacterial communities and their beneficial influences among different compartments. Sci Rep 2023; 13:19704. [PMID: 37952071 PMCID: PMC10640640 DOI: 10.1038/s41598-023-47081-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2023] [Accepted: 11/08/2023] [Indexed: 11/14/2023] Open
Abstract
To understand the microbiome composition and interplay among bacterial communities in different compartments of a coupled freshwater aquaponics system growing flathead grey mullet (Mugil cephalus) and lettuces (Lactuca sativa), 16S rRNA gene amplicon sequencing of the V3-V4 region was analysed from each compartment (fish intestine, water from the sedimentation tank, bioballs from the biological filter, water and biofilm from the hydroponic unit, and lettuce roots). The bacterial communities of each sample group showed a stable diversity during all the trial, except for the fish gut microbiota, which displayed lower alpha diversity values. Regarding beta diversity, the structure of bacterial communities belonging to the biofilm adhering to the hydroponic tank walls, bioballs, and lettuce roots resembled each other (weighted and unweighted UniFrac distances), while bacteria from water samples also clustered together. However, both of the above-mentioned bacterial communities did not resemble those of fish gut. We found a low or almost null number of shared Amplicon Sequence Variants (ASVs) among sampled groups which indicated that each compartment worked as an independent microbiome. Regarding fish health and food safety, the microbiome profile did not reveal neither fish pathogens nor bacterial species potentially pathogenic for food health, highlighting the safety of this sustainable food production system.
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Affiliation(s)
- Alberto Ruiz
- Aquaculture Program, Institute for Research and Technology in Agroalimentaries (IRTA), Ctra. Poble Nou. Km 5.5, 43540, Ràpita, Spain
| | - Daniel Scicchitano
- Unit of Microbiome Science and Biotechnology, Department of Pharmacy and Biotechnology, University of Bologna, Via Belmeloro 6, 40126, Bologna, Italy
- Fano Marine Center, The Inter-Institute Center for Research on Marine Biodiversity, Resources and Biotechnologies, Viale Adriatico 1/N, 61032, Fano, Pesaro Urbino, Italy
| | - Giorgia Palladino
- Unit of Microbiome Science and Biotechnology, Department of Pharmacy and Biotechnology, University of Bologna, Via Belmeloro 6, 40126, Bologna, Italy
- Fano Marine Center, The Inter-Institute Center for Research on Marine Biodiversity, Resources and Biotechnologies, Viale Adriatico 1/N, 61032, Fano, Pesaro Urbino, Italy
| | - Enrico Nanetti
- Unit of Microbiome Science and Biotechnology, Department of Pharmacy and Biotechnology, University of Bologna, Via Belmeloro 6, 40126, Bologna, Italy
| | - Marco Candela
- Unit of Microbiome Science and Biotechnology, Department of Pharmacy and Biotechnology, University of Bologna, Via Belmeloro 6, 40126, Bologna, Italy
- Fano Marine Center, The Inter-Institute Center for Research on Marine Biodiversity, Resources and Biotechnologies, Viale Adriatico 1/N, 61032, Fano, Pesaro Urbino, Italy
| | - Dolors Furones
- Aquaculture Program, Institute for Research and Technology in Agroalimentaries (IRTA), Ctra. Poble Nou. Km 5.5, 43540, Ràpita, Spain
| | - Ignasi Sanahuja
- Aquaculture Program, Institute for Research and Technology in Agroalimentaries (IRTA), Ctra. Poble Nou. Km 5.5, 43540, Ràpita, Spain
| | - Ricard Carbó
- Aquaculture Program, Institute for Research and Technology in Agroalimentaries (IRTA), Ctra. Poble Nou. Km 5.5, 43540, Ràpita, Spain
| | - Enric Gisbert
- Aquaculture Program, Institute for Research and Technology in Agroalimentaries (IRTA), Ctra. Poble Nou. Km 5.5, 43540, Ràpita, Spain.
| | - Karl B Andree
- Aquaculture Program, Institute for Research and Technology in Agroalimentaries (IRTA), Ctra. Poble Nou. Km 5.5, 43540, Ràpita, Spain
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Suo Z, Cummings DA, Puri AW, Schaefer AL, Greenberg EP. A Mesorhizobium japonicum quorum sensing circuit that involves three linked genes and an unusual acyl-homoserine lactone signal. mBio 2023; 14:e0101023. [PMID: 37227303 PMCID: PMC10470506 DOI: 10.1128/mbio.01010-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 04/27/2023] [Indexed: 05/26/2023] Open
Abstract
Members of the genus Mesorhizobium, which are core components of the rhizosphere and specific symbionts of legume plants, possess genes for acyl-homoserine lactone (AHL) quorum sensing (QS). Here we show Mesorhizobium japonicum MAFF 303099 (formerly M. loti) synthesizes and responds to N-[(2E, 4E)-2,4-dodecadienoyl] homoserine lactone (2E, 4E-C12:2-HSL). We show that the 2E, 4E-C12:2-HSL QS circuit involves one of four luxR-luxI-type genes found in the sequenced genome of MAFF 303099. We refer to this circuit, which appears to be conserved among Mesorhizobium species, as R1-I1. We show that two other Mesorhizobium strains also produce 2E, 4E-C12:2-HSL. The 2E, 4E-C12:2-HSL is unique among known AHLs in its arrangement of two trans double bonds. The R1 response to 2E, 4E-C12:2-HSL is extremely selective in comparison with other LuxR homologs, and the trans double bonds appear critical for R1 signal recognition. Most well-studied LuxI-like proteins use S-adenosylmethionine and an acyl-acyl carrier protein as substrates for synthesis of AHLs. Others that form a subgroup of LuxI-type proteins use acyl-coenzyme A substrates rather than acyl-acyl carrier proteins. I1 clusters with the acyl-coenzyme A-type AHL synthases. We show that a gene linked to the I1 AHL synthase is involved in the production of the QS signal. The discovery of the unique I1 product enforces the view that further study of acyl-coenzyme A-dependent LuxI homologs will expand our knowledge of AHL diversity. The involvement of an additional enzyme in AHL generation leads us to consider this system a three-component QS circuit. IMPORTANCE We report a Mesorhizobium japonicum quorum sensing (QS) system involving a novel acyl-homoserine lactone (AHL) signal. This system is known to be involved in root nodule symbiosis with host plants. The chemistry of the newly described QS signal indicated that there may be a dedicated cellular enzyme involved in its synthesis in addition to the types known for production of other AHLs. Indeed, we report that an additional gene is required for synthesis of the unique signal, and we propose that this is a three-component QS circuit as opposed to the canonical two-component AHL QS circuits. The signaling system is exquisitely selective. The selectivity may be important when this species resides in the complex microbial communities around host plants and may make this system useful in various synthetic biology applications of QS circuits.
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Affiliation(s)
- Zehui Suo
- Integrative Microbiology Research Center, South China Agricultural University, Guangzhou, China
| | - Dale A. Cummings
- Department of Chemistry and the Henry Eyring Center for Cell and Genomes Sciences, University of Utah, Salt Lake City, Utah, USA
| | - Aaron W. Puri
- Department of Chemistry and the Henry Eyring Center for Cell and Genomes Sciences, University of Utah, Salt Lake City, Utah, USA
| | - Amy L. Schaefer
- Department of Microbiology, University of Washington, Seattle, Washington, USA
| | - E. Peter Greenberg
- Department of Microbiology, University of Washington, Seattle, Washington, USA
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Identification of AHL Synthase in Desulfovibrio vulgaris Hildenborough Using an In-Silico Methodology. Catalysts 2023. [DOI: 10.3390/catal13020364] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/11/2023] Open
Abstract
Sulfate-reducing bacteria (SRB) are anaerobic bacteria that form biofilm and induce corrosion on various material surfaces. The quorum sensing (QS) system that employs acyl homoserine lactone (AHL)-type QS molecules primarily govern biofilm formation. Studies on SRB have reported the presence of AHL, but no AHL synthase have been annotated in SRB so far. In this computational study, we used a combination of data mining, multiple sequence alignment (MSA), homology modeling and docking to decode a putative AHL synthase in the model SRB, Desulfovibrio vulgaris Hildenborough (DvH). Through data mining, we shortlisted 111 AHL synthase genes. Conserved domain analysis of 111 AHL synthase genes generated a consensus sequence. Subsequent MSA of the consensus sequence with DvH genome indicated that DVU_2486 (previously uncharacterized protein from acetyltransferase family) is the gene encoding for AHL synthase. Homology modeling revealed the existence of seven α-helices and six β sheets in the DvH AHL synthase. The amalgamated study of hydrophobicity, binding energy, and tunnels and cavities revealed that Leu99, Trp104, Arg139, Trp97, and Tyr36 are the crucial amino acids that govern the catalytic center of this putative synthase. Identifying AHL synthase in DvH would provide more comprehensive knowledge on QS mechanism and help design strategies to control biofilm formation.
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Jawaharraj K, Sigdel P, Gu Z, Muthusamy G, Sani RK, Gadhamshetty V. Photosynthetic microbial fuel cells for methanol treatment using graphene electrodes. ENVIRONMENTAL RESEARCH 2022; 215:114045. [PMID: 35995227 DOI: 10.1016/j.envres.2022.114045] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Revised: 07/27/2022] [Accepted: 08/02/2022] [Indexed: 06/15/2023]
Abstract
Photosynthetic microbial fuel cells (pMFC) represent a promising approach for treating methanol (CH3OH) wastewater. However, their use is constrained by a lack of knowledge on the extracellular electron transfer capabilities of photosynthetic methylotrophs, especially when coupled with metal electrodes. This study assessed the CH3OH oxidation capabilities of Rhodobacter sphaeroides 2.4.1 in two-compartment pMFCs. A 3D nickel (Ni) foam modified with plasma-grown graphene (Gr) was used as an anode, nitrate mineral salts media (NMS) supplemented with 0.1% CH3OH as anolyte, carbon brush as cathode, and 50 mM ferricyanide as catholyte. Two simultaneous pMFCs that used bare Ni foam and carbon felt served as controls. The Ni/Gr electrode registered a two-fold lower charge transfer resistance (0.005 kΩ cm2) and correspondingly 16-fold higher power density (141 mW/m2) compared to controls. The underlying reasons for the enhanced performance of R. sphaeroides at the graphene interface were discerned. The real-time polymerase chain reaction (PCR) analysis revealed the upregulation of cytochrome c oxidase, aa3 type, subunit I gene, and Flp pilus assembly protein genes in the sessile cells compared to their planktonic counterparts. The key EET pathways used for sustaining CH3OH oxidation were discussed.
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Affiliation(s)
- Kalimuthu Jawaharraj
- Civil and Environmental Engineering, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; BuG ReMeDEE Consortia, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; 2D-materials for Biofilm Engineering, Science and Technology (2DBEST) Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; Data-Driven Materials Discovery for Bioengineering Innovation Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA
| | - Pawan Sigdel
- Civil and Environmental Engineering, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; 2D-materials for Biofilm Engineering, Science and Technology (2DBEST) Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA
| | - Zhengrong Gu
- Agricultural and Biosystems Engineering, South Dakota State University, 2100 University Station, Brookings, SD, 57701, USA; 2D-materials for Biofilm Engineering, Science and Technology (2DBEST) Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA
| | - Govarthanan Muthusamy
- Department of Environmental Engineering, Kyungpook National University, Daegu, South Korea, 80 Daehak-ro, Buk-gu, Daegu, South Korea; Department of Biomaterials, Saveetha Dental College and Hospital, Saveetha Institute of Medical and Technical Sciences, Chennai, 600 077, Tamil Nadu, India
| | - Rajesh Kumar Sani
- Chemical and Biological Engineering, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; BuG ReMeDEE Consortia, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; 2D-materials for Biofilm Engineering, Science and Technology (2DBEST) Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; Data-Driven Materials Discovery for Bioengineering Innovation Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA
| | - Venkataramana Gadhamshetty
- Civil and Environmental Engineering, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; BuG ReMeDEE Consortia, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; 2D-materials for Biofilm Engineering, Science and Technology (2DBEST) Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA; Data-Driven Materials Discovery for Bioengineering Innovation Center, South Dakota Mines, 501 E. St. Joseph Street, Rapid City, SD, 57701, USA.
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Zhou M, Zeng C, Liu G, Luo H, Zhang R. Enhanced CO 2 reduction and acetate synthesis in autotrophic biocathode by N-Hexanoyl-L-homoserine lactone (C6HSL)-based quorum-sensing regulation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 836:155724. [PMID: 35523344 DOI: 10.1016/j.scitotenv.2022.155724] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Revised: 04/12/2022] [Accepted: 05/01/2022] [Indexed: 06/14/2023]
Abstract
The aim of this study was to investigate the ecological role of quorum-sensing signaling molecule on the autotrophic biocathode for CO2 reduction and acetate synthesis. As a typical quorum-sensing signaling molecule, N-Hexanoyl-L-homoserine lactone (C6HSL) was used to regulate the construction of cathode biofilm. Results showed that the maximum acetate production from CO2 reduction improved by 94.8%, and the maximum Faraday efficiency of the microbial electrosynthesis system enhanced by 71.7%, with the regulation of C6HSL. Electrochemical analyses indicated that higher electrochemical activity and lower charge resistance of biocathode were obtained with C6HSL than without C6HSL. Confocal laser scanning microscopy and electron inhibitor experiment suggested that exogenous C6HSL increased living biomass in the biofilm and facilitated the electron transfer pathway related to NADH dehydrogenase-CoQ and proton motive force. With the C6HSL regulation, the relative abundance of hydrogen producers (e.g., Desulfovibrio and Desulfomicrobium) increased, contributing to the improved performance of autotrophic biocathode.
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Affiliation(s)
- Meizhou Zhou
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510006, China
| | - Cuiping Zeng
- CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China
| | - Guangli Liu
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510006, China
| | - Haiping Luo
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510006, China.
| | - Renduo Zhang
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510006, China
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Mahto KU, Kumari S, Das S. Unraveling the complex regulatory networks in biofilm formation in bacteria and relevance of biofilms in environmental remediation. Crit Rev Biochem Mol Biol 2021; 57:305-332. [PMID: 34937434 DOI: 10.1080/10409238.2021.2015747] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Biofilms are assemblages of bacteria embedded within a matrix of extracellular polymeric substances (EPS) attached to a substratum. The process of biofilm formation is a complex phenomenon regulated by the intracellular and intercellular signaling systems. Various secondary messenger molecules such as cyclic dimeric guanosine 3',5'-monophosphate (c-di-GMP), cyclic adenosine 3',5'-monophosphate (cAMP), and cyclic dimeric adenosine 3',5'-monophosphate (c-di-AMP) are involved in complex signaling networks to regulate biofilm development in several bacteria. Moreover, the cell to cell communication system known as Quorum Sensing (QS) also regulates biofilm formation via diverse mechanisms in various bacterial species. Bacteria often switch to the biofilm lifestyle in the presence of toxic pollutants to improve their survivability. Bacteria within a biofilm possess several advantages with regard to the degradation of harmful pollutants, such as increased protection within the biofilm to resist the toxic pollutants, synthesis of extracellular polymeric substances (EPS) that helps in the sequestration of pollutants, elevated catabolic gene expression within the biofilm microenvironment, higher cell density possessing a large pool of genetic resources, adhesion ability to a wide range of substrata, and metabolic heterogeneity. Therefore, a comprehensive account of the various factors regulating biofilm development would provide valuable insights to modulate biofilm formation for improved bioremediation practices. This review summarizes the complex regulatory networks that influence biofilm development in bacteria, with a major focus on the applications of bacterial biofilms for environmental restoration.
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Affiliation(s)
- Kumari Uma Mahto
- Department of Life Science, Laboratory of Environmental Microbiology and Ecology (LEnME), National Institute of Technology, Odisha, India
| | - Swetambari Kumari
- Department of Life Science, Laboratory of Environmental Microbiology and Ecology (LEnME), National Institute of Technology, Odisha, India
| | - Surajit Das
- Department of Life Science, Laboratory of Environmental Microbiology and Ecology (LEnME), National Institute of Technology, Odisha, India
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McIntosh M, Köchling T, Latz A, Kretz J, Heinen S, Konzer A, Klug G. A major checkpoint for protein expression in Rhodobacter sphaeroides during heat stress response occurs at the level of translation. Environ Microbiol 2021; 23:6483-6502. [PMID: 34668288 DOI: 10.1111/1462-2920.15818] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Accepted: 10/05/2021] [Indexed: 12/24/2022]
Abstract
Temperature above the physiological optimum is a stress condition frequently faced by bacteria in their natural environments. Here, we were interested in the correlation between levels of RNA and protein under heat stress. Changes in RNA and protein levels were documented in cultures of Rhodobacter sphaeroides using RNA sequencing, quantitative mass spectrometry, western blot analysis, in vivo [35 S] methionine-labelling and plasmid-borne reporter fusions. Changes in the transcriptome were extensive. Strikingly, the proteome remained unchanged except for very few proteins. Examples include a heat shock protein, a DUF1127 protein of unknown function and sigma factor proteins from leaderless transcripts. Insight from this study indicates that R. sphaeroides responds to heat stress by producing a broad range of transcripts while simultaneously preventing translation from nearly all of them, and that this selective production of protein depends on the untranslated region of the transcript. We conclude that measurements of transcript abundance are insufficient to understand gene regulation. Rather, translation can be an important checkpoint for protein expression under certain environmental conditions. Furthermore, during heat shock, regulation at the level of transcription might represent preparation for survival in an unpredictable environment while regulation at translation ensures production of only a few proteins.
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Affiliation(s)
- Matthew McIntosh
- Institute of Microbiology und Molecular Biology, IFZ, Justus-Liebig-Universität, 35292, Giessen, Germany
| | - Thorsten Köchling
- Institute of Microbiology und Molecular Biology, IFZ, Justus-Liebig-Universität, 35292, Giessen, Germany
| | - Anna Latz
- Institute of Microbiology und Molecular Biology, IFZ, Justus-Liebig-Universität, 35292, Giessen, Germany
| | - Jonas Kretz
- Institute of Microbiology und Molecular Biology, IFZ, Justus-Liebig-Universität, 35292, Giessen, Germany
| | - Sandra Heinen
- Institute of Microbiology und Molecular Biology, IFZ, Justus-Liebig-Universität, 35292, Giessen, Germany
| | - Anne Konzer
- Biomolecular Mass Spectrometry, Max-Planck-Institute for Heart and Lung Research, Bad Nauheim, Germany
| | - Gabriele Klug
- Institute of Microbiology und Molecular Biology, IFZ, Justus-Liebig-Universität, 35292, Giessen, Germany
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Ruiz A, Herráez M, Costa-Gutierrez SB, Molina-Henares MA, Martínez MJ, Espinosa-Urgel M, Barriuso J. The architecture of a mixed fungal-bacterial biofilm is modulated by quorum-sensing signals. Environ Microbiol 2021; 23:2433-2447. [PMID: 33615654 DOI: 10.1111/1462-2920.15444] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Revised: 02/16/2021] [Accepted: 02/20/2021] [Indexed: 11/26/2022]
Abstract
Interkingdom communication is of particular relevance in polymicrobial biofilms. In this work, the ability of the fungus Ophiostoma piceae to form biofilms individually and in consortium with the bacterium Pseudomonas putida, as well as the effect of fungal and bacterial signal molecules on the architecture of the biofilms was evaluated. Pseudomonas putida KT2440 is able to form biofilms through the secretion of exopolysaccharides and two large extracellular adhesion proteins, LapA and LapF. It has two intercellular signalling systems, one mediated by dodecanoic acid and an orphan LuxR receptor that could participate in the response to AHL-type quorum sensing molecules (QSMs). Furthermore, the dimorphic fungus O. piceae uses farnesol as QSM to control its yeast to hyphae morphological transition. Results show for the first time the ability of this fungus to form biofilms alone and in mixed cultures with the bacterium. Biofilms were induced by bacterial and fungal QSMs. The essential role of LapA-LapF proteins in the architecture of biofilms was corroborated, LapA was induced by farnesol and dodecanol, while LapF by 3-oxo-C6-HSL and 3-oxo-C12-HSL. Our results indicate that fungal signals can induce a transient rise in the levels of the secondary messenger c-di-GMP, which control biofilm formation and architecture.
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Affiliation(s)
- Alberto Ruiz
- Department of Microbial and Plant Biotechnology, Centro de Investigaciones Biológicas Margarita Salas, Consejo Superior de Investigaciones Científicas (CIB-CSIC), C/Ramiro de Maeztu 9, Madrid, 28040, Spain
| | - Marta Herráez
- Department of Microbial and Plant Biotechnology, Centro de Investigaciones Biológicas Margarita Salas, Consejo Superior de Investigaciones Científicas (CIB-CSIC), C/Ramiro de Maeztu 9, Madrid, 28040, Spain
| | - Stefanie B Costa-Gutierrez
- Department of Environmental Protection, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (EEZ-CSIC), C/Profesor Albareda 1, Granada, 18008, Spain
| | - María Antonia Molina-Henares
- Department of Environmental Protection, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (EEZ-CSIC), C/Profesor Albareda 1, Granada, 18008, Spain
| | - María Jesús Martínez
- Department of Microbial and Plant Biotechnology, Centro de Investigaciones Biológicas Margarita Salas, Consejo Superior de Investigaciones Científicas (CIB-CSIC), C/Ramiro de Maeztu 9, Madrid, 28040, Spain
| | - Manuel Espinosa-Urgel
- Department of Environmental Protection, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (EEZ-CSIC), C/Profesor Albareda 1, Granada, 18008, Spain
| | - Jorge Barriuso
- Department of Microbial and Plant Biotechnology, Centro de Investigaciones Biológicas Margarita Salas, Consejo Superior de Investigaciones Científicas (CIB-CSIC), C/Ramiro de Maeztu 9, Madrid, 28040, Spain
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Varghese A, Ray S, Verma T, Nandi D. Multicellular String-Like Structure Formation by Salmonella Typhimurium Depends on Cellulose Production: Roles of Diguanylate Cyclases, YedQ and YfiN. Front Microbiol 2021; 11:613704. [PMID: 33381103 PMCID: PMC7769011 DOI: 10.3389/fmicb.2020.613704] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Accepted: 11/24/2020] [Indexed: 11/22/2022] Open
Abstract
Bacteria face diverse stresses in the environment and, sometimes, respond by forming multi-cellular structures, e.g., biofilms. Here, we report a novel macroscopic and multi-cellular structure formed by Salmonella Typhimurium, which resembles small strings. These string-like structures, ∼1 cm long, are induced under some stress conditions: iron deprivation by 2,2-Bipyridyl or low amounts of antibiotics or ethanol in minimal media. However, cells in strings revert back to planktonic growth upon return to nutrient rich media. Compared to planktonic cells, strings are more resistant to antibiotics and oxidative stress. Also, strains lacking csgD or rpoS, which are defective in the classical rdar biofilm formation, form strings. Furthermore, some biofilm inducing conditions do not result in strings and vice-versa, demonstrating that strings are not related to classical CsgD-dependent biofilms. Cells in a string are held together by cellulose and a strain lacking bcsA, which is defective in cellulose production, does not form strings. In addition, reductive stress conditions such as dithiothreitol (DTT) or mutations in the Disulfide bonding system (DSB) also give rise to strings. The amounts of c-di-GMP are increased upon string formation and studies with single and double deletion strains of the diguanylate cyclases, yedQ (STM1987) primarily and yfiN (STM2672) partly, revealed their importance for string formation. This is the first study showcasing the ability of Salmonella to produce high amounts of cellulose in liquid culture, instead of an interface, in a CsgD-independent manner. The relevance and possible applications of strings in the production of bacterial cellulose and bioremediation are discussed.
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Affiliation(s)
- Alan Varghese
- Undergraduate program, Indian Institute of Science, Bengaluru, India
| | - Semanti Ray
- Department of Biochemistry, Indian Institute of Science, Bengaluru, India
| | - Taru Verma
- Centre for Biosystems science and engineering, Indian Institute of Science, Bengaluru, India
| | - Dipankar Nandi
- Department of Biochemistry, Indian Institute of Science, Bengaluru, India
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Li J, Zhao X. Effects of quorum sensing on the biofilm formation and viable but non-culturable state. Food Res Int 2020; 137:109742. [DOI: 10.1016/j.foodres.2020.109742] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2020] [Revised: 09/08/2020] [Accepted: 09/18/2020] [Indexed: 02/07/2023]
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11
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Jeong EL, Broad S, Moody R, Phillips-Jones M. The adherence-associated Fdp fasciclin I domain protein of the biohydrogen producer Rhodobacter sphaeroides is regulated by the global Prr pathway. INTERNATIONAL JOURNAL OF HYDROGEN ENERGY 2020; 45:26840-26854. [PMID: 33093750 PMCID: PMC7561615 DOI: 10.1016/j.ijhydene.2020.07.108] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2019] [Revised: 07/07/2020] [Accepted: 07/12/2020] [Indexed: 05/23/2023]
Abstract
Expression of fdp, encoding a fasciclin I domain protein important for adherence in the hydrogen-producing bacterium Rhodobacter sphaeroides, was investigated under a range of conditions to gain insights into optimization of adherence for immobilization strategies suitable for H2 production. The fdp promoter was linked to a lacZ reporter and expressed in wild type and in PRRB and PRRA mutant strains of the Prr regulatory pathway. Expression was significantly negatively regulated by Prr under all conditions of aerobiosis tested including anaerobic conditions (required for H2 production), and aerobically regardless of growth phase, growth medium complexity or composition, carbon source, heat and cold shock and dark/light conditions. Negative fdp regulation by Prr was reflected in cellular levels of translated Fdp protein. Since Prr is required directly for nitrogenase expression, we propose optimization of Fdp-based adherence in R. sphaeroides for immobilized biohydrogen production by inactivation of the PrrA binding site(s) upstream of fdp.
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Affiliation(s)
- E.-L. Jeong
- Astbury Centre for Structural Molecular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, United Kingdom
| | - S.J. Broad
- Astbury Centre for Structural Molecular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, United Kingdom
| | - R.G. Moody
- Astbury Centre for Structural Molecular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, United Kingdom
- Department of Molecular Biology & Biotechnology, University of Sheffield, Sheffield, S10 2TN, United Kingdom
| | - M.K. Phillips-Jones
- National Centre for Macromolecular Hydrodynamics, School of Biosciences, University of Nottingham, Sutton Bonington, Leicestershire, LE12 5RD, United Kingdom
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12
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Jawaharraj K, Shrestha N, Chilkoor G, Vemuri B, Gadhamshetty V. Electricity from methanol using indigenous methylotrophs from hydraulic fracturing flowback water. Bioelectrochemistry 2020; 135:107549. [DOI: 10.1016/j.bioelechem.2020.107549] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2019] [Revised: 05/02/2020] [Accepted: 05/05/2020] [Indexed: 11/26/2022]
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13
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Effects of exogenous quorum quenching on microbial community dynamics and biofouling propensity of activated sludge in MBRs. Biochem Eng J 2020. [DOI: 10.1016/j.bej.2020.107534] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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14
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Ge C, Sheng H, Chen X, Shen X, Sun X, Yan Y, Wang J, Yuan Q. Quorum Sensing System Used as a Tool in Metabolic Engineering. Biotechnol J 2020; 15:e1900360. [DOI: 10.1002/biot.201900360] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2019] [Revised: 01/07/2020] [Indexed: 12/29/2022]
Affiliation(s)
- Chang Ge
- State Key Laboratory of Chemical Resource EngineeringBeijing University of Chemical Technology Beijing Chaoyang 100029 China
| | - Huakang Sheng
- State Key Laboratory of Chemical Resource EngineeringBeijing University of Chemical Technology Beijing Chaoyang 100029 China
| | - Xin Chen
- State Key Laboratory of Chemical Resource EngineeringBeijing University of Chemical Technology Beijing Chaoyang 100029 China
| | - Xiaolin Shen
- State Key Laboratory of Chemical Resource EngineeringBeijing University of Chemical Technology Beijing Chaoyang 100029 China
| | - Xinxiao Sun
- State Key Laboratory of Chemical Resource EngineeringBeijing University of Chemical Technology Beijing Chaoyang 100029 China
| | - Yajun Yan
- College of EngineeringThe University of Georgia Athens GA 30605 USA
| | - Jia Wang
- State Key Laboratory of Chemical Resource EngineeringBeijing University of Chemical Technology Beijing Chaoyang 100029 China
| | - Qipeng Yuan
- State Key Laboratory of Chemical Resource EngineeringBeijing University of Chemical Technology Beijing Chaoyang 100029 China
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15
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McIntosh M, Eisenhardt K, Remes B, Konzer A, Klug G. Adaptation of the Alphaproteobacterium Rhodobacter sphaeroides to stationary phase. Environ Microbiol 2019; 21:4425-4445. [PMID: 31579997 DOI: 10.1111/1462-2920.14809] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2018] [Revised: 08/30/2019] [Accepted: 09/18/2019] [Indexed: 12/20/2022]
Abstract
Exhaustion of nutritional resources stimulates bacterial populations to adapt their growth behaviour. General mechanisms are known to facilitate this adaptation by sensing the environmental change and coordinating gene expression. However, the existence of such mechanisms among the Alphaproteobacteria remains unclear. This study focusses on global changes in transcript levels during growth under carbon-limiting conditions in a model Alphaproteobacterium, Rhodobacter sphaeroides, a metabolically diverse organism capable of multiple modes of growth including aerobic and anaerobic respiration, anaerobic anoxygenic photosynthesis and fermentation. We identified genes that showed changed transcript levels independently of oxygen levels during the adaptation to stationary phase. We selected a subset of these genes and subjected them to mutational analysis, including genes predicted to be involved in manganese uptake, polyhydroxybutyrate production and quorum sensing and an alternative sigma factor. Although these genes have not been previously associated with the adaptation to stationary phase, we found that all were important to varying degrees. We conclude that while R. sphaeroides appears to lack a rpoS-like master regulator of stationary phase adaptation, this adaptation is nonetheless enabled through the impact of multiple genes, each responding to environmental conditions and contributing to the adaptation to stationary phase.
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Affiliation(s)
- Matthew McIntosh
- Institut für Mikrobiologie und Molekularbiologie, IFZ, Justus-Liebig-Universität, 35392, Giessen, Germany
| | - Katrin Eisenhardt
- Institut für Mikrobiologie und Molekularbiologie, IFZ, Justus-Liebig-Universität, 35392, Giessen, Germany
| | - Bernhard Remes
- Institut für Mikrobiologie und Molekularbiologie, IFZ, Justus-Liebig-Universität, 35392, Giessen, Germany
| | - Anne Konzer
- Biomolecular Mass Spectrometry, Max-Planck-Institute for Heart and Lung Research, Bad Nauheim, Germany
| | - Gabriele Klug
- Institut für Mikrobiologie und Molekularbiologie, IFZ, Justus-Liebig-Universität, 35392, Giessen, Germany
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16
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Yin Y, Liu F, Wang L, Sun J. Overcoming the instability of aerobic granular sludge under nitrogen deficiency through shortening settling time. BIORESOURCE TECHNOLOGY 2019; 289:121620. [PMID: 31229861 DOI: 10.1016/j.biortech.2019.121620] [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: 04/12/2019] [Revised: 06/02/2019] [Accepted: 06/05/2019] [Indexed: 06/09/2023]
Abstract
This study investigated the short settling time strategy to overcome the instability of aerobic granular sludge (AGS) under nitrogen deficiency. AGS variations in its physical and chemical characteristics and microbial community were investigated. Results showed that nitrogen deficiency led to the instability of AGS, while short settling time strategy could overcome the instability of AGS under nitrogen deficiency. Extracellular polymeric substances (EPS), especially, the increased secretion of polysaccharide and proteins with amide III groups at the short settling time enhanced the stability of the granules under nitrogen deficiency. Unclassified_f_Microbacteriaceae shifted to be the major bacteria group at short settling time, along with the decrease of Meganema and Rhodobacter and the increase of Lysobacter, which may play an important role in enhancing AGS stability. Therefore, shortening settling time supports an effective strategy for applications of AGS under nitrogen deficiency.
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Affiliation(s)
- Yunjun Yin
- School of Environment, MOE Key Laboratory of Water and Sediment Sciences/State Key Lab of Water Environment Simulation, Beijing Normal University, Beijing 100875, China.
| | - Fengyuan Liu
- School of Environment, MOE Key Laboratory of Water and Sediment Sciences/State Key Lab of Water Environment Simulation, Beijing Normal University, Beijing 100875, China
| | - Lu Wang
- Development Research Center of the Ministry of Water Resources of P.R. China, Beijing 100038, China
| | - Jian Sun
- School of Civil and Architecture Engineering, Xi'an Technological University, Xi'an 710021, China
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17
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Orsi E, Folch PL, Monje-López VT, Fernhout BM, Turcato A, Kengen SWM, Eggink G, Weusthuis RA. Characterization of heterotrophic growth and sesquiterpene production by Rhodobacter sphaeroides on a defined medium. J Ind Microbiol Biotechnol 2019; 46:1179-1190. [PMID: 31187318 PMCID: PMC6697705 DOI: 10.1007/s10295-019-02201-6] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2019] [Accepted: 05/29/2019] [Indexed: 11/30/2022]
Abstract
Rhodobacter sphaeroides is a metabolically versatile bacterium capable of producing terpenes natively. Surprisingly, terpene biosynthesis in this species has always been investigated in complex media, with unknown compounds possibly acting as carbon and nitrogen sources. Here, a defined medium was adapted for R. sphaeroides dark heterotrophic growth, and was used to investigate the conversion of different organic substrates into the reporter terpene amorphadiene. The amorphadiene synthase was cloned in R. sphaeroides, allowing its biosynthesis via the native 2-methyl-d-erythritol-4-phosphate (MEP) pathway and, additionally, via a heterologous mevalonate one. The latter condition increased titers up to eightfold. Consequently, better yields and productivities to previously reported complex media cultivations were achieved. Productivity was further investigated under different cultivation conditions, including nitrogen and oxygen availability. This novel cultivation setup provided useful insight into the understanding of terpene biosynthesis in R. sphaeroides, allowing to better comprehend its dynamics and regulation during chemoheterotrophic cultivation.
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Affiliation(s)
- Enrico Orsi
- Bioprocess Engineering, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands
| | - Pauline L Folch
- Bioprocess Engineering, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands
| | - Vicente T Monje-López
- Bioprocess Engineering, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands
| | - Bas M Fernhout
- Bioprocess Engineering, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands
| | - Alessandro Turcato
- Bioprocess Engineering, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands
| | - Servé W M Kengen
- Laboratory of Microbiology, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands
| | - Gerrit Eggink
- Bioprocess Engineering, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands.,Biobased Products Food and Biobased Research, Wageningen University and Research, Wageningen, The Netherlands
| | - Ruud A Weusthuis
- Bioprocess Engineering, Department of Agrotechnology and Food, Wageningen University and Research, Wageningen, The Netherlands.
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18
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Xu P, Xiao E, Wu J, He F, Zhang Y, Wu Z. Enhanced nitrate reduction in water by a combined bio-electrochemical system of microbial fuel cells and submerged aquatic plant Ceratophyllum demersum. J Environ Sci (China) 2019; 78:338-351. [PMID: 30665653 DOI: 10.1016/j.jes.2018.11.013] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2018] [Revised: 09/29/2018] [Accepted: 11/13/2018] [Indexed: 06/09/2023]
Abstract
High nitrate (NO3-) loading in water bodies is a crucial factor inducing the eutrophication of lakes. We tried to enhance NO3- reduction in overlying water by coupling sediment microbial fuel cells (SMFCs) with submerged aquatic plant Ceratophyllum demersum. A comparative study was conducted by setting four treatments: open-circuit SMFC (Control), closed-circuit SMFC (SMFC-c), open-circuit SMFC with C. demersum (Plant), and closed-circuit SMFC with C. demersum (P-SMFC-c). The electrochemical parameters were documented to illustrate the bio-electrochemical characteristics of SMFC-c and P-SMFC-c. Removal pathways of NO3- in different treatments were studied by adding quantitative 15NO3- to water column. The results showed that the cathodic reaction in SMFC-c was mainly catalyzed by aerobic organisms attached on the cathode, including algae, Pseudomonas, Bacillus, and Albidiferax. The oxygen secreted by plants significantly improved the power generation of SMFC-c. Both electrogenesis and plants enhanced the complete removal of NO3- from the sediment-water system. The complete removal rates of added 15N increased by 17.6% and 10.2% for SMFC-c and plant, respectively, when compared with control at the end of experiment. The electrochemical/heterotrophic and aerobic denitrification on cathodes mainly drove the higher reduction of NO3- in SMFC-c and plant, respectively. The coexistence of electrogenesis and plants further increased the complete removal of NO3- with a rate of 23.1%. The heterotrophic and aerobic denitrifications were simultaneously promoted with a highest abundance of Flavobacterium, Bacillus, Geobacter, Pseudomonas, Rhodobacter, and Arenimonas on the cathode.
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Affiliation(s)
- Peng Xu
- College of Resources and Environmental Engineering, Wuhan University of Technology, Wuhan 430070, China
| | - Enrong Xiao
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China.
| | - Junmei Wu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Feng He
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Yi Zhang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Zhenbin Wu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
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19
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Maddela NR, Sheng B, Yuan S, Zhou Z, Villamar-Torres R, Meng F. Roles of quorum sensing in biological wastewater treatment: A critical review. CHEMOSPHERE 2019; 221:616-629. [PMID: 30665091 DOI: 10.1016/j.chemosphere.2019.01.064] [Citation(s) in RCA: 94] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2018] [Revised: 12/23/2018] [Accepted: 01/09/2019] [Indexed: 06/09/2023]
Abstract
Quorum sensing (QS) and quorum quenching (QQ) are increasingly reported in biological wastewater treatment processes because of their inherent roles in biofilm development, bacterial aggregation, granulation, colonization, and biotransformation of pollutants. As such, the fundamentals and ubiquitous nature of QS bacteria are critical for fully understanding the process of the wastewater treatment system. In this article, the details of QS-based strategies related to community behaviors and phenotypes in wastewater treatment systems were reviewed. The molecular aspects and coexistence of QS and QQ bacteria were also mentioned, which provide evidence that future wastewater treatment will indispensably rely on QS-based strategies. In addition, recent attempts focusing on the use of QQ for biofilm or biofouling control were also summarized. Nevertheless, there are still several challenges and knowledge gaps that warrant future targeted research on the ecological niche, abundance, and community of QS- and QQ-bacteria in environmental settings or engineered systems.
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Affiliation(s)
- Naga Raju Maddela
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, PR China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Guangzhou 510275, PR China; Facultad de Ciencias de la Salud, Universidad Técnica de Manabí, Portoviejo 130105, Ecuador
| | - Binbin Sheng
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, PR China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Guangzhou 510275, PR China
| | - Shasha Yuan
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, PR China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Guangzhou 510275, PR China
| | - Zhongbo Zhou
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, PR China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Guangzhou 510275, PR China
| | - Ronald Villamar-Torres
- Université de Montpellier, CIRAD, INRA, Montpellier SupAgro, Montpellier 34090, France; Facultad de Ingeniería Agronómica, Universidad Técnica de Manabí, Campus Experimental "La Teodomira", Santa Ana 131301, Ecuador
| | - Fangang Meng
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, PR China; Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Guangzhou 510275, PR China.
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20
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Daer R, Barrett CM, Melendez EL, Wu J, Tekel SJ, Xu J, Dennison B, Muller R, Haynes KA. Characterization of diverse homoserine lactone synthases in Escherichia coli. PLoS One 2018; 13:e0202294. [PMID: 30138364 PMCID: PMC6107141 DOI: 10.1371/journal.pone.0202294] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2018] [Accepted: 07/03/2018] [Indexed: 11/18/2022] Open
Abstract
Quorum sensing networks have been identified in over one hundred bacterial species to date. A subset of these networks regulate group behaviors, such as bioluminescence, virulence, and biofilm formation, by sending and receiving small molecules called homoserine lactones (HSLs). Bioengineers have incorporated quorum sensing pathways into genetic circuits to connect logical operations. However, the development of higher-order genetic circuitry is inhibited by crosstalk, in which one quorum sensing network responds to HSLs produced by a different network. Here, we report the construction and characterization of a library of ten synthases including some that are expected to produce HSLs that are incompatible with the Lux pathway, and therefore show no crosstalk. We demonstrated their function in a common lab chassis, Escherichia coli BL21, and in two contexts, liquid and solid agar cultures, using decoupled Sender and Receiver pathways. We observed weak or strong stimulation of a Lux receiver by longer-chain or shorter-chain HSL-generating Senders, respectively. We also considered the under-investigated risk of unintentional release of incompletely deactivated HSLs in biological waste. We found that HSL-enriched media treated with bleach were still bioactive, while autoclaving deactivates LuxR induction. This work represents the most extensive comparison of quorum signaling synthases to date and greatly expands the bacterial signaling toolkit while recommending practices for disposal based on empirical, quantitative evidence.
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Affiliation(s)
- René Daer
- Arizona State University, School of Biological and Health Systems Engineering, Tempe, AZ, United States of America
| | - Cassandra M. Barrett
- Arizona State University, School of Biological and Health Systems Engineering, Tempe, AZ, United States of America
| | - Ernesto Luna Melendez
- School of Molecular Sciences, Arizona State University, Tempe, AZ, United States of America
| | - Jiaqi Wu
- School of Computing, Informatics, and Decision Systems Engineering, Arizona State University, Tempe, AZ, United States of America
- School of Life Sciences, Arizona State University, Tempe, AZ, United States of America
| | - Stefan J. Tekel
- Arizona State University, School of Biological and Health Systems Engineering, Tempe, AZ, United States of America
| | - Jimmy Xu
- School of Life Sciences, Arizona State University, Tempe, AZ, United States of America
- School of Engineering of Matter, Transport, and Energy, Arizona State University, Tempe, AZ, United States of America
| | - Brady Dennison
- School of Life Sciences, Arizona State University, Tempe, AZ, United States of America
| | - Ryan Muller
- School of Life Sciences, Arizona State University, Tempe, AZ, United States of America
- Department of Chemistry and Biochemistry, Arizona State University, Tempe, AZ, United States of America
| | - Karmella A. Haynes
- Arizona State University, School of Biological and Health Systems Engineering, Tempe, AZ, United States of America
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21
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Arashida N, Shimbo K, Terada T, Okimi T, Kikuchi Y, Hashiro S, Umekage S, Yasueda H. Identification of novel long chain N-acylhomoserine lactones of chain length C 20 from the marine phototrophic bacterium Rhodovulum sulfidophilum. Biosci Biotechnol Biochem 2018; 82:1683-1693. [PMID: 30001674 DOI: 10.1080/09168451.2018.1490168] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Abstract
Gram-negative bacterial quorum sensing is mainly regulated by an extracellularly produced N-acylhomoserine lactone (AHL). AHL consists of a lactone ring and an acyl chain, which generally varies from C4 to C18 in length and affords species-specific variety. In this study, we developed an ultra-high performance liquid chromatography tandem mass spectrometry system and detected two kinds of long chain AHLs with chain length C20 from the reverse-phase thin layer chromatography-fractionated cultured supernatant of the marine photosynthetic bacterium Rhodovulum sulfidophilum. By fragmentation search analysis to detect compounds with a homoserine lactone ring moiety for data dependent acquisition, a minor AHL, presumed to be 3-OH-C18-homoserine lactone (HSL), was also found. Among the detected C20-HSLs, 3-OH-C20-HSL was structurally identified and 3-OH-C20:1-HSL was strongly suggested. To our knowledge, this is the first report to show a novel AHL with the longest C20 acyl side chain found to date. ABBREVIATIONS AGC: automatic gain control; AHL: N-acylhomoserine lactone; CD: cyclodextrin; CID: collision induced dissociation; DDA: data dependent acquisition; EPI: enhanced product ion; FISh: fragment ion search; HCD: high energy collisional dissociation; HSL: homoserine lactone; IT: injection time; LC: liquid chromatography; MS: mass spectrometry; PRM: parallel reaction monitoring; RP: reverse phase; SRM: selected reaction monitoring; TLC: thin layer chromatography; UHPLC: ultra high performance liquid chromatography.
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Affiliation(s)
- Naoko Arashida
- a Institute for Innovation, Ajinomoto Co., Inc ., Kawasaki , Japan
| | - Kazutaka Shimbo
- a Institute for Innovation, Ajinomoto Co., Inc ., Kawasaki , Japan
| | - Takeshi Terada
- b Department of Environmental and Life Sciences , Toyohashi University of Technology , Toyohashi , Japan
| | - Takuya Okimi
- b Department of Environmental and Life Sciences , Toyohashi University of Technology , Toyohashi , Japan
| | - Yo Kikuchi
- c Major in Integrative Bioscience and Biomedical Engineering, Graduate School of Science and Engineering , Waseda University , Tokyo , Japan
| | - Shuhei Hashiro
- a Institute for Innovation, Ajinomoto Co., Inc ., Kawasaki , Japan
| | - So Umekage
- b Department of Environmental and Life Sciences , Toyohashi University of Technology , Toyohashi , Japan
| | - Hisashi Yasueda
- a Institute for Innovation, Ajinomoto Co., Inc ., Kawasaki , Japan
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Abstract
One common feature of biofilm development is the active dispersal of cells from the mature biofilm, which completes the biofilm life cycle and allows for the subsequent colonization of new habitats. Dispersal is likely to be critical for species survival and appears to be a precisely regulated process that involves a complex network of genes and signal transduction systems. Sophisticated molecular mechanisms control the transition of sessile biofilm cells into dispersal cells and their coordinated detachment and release in the bulk liquid. Dispersal cells appear to be specialized and exhibit a unique phenotype different from biofilm or planktonic bacteria. Further, the dispersal population is characterized by a high level of heterogeneity, reminiscent of, but distinct from, that in the biofilm, which could potentially allow for improved colonization under various environmental conditions. Here we review recent advances in characterizing the molecular mechanisms that regulate biofilm dispersal events and the impact of dispersal in a broader ecological context. Several strategies that exploit the mechanisms controlling biofilm dispersal to develop as applications for biofilm control are also presented.
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Leguina ACDV, Nieto C, Pajot HF, Bertini EV, Mac Cormack W, Castellanos de Figueroa LI, Nieto-Peñalver CG. Inactivation of bacterial quorum sensing signals N-acyl homoserine lactones is widespread in yeasts. Fungal Biol 2018; 122:52-62. [DOI: 10.1016/j.funbio.2017.10.006] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Revised: 09/04/2017] [Accepted: 10/15/2017] [Indexed: 11/16/2022]
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24
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Kim SR, Yeon KM. Quorum Sensing as Language of Chemical Signals. FUNDAMENTALS OF QUORUM SENSING, ANALYTICAL METHODS AND APPLICATIONS IN MEMBRANE BIOREACTORS 2018. [DOI: 10.1016/bs.coac.2018.03.010] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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25
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Doberva M, Stien D, Sorres J, Hue N, Sanchez-Ferandin S, Eparvier V, Ferandin Y, Lebaron P, Lami R. Large Diversity and Original Structures of Acyl-Homoserine Lactones in Strain MOLA 401, a Marine Rhodobacteraceae Bacterium. Front Microbiol 2017; 8:1152. [PMID: 28690598 PMCID: PMC5479921 DOI: 10.3389/fmicb.2017.01152] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2017] [Accepted: 06/07/2017] [Indexed: 01/01/2023] Open
Abstract
Quorum sensing (QS) is a density-dependent mechanism allowing bacteria to synchronize their physiological activities, mediated by a wide range of signaling molecules including N-acyl-homoserine lactones (AHLs). Production of AHL has been identified in various marine strains of Proteobacteria. However, the chemical diversity of these molecules still needs to be further explored. In this study, we examined the diversity of AHLs produced by strain MOLA 401, a marine Alphaproteobacterium that belongs to the ubiquitous Rhodobacteraceae family. We combined an original biosensors-based guided screening of extract microfractions with liquid chromatography coupled to mass spectrometry (MS), High Resolution MS/MS and Nuclear Magnetic Resonance. This approach revealed the unsuspected capacity of a single Rhodobacteraceae strain to synthesize 20 different compounds, which are most likely AHLs. Also, some of these AHLs possessed original features that have never been previously observed, including long (up to 19 carbons) and poly-hydroxylated acyl side chains, revealing new molecular adaptations of QS to planktonic life and a larger molecular diversity than expected of molecules involved in cell–cell signaling within a single strain.
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Affiliation(s)
- Margot Doberva
- Sorbonne Universités, UPMC Univ Paris 6, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire OcéanologiqueBanyuls/Mer, France
| | - Didier Stien
- Sorbonne Universités, UPMC Univ Paris 6, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire OcéanologiqueBanyuls/Mer, France
| | - Jonathan Sorres
- Sorbonne Universités, UPMC Univ Paris 6, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire OcéanologiqueBanyuls/Mer, France
| | - Nathalie Hue
- CNRS, Institut de Chimie des Substances Naturelles (ICSN), Université Paris-SudGif-sur-Yvette, France
| | - Sophie Sanchez-Ferandin
- Sorbonne Universités, UPMC Univ Paris 6, CNRS, Biologie Intégrative des Organismes Marins (BIOM), Observatoire OcéanologiqueBanyuls/Mer, France
| | - Véronique Eparvier
- CNRS, Institut de Chimie des Substances Naturelles (ICSN), Université Paris-SudGif-sur-Yvette, France
| | - Yoan Ferandin
- Sorbonne Universités, UPMC Univ Paris 6, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire OcéanologiqueBanyuls/Mer, France
| | - Philippe Lebaron
- Sorbonne Universités, UPMC Univ Paris 6, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire OcéanologiqueBanyuls/Mer, France
| | - Raphaël Lami
- Sorbonne Universités, UPMC Univ Paris 6, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire OcéanologiqueBanyuls/Mer, France
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Laurinavichene T, Laurinavichius K, Shastik E, Tsygankov A. Inhibited growth of Clostridium butyricum in efficient H 2-producing co-culture with Rhodobacter sphaeroides. Appl Microbiol Biotechnol 2016; 100:10649-10658. [PMID: 27838838 DOI: 10.1007/s00253-016-7977-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2016] [Revised: 10/24/2016] [Accepted: 10/27/2016] [Indexed: 12/11/2022]
Abstract
Cell number of Clostridium butyricum and Rhodobacter sphaeroides in co-culture was measured using q-PCR approach. During efficient H2 photoproduction from starch (6.2 mol H2/mol glucose), Clostridia growth and starch-hydrolyzing activity was partly suppressed. Apparently, the effect of R. sphaeroides towards C. butyricum was not attributed to altered Eh or pH values in the presence of purple bacteria. Further, disk-diffusion test proved that R. sphaeroides was capable of producing inhibitors against another purple bacterium, Rhodospirillum rubrum, but not against C. butyricum. We suggested that at initial cell number ratio C. butyricum:R. sphaeroides 1:1 purple bacteria outcompeted C. butyricum for yeast extract at its low concentration (80 mg/L). Under these conditions, the H2 yield was rather high (5.7 mol/mol). When the yeast extract concentration increased to 320 mg/L, this process was replaced by the low-yield H2 production (1.8 mol/mol) characteristic of Clostridia. However, increased percentage of purple bacteria in inoculum under these conditions prevented this shift. The outcome of competition depended on both the yeast extract concentration and cell number ratio. Apparently, the competition for yeast extract helped to maintain balance between fast-growing C. butyricum and slower-growing R. sphaeroides for efficient H2 photoproduction.
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Affiliation(s)
- Tatyana Laurinavichene
- Institute of Basic Biological Problems, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Kestutis Laurinavichius
- Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Evgeny Shastik
- Institute of Basic Biological Problems, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Anatoly Tsygankov
- Institute of Basic Biological Problems, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia.
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Rolland JL, Stien D, Sanchez-Ferandin S, Lami R. Quorum Sensing and Quorum Quenching in the Phycosphere of Phytoplankton: a Case of Chemical Interactions in Ecology. J Chem Ecol 2016; 42:1201-1211. [PMID: 27822708 DOI: 10.1007/s10886-016-0791-y] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2016] [Revised: 09/20/2016] [Accepted: 10/05/2016] [Indexed: 12/28/2022]
Abstract
The interactions between bacteria and phytoplankton regulate many important biogeochemical reactions in the marine environment, including those in the global carbon, nitrogen, and sulfur cycles. At the microscopic level, it is now well established that important consortia of bacteria colonize the phycosphere, the immediate environment of phytoplankton cells. In this microscale environment, abundant bacterial cells are organized in a structured biofilm, and exchange information through the diffusion of small molecules called semiochemicals. Among these processes, quorum sensing plays a particular role as, when a sufficient abundance of cells is reached, it allows bacteria to coordinate their gene expression and physiology at the population level. In contrast, quorum quenching mechanisms are employed by many different types of microorganisms that limit the coordination of antagonistic bacteria. This review synthesizes quorum sensing and quorum quenching mechanisms evidenced to date in the phycosphere, emphasizing the implications that these signaling systems have for the regulation of bacterial communities and their activities. The diversity of chemical compounds involved in these processes is examined. We further review the bacterial functions regulated in the phycosphere by quorum sensing, which include biofilm formation, nutrient acquisition, and emission of algaecides. We also discuss quorum quenching compounds as antagonists of quorum sensing, their function in the phycosphere, and their potential biotechnological applications. Overall, the current state of the art demonstrates that quorum sensing and quorum quenching regulate a balance between a symbiotic and a parasitic way of life between bacteria and their phytoplankton host.
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Affiliation(s)
- Jean Luc Rolland
- Interactions-Hôtes-Pathogènes-Environnements (IHPE), Ifremer, CNRS, UPVD, Université de Montpellier, UMR 5244, 34090, Montpellier, France
| | - Didier Stien
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire Océanologique, Banyuls-sur-Mer, France
| | - Sophie Sanchez-Ferandin
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, Laboratoire de Biologie Intégrative des Organismes Marins (BIOM), Observatoire Océanologique, Banyuls-sur-Mer, France
| | - Raphaël Lami
- Sorbonne Universités, UPMC Univ Paris 06, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire Océanologique, Banyuls-sur-Mer, France.
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Responses of bacterial community structure and denitrifying bacteria in biofilm to submerged macrophytes and nitrate. Sci Rep 2016; 6:36178. [PMID: 27782192 PMCID: PMC5080643 DOI: 10.1038/srep36178] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2016] [Accepted: 10/12/2016] [Indexed: 11/08/2022] Open
Abstract
Submerged macrophytes play important roles in constructed wetlands and natural water bodies, as these organisms remove nutrients and provide large surfaces for biofilms, which are beneficial for nitrogen removal, particularly from submerged macrophyte-dominated water columns. However, information on the responses of biofilms to submerged macrophytes and nitrogen molecules is limited. In the present study, bacterial community structure and denitrifiers were investigated in biofilms on the leaves of four submerged macrophytes and artificial plants exposed to two nitrate concentrations. The biofilm cells were evenly distributed on artificial plants but appeared in microcolonies on the surfaces of submerged macrophytes. Proteobacteria was the most abundant phylum in all samples, accounting for 27.3–64.8% of the high-quality bacterial reads, followed by Chloroflexi (3.7–25.4%), Firmicutes (3.0–20.1%), Acidobacteria (2.7–15.7%), Actinobacteria (2.2–8.7%), Bacteroidetes (0.5–9.7%), and Verrucomicrobia (2.4–5.2%). Cluster analysis showed that bacterial community structure can be significantly different on macrophytes versus from those on artificial plants. Redundancy analysis showed that electrical conductivity and nitrate concentration were positively correlated with Shannon index and operational taxonomic unit (OTU) richness (log10 transformed) but somewhat negatively correlated with microbial density. The relative abundances of five denitrifying genes were positively correlated with nitrate concentration and electrical conductivity but negatively correlated with dissolved oxygen.
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Patel NM, Moore JD, Blackwell HE, Amador-Noguez D. Identification of Unanticipated and Novel N-Acyl L-Homoserine Lactones (AHLs) Using a Sensitive Non-Targeted LC-MS/MS Method. PLoS One 2016; 11:e0163469. [PMID: 27706219 PMCID: PMC5051804 DOI: 10.1371/journal.pone.0163469] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2016] [Accepted: 09/10/2016] [Indexed: 12/31/2022] Open
Abstract
N-acyl L-homoserine lactones (AHLs) constitute a predominant class of quorum-sensing signaling molecules used by Gram-negative bacteria. Here, we report a sensitive and non-targeted HPLC-MS/MS method based on parallel reaction monitoring (PRM) to identify and quantitate known, unanticipated, and novel AHLs in microbial samples. Using a hybrid quadrupole-high resolution mass analyzer, this method integrates MS scans and all-ion fragmentation MS/MS scans to allow simultaneous detection of AHL parent-ion masses and generation of full mass spectra at high resolution and high mass accuracy in a single chromatographic run. We applied this method to screen for AHL production in a variety of Gram-negative bacteria (i.e. B. cepacia, E. tarda, E. carotovora, E. herbicola, P. stewartii, P. aeruginosa, P. aureofaciens, and R. sphaeroides) and discovered that nearly all of them produce a larger set of AHLs than previously reported. Furthermore, we identified production of an uncommon AHL (i.e. 3-oxo-C7-HL) in E. carotovora and P. stewartii, whose production has only been previously observed within the genera Serratia and Yersinia. Finally, we used our method to quantitate AHL degradation in B. cepacia, E. carotovora, E. herbicola, P. stewartii, P. aeruginosa, P. aureofaciens, the non-AHL producer E. coli, and the Gram-positive bacterium B. subtilis. We found that AHL degradation ability varies widely across these microbes, of which B. subtilis and E. carotovora are the best degraders, and observed that there is a general trend for AHLs containing long acyl chains (≥10 carbons) to be degraded at faster rates than AHLs with short acyl chains (≤6 carbons).
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Affiliation(s)
- Nishaben M. Patel
- Department of Bacteriology, 1550 Linden Dr., University of Wisconsin-Madison, Madison, Wisconsin, United States of America
- Master of Science in Bacteriology Program, University of Wisconsin-Madison, Madison, Wisconsin, United States of America
| | - Joseph D. Moore
- Department of Chemistry, 1101 University Ave., University of Wisconsin-Madison, Madison, Wisconsin, United States of America
| | - Helen E. Blackwell
- Department of Chemistry, 1101 University Ave., University of Wisconsin-Madison, Madison, Wisconsin, United States of America
| | - Daniel Amador-Noguez
- Department of Bacteriology, 1550 Linden Dr., University of Wisconsin-Madison, Madison, Wisconsin, United States of America
- * E-mail:
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Abstract
The power of a single engineered organism is limited by its capacity for genetic modification. To circumvent the constraints of any singular microbe, a new frontier in synthetic biology is emerging: synthetic ecology, or the engineering of microbial consortia. Here we develop communication systems for such consortia in an effort to allow for complex social behavior across different members of a community. We posit that such communities will outpace monocultures in their ability to perform complicated tasks if communication among and between members of the community is well regulated. Quorum sensing was identified as the most promising candidate for precise control of engineered microbial ecosystems, due to its large diversity and established utility in synthetic biology. Through promoter and protein modification, we engineered two quorum sensing systems (rpa and tra) to add to the extensively used lux and las systems. By testing the cross-talk between all systems, we thoroughly characterized many new inducible systems for versatile control of engineered communities. Furthermore, we've identified several system pairs that exhibit useful types of orthogonality. Most notably, the tra and rpa systems were shown to have neither signal crosstalk nor promoter crosstalk for each other, making them completely orthogonal in operation. Overall, by characterizing the interactions between all four systems and their components, these circuits should lend themselves to higher-level genetic circuitry for use in microbial consortia.
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Affiliation(s)
- Spencer R. Scott
- Department of Bioengineering, University of California, San Diego, La Jolla, California 92093, United States
| | - Jeff Hasty
- Department of Bioengineering, University of California, San Diego, La Jolla, California 92093, United States
- Molecular Biology Section, Division of Biological Science, University of California, San Diego, La Jolla, California 92093, United States
- BioCircuits Institute, University of California, San Diego, La Jolla, California 92093, United States
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31
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Singh BN, Prateeksha, Upreti DK, Singh BR, Defoirdt T, Gupta VK, De Souza AO, Singh HB, Barreira JCM, Ferreira ICFR, Vahabi K. Bactericidal, quorum quenching and anti-biofilm nanofactories: a new niche for nanotechnologists. Crit Rev Biotechnol 2016; 37:525-540. [PMID: 27684212 DOI: 10.1080/07388551.2016.1199010] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Despite several conventional potent antibacterial therapies, bacterial infections pose a significant threat to human health because they are emerging as the leading cause of death worldwide. Due to the development of antibiotic resistance in bacteria, there is a pressing demand to discover novel approaches for developing more effective therapies to treat multidrug-resistant bacterial strains and biofilm-associated infections. Therefore, attention has been especially devoted to a new and emerging branch of science "nanotechnology" to design non-conventional antimicrobial chemotherapies. A range of nanomaterials and nano-sized carriers for conventional antimicrobial agents have fully justified their potential to combat bacterial diseases by reducing cell viability, by attenuating quorum sensing, and by inhibiting/or eradicating biofilms. This communication summarizes emerging nano-antimicrobial therapies in treating bacterial infections, particularly using antibacterial, quorum quenching, and anti-biofilm nanomaterials as new approaches to tackle the current challenges in combating infectious diseases.
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Affiliation(s)
- Brahma N Singh
- a Pharmacognosy & Ethnopharmacology Division , CSIR-National Botanical Research Institute , Lucknow , India
| | - Prateeksha
- a Pharmacognosy & Ethnopharmacology Division , CSIR-National Botanical Research Institute , Lucknow , India
| | - Dalip K Upreti
- b Lichenology laboratory , Plant Biodiversity and Conservation Biology Division, CSIR-National Botanical Research Institute , Lucknow , Uttar Pradesh , India
| | - Braj Raj Singh
- c TERI-Deakin Nanobiotechnology Centre, TERI Gram, The Energy and Resources Institute, Gurgaon , Haryana , India.,d Centre of Excellence in Materials Science (Nanomaterials), Z. H. College of Engineering and Technology , Aligarh Muslim University, Aligarh , Uttar Pradesh , India
| | - Tom Defoirdt
- d Centre of Excellence in Materials Science (Nanomaterials), Z. H. College of Engineering and Technology , Aligarh Muslim University, Aligarh , Uttar Pradesh , India.,e Laboratory of Aquaculture & Artemia Reference Center , Ghent University , Gent , Belgium
| | - Vijai K Gupta
- f Molecular Glyco-biotechnology Group, Discipline of Biochemistry , School of Natural Sciences, National University of Ireland Galway , Galway , Ireland
| | | | - Harikesh Bahadur Singh
- h Mycology & Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University , Varanasi , Uttar Pardesh , India
| | - João C M Barreira
- i Mountain Research Centre (CIMO), ESA, Polytechnic Institute of Bragança , Campus de Santa Apolónia , Bragança , Portugal
| | - Isabel C F R Ferreira
- i Mountain Research Centre (CIMO), ESA, Polytechnic Institute of Bragança , Campus de Santa Apolónia , Bragança , Portugal
| | - Khabat Vahabi
- j Biologisch-Pharmazeutische Fakultät , Institut für Allgemeine Botanik und Pflanzenphysiologie, Friedrich-Schiller Universität Jena , Jena , Germany
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32
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Rea MA, Zammit CM, Reith F. Bacterial biofilms on gold grains-implications for geomicrobial transformations of gold. FEMS Microbiol Ecol 2016; 92:fiw082. [PMID: 27098381 DOI: 10.1093/femsec/fiw082] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/17/2016] [Indexed: 01/21/2023] Open
Abstract
The biogeochemical cycling of gold (Au), i.e. its solubilization, transport and re-precipitation, leading to the (trans)formation of Au grains and nuggets has been demonstrated under a range of environmental conditions. Biogenic (trans)formations of Au grains are driven by (geo)biochemical processes mediated by distinct biofilm consortia living on these grains. This review summarizes the current knowledge concerning the composition and functional capabilities of Au-grain communities, and identifies contributions of key-species involved in Au-cycling. To date, community data are available from grains collected at 10 sites in Australia, New Zealand and South America. The majority of detected operational taxonomic units detected belong to the α-, β- and γ-Proteobacteria and the Actinobacteria. A range of organisms appears to contribute predominantly to biofilm establishment and nutrient cycling, some affect the mobilization of Au via excretion of Au-complexing ligands, e.g. organic acids, thiosulfate and cyanide, while a range of resident Proteobacteria, especially Cupriavidus metallidurans and Delftia acidovorans, have developed Au-specific biochemical responses to deal with Au-toxicity and reductively precipitate mobile Au-complexes. This leads to the biomineralization of secondary Au and drives the environmental cycle of Au.
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Affiliation(s)
- Maria Angelica Rea
- School of Biological Sciences, The Sprigg Geobiology Centre, The University of Adelaide, Adelaide, South Australia 5005, Australia CSIRO Land and Water, Environmental Contaminant Mitigation and Technologies, PMB2, Glen Osmond, South Australia 5064, Australia
| | - Carla M Zammit
- School of Earth Sciences, University of Queensland, St Lucia, Brisbane, Queensland 4072, Australia
| | - Frank Reith
- School of Biological Sciences, The Sprigg Geobiology Centre, The University of Adelaide, Adelaide, South Australia 5005, Australia CSIRO Land and Water, Environmental Contaminant Mitigation and Technologies, PMB2, Glen Osmond, South Australia 5064, Australia
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Condori S, Atkinson S, Leys N, Wattiez R, Mastroleo F. Construction and phenotypic characterization of M68, an RruI quorum sensing knockout mutant of the photosynthetic alphaproteobacterium Rhodospirillum rubrum. Res Microbiol 2016; 167:380-92. [PMID: 26993754 DOI: 10.1016/j.resmic.2016.02.006] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2015] [Revised: 02/19/2016] [Accepted: 02/25/2016] [Indexed: 01/08/2023]
Abstract
Many bacterial species communicate using a complex system known as quorum sensing (QS) in which gene expression is controlled in response to cell density. In this study an N-acylhomoserine lactone (AHL) synthase (Rru_A3396) knockout mutant (M68) of Rhodospirillum rubrum S1H (WT) was constructed and characterized phenotypically under light anaerobic conditions. Results showed that R. rubrum WT produces unsubstituted, 3-OH and 3-oxo-substituted AHLs with acyl chains ranging from 4 to 14 carbons, with 3-OH-C8 being the most abundant. Growth, pigment content and swimming motility were found to be under the control of this LuxI-type QS system. In addition, cultivation in a low shear environment put forward the aggregative phenotype of M68 and linked biofilm formation to QS in R. rubrum S1H. Interestingly, QS-mutant M68 continued to produce decreased levels of 3-OH-C8-HSL, probably due to the presence of an extra HdtS-type AHL synthase.
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Affiliation(s)
- Sandra Condori
- Research Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Boeretang 200, 2400 Mol, Belgium; Research Institute for Biosciences, Proteomics and Microbiology Laboratory, University of Mons, Avenue du champ de Mars 6, Mons, Belgium.
| | - Steve Atkinson
- Center for Biomolecular Science, School of Molecular Medical Sciences, University of Nottingham, Nottingham NG7 2RD, United Kingdom.
| | - Natalie Leys
- Research Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Boeretang 200, 2400 Mol, Belgium.
| | - Ruddy Wattiez
- Research Institute for Biosciences, Proteomics and Microbiology Laboratory, University of Mons, Avenue du champ de Mars 6, Mons, Belgium.
| | - Felice Mastroleo
- Research Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Boeretang 200, 2400 Mol, Belgium.
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Shen Q, Gao J, Liu J, Liu S, Liu Z, Wang Y, Guo B, Zhuang X, Zhuang G. A New Acyl-homoserine Lactone Molecule Generated by Nitrobacter winogradskyi. Sci Rep 2016; 6:22903. [PMID: 26965192 PMCID: PMC4786786 DOI: 10.1038/srep22903] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Accepted: 02/24/2016] [Indexed: 11/09/2022] Open
Abstract
It is crucial to reveal the regulatory mechanism of nitrification to understand nitrogen conversion in agricultural systems and wastewater treatment. In this study, the nwiI gene of Nitrobacter winogradskyi was confirmed to be a homoserine lactone synthase by heterologous expression in Escherichia coli that synthesized several acyl-homoserine lactone signals with 7 to 11 carbon acyl groups. A novel signal, 7, 8-trans-N-(decanoyl) homoserine lactone (C10:1-HSL), was identified in both N. winogradskyi and the recombined E. coli. Furthermore, this novel signal also triggered variances in the nitrification rate and the level of transcripts for the genes involved in the nitrification process. These results indicate that quorum sensing may have a potential role in regulating nitrogen metabolism.
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Affiliation(s)
- Qiuxuan Shen
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Jie Gao
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Jun Liu
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Shuangjiang Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Zijun Liu
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Yinghuan Wang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Baoyuan Guo
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Xuliang Zhuang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Guoqiang Zhuang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
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35
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Petrova OE, Sauer K. Escaping the biofilm in more than one way: desorption, detachment or dispersion. Curr Opin Microbiol 2016; 30:67-78. [PMID: 26826978 DOI: 10.1016/j.mib.2016.01.004] [Citation(s) in RCA: 140] [Impact Index Per Article: 17.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2015] [Revised: 01/07/2016] [Accepted: 01/08/2016] [Indexed: 12/15/2022]
Abstract
Biofilm bacteria have developed escape strategies to avoid stresses associated with biofilm growth, respond to changing environmental conditions, and disseminate to new locations. An ever-expanding body of research suggests that cellular release from biofilms is distinct from a simple reversal of attachment and reversion to a planktonic mode of growth, with biofilm dispersion involving sensing of specific cues, regulatory signal transduction, and consequent physiological alterations. However, dispersion is only one of many ways to escape the biofilm mode of growth. The present review is aimed at distinguishing this active and regulated process of dispersion from the passive processes of desorption and detachment by highlighting the regulatory processes and distinct phenotypes specific to dispersed cells.
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Affiliation(s)
- Olga E Petrova
- Department of Biological Sciences, Binghamton Biofilm Research Center, Binghamton University, Binghamton, NY 13902, United States
| | - Karin Sauer
- Department of Biological Sciences, Binghamton Biofilm Research Center, Binghamton University, Binghamton, NY 13902, United States.
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36
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Ruysbergh E, Stevens CV, De Kimpe N, Mangelinckx S. Synthesis and analysis of stable isotope-labelled N-acyl homoserine lactones. RSC Adv 2016. [DOI: 10.1039/c6ra17797b] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
An easy, reliable manner to make suitable, deuterated standards of AHL-molecules belonging to all three important classes of AHLs is presented, starting from a cheap and commercially available deuterium source.
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Affiliation(s)
- Ewout Ruysbergh
- Department of Sustainable Organic Chemistry and Technology
- Faculty of Bioscience Engineering
- Ghent University
- B-9000 Ghent
- Belgium
| | - Christian V. Stevens
- Department of Sustainable Organic Chemistry and Technology
- Faculty of Bioscience Engineering
- Ghent University
- B-9000 Ghent
- Belgium
| | - Norbert De Kimpe
- Department of Sustainable Organic Chemistry and Technology
- Faculty of Bioscience Engineering
- Ghent University
- B-9000 Ghent
- Belgium
| | - Sven Mangelinckx
- Department of Sustainable Organic Chemistry and Technology
- Faculty of Bioscience Engineering
- Ghent University
- B-9000 Ghent
- Belgium
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37
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Srivastava S, Bhargava A. Biofilms and human health. Biotechnol Lett 2015; 38:1-22. [PMID: 26386834 DOI: 10.1007/s10529-015-1960-8] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2015] [Accepted: 09/09/2015] [Indexed: 01/25/2023]
Abstract
A biofilm can be defined as a surface-attached (sessile) community of microorganisms embedded and growing in a self-produced matrix of extracellular polymeric substances. These biofilm communities can be found in medical, industrial and natural environments, and can also be engineered in vitro for various biotechnological applications. Biofilms play a significant role in the transmission and persistence of human disease especially for diseases associated with inert surfaces, including medical devices for internal or external use. Biofilm infections on implants or in-dwelling devices are difficult to eradicate because of their much better protection against macrophages and antibiotics, compared to free living cells, leading to severe clinical complications often with lethal outcome. Recent developments in nanotechnology have provided novel approaches to preventing and dispersing biofilm related infections and potentially providing a novel method for fighting infections that is nondrug related.
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Affiliation(s)
- Shilpi Srivastava
- Amity Institute of Biotechnology, Amity University Uttar Pradesh (Lucknow Campus), Gomti Nagar Extension, Lucknow, 226010, India
| | - Atul Bhargava
- Amity Institute of Biotechnology, Amity University Uttar Pradesh (Lucknow Campus), Gomti Nagar Extension, Lucknow, 226010, India.
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38
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A Cardiolipin-Deficient Mutant of Rhodobacter sphaeroides Has an Altered Cell Shape and Is Impaired in Biofilm Formation. J Bacteriol 2015; 197:3446-55. [PMID: 26283770 DOI: 10.1128/jb.00420-15] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2015] [Accepted: 08/13/2015] [Indexed: 11/20/2022] Open
Abstract
UNLABELLED Cell shape has been suggested to play an important role in the regulation of bacterial attachment to surfaces and the formation of communities associated with surfaces. We found that a cardiolipin synthase (Δcls) mutant of the rod-shaped bacterium Rhodobacter sphaeroides--in which synthesis of the anionic, highly curved phospholipid cardiolipin (CL) is reduced by 90%--produces ellipsoid-shaped cells that are impaired in biofilm formation. Reducing the concentration of CL did not cause significant defects in R. sphaeroides cell growth, swimming motility, lipopolysaccharide and exopolysaccharide production, surface adhesion protein expression, and membrane permeability. Complementation of the CL-deficient mutant by ectopically expressing CL synthase restored cells to their rod shape and increased biofilm formation. Treating R. sphaeroides cells with a low concentration (10 μg/ml) of the small-molecule MreB inhibitor S-(3,4-dichlorobenzyl)isothiourea produced ellipsoid-shaped cells that had no obvious growth defect yet reduced R. sphaeroides biofilm formation. This study demonstrates that CL plays a role in R. sphaeroides cell shape determination, biofilm formation, and the ability of the bacterium to adapt to its environment. IMPORTANCE Membrane composition plays a fundamental role in the adaptation of many bacteria to environmental stress. In this study, we build a new connection between the anionic phospholipid cardiolipin (CL) and cellular adaptation in Rhodobacter sphaeroides. We demonstrate that CL plays a role in the regulation of R. sphaeroides morphology and is important for the ability of this bacterium to form biofilms. This study correlates CL concentration, cell shape, and biofilm formation and provides the first example of how membrane composition in bacteria alters cell morphology and influences adaptation. This study also provides insight into the potential of phospholipid biosynthesis as a target for new chemical strategies designed to alter or prevent biofilm formation.
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Nitrite-Oxidizing Bacterium Nitrobacter winogradskyi Produces N-Acyl-Homoserine Lactone Autoinducers. Appl Environ Microbiol 2015; 81:5917-26. [PMID: 26092466 DOI: 10.1128/aem.01103-15] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2015] [Accepted: 06/16/2015] [Indexed: 02/06/2023] Open
Abstract
Nitrobacter winogradskyi is a chemolithotrophic bacterium that plays a role in the nitrogen cycle by oxidizing nitrite to nitrate. Here, we demonstrate a functional N-acyl-homoserine lactone (acyl-HSL) synthase in this bacterium. The N. winogradskyi genome contains genes encoding a putative acyl-HSL autoinducer synthase (nwi0626, nwiI) and a putative acyl-HSL autoinducer receptor (nwi0627, nwiR) with amino acid sequences 38 to 78% identical to those in Rhodopseudomonas palustris and other Rhizobiales. Expression of nwiI and nwiR correlated with acyl-HSL production during culture. N. winogradskyi produces two distinct acyl-HSLs, N-decanoyl-l-homoserine lactone (C10-HSL) and a monounsaturated acyl-HSL (C10:1-HSL), in a cell-density- and growth phase-dependent manner, during batch and chemostat culture. The acyl-HSLs were detected by bioassay and identified by ultraperformance liquid chromatography with information-dependent acquisition mass spectrometry (UPLC-IDA-MS). The C=C bond in C10:1-HSL was confirmed by conversion into bromohydrin and detection by UPLC-IDA-MS.
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Kang NK, Lee B, Shin SE, Jeon S, Park MS, Yang JW. Use of conditioned medium for efficient transformation and cost-effective cultivation of Nannochloropsis salina. BIORESOURCE TECHNOLOGY 2015; 181:231-7. [PMID: 25656867 DOI: 10.1016/j.biortech.2015.01.040] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2014] [Revised: 01/08/2015] [Accepted: 01/09/2015] [Indexed: 05/09/2023]
Abstract
The oleaginous microalga Nannochloropsis sp. has been spotlighted as a promising candidate in genetic engineering research for biodiesel production. However, one of the major bottlenecks in the genetic manipulation against Nannochloropsis sp. is low transformation efficiency. Based on the idea that they grow rapidly in broth culture, the effect of conditioned medium on colonization and transformation efficiency of Nannochloropsis salina was investigated. Cells grown on agar plates with 20-40% conditioned medium produced colonies that were approximately 2.3-fold larger than cells grown without conditioned medium. More importantly, the transformation efficiency was about 2-fold greater on plates with 30% conditioned medium relative to those without conditioned medium. In addition, FAME productivity in liquid cultures with 100% conditioned medium increased up to 20% compared with cultures of control medium. These results suggest that conditioned medium can be applied for efficient transformation and cost-effective cultivation of N. salina for biodiesel production.
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Affiliation(s)
- Nam Kyu Kang
- Department of Chemical and Biomolecular Engineering, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea
| | - Bongsoo Lee
- Department of Chemical and Biomolecular Engineering, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea
| | - Sung-Eun Shin
- Department of Chemical and Biomolecular Engineering, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea
| | - Seungjib Jeon
- Department of Chemical and Biomolecular Engineering, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea
| | - Min S Park
- Department of Chemical and Biomolecular Engineering, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea; Advanced Biomass R&D Center, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea
| | - Ji-Won Yang
- Department of Chemical and Biomolecular Engineering, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea; Advanced Biomass R&D Center, KAIST, 291 Daehak-ro, Yuseong-gu, Daejeon 305-701, Republic of Korea.
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Jatt AN, Tang K, Liu J, Zhang Z, Zhang XH. Quorum sensing in marine snow and its possible influence on production of extracellular hydrolytic enzymes in marine snow bacterium Pantoea ananatis B9. FEMS Microbiol Ecol 2014; 91:1-13. [DOI: 10.1093/femsec/fiu030] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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The flagellar set Fla2 in Rhodobacter sphaeroides is controlled by the CckA pathway and is repressed by organic acids and the expression of Fla1. J Bacteriol 2014; 197:833-47. [PMID: 25512309 DOI: 10.1128/jb.02429-14] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
Rhodobacter sphaeroides has two different sets of flagellar genes. Under the growth conditions commonly used in the laboratory, the expression of the fla1 set is constitutive, whereas the fla2 genes are not expressed. Phylogenetic analyses have previously shown that the fla1 genes were acquired by horizontal transfer from a gammaproteobacterium and that the fla2 genes are endogenous genes of this alphaproteobacterium. In this work, we characterized a set of mutants that were selected for swimming using the Fla2 flagella in the absence of the Fla1 flagellum (Fla2(+) strains). We determined that these strains have a single missense mutation in the histidine kinase domain of CckA. The expression of these mutant alleles in a Fla1(-) strain allowed fla2-dependent motility without selection. Motility of the Fla2(+) strains is also dependent on ChpT and CtrA. The mutant versions of CckA showed an increased autophosphorylation activity in vitro. Interestingly, we found that cckA is transcriptionally repressed by the presence of organic acids, suggesting that the availability of carbon sources could be a part of the signal that turns on this flagellar set. Evidence is presented showing that reactivation of fla1 gene expression in the Fla2(+) background strongly reduces the number of cells with Fla2 flagella.
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Nagar E, Schwarz R. To be or not to be planktonic? Self-inhibition of biofilm development. Environ Microbiol 2014; 17:1477-86. [DOI: 10.1111/1462-2920.12583] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2014] [Accepted: 07/23/2014] [Indexed: 12/15/2022]
Affiliation(s)
- Elad Nagar
- The Mina and Everard Goodman Faculty of Life Sciences; Bar-Ilan University; Ramat-Gan 5290002 Israel
| | - Rakefet Schwarz
- The Mina and Everard Goodman Faculty of Life Sciences; Bar-Ilan University; Ramat-Gan 5290002 Israel
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N-acyl homoserine lactone-mediated quorum sensing with special reference to use of quorum quenching bacteria in membrane biofouling control. BIOMED RESEARCH INTERNATIONAL 2014; 2014:162584. [PMID: 25147787 PMCID: PMC4131561 DOI: 10.1155/2014/162584] [Citation(s) in RCA: 57] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/02/2014] [Revised: 07/04/2014] [Accepted: 07/06/2014] [Indexed: 11/17/2022]
Abstract
Membrane biofouling remains a severe problem to be addressed in wastewater treatment systems affecting reactor performance and economy. The finding that many wastewater bacteria rely on N-acyl homoserine lactone-mediated quorum sensing to synchronize their activities essential for biofilm formations; the quenching bacterial quorum sensing suggests a promising approach for control of membrane biofouling. A variety of quorum quenching compounds of both synthetic and natural origin have been identified and found effective in inhibition of membrane biofouling with much less environmental impact than traditional antimicrobials. Work over the past few years has demonstrated that enzymatic quorum quenching mechanisms are widely conserved in several prokaryotic organisms and can be utilized as a potent tool for inhibition of membrane biofouling. Such naturally occurring bacterial quorum quenching mechanisms also play important roles in microbe-microbe interactions and have been used to develop sustainable nonantibiotic antifouling strategies. Advances in membrane fabrication and bacteria entrapment techniques have allowed the implication of such quorum quenching bacteria for better design of membrane bioreactor with improved antibiofouling efficacies. In view of this, the present paper is designed to review and discuss the recent developments in control of membrane biofouling with special emphasis on quorum quenching bacteria that are applied in membrane bioreactors.
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Still PC, Johnson TA, Theodore CM, Loveridge ST, Crews P. Scrutinizing the scaffolds of marine biosynthetics from different source organisms: Gram-negative cultured bacterial products enter center stage. JOURNAL OF NATURAL PRODUCTS 2014; 77:690-702. [PMID: 24571234 PMCID: PMC4095796 DOI: 10.1021/np500041x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Compounds from macro marine organisms are presumed to owe their biosynthetic origins to associated microbial symbionts, although few definitive examples exist. An upsurge in the recent literature from 2012 to 2013 has shown that four compounds previously reported from macro marine organisms are in fact biosynthesized by non-photosynthetic Gram-negative bacteria (NPGNB). Structural parallels between compounds isolated from macro marine organisms and NPGNB producers form the basis of this review. Although less attention has been given to investigating the chemistry of NPGNB sources, there exists a significant list of structural parallels between NPGNB and macro marine organism-derived compounds. Alternatively, of the thousands of compounds isolated from Gram-positive actinomycetes, few structural parallels with macro marine organisms are known. A summary of small molecules isolated from marine NPGNB sources is presented, including compounds isolated from marine myxobacteria. From this assemblage of structural parallels and diverse chemical structures, it is hypothesized that the potential for the discovery of inspirational molecules from NPGNB sources is vast and that the recent spike in the literature of macro marine compounds owing their biosynthetic origin to NPGNB producers represents a turning point in the field.
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Affiliation(s)
- Patrick C. Still
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, California 95060, United States
| | - Tyler A. Johnson
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, California 95060, United States
| | - Christine M. Theodore
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, California 95060, United States
| | - Steven T. Loveridge
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, California 95060, United States
| | - Phillip Crews
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, California 95060, United States
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Acyl-homoserine lactone quorum sensing in the Roseobacter clade. Int J Mol Sci 2014; 15:654-69. [PMID: 24402124 PMCID: PMC3907830 DOI: 10.3390/ijms15010654] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2013] [Revised: 12/15/2013] [Accepted: 12/18/2013] [Indexed: 01/28/2023] Open
Abstract
Members of the Roseobacter clade are ecologically important and numerically abundant in coastal environments and can associate with marine invertebrates and nutrient-rich marine snow or organic particles, on which quorum sensing (QS) may play an important role. In this review, we summarize current research progress on roseobacterial acyl-homoserine lactone-based QS, particularly focusing on three relatively well-studied representatives, Phaeobacter inhibens DSM17395, the marine sponge symbiont Ruegeria sp. KLH11 and the dinoflagellate symbiont Dinoroseobacter shibae. Bioinformatic survey of luxI homologues revealed that over 80% of available roseobacterial genomes encode at least one luxI homologue, reflecting the significance of QS controlled regulatory pathways in adapting to the relevant marine environments. We also discuss several areas that warrant further investigation, including studies on the ecological role of these diverse QS pathways in natural environments.
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Highlights in pathogenic fungal biofilms. Rev Iberoam Micol 2014; 31:22-9. [DOI: 10.1016/j.riam.2013.09.014] [Citation(s) in RCA: 94] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2013] [Accepted: 09/27/2013] [Indexed: 12/12/2022] Open
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Mastroleo F, Van Houdt R, Atkinson S, Mergeay M, Hendrickx L, Wattiez R, Leys N. Modelled microgravity cultivation modulates N-acylhomoserine lactone production in Rhodospirillum rubrum S1H independently of cell density. Microbiology (Reading) 2013; 159:2456-2466. [DOI: 10.1099/mic.0.066415-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023] Open
Affiliation(s)
- Felice Mastroleo
- Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Mol, Belgium
| | - Rob Van Houdt
- Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Mol, Belgium
| | - Steve Atkinson
- School of Molecular Medical Sciences, University of Nottingham, Nottingham, UK
| | - Max Mergeay
- Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Mol, Belgium
| | - Larissa Hendrickx
- Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Mol, Belgium
| | - Ruddy Wattiez
- Research Institute of Biosciences, Proteomic and Microbiology Laboratory, Université de Mons, Mons, Belgium
| | - Natalie Leys
- Unit for Microbiology, Belgian Nuclear Research Centre (SCK•CEN), Mol, Belgium
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