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Shapiro JA. A very brief note on why bacterial evolution has physiology. J Physiol 2024; 602:2395-2399. [PMID: 37641409 DOI: 10.1113/jp284409] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Accepted: 08/16/2023] [Indexed: 08/31/2023] Open
Abstract
The majority of bacteria live and evolve in surface biofilms. Both growth in biofilms and horizontal transfer of DNA are regulated by quorum-sensing pheromone signals. The common regulation of bacterial surface growth and DNA transfers illustrates how physiology contributes to bacterial evolution.
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Affiliation(s)
- James A Shapiro
- Department of Biochemistry and Molecular Biology, University of Chicago, Chicago, Illinois, USA
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2
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Insight in the quorum sensing-driven lifestyle of the non-pathogenic Agrobacterium tumefaciens 6N2 and the interactions with the yeast Meyerozyma guilliermondii. Genomics 2021; 113:4352-4360. [PMID: 34793950 DOI: 10.1016/j.ygeno.2021.11.017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2021] [Revised: 11/10/2021] [Accepted: 11/11/2021] [Indexed: 11/20/2022]
Abstract
Agrobacterium tumefaciens is considered a prominent phytopathogen, though most isolates are nonpathogenic. Agrobacteria can inhabit plant tissues interacting with other microorganisms. Yeasts are likewise part of these communities. We analyzed the quorum sensing (QS) systems of A. tumefaciens strain 6N2, and its relevance for the interaction with the yeast Meyerozyma guilliermondii, both sugarcane endophytes. We show that strain 6N2 is nonpathogenic, produces OHC8-HSL, OHC10-HSL, OC12-HSL and OHC12-HSL as QS signals, and possesses a complex QS architecture, with one truncated, two complete systems, and three additional QS-signal receptors. A proteomic approach showed differences in QS-regulated proteins between pure (64 proteins) and dual (33 proteins) cultures. Seven proteins were consistently regulated by quorum sensing in pure and dual cultures. M. guilliermondii proteins influenced by QS activity were also evaluated. Several up- and down- regulated proteins differed depending on the bacterial QS. These results show the QS regulation in the bacteria-yeast interactions.
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Torres M, Dessaux Y, Llamas I. Saline Environments as a Source of Potential Quorum Sensing Disruptors to Control Bacterial Infections: A Review. Mar Drugs 2019; 17:md17030191. [PMID: 30934619 PMCID: PMC6471967 DOI: 10.3390/md17030191] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2019] [Revised: 03/19/2019] [Accepted: 03/20/2019] [Indexed: 12/12/2022] Open
Abstract
Saline environments, such as marine and hypersaline habitats, are widely distributed around the world. They include sea waters, saline lakes, solar salterns, or hypersaline soils. The bacteria that live in these habitats produce and develop unique bioactive molecules and physiological pathways to cope with the stress conditions generated by these environments. They have been described to produce compounds with properties that differ from those found in non-saline habitats. In the last decades, the ability to disrupt quorum-sensing (QS) intercellular communication systems has been identified in many marine organisms, including bacteria. The two main mechanisms of QS interference, i.e., quorum sensing inhibition (QSI) and quorum quenching (QQ), appear to be a more frequent phenomenon in marine aquatic environments than in soils. However, data concerning bacteria from hypersaline habitats is scarce. Salt-tolerant QSI compounds and QQ enzymes may be of interest to interfere with QS-regulated bacterial functions, including virulence, in sectors such as aquaculture or agriculture where salinity is a serious environmental issue. This review provides a global overview of the main works related to QS interruption in saline environments as well as the derived biotechnological applications.
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Affiliation(s)
- Marta Torres
- Department of Microbiology, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain.
- Institute of Biotechnology, Biomedical Research Center (CIBM), University of Granada, 18100 Granada, Spain.
- Institute for Integrative Biology of the Cell (I2BC), CEA/CNRS/University Paris-Sud, University Paris-Saclay, 91198 Gif-sur-Yvette, France.
| | - Yves Dessaux
- Institute for Integrative Biology of the Cell (I2BC), CEA/CNRS/University Paris-Sud, University Paris-Saclay, 91198 Gif-sur-Yvette, France.
| | - Inmaculada Llamas
- Department of Microbiology, Faculty of Pharmacy, University of Granada, 18071 Granada, Spain.
- Institute of Biotechnology, Biomedical Research Center (CIBM), University of Granada, 18100 Granada, Spain.
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González-Mula A, Lang J, Grandclément C, Naquin D, Ahmar M, Soulère L, Queneau Y, Dessaux Y, Faure D. Lifestyle of the biotroph Agrobacterium tumefaciens in the ecological niche constructed on its host plant. THE NEW PHYTOLOGIST 2018; 219:350-362. [PMID: 29701262 DOI: 10.1111/nph.15164] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Accepted: 03/13/2018] [Indexed: 05/23/2023]
Abstract
Agrobacterium tumefaciens constructs an ecological niche in its host plant by transferring the T-DNA from its Ti plasmid into the host genome and by diverting the host metabolism. We combined transcriptomics and genetics for understanding the A. tumefaciens lifestyle when it colonizes Arabidopsis thaliana tumors. Transcriptomics highlighted: a transition from a motile to sessile behavior that mobilizes some master regulators (Hfq, CtrA, DivK and PleD); a remodeling of some cell surface components (O-antigen, succinoglucan, curdlan, att genes, putative fasciclin) and functions associated with plant defense (Ef-Tu and flagellin pathogen-associated molecular pattern-response and glycerol-3-phosphate and nitric oxide signaling); and an exploitation of a wide variety of host resources, including opines, amino acids, sugars, organic acids, phosphate, phosphorylated compounds, and iron. In addition, construction of transgenic A. thaliana lines expressing a lactonase enzyme showed that Ti plasmid transfer could escape host-mediated quorum-quenching. Finally, construction of knock-out mutants in A. tumefaciens showed that expression of some At plasmid genes seemed more costly than the selective advantage they would have conferred in tumor colonization. We provide the first overview of A. tumefaciens lifestyle in a plant tumor and reveal novel signaling and trophic interplays for investigating host-pathogen interactions.
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Affiliation(s)
- Almudena González-Mula
- Institute for Integrative Biology of the Cell (I2BC), CNRS CEA Univ. Paris-Sud, University Paris-Saclay, Gif-sur-Yvette, F-91190, France
| | - Julien Lang
- Institute for Integrative Biology of the Cell (I2BC), CNRS CEA Univ. Paris-Sud, University Paris-Saclay, Gif-sur-Yvette, F-91190, France
| | - Catherine Grandclément
- Institute for Integrative Biology of the Cell (I2BC), CNRS CEA Univ. Paris-Sud, University Paris-Saclay, Gif-sur-Yvette, F-91190, France
| | - Delphine Naquin
- Institute for Integrative Biology of the Cell (I2BC), CNRS CEA Univ. Paris-Sud, University Paris-Saclay, Gif-sur-Yvette, F-91190, France
| | - Mohammed Ahmar
- Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires (ICBMS), INSA-Lyon, Université Lyon 1, CNRS, CPE Lyon, ICBMS, UMR5246, INSA Lyon, Villeurbanne, F-69621, France
| | - Laurent Soulère
- Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires (ICBMS), INSA-Lyon, Université Lyon 1, CNRS, CPE Lyon, ICBMS, UMR5246, INSA Lyon, Villeurbanne, F-69621, France
| | - Yves Queneau
- Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires (ICBMS), INSA-Lyon, Université Lyon 1, CNRS, CPE Lyon, ICBMS, UMR5246, INSA Lyon, Villeurbanne, F-69621, France
| | - Yves Dessaux
- Institute for Integrative Biology of the Cell (I2BC), CNRS CEA Univ. Paris-Sud, University Paris-Saclay, Gif-sur-Yvette, F-91190, France
| | - Denis Faure
- Institute for Integrative Biology of the Cell (I2BC), CNRS CEA Univ. Paris-Sud, University Paris-Saclay, Gif-sur-Yvette, F-91190, France
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Sibanda S, Kwenda S, Tanui CK, Shyntum DY, Coutinho TA, Moleleki LN. Transcriptome Profiling Reveals the EanI/R Quorum Sensing Regulon in Pantoea Ananatis LMG 2665 T. Genes (Basel) 2018; 9:E148. [PMID: 29518982 PMCID: PMC5867869 DOI: 10.3390/genes9030148] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2018] [Revised: 02/26/2018] [Accepted: 03/01/2018] [Indexed: 11/23/2022] Open
Abstract
Pantoea ananatis LMG 2665T synthesizes and utilizes acyl homoserine lactones (AHLs) for signalling. The complete set of genes regulated by the EanI/R quorum sensing (QS) system in this strain is still not fully known. In this study, RNA-sequencing (RNA-seq) was used to identify the EanI/R regulon in LMG 2665T. Pairwise comparisons of LMG 2665T in the absence of AHLs (Optical density (OD)600 = 0.2) and in the presence of AHLs (OD600 = 0.5) were performed. Additionally, pairwise comparisons of LMG 2665T and its QS mutant at OD600 = 0.5 were undertaken. In total, 608 genes were differentially expressed between LMG 2665T at OD600 = 0.5 versus the same strain at OD600 = 0.2 and 701 genes were differentially expressed between LMG 2665T versus its QS mutant at OD600 = 0.5. A total of 196 genes were commonly differentially expressed between the two approaches. These constituted approximately 4.5% of the whole transcriptome under the experimental conditions used in this study. The RNA-seq data was validated by reverse transcriptase quantitative polymerase chain reaction (RT-qPCR). Genes found to be regulated by EanI/R QS were those coding for redox sensing, metabolism, flagella formation, flagella dependent motility, cell adhesion, biofilm formation, regulators, transport, chemotaxis, methyl accepting proteins, membrane proteins, cell wall synthesis, stress response and a large number of hypothetical proteins. The results of this study give insight into the genes that are regulated by the EanI/R system in LMG 2665T. Functional characterization of the QS regulated genes in LMG 2665T could assist in the formulation of control strategies for this plant pathogen.
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Affiliation(s)
- Siphathele Sibanda
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
- Centre for Microbial Ecology and Genomics (CMEG), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
| | - Stanford Kwenda
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
| | - Collins K Tanui
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
| | - Divine Y Shyntum
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
| | - Teresa A Coutinho
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
- Centre for Microbial Ecology and Genomics (CMEG), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
| | - Lucy N Moleleki
- Department of Microbiology and Plant Pathology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, 0002 Pretoria, South Africa.
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Niche Construction and Exploitation by Agrobacterium: How to Survive and Face Competition in Soil and Plant Habitats. Curr Top Microbiol Immunol 2018; 418:55-86. [PMID: 29556826 DOI: 10.1007/82_2018_83] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Agrobacterium populations live in different habitats (bare soil, rhizosphere, host plants), and hence face different environmental constraints. They have evolved the capacity to exploit diverse resources and to escape plant defense and competition from other microbiota. By modifying the genome of their host, Agrobacterium populations exhibit the remarkable ability to construct and exploit the ecological niche of the plant tumors that they incite. This niche is characterized by the accumulation of specific, low molecular weight compounds termed opines that play a critical role in Agrobacterium 's lifestyle. We present and discuss the functions, advantages, and costs associated with this niche construction and exploitation.
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Hudson J, Gardiner M, Deshpande N, Egan S. Transcriptional response of Nautella italica R11 towards its macroalgal host uncovers new mechanisms of host-pathogen interaction. Mol Ecol 2017; 27:1820-1832. [PMID: 29215165 DOI: 10.1111/mec.14448] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2017] [Revised: 11/21/2017] [Accepted: 11/24/2017] [Indexed: 12/14/2022]
Abstract
Macroalgae (seaweeds) are essential for the functioning of temperate marine ecosystems, but there is increasing evidence to suggest that their survival is under threat from anthropogenic stressors and disease. Nautella italica R11 is recognized as an aetiological agent of bleaching disease in the red alga, Delisea pulchra. Yet, there is a lack of knowledge surrounding the molecular mechanisms involved in this model host-pathogen interaction. Here we report that mutations in the gene encoding for a LuxR-type quorum sensing transcriptional regulator, RaiR, render N. italica R11 avirulent, suggesting this gene is important for regulating the expression of virulence phenotypes. Using an RNA sequencing approach, we observed a strong transcriptional response of N. italica R11 towards the presence of D. pulchra. In particular, genes involved in oxidative stress resistance, carbohydrate and central metabolism were upregulated in the presence of the host, suggesting a role for these functions in the opportunistic pathogenicity of N. italica R11. Furthermore, we show that RaiR regulates a subset of genes in N. italica R11, including those involved in metabolism and the expression of phage-related proteins. The outcome of this research reveals new functions important for virulence of N. italica R11 and contributes to our greater understanding of the complex factors mitigating microbial diseases in macroalgae.
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Affiliation(s)
- Jennifer Hudson
- School of Biological, Earth and Environmental Sciences, Centre for Marine Bio-Innovation, UNSW Sydney, Sydney, NSW, Australia
| | - Melissa Gardiner
- School of Biological, Earth and Environmental Sciences, Centre for Marine Bio-Innovation, UNSW Sydney, Sydney, NSW, Australia
| | - Nandan Deshpande
- School of Biotechnology and Biomolecular Sciences, UNSW Sydney, Sydney, NSW, Australia
| | - Suhelen Egan
- School of Biological, Earth and Environmental Sciences, Centre for Marine Bio-Innovation, UNSW Sydney, Sydney, NSW, Australia
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Bañuelos-Vazquez LA, Torres Tejerizo G, Brom S. Regulation of conjugative transfer of plasmids and integrative conjugative elements. Plasmid 2017; 91:82-89. [DOI: 10.1016/j.plasmid.2017.04.002] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2017] [Revised: 04/18/2017] [Accepted: 04/19/2017] [Indexed: 10/25/2022]
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