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Vermeire ML, Thiour-Mauprivez C, De Clerck C. Agroecological transition: towards a better understanding of the impact of ecology-based farming practices on soil microbial ecotoxicology. FEMS Microbiol Ecol 2024; 100:fiae031. [PMID: 38479782 PMCID: PMC10994205 DOI: 10.1093/femsec/fiae031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 12/22/2023] [Accepted: 03/12/2024] [Indexed: 04/05/2024] Open
Abstract
Alternative farming systems have developed since the beginning of industrial agriculture. Organic, biodynamic, conservation farming, agroecology and permaculture, all share a grounding in ecological concepts and a belief that farmers should work with nature rather than damage it. As ecology-based agricultures rely greatly on soil organisms to perform the functions necessary for agricultural production, it is thus important to evaluate the performance of these systems through the lens of soil organisms, especially soil microbes. They provide numerous services to plants, including growth promotion, nutrient supply, tolerance to environmental stresses and protection against pathogens. An overwhelming majority of studies confirm that ecology-based agricultures are beneficial for soil microorganisms. However, three practices were identified as posing potential ecotoxicological risks: the recycling of organic waste products, plastic mulching, and pest and disease management with biopesticides. The first two because they can be a source of contaminants; the third because of potential impacts on non-target microorganisms. Consequently, developing strategies to allow a safe recycling of the increasingly growing organic matter stocks produced in cities and factories, and the assessment of the ecotoxicological impact of biopesticides on non-target soil microorganisms, represent two challenges that ecology-based agricultural systems will have to face in the future.
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Affiliation(s)
- Marie-Liesse Vermeire
- CIRAD, UPR Recyclage et Risque, Dakar 18524, Sénégal
- Recyclage et Risque, Univ Montpellier, CIRAD, Montpellier 34398, France
| | - Clémence Thiour-Mauprivez
- INRAE, Institut Agro, Université de Bourgogne, Université de Bourgogne Franche-Comté, Agroécologie, Dijon 21000, France
| | - Caroline De Clerck
- AgricultureIsLife, Gembloux Agro-Bio Tech, Liege University, 2 Passage des Déportés, 5030 Gembloux, Belgium
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Lami R, Urios L, Molmeret M, Grimaud R. Quorum sensing in biofilms: a key mechanism to target in ecotoxicological studies. Crit Rev Microbiol 2023; 49:786-804. [PMID: 36334083 DOI: 10.1080/1040841x.2022.2142089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Revised: 10/18/2022] [Accepted: 10/26/2022] [Indexed: 11/06/2022]
Abstract
Our environment is heavily contaminated by anthropogenic compounds, and this issue constitutes a significant threat to all life forms, including biofilm-forming microorganisms. Cell-cell interactions shape microbial community structures and functions, and pollutants that affect intercellular communications impact biofilm functions and ecological roles. There is a growing interest in environmental science fields for evaluating how anthropogenic pollutants impact cell-cell interactions. In this review, we synthesize existing literature that evaluates the impacts of quorum sensing (QS), which is a widespread density-dependent communication system occurring within many bacterial groups forming biofilms. First, we examine the perturbating effects of environmental contaminants on QS circuits; and our findings reveal that QS is an essential yet underexplored mechanism affected by pollutants. Second, our work highlights that QS is an unsuspected and key resistance mechanism that assists bacteria in dealing with environmental contamination (caused by metals or organic pollutants) and that favors bacterial growth in unfavourable environments. We emphasize the value of considering QS a critical mechanism for monitoring microbial responses in ecotoxicology. Ultimately, we determine that QS circuits constitute promising targets for innovative biotechnological approaches with major perspectives for applications in the field of environmental science.
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Affiliation(s)
- Raphaël Lami
- Sorbonne Université, USR3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
- Centre National de la Recherche Scientifique, USR 3579, LBBM, Observatoire Océanologique, Banyuls-sur-Mer, France
| | - Laurent Urios
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Maëlle Molmeret
- Université de Toulon, Laboratoire MAPIEM, EA4323, Avenue de l'université, BP 20132, La Garde Cedex, France
| | - Régis Grimaud
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
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Diaz-Vanegas C, Héry M, Desoeuvre A, Bruneel O, Joulian C, Jacob J, Battaglia-Brunet F, Casiot C. Towards an understanding of the factors controlling bacterial diversity and activity in semi-passive Fe- and As-oxidizing bioreactors treating arsenic-rich acid mine drainage. FEMS Microbiol Ecol 2023; 99:fiad089. [PMID: 37632198 DOI: 10.1093/femsec/fiad089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Revised: 07/12/2023] [Accepted: 08/22/2023] [Indexed: 08/27/2023] Open
Abstract
Semi-passive bioreactors based on iron and arsenic oxidation and coprecipitation are promising for the treatment of As-rich acid mine drainages. However, their performance in the field remains variable and unpredictable. Two bioreactors filled with distinct biomass carriers (plastic or a mix of wood and pozzolana) were monitored during 1 year. We characterized the dynamic of the bacterial communities in these bioreactors, and explored the influence of environmental and operational drivers on their diversity and activity. Bacterial diversity was analyzed by 16S rRNA gene metabarcoding. The aioA genes and transcripts were quantified by qPCR and RT-qPCR. Bacterial communities were dominated by several iron-oxidizing genera. Shifts in the communities were attributed to operational and physiochemical parameters including the nature of the biomass carrier, the water pH, temperature, arsenic, and iron concentrations. The bioreactor filled with wood and pozzolana showed a better resilience to disturbances, related to a higher bacterial alpha diversity. We evidenced for the first time aioA expression in a treatment system, associated with the presence of active Thiomonas spp. This confirmed the contribution of biological arsenite oxidation to arsenic removal. The resilience and the functional redundancy of the communities developed in the bioreactors conferred robustness and stability to the treatment systems.
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Affiliation(s)
- Camila Diaz-Vanegas
- HydroSciences Montpellier, University of Montpellier, CNRS, IRD, Montpellier, France
- French Geological Survey (BRGM), Water, Environment, Process and Analyses Division, Orléans, France
| | - Marina Héry
- HydroSciences Montpellier, University of Montpellier, CNRS, IRD, Montpellier, France
| | - Angélique Desoeuvre
- HydroSciences Montpellier, University of Montpellier, CNRS, IRD, Montpellier, France
| | - Odile Bruneel
- HydroSciences Montpellier, University of Montpellier, CNRS, IRD, Montpellier, France
| | - Catherine Joulian
- French Geological Survey (BRGM), Water, Environment, Process and Analyses Division, Orléans, France
| | - Jérôme Jacob
- French Geological Survey (BRGM), Water, Environment, Process and Analyses Division, Orléans, France
| | | | - Corinne Casiot
- HydroSciences Montpellier, University of Montpellier, CNRS, IRD, Montpellier, France
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Odobel C, Dussud C, Philip L, Derippe G, Lauters M, Eyheraguibel B, Burgaud G, Ter Halle A, Meistertzheim AL, Bruzaud S, Barbe V, Ghiglione JF. Bacterial Abundance, Diversity and Activity During Long-Term Colonization of Non-biodegradable and Biodegradable Plastics in Seawater. Front Microbiol 2021; 12:734782. [PMID: 34867851 PMCID: PMC8637277 DOI: 10.3389/fmicb.2021.734782] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2021] [Accepted: 09/17/2021] [Indexed: 11/13/2022] Open
Abstract
The microorganisms living on plastics called "plastisphere" have been classically described as very abundant, highly diverse, and very specific when compared to the surrounding environments, but their potential ability to biodegrade various plastic types in natural conditions have been poorly investigated. Here, we follow the successive phases of biofilm development and maturation after long-term immersion in seawater (7 months) on conventional [fossil-based polyethylene (PE) and polystyrene (PS)] and biodegradable plastics [biobased polylactic acid (PLA) and polyhydroxybutyrate-co-hydroxyvalerate (PHBV), or fossil-based polycaprolactone (PCL)], as well as on artificially aged or non-aged PE without or with prooxidant additives [oxobiodegradable (OXO)]. First, we confirmed that the classical primo-colonization and growth phases of the biofilms that occurred during the first 10 days of immersion in seawater were more or less independent of the plastic type. After only 1 month, we found congruent signs of biodegradation for some bio-based and also fossil-based materials. A continuous growth of the biofilm during the 7 months of observation (measured by epifluorescence microscopy and flow cytometry) was found on PHBV, PCL, and artificially aged OXO, together with a continuous increase in intracellular (3H-leucine incorporation) and extracellular activities (lipase, aminopeptidase, and β-glucosidase) as well as subsequent changes in biofilm diversity that became specific to each polymer type (16S rRNA metabarcoding). No sign of biodegradation was visible for PE, PS, and PLA under our experimental conditions. We also provide a list of operational taxonomic units (OTUs) potentially involved in the biodegradation of these polymers under natural seawater conditions, such as Pseudohongiella sp. and Marinobacter sp. on PCL, Marinicella litoralis and Celeribacter sp. on PHBV, or Myxococcales on artificially aged OXO. This study opens new routes for a deeper understanding of the polymers' biodegradability in seawaters, especially when considering an alternative to conventional fossil-based plastics.
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Affiliation(s)
- Charlene Odobel
- CNRS, UMR 7621, Laboratoire d'Océanographie Microbienne (LOMIC), Sorbonne Université, Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France
| | - Claire Dussud
- CNRS, UMR 7621, Laboratoire d'Océanographie Microbienne (LOMIC), Sorbonne Université, Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France
| | - Lena Philip
- CNRS, UMR 7621, Laboratoire d'Océanographie Microbienne (LOMIC), Sorbonne Université, Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France.,SAS Plastic@Sea, Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France
| | - Gabrielle Derippe
- CNRS, UMR 6027, Institut de Recherche Dupuy de Lôme (IRDL), Université de Bretagne-Sud, Lorient, France
| | - Marion Lauters
- CNRS, UMR 7621, Laboratoire d'Océanographie Microbienne (LOMIC), Sorbonne Université, Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France
| | - Boris Eyheraguibel
- CNRS, UMR 6296, Institut de Chimie de Clermont-Ferrand (ICCF), Université Clermont Auvergne, Clermont-Ferrand, France
| | - Gaëtan Burgaud
- CNRS, EA 3882, Université de Brest, Laboratoire Universitaire de Biodiversité et d'Ecologie Microbionne (LUBEM), Plouzané, France
| | - Alexandra Ter Halle
- CNRS, UMR 5623, Laboratoire des Interactions Moléculaires et Réactivité Chimique et Photochimique (IMRCP), Université de Toulouse, Toulouse, France
| | | | - Stephane Bruzaud
- CNRS, UMR 6027, Institut de Recherche Dupuy de Lôme (IRDL), Université de Bretagne-Sud, Lorient, France
| | - Valerie Barbe
- CEA, CNRS, Génomique Métabolique, Genoscope, Institut François Jacob, Univ Evry, Université Paris-Saclay, Evry, France
| | - Jean-Francois Ghiglione
- CNRS, UMR 7621, Laboratoire d'Océanographie Microbienne (LOMIC), Sorbonne Université, Observatoire Océanologique de Banyuls, Banyuls-sur-Mer, France
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Pesce S, Kergoat L, Paris L, Billet L, Besse-Hoggan P, Bonnineau C. Contrasting Effects of Environmental Concentrations of Sulfonamides on Microbial Heterotrophic Activities in Freshwater Sediments. Front Microbiol 2021; 12:753647. [PMID: 34803976 PMCID: PMC8597937 DOI: 10.3389/fmicb.2021.753647] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2021] [Accepted: 10/14/2021] [Indexed: 11/21/2022] Open
Abstract
The sulfonamide antibiotics sulfamethoxazole (SMX) and sulfamethazine (SMZ) are regularly detected in surface sediments of contaminated hydrosystems, with maximum concentrations that can reach tens of μg kg–1 in stream and river sediments. Little is known about the resulting effects on the exposed benthic organisms. Here we investigated the functional response of stream sediment microbial communities exposed for 4 weeks to two levels of environmentally relevant concentrations of SMX and SMZ, tested individually. To this end, we developed a laboratory channel experiment where natural stream sediments were immersed in water contaminated with nominal environmental concentrations of 500 and 5,000 ng L–1 of SMX or SMZ, causing their accumulation in surface sediments. The mean maximum concentrations measured in the sediment (about 2.1 μg SMX kg–1 dw and 4.5 μg SMZ kg–1 dw) were consistent with those reported in contaminated rivers. The resulting chronic exposure had various effects on the functional potential of the sediment microbial communities, according to the substance (SMX or SMZ), the type of treatment (high or low) and the measured activity, with a strong influence of temporal dynamics. Whereas the SMZ treatments resulted in only transient effects on the five microbial activities investigated, we observed a significant stimulation of the β-glucosidase activity over the 28 days in the communities exposed to the high concentration of SMX. Together with the stimulation of aerobic respiration at low SMX concentrations and the reduced concentration observed in the last days, our results suggest a potential biodegradation of sulfonamides by microbial communities from sediments. Given the key functional role of surface sediment microbial communities in streams and rivers, our findings suggest that the frequently reported contamination of sediments by sulfonamides is likely to affect biogeochemical cycles, with possible impact on ecosystem functioning.
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Affiliation(s)
- Stéphane Pesce
- Université Clermont Auvergne, CNRS, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Laura Kergoat
- Université Clermont Auvergne, CNRS, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Laurianne Paris
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Loren Billet
- Université Clermont Auvergne, CNRS, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France.,AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Pascale Besse-Hoggan
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Chloé Bonnineau
- Université Clermont Auvergne, CNRS, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
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Lyautey E, Bonnineau C, Billard P, Loizeau JL, Naffrechoux E, Tlili A, Topp E, Ferrari BJD, Pesce S. Diversity, Functions and Antibiotic Resistance of Sediment Microbial Communities From Lake Geneva Are Driven by the Spatial Distribution of Anthropogenic Contamination. Front Microbiol 2021; 12:738629. [PMID: 34733255 PMCID: PMC8560053 DOI: 10.3389/fmicb.2021.738629] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Accepted: 09/28/2021] [Indexed: 11/17/2022] Open
Abstract
Lake sediments are natural receptors for a wide range of anthropogenic contaminants including organic matter and toxicants such as trace metals, polycyclic aromatic hydrocarbons, polychlorinated biphenyls that accumulate over time. This contamination can impact benthic communities, including microorganisms which play a crucial role in biogeochemical cycling and food-webs. The present survey aimed at exploring whether anthropogenic contamination, at a large lake scale, can influence the diversity, structure and functions of microbial communities associated to surface sediment, as well as their genetic potential for resistance to metals and antibiotics. Changes in the characteristics of these communities were assessed in surface sediments collected in Lake Geneva from eight sampling sites in October 2017 and May 2018. These sampling sites were characterized by a large concentration range of metal and organic compound contamination. Variation between the two sampling periods were very limited for all sampling sites and measured microbial parameters. In contrast, spatial variations were observed, with two sites being distinct from each other, and from the other six sites. Benthic communities from the most contaminated sampling site (Vidy Bay, near the city of Lausanne) were characterized by the lowest bacterial and archaeal diversity, a distinct community composition, the highest abundance of antibiotic resistance genes and functional (respiration, denitrification, methanogenesis, phosphatase, and beta-glucosidase) activity levels. The second sampling site which is highly influenced by inputs from the Rhône River, exhibited low levels of diversity, a distinct community composition, high abundance of antibiotic resistance genes and the highest bacterial abundance. Overall, our results suggest that local anthropogenic contamination, including organic matter and toxicants, is a major driver of the diversity and functioning of sediment-microbial communities in Lake Geneva. This highlights the need to consider benthic microbial communities and a suite of complementary ecotoxicological endpoints for more effective environmental risk assessments of contaminants in lake sediments.
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Affiliation(s)
- Emilie Lyautey
- INRAE UR RiverLy, Villeurbanne, France.,INRAE, Université Savoie Mont Blanc, CARRTEL, Thonon-les-Bains, France
| | | | | | - Jean-Luc Loizeau
- Department F.A. Forel for Environmental and Aquatic Sciences, University of Geneva, Geneva, Switzerland
| | | | - Ahmed Tlili
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
| | - Edward Topp
- Agriculture and Agri-Food Canada, London, ON, Canada.,Department of Biology, University of Western Ontario, London, ON, Canada
| | - Benoît J D Ferrari
- Swiss Centre for Applied Ecotoxicology (Ecotox Centre), Lausanne, Switzerland
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Joly P, Calteau A, Wauquier A, Dumas R, Beuvin M, Vallenet D, Crovadore J, Cochard B, Lefort F, Berthon JY. From Strain Characterization to Field Authorization: Highlights on Bacillus velezensis Strain B25 Beneficial Properties for Plants and Its Activities on Phytopathogenic Fungi. Microorganisms 2021; 9:1924. [PMID: 34576819 DOI: 10.3390/microorganisms9091924] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Revised: 08/31/2021] [Accepted: 09/08/2021] [Indexed: 11/22/2022] Open
Abstract
Agriculture is in need of alternative products to conventional phytopharmaceutical treatments from chemical industry. One solution is the use of natural microorganisms with beneficial properties to ensure crop yields and plant health. In the present study, we focused our analyses on a bacterium referred as strain B25 and belonging to the species Bacillus velezensis (synonym B. amyloliquefaciens subsp. plantarum or B. methylotrophicus), a promising plant growth promoting rhizobacterium (PGPR) and an inhibitor of pathogenic fungi inducing crops diseases. B25 strain activities were investigated. Its genes are well preserved, with their majority being common with other Bacillus spp. strains and responsible for the biosynthesis of secondary metabolites known to be involved in biocontrol and plant growth-promoting activities. No antibiotic resistance genes were found in the B25 strain plasmid. In vitro and in planta tests were conducted to confirm these PGPR and biocontrol properties, showing its efficiency against 13 different pathogenic fungi through antibiosis mechanism. B25 strain also showed good capacities to quickly colonize its environment, to solubilize phosphorus and to produce siderophores and little amounts of auxin-type phytohormones (around 13,051 µg/mL after 32 h). All these findings combined to the fact that B25 demonstrated good properties for industrialization of the production and an environmental-friendly profile, led to its commercialization under market authorization since 2018 in several biostimulant preparations and opened its potential use as a biocontrol agent.
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Kergoat L, Besse-Hoggan P, Leremboure M, Beguet J, Devers M, Martin-Laurent F, Masson M, Morin S, Roinat A, Pesce S, Bonnineau C. Environmental Concentrations of Sulfonamides Can Alter Bacterial Structure and Induce Diatom Deformities in Freshwater Biofilm Communities. Front Microbiol 2021; 12:643719. [PMID: 34025605 PMCID: PMC8137839 DOI: 10.3389/fmicb.2021.643719] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2020] [Accepted: 02/22/2021] [Indexed: 11/13/2022] Open
Abstract
Since the early 1920s, the intensive use of antibiotics has led to the contamination of the aquatic environment through diffuse sources and wastewater effluents. The antibiotics commonly found in surface waters include sulfamethoxazole (SMX) and sulfamethazine (SMZ), which belong to the class of sulfonamides, the oldest antibiotic class still in use. These antibiotics have been detected in all European surface waters with median concentrations of around 50 ng L–1 and peak concentrations of up to 4–6 μg L–1. Sulfonamides are known to inhibit bacterial growth by altering microbial production of folic acid, but sub-lethal doses may trigger antimicrobial resistance, with unknown consequences for exposed microbial communities. We investigated the effects of two environmentally relevant concentrations (500 and 5,000 ng L–1) of SMZ and SMX on microbial activity and structure of periphytic biofilms in stream mesocosms for 28 days. Measurement of sulfonamides in the mesocosms revealed contamination levels of about half the nominal concentrations. Exposure to sulfonamides led to slight, transitory effects on heterotrophic functions, but persistent effects were observed on the bacterial structure. After 4 weeks of exposure, sulfonamides also altered the autotrophs in periphyton and particularly the diversity, viability and cell integrity of the diatom community. The higher concentration of SMX tested decreased both diversity (Shannon index) and evenness of the diatom community. Exposure to SMZ reduced diatom species richness and diversity. The mortality of diatoms in biofilms exposed to sulfonamides was twice that in non-exposed biofilms. SMZ also induced an increase in diatom teratologies from 1.1% in non-exposed biofilms up to 3% in biofilms exposed to SMZ. To our knowledge, this is the first report on the teratological effects of sulfonamides on diatoms within periphyton. The increase of both diatom growth rate and mortality suggests a high renewal of diatoms under sulfonamide exposure. In conclusion, our study shows that sulfonamides can alter microbial community structures and diversity at concentrations currently present in the environment, with unknown consequences for the ecosystem. The experimental set-up presented here emphasizes the interest of using natural communities to increase the ecological realism of ecotoxicological studies and to detect potential toxic effects on non-target species.
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Affiliation(s)
| | - Pascale Besse-Hoggan
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Martin Leremboure
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Jérémie Beguet
- AgroSup Dijon, INRAE, Univ. Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Marion Devers
- AgroSup Dijon, INRAE, Univ. Bourgogne Franche-Comté, Agroécologie, Dijon, France
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Evariste L, Braylé P, Mouchet F, Silvestre J, Gauthier L, Flahaut E, Pinelli E, Barret M. Graphene-Based Nanomaterials Modulate Internal Biofilm Interactions and Microbial Diversity. Front Microbiol 2021; 12:623853. [PMID: 33841352 PMCID: PMC8032548 DOI: 10.3389/fmicb.2021.623853] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Accepted: 02/28/2021] [Indexed: 02/04/2023] Open
Abstract
Graphene-based nanomaterials (GBMs), such as graphene oxide (GO) and reduced graphene oxide (rGO), possess unique properties triggering high expectations for the development of new technological applications and are forecasted to be produced at industrial-scale. This raises the question of potential adverse outcomes on living organisms and especially toward microorganisms constituting the basis of the trophic chain in ecosystems. However, investigations on GBMs toxicity were performed on various microorganisms using single species that are helpful to determine toxicity mechanisms but fail to predict the consequences of the observed effects at a larger organization scale. Thus, this study focuses on the ecotoxicological assessment of GO and rGO toward a biofilm composed of the diatom Nitzschia palea associated to a bacterial consortium. After 48 and 144 h of exposure to these GBMs at 0, 0.1, 1, and 10 mg.L−1, their effects on the diatom physiology, the structure, and the metabolism of bacterial communities were measured through the use of flow cytometry, 16S amplicon sequencing, and Biolog ecoplates, respectively. The exposure to both of these GBMs stimulated the diatom growth. Besides, GO exerted strong bacterial growth inhibition as from 1 mg.L−1, influenced the taxonomic composition of diatom-associated bacterial consortium, and increased transiently the bacterial activity related to carbon cycling, with weak toxicity toward the diatom. On the contrary, rGO was shown to exert a weaker toxicity toward the bacterial consortium, whereas it influenced more strongly the diatom physiology. When compared to the results from the literature using single species tests, our study suggests that diatoms benefited from diatom-bacteria interactions and that the biofilm was able to maintain or recover its carbon-related metabolic activities when exposed to GBMs.
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Affiliation(s)
- Lauris Evariste
- Laboratoire d'écologie fonctionnelle et environnement, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Paul Braylé
- Laboratoire d'écologie fonctionnelle et environnement, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Florence Mouchet
- Laboratoire d'écologie fonctionnelle et environnement, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Jérôme Silvestre
- Laboratoire d'écologie fonctionnelle et environnement, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Laury Gauthier
- Laboratoire d'écologie fonctionnelle et environnement, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Emmanuel Flahaut
- CIRIMAT, Université de Toulouse, CNRS, INPT, UPS, UMR CNRS-UPS-INP N°5085, Université Toulouse 3 Paul Sabatier, Bât. CIRIMAT, Toulouse, France
| | - Eric Pinelli
- Laboratoire d'écologie fonctionnelle et environnement, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
| | - Maialen Barret
- Laboratoire d'écologie fonctionnelle et environnement, Université de Toulouse, CNRS, INPT, UPS, Toulouse, France
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Billet L, Pesce S, Rouard N, Spor A, Paris L, Leremboure M, Mounier A, Besse-Hoggan P, Martin-Laurent F, Devers-Lamrani M. Antibiotrophy: Key Function for Antibiotic-Resistant Bacteria to Colonize Soils-Case of Sulfamethazine-Degrading Microbacterium sp. C448. Front Microbiol 2021; 12:643087. [PMID: 33841365 PMCID: PMC8032547 DOI: 10.3389/fmicb.2021.643087] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Accepted: 02/22/2021] [Indexed: 11/13/2022] Open
Abstract
Chronic and repeated exposure of environmental bacterial communities to anthropogenic antibiotics have recently driven some antibiotic-resistant bacteria to acquire catabolic functions, enabling them to use antibiotics as nutritive sources (antibiotrophy). Antibiotrophy might confer a selective advantage facilitating the implantation and dispersion of antibiotrophs in contaminated environments. A microcosm experiment was conducted to test this hypothesis in an agroecosystem context. The sulfonamide-degrading and resistant bacterium Microbacterium sp. C448 was inoculated in four different soil types with and without added sulfamethazine and/or swine manure. After 1 month of incubation, Microbacterium sp. (and its antibiotrophic gene sadA) was detected only in the sulfamethazine-treated soils, suggesting a low competitiveness of the strain without antibiotic selection pressure. In the absence of manure and despite the presence of Microbacterium sp. C448, only one of the four sulfamethazine-treated soils exhibited mineralization capacities, which were low (inferior to 5.5 ± 0.3%). By contrast, manure addition significantly enhanced sulfamethazine mineralization in all the soil types (at least double, comprised between 5.6 ± 0.7% and 19.5 ± 1.2%). These results, which confirm that the presence of functional genes does not necessarily ensure functionality, suggest that sulfamethazine does not necessarily confer a selective advantage on the degrading strain as a nutritional source. 16S rDNA sequencing analyses strongly suggest that sulfamethazine released trophic niches by biocidal action. Accordingly, manure-originating bacteria and/or Microbacterium sp. C448 could gain access to low-competition or competition-free ecological niches. However, simultaneous inputs of manure and of the strain could induce competition detrimental for Microbacterium sp. C448, forcing it to use sulfamethazine as a nutritional source. Altogether, these results suggest that the antibiotrophic strain studied can modulate its sulfamethazine-degrading function depending on microbial competition and resource accessibility, to become established in an agricultural soil. Most importantly, this work highlights an increased dispersal potential of antibiotrophs in antibiotic-polluted environments, as antibiotics can not only release existing trophic niches but also form new ones.
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Affiliation(s)
- Loren Billet
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
- INRAE, UR RiverLy, Villeurbanne, France
| | | | - Nadine Rouard
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Aymé Spor
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Laurianne Paris
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Martin Leremboure
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Arnaud Mounier
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Pascale Besse-Hoggan
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Fabrice Martin-Laurent
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Marion Devers-Lamrani
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
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11
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Cheng J, Jacquin J, Conan P, Pujo-Pay M, Barbe V, George M, Fabre P, Bruzaud S, Ter Halle A, Meistertzheim AL, Ghiglione JF. Relative Influence of Plastic Debris Size and Shape, Chemical Composition and Phytoplankton-Bacteria Interactions in Driving Seawater Plastisphere Abundance, Diversity and Activity. Front Microbiol 2021; 11:610231. [PMID: 33519764 PMCID: PMC7838358 DOI: 10.3389/fmicb.2020.610231] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Accepted: 12/11/2020] [Indexed: 01/04/2023] Open
Abstract
The thin film of life that inhabits all plastics in the oceans, so-called "plastisphere," has multiple effects on the fate and impacts of plastic in the marine environment. Here, we aimed to evaluate the relative influence of the plastic size, shape, chemical composition, and environmental changes such as a phytoplankton bloom in shaping the plastisphere abundance, diversity and activity. Polyethylene (PE) and polylactide acid (PLA) together with glass controls in the forms of meso-debris (18 mm diameter) and large-microplastics (LMP; 3 mm diameter), as well as small-microplastics (SMP) of 100 μm diameter with spherical or irregular shapes were immerged in seawater during 2 months. Results of bacterial abundance (confocal microscopy) and diversity (16S rRNA Illumina sequencing) indicated that the three classical biofilm colonization phases (primo-colonization after 3 days; growing phase after 10 days; maturation phase after 30 days) were not influenced by the size and the shape of the materials, even when a diatom bloom (Pseudo-nitzschia sp.) occurred after the first month of incubation. However, plastic size and shape had an effect on bacterial activity (3H leucine incorporation). Bacterial communities associated with the material of 100 μm size fraction showed the highest activity compared to all other material sizes. A mature biofilm developed within 30 days on all material types, with higher bacterial abundance on the plastics compared to glass, and distinct bacterial assemblages were detected on each material type. The diatom bloom event had a great impact on the plastisphere of all materials, resulting in a drastic change in diversity and activity. Our results showed that the plastic size and shape had relatively low influence on the plastisphere abundance, diversity, and activity, as compared to the plastic composition or the presence of a phytoplankton bloom.
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Affiliation(s)
- Jingguang Cheng
- UMR 7621, CNRS, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique de Banyuls-sur-Mer, Sorbonne Université, Banyuls-sur-Mer, France
| | - Justine Jacquin
- UMR 7621, CNRS, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique de Banyuls-sur-Mer, Sorbonne Université, Banyuls-sur-Mer, France
| | - Pascal Conan
- UMR 7621, CNRS, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique de Banyuls-sur-Mer, Sorbonne Université, Banyuls-sur-Mer, France
| | - Mireille Pujo-Pay
- UMR 7621, CNRS, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique de Banyuls-sur-Mer, Sorbonne Université, Banyuls-sur-Mer, France
| | - Valérie Barbe
- Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry, France
| | - Matthieu George
- Laboratoire Charles Coulomb (L2C), UMR 5221 CNRS-UM, Place Eugène Bataillon, Montpellier, France
| | - Pascale Fabre
- Laboratoire Charles Coulomb (L2C), UMR 5221 CNRS-UM, Place Eugène Bataillon, Montpellier, France
| | - Stéphane Bruzaud
- Institut de Recherche Dupuy de Lôme (IRDL), Université Bretagne Sud, UMR CNRS 6027, Lorient, France
| | | | | | - Jean-François Ghiglione
- UMR 7621, CNRS, Laboratoire d’Océanographie Microbienne, Observatoire Océanologique de Banyuls-sur-Mer, Sorbonne Université, Banyuls-sur-Mer, France
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12
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Mallet C, Romdhane S, Loiseau C, Béguet J, Martin-Laurent F, Calvayrac C, Barthelmebs L. Impact of Leptospermone, a Natural β-Triketone Herbicide, on the Fungal Composition and Diversity of Two Arable Soils. Front Microbiol 2019; 10:1024. [PMID: 31134038 PMCID: PMC6524154 DOI: 10.3389/fmicb.2019.01024] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Accepted: 04/24/2019] [Indexed: 01/10/2023] Open
Abstract
Impact of leptospermone, a β-triketone bioherbicide, was investigated on the fungal community which supports important soil ecological functions such as decomposition of organic matter and nutrients recycling. This study was done in a microcosm experiment using two French soils, Perpignan (P) and Saint-Jean-de-Fos (SJF), differing in their physicochemical properties and history treatment with synthetic β-triketones. Soil microcosms were treated with leptospermone at recommended dose and incubated under controlled conditions for 45 days. Untreated microcosms were used as control. Illumina MiSeq sequencing of the internal transcribed spacer region of the fungal rRNA revealed significant changes in fungal community structure and diversity in both soils. Xylariales, Hypocreales, Pleosporales and Capnodiales (Ascomycota phyla) fungi and those belonging to Sebacinales, Cantharellales, Agaricales, Polyporales, Filobasidiales and Tremellales orders (Basidiomycota phyla) were well represented in treated soil microcosms compared to control. Nevertheless, while for the treated SJF a complete recovery of the fungal community was observed at the end of the experiment, this was not the case for the P treated soil, although no more bioherbicide remained. Indeed, the relative abundance of most of the saprophytic fungi were lower in treated soil compared to control microcosms whereas fungi from parasitic fungi included in Spizellomycetales and Pezizales orders increased. To the best of our knowledge, this is the only study assessing the effect of the bioherbicide leptospermone on the composition and diversity of the fungal community in soil. This study showed that leptospermone has an impact on α- and β-diversity of the fungal community. It underlines the possible interest of microbial endpoints for environmental risk assessment of biopesticide.
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Affiliation(s)
- Clarisse Mallet
- Laboratoire Microorganismes : Génome et Environnement, CNRS, Université Clermont Auvergne, Clermont-Ferrand, France
| | - Sana Romdhane
- AgroSup Dijon, INRA UMR1347 Agroécologie, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
- Biocapteurs-Analyses-Environnement, Université de Perpignan Via Domitia, Perpignan, France
| | - Camille Loiseau
- Laboratoire Microorganismes : Génome et Environnement, CNRS, Université Clermont Auvergne, Clermont-Ferrand, France
| | - Jérémie Béguet
- AgroSup Dijon, INRA UMR1347 Agroécologie, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
| | - Fabrice Martin-Laurent
- AgroSup Dijon, INRA UMR1347 Agroécologie, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
| | - Christophe Calvayrac
- Biocapteurs-Analyses-Environnement, Université de Perpignan Via Domitia, Perpignan, France
- Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France
| | - Lise Barthelmebs
- Biocapteurs-Analyses-Environnement, Université de Perpignan Via Domitia, Perpignan, France
- Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France
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13
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Hidalgo K, Ratel J, Mercier F, Gauriat B, Bouchard P, Engel E. Volatolomics in Bacterial Ecotoxicology, A Novel Method for Detecting Signatures of Pesticide Exposure? Front Microbiol 2019; 9:3113. [PMID: 30671028 PMCID: PMC6332697 DOI: 10.3389/fmicb.2018.03113] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2018] [Accepted: 12/03/2018] [Indexed: 12/13/2022] Open
Abstract
Volatile organic compounds (VOC) produced by microorganisms in response to chemical stressor showed recently increasing attention, because of possible environmental applications. In this work, we aimed to bring the first proof of concept that volatolomic (i.e., VOCs analysis) can be used to determine candidate VOC markers of two soil bacteria strains (Pseudomonas fluorescens SG-1 and Bacillus megaterium Mes11) exposure to pesticides. VOC determination was based on solid-phase microextraction (SPME) coupled with gas chromatography-mass spectrometry (GC-MS). Accordingly, we highlighted a set of bacterial VOCs modulated in each strains according to the nature of the pesticide used. Three out these VOCs were specifically modulated in P. fluorescens SG-1 when exposed with two pyrethroid pesticides (deltamethrine and cypermethrine): 2-hexanone; 1,3-ditertbutylbenzene and malonic acid, hexyl 3-methylbutyl ester. Our results thus suggest the possible existence of generic VOC markers of pyrethroids in this strain. Of particular interest, two out of these three VOCs, the 1,3-ditertbutylbenzene and the malonic acid, hexyl 3-methylbutyl ester were found also in B. megaterium Mes11 when exposed with cypermethrine. This result highlighted the possible existence of interspecific VOC markers of pyrethroid in these two bacteria. Altogether, our work underlined the relevance of volatolomic to detect signatures of pesticides exposure in microorganisms and more generally to microbial ecotoxicology. Based on these first results, considerations of volatolomics for the chemical risk assessment in environment such as soils can be indirectly explored in longer terms.
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Affiliation(s)
- Kevin Hidalgo
- INRA UR370 QuaPA, MASS Group, Saint-Genès-Champanelle, France.,Thermo Fisher Scientific ZA de Courtaboeuf, Villebon-sur-Yvette, France
| | - Jeremy Ratel
- INRA UR370 QuaPA, MASS Group, Saint-Genès-Champanelle, France
| | | | - Benedicte Gauriat
- Thermo Fisher Scientific ZA de Courtaboeuf, Villebon-sur-Yvette, France
| | - Philippe Bouchard
- CNRS, Laboratoire Microorganismes: Genome et Environnement, Université Clermont Auvergne, Clermont-Ferrand, France
| | - Erwan Engel
- INRA UR370 QuaPA, MASS Group, Saint-Genès-Champanelle, France
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14
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Guo Y, Cichocki N, Schattenberg F, Geffers R, Harms H, Müller S. AgNPs Change Microbial Community Structures of Wastewater. Front Microbiol 2019; 9:3211. [PMID: 30671038 PMCID: PMC6331452 DOI: 10.3389/fmicb.2018.03211] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2018] [Accepted: 12/11/2018] [Indexed: 01/31/2023] Open
Abstract
Due to their strong antimicrobial activity, silver nanoparticles (AgNPs) are massively produced, applied, consumed and, as a negative consequence, released into wastewater treatment plants. Most AgNPs are assumed to be bound by sludge, and thus bear potential risk for microbial performance and stability. In this lab-scale study, flow cytometry as a high-throughput method and 16S rRNA gene amplicon Illumina MiSeq sequencing were used to track microbial community structure changes when being exposed to AgNPs. Both methods allowed deeper investigation of the toxic impact of chemicals on microbial communities than classical EC50 determination. In addition, ecological metrics were used to quantify microbial community variations depending on AgNP types (10 and 30 nm) and concentrations. Only low changes in α- and intra-community β-diversity values were found both in successive negative and positive control batches and batches that were run with AgNPs below the EC50 value. Instead, AgNPs at EC50 concentrations caused upcoming of certain and disappearance of formerly dominant subcommunities. Flavobacteriia were among those that almost disappeared, while phylotypes affiliated with Gammaproteobacteria (3.6-fold) and Bacilli (8.4-fold) increased in cell abundance in comparison to the negative control. Thus, silver amounts at the EC50 value affected community structure suggesting a potential negative impact on functions in wastewater treatment systems.
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Affiliation(s)
- Yuting Guo
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research, Leipzig, Germany
| | - Nicolas Cichocki
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research, Leipzig, Germany
| | - Florian Schattenberg
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research, Leipzig, Germany
| | - Robert Geffers
- Research Group Genome Analysis, Helmholtz Centre for Infection Research, Braunschweig, Germany
| | - Hauke Harms
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research, Leipzig, Germany
| | - Susann Müller
- Department of Environmental Microbiology, Helmholtz Centre for Environmental Research, Leipzig, Germany
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15
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Laroche E, Casiot C, Fernandez-Rojo L, Desoeuvre A, Tardy V, Bruneel O, Battaglia-Brunet F, Joulian C, Héry M. Dynamics of Bacterial Communities Mediating the Treatment of an As-Rich Acid Mine Drainage in a Field Pilot. Front Microbiol 2018; 9:3169. [PMID: 30627121 PMCID: PMC6309452 DOI: 10.3389/fmicb.2018.03169] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2018] [Accepted: 12/07/2018] [Indexed: 12/31/2022] Open
Abstract
Passive treatment based on iron biological oxidation is a promising strategy for Arsenic (As)-rich acid mine drainage (AMD) remediation. In the present study, we characterized by 16S rRNA metabarcoding the bacterial diversity in a field-pilot bioreactor treating extremely As-rich AMD in situ, over a 6 months monitoring period. Inside the bioreactor, the bacterial communities responsible for iron and arsenic removal formed a biofilm (“biogenic precipitate”) whose composition varied in time and space. These communities evolved from a structure at first similar to the one of the feed water used as an inoculum to a structure quite similar to the natural biofilm developing in situ in the AMD. Over the monitoring period, iron-oxidizing bacteria always largely dominated the biogenic precipitate, with distinct populations (Gallionella, Ferrovum, Leptospirillum, Acidithiobacillus, Ferritrophicum), whose relative proportions extensively varied among time and space. A spatial structuring was observed inside the trays (arranged in series) composing the bioreactor. This spatial dynamic could be linked to the variation of the physico-chemistry of the AMD water between the raw water entering and the treated water exiting the pilot. According to redundancy analysis (RDA), the following parameters exerted a control on the bacterial communities potentially involved in the water treatment process: dissolved oxygen, temperature, pH, dissolved sulfates, arsenic and Fe(II) concentrations and redox potential. Appreciable arsenite oxidation occurring in the bioreactor could be linked to the stable presence of two distinct monophylogenetic groups of Thiomonas related bacteria. The ubiquity and the physiological diversity of the bacteria identified, as well as the presence of bacteria of biotechnological relevance, suggested that this treatment system could be applied to the treatment of other AMD.
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Affiliation(s)
- Elia Laroche
- HydroSciences Montpellier, CNRS, IRD, University of Montpellier, Montpellier, France.,BRGM, Geomicrobiology and Environmental Monitoring Unit, Orléans, France
| | - Corinne Casiot
- HydroSciences Montpellier, CNRS, IRD, University of Montpellier, Montpellier, France
| | - Lidia Fernandez-Rojo
- HydroSciences Montpellier, CNRS, IRD, University of Montpellier, Montpellier, France
| | - Angélique Desoeuvre
- HydroSciences Montpellier, CNRS, IRD, University of Montpellier, Montpellier, France
| | - Vincent Tardy
- HydroSciences Montpellier, CNRS, IRD, University of Montpellier, Montpellier, France
| | - Odile Bruneel
- HydroSciences Montpellier, CNRS, IRD, University of Montpellier, Montpellier, France
| | | | - Catherine Joulian
- BRGM, Geomicrobiology and Environmental Monitoring Unit, Orléans, France
| | - Marina Héry
- HydroSciences Montpellier, CNRS, IRD, University of Montpellier, Montpellier, France
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16
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Simonin M, Cantarel AAM, Crouzet A, Gervaix J, Martins JMF, Richaume A. Negative Effects of Copper Oxide Nanoparticles on Carbon and Nitrogen Cycle Microbial Activities in Contrasting Agricultural Soils and in Presence of Plants. Front Microbiol 2018; 9:3102. [PMID: 30619181 PMCID: PMC6301197 DOI: 10.3389/fmicb.2018.03102] [Citation(s) in RCA: 52] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Accepted: 11/30/2018] [Indexed: 12/28/2022] Open
Abstract
Metal-oxide nanoparticles (NPs) such as copper oxide (CuO) NPs offer promising perspectives for the development of novel agro-chemical formulations of pesticides and fertilizers. However, their potential impact on agro-ecosystem functioning still remains to be investigated. Here, we assessed the impact of CuO-NPs (0.1, 1, and 100 mg/kg dry soil) on soil microbial activities involved in the carbon and nitrogen cycles in five contrasting agricultural soils in a microcosm experiment over 90 days. Additionally, in a pot experiment, we evaluated the influence of plant presence on the toxicity of CuO-NPs on soil microbial activities. CuO-NPs caused significant reductions of the three microbial activities measured (denitrification, nitrification, and soil respiration) at 100 mg/kg dry soil, but the low concentrations (0.1 and 1 mg/kg) had limited effects. We observed that denitrification was the most sensitive microbial activity to CuO-NPs in most soil types, while soil respiration and nitrification were mainly impacted in coarse soils with low organic matter content. Additionally, large decreases in heterotrophic microbial activities were observed in soils planted with wheat, even at 1 mg/kg for soil substrate-induced respiration, indicating that plant presence did not mitigate or compensate CuO-NP toxicity for microorganisms. These two experiments show that CuO-NPs can have detrimental effects on microbial activities in soils with contrasting physicochemical properties and previously exposed to various agricultural practices. Moreover, we observed that the negative effects of CuO-NPs increased over time, indicating that short-term studies (hours, days) may underestimate the risks posed by these contaminants in soils.
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Affiliation(s)
- Marie Simonin
- Université de Lyon, Lyon, France.,Université Claude Bernard Lyon 1, Villeurbanne, France.,CNRS, UMR 5557, Microbial Ecology Centre, Université Lyon 1, Villeurbanne, France
| | - Amélie A M Cantarel
- Université de Lyon, Lyon, France.,Université Claude Bernard Lyon 1, Villeurbanne, France.,CNRS, UMR 5557, Microbial Ecology Centre, Université Lyon 1, Villeurbanne, France
| | - Armelle Crouzet
- Université de Lyon, Lyon, France.,Université Claude Bernard Lyon 1, Villeurbanne, France.,CNRS, UMR 5557, Microbial Ecology Centre, Université Lyon 1, Villeurbanne, France
| | - Jonathan Gervaix
- Université de Lyon, Lyon, France.,Université Claude Bernard Lyon 1, Villeurbanne, France.,CNRS, UMR 5557, Microbial Ecology Centre, Université Lyon 1, Villeurbanne, France
| | | | - Agnès Richaume
- Université de Lyon, Lyon, France.,Université Claude Bernard Lyon 1, Villeurbanne, France.,CNRS, UMR 5557, Microbial Ecology Centre, Université Lyon 1, Villeurbanne, France
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17
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Rossi F, Pesce S, Mallet C, Margoum C, Chaumot A, Masson M, Artigas J. Interactive Effects of Pesticides and Nutrients on Microbial Communities Responsible of Litter Decomposition in Streams. Front Microbiol 2018; 9:2437. [PMID: 30386312 PMCID: PMC6199466 DOI: 10.3389/fmicb.2018.02437] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Accepted: 09/24/2018] [Indexed: 01/08/2023] Open
Abstract
Global contamination of streams by a large variety of compounds, such as nutrients and pesticides, may exert a high pressure on aquatic organisms, including microbial communities and their activity of organic matter decomposition. In this study, we assessed the potential interaction between nutrients and a fungicide and herbicide [tebuconazole (TBZ) and S-metolachlor (S-Met), respectively] at realistic environmental concentrations on the structure (biomass, diversity) and decomposition activity of fungal and bacterial communities (leaf decay rates, extracellular enzymatic activities) associated with Alnus glutinosa (Alnus) leaves. A 40-day microcosm experiment was used to combine two nutrient conditions (mesotrophic and eutrophic) with four pesticide treatments at a nominal concentrations of 15 μg L-1 (control, TBZ and S-Met, alone or mixed) following a 2 × 4 full factorial design. We also investigated resulting indirect effects on Gammarus fossarum feeding rates using leaves previously exposed to each of the treatments described above. Results showed interactive effects between nutrients and pesticides, only when nutrient (i.e., nitrogen and phosphorus) concentrations were the highest (eutrophic condition). Specifically, slight decreases in Alnus leaf decomposition rates were observed in channels exposed to TBZ (0.01119 days-1) and S-Met (0.01139 days-1) than in control ones (0.01334 days-1) that can partially be explained by changes in the structure of leaf-associated microbial communities. However, exposition to both TBZ and S-Met in mixture (MIX) led to comparable decay rates to those exposed to the pesticides alone (0.01048 days-1), suggesting no interaction between these two compounds on microbial decomposition. Moreover, stimulation in ligninolytic activities (laccase and phenol oxidase) was observed in presence of the fungicide, possibly highlighting detoxification mechanisms employed by microbes. Such stimulation was not observed for laccase activity exposed to the MIX, suggesting antagonistic interaction of these two compounds on the ability of microbial communities to cope with stress by xenobiotics. Besides, no effects of the treatments were observed on leaf palatability for macroinvertebrates. Overall, the present study highlights that complex interactions between nutrients and xenobiotics in streams and resulting from global change can negatively affect microbial communities associated with leaf litter, although effects on higher trophic-level organisms remains unclear.
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Affiliation(s)
- Florent Rossi
- Laboratoire Microorganismes: Génome et Environnement, CNRS, Université Clermont Auvergne, Clermont-Ferrand, France
| | - Stéphane Pesce
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
| | - Clarisse Mallet
- Laboratoire Microorganismes: Génome et Environnement, CNRS, Université Clermont Auvergne, Clermont-Ferrand, France
| | | | - Arnaud Chaumot
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
| | - Matthieu Masson
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
| | - Joan Artigas
- Laboratoire Microorganismes: Génome et Environnement, CNRS, Université Clermont Auvergne, Clermont-Ferrand, France
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18
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Imfeld G, Besaury L, Maucourt B, Donadello S, Baran N, Vuilleumier S. Toward Integrative Bacterial Monitoring of Metolachlor Toxicity in Groundwater. Front Microbiol 2018; 9:2053. [PMID: 30386304 PMCID: PMC6198151 DOI: 10.3389/fmicb.2018.02053] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Accepted: 08/13/2018] [Indexed: 12/02/2022] Open
Abstract
Common herbicides such as metolachlor (MET), and their transformation products, are frequently detected in groundwater worldwide. Little is known about the response of groundwater bacterial communities to herbicide exposure, and its potential use for ecotoxicological assessment. The response of bacterial communities exposed to different levels of MET from the Ariège alluvial aquifer (Southwest of France) was investigated in situ and in laboratory experiments. Variations in both chemistry and bacterial communities were observed in groundwater, but T-RFLP analysis did not allow to uncover a pesticide-specific effect on endogenous bacterial communities. To circumvent issues of hydrogeochemical and seasonal variations in situ, groundwater samples from two monitoring wells of the Ariège aquifer with contrasting records of pesticide contamination were exposed to different levels of MET in laboratory experiments. The standard Microtox® acute toxicity assay did not indicate toxic effects of MET, even at 5 mg L-1 (i.e., 1000-fold higher than in contaminated groundwater). Analysis of MET transformation products and compound-specific isotope analysis (CSIA) in laboratory experiments demonstrated MET biodegradation but did not correlate with MET exposure. High-throughput sequencing analysis (Illumina MiSeq) of bacterial communities based on amplicons of the 16S rRNA gene revealed that bacterial community differed mainly by groundwater origin rather than by its response to MET exposure. OTUs correlating with MET addition ranged between 0.4 to 3.6% of the total. Predictive analysis of bacterial functions impacted by pesticides using PICRUSt suggested only minor changes in bacterial functions with increasing MET exposure. Taken together, results highlight MET biodegradation in groundwater, and the potential use of bacterial communities as sensitive indicators of herbicide contamination in aquifers. Although detected effects of MET on groundwater bacterial communities were modest, this study illustrates the potential of integrating DNA- and isotopic analysis-based approaches to improve ecotoxicological assessment of pesticide-contaminated aquifers. GRAPHICAL ABSTRACTAn integrative approach was develop to investigate in situ and in laboratory experiments the response of bacterial communities exposed to different levels of MET from the Ariége alluvial aquifer (Southwest of France).
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Affiliation(s)
- Gwenaël Imfeld
- Laboratory of Hydrology and Geochemistry, EOST-CNRS, LHyGeS UMR 7517, Université de Strasbourg, Strasbourg, France
| | - Ludovic Besaury
- Génétique Moléculaire, Génomique, Microbiologie, GMGM UMR 7156, CNRS, Université de Strasbourg, Strasbourg, France
| | - Bruno Maucourt
- Génétique Moléculaire, Génomique, Microbiologie, GMGM UMR 7156, CNRS, Université de Strasbourg, Strasbourg, France
| | - Stéphanie Donadello
- Génétique Moléculaire, Génomique, Microbiologie, GMGM UMR 7156, CNRS, Université de Strasbourg, Strasbourg, France
| | - Nicole Baran
- Bureau de Recherches Géologiques et Miniéres (BRGM), Orléans, France
| | - Stéphane Vuilleumier
- Génétique Moléculaire, Génomique, Microbiologie, GMGM UMR 7156, CNRS, Université de Strasbourg, Strasbourg, France
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19
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Mahamoud Ahmed A, Lyautey E, Bonnineau C, Dabrin A, Pesce S. Environmental Concentrations of Copper, Alone or in Mixture With Arsenic, Can Impact River Sediment Microbial Community Structure and Functions. Front Microbiol 2018; 9:1852. [PMID: 30158909 PMCID: PMC6104476 DOI: 10.3389/fmicb.2018.01852] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2018] [Accepted: 07/24/2018] [Indexed: 12/03/2022] Open
Abstract
In many aquatic ecosystems, sediments are an essential compartment, which supports high levels of specific and functional biodiversity thus contributing to ecological functioning. Sediments are exposed to inputs from ground or surface waters and from surrounding watershed that can lead to the accumulation of toxic and persistent contaminants potentially harmful for benthic sediment-living communities, including microbial assemblages. As benthic microbial communities play crucial roles in ecological processes such as organic matter recycling and biomass production, we performed a 21-day laboratory channel experiment to assess the structural and functional impact of metals on natural microbial communities chronically exposed to sediments spiked with copper (Cu) and/or arsenic (As) alone or mixed at environmentally relevant concentrations (40 mg kg-1 for each metal). Heterotrophic microbial community responses to metals were evaluated both in terms of genetic structure (using ARISA analysis) and functional potential (using exoenzymatic, metabolic and functional genes analyses). Exposure to Cu had rapid marked effects on the structure and most of the functions of the exposed communities. Exposure to As had almost undetectable effects, possibly due to both lack of As bioavailability or toxicity toward the exposed communities. However, when the two metals were combined, certain functional responses suggested a possible interaction between Cu and As toxicity on heterotrophic communities. We also observed temporal dynamics in the functional response of sediment communities to chronic Cu exposure, alone or in mixture, with some functions being resilient and others being impacted throughout the experiment or only after several weeks of exposure. Taken together, these findings reveal that metal contamination of sediment could impact both the genetic structure and the functional potential of chronically exposed microbial communities. Given their functional role in aquatic ecosystems, it poses an ecological risk as it may impact ecosystem functioning.
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Affiliation(s)
- Ayanleh Mahamoud Ahmed
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
- CARRTEL, Univ. Savoie Mont Blanc, INRA, Chambéry, France
- Centre de Recherche, Université de Djibouti, Djibouti, Djibouti
| | - Emilie Lyautey
- CARRTEL, Univ. Savoie Mont Blanc, INRA, Chambéry, France
| | - Chloé Bonnineau
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
| | - Aymeric Dabrin
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
| | - Stéphane Pesce
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
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20
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Freixa A, Acuña V, Gutierrez M, Sanchís J, Santos LHMLM, Rodriguez-Mozaz S, Farré M, Barceló D, Sabater S. Fullerenes Influence the Toxicity of Organic Micro-Contaminants to River Biofilms. Front Microbiol 2018; 9:1426. [PMID: 30018603 PMCID: PMC6037823 DOI: 10.3389/fmicb.2018.01426] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2018] [Accepted: 06/11/2018] [Indexed: 11/17/2022] Open
Abstract
Organic micro-contaminants (OMCs) enter in freshwaters and interact with other contaminants such as carbon nanoparticles, becoming a problem of unknown consequences for river ecosystems. Carbon nanoparticles (as fullerenes C60) are good adsorbents of organic contaminants and their interaction can potentially affect their toxicity to river biofilms. We tested the C60 interactions with selected OMCs and their effects on river biofilms in different short-term experiments. In these, river biofilms were exposed to C60 and three OMCs (triclosan, diuron, or venlafaxine) and their respective mixtures with fullerenes (C60 + each OMC). The effects were evaluated on structural, molecular, and functional descriptors of river biofilms. Our results showed that C60 did not cause toxic effects in river biofilms, whereas diuron and triclosan significantly affected the heterotrophic and phototrophic components of biofilms and venlafaxine affected only the phototrophic component. The joint exposure of C60 with venlafaxine was not producing differences with respect to the former response of the toxicant, but the overall response was antagonistic (i.e., decreased toxicity) with diuron, and synergistic (i.e., increased toxicity) with triclosan. We suggest that differences in the toxic responses could be related to the respective molecular structure of each OMC, to the concentration proportion between OMC and C60, and to the possible competition between C60 pollutants on blocking the receptors of the biological cell membranes. We conclude that the presence of C60 at low concentrations modified the toxicity of OMC to river biofilms. These interactions should therefore be considered when predicting toxicity of OMC in river ecosystems.
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Affiliation(s)
- Anna Freixa
- Catalan Institute for Water Research, Girona, Spain
| | - Vicenç Acuña
- Catalan Institute for Water Research, Girona, Spain
| | | | - Josep Sanchís
- Water and Soil Quality Research Group, Institute of Environmental Assessment and Water Research, Spanish National Research Council, Barcelona, Spain
| | | | | | - Marinella Farré
- Water and Soil Quality Research Group, Institute of Environmental Assessment and Water Research, Spanish National Research Council, Barcelona, Spain
| | - Damià Barceló
- Catalan Institute for Water Research, Girona, Spain.,Water and Soil Quality Research Group, Institute of Environmental Assessment and Water Research, Spanish National Research Council, Barcelona, Spain
| | - Sergi Sabater
- Catalan Institute for Water Research, Girona, Spain.,Research Group on Ecology of Inland Waters, Institute of Aquatic Ecology, University of Girona, Girona, Spain
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21
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Dussud C, Hudec C, George M, Fabre P, Higgs P, Bruzaud S, Delort AM, Eyheraguibel B, Meistertzheim AL, Jacquin J, Cheng J, Callac N, Odobel C, Rabouille S, Ghiglione JF. Colonization of Non-biodegradable and Biodegradable Plastics by Marine Microorganisms. Front Microbiol 2018; 9:1571. [PMID: 30072962 PMCID: PMC6058052 DOI: 10.3389/fmicb.2018.01571] [Citation(s) in RCA: 120] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2018] [Accepted: 06/25/2018] [Indexed: 11/21/2022] Open
Abstract
Plastics are ubiquitous in the oceans and constitute suitable matrices for bacterial attachment and growth. Understanding biofouling mechanisms is a key issue to assessing the ecological impacts and fate of plastics in marine environment. In this study, we investigated the different steps of plastic colonization of polyolefin-based plastics, on the first one hand, including conventional low-density polyethylene (PE), additivated PE with pro-oxidant (OXO), and artificially aged OXO (AA-OXO); and of a polyester, poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV), on the other hand. We combined measurements of physical surface properties of polymers (hydrophobicity and roughness) with microbiological characterization of the biofilm (cell counts, taxonomic composition, and heterotrophic activity) using a wide range of techniques, with some of them used for the first time on plastics. Our experimental setup using aquariums with natural circulating seawater during 6 weeks allowed us to characterize the successive phases of primo-colonization, growing, and maturation of the biofilms. We highlighted different trends between polymer types with distinct surface properties and composition, the biodegradable AA-OXO and PHBV presenting higher colonization by active and specific bacteria compared to non-biodegradable polymers (PE and OXO). Succession of bacterial population occurred during the three colonization phases, with hydrocarbonoclastic bacteria being highly abundant on all plastic types. This study brings original data that provide new insights on the colonization of non-biodegradable and biodegradable polymers by marine microorganisms.
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Affiliation(s)
- Claire Dussud
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Cindy Hudec
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Matthieu George
- CNRS/UM, UMR5221, Laboratoire Charles Coulomb (L2C), Montpellier, France
| | - Pascale Fabre
- CNRS/UM, UMR5221, Laboratoire Charles Coulomb (L2C), Montpellier, France
| | - Perry Higgs
- Symphony Environmental Ltd., Hertfordshire, United Kingdom
| | - Stéphane Bruzaud
- Université de Bretagne-Sud, Institut de Recherche Dupuy de Lôme (IRDL), UMR CNRS 6027, Lorient Cedex, France
| | - Anne-Marie Delort
- CNRS, UMR6296, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), Université Clermont Auvergne, Clermont-Ferrand, France
| | - Boris Eyheraguibel
- CNRS, UMR6296, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), Université Clermont Auvergne, Clermont-Ferrand, France
| | - Anne-Leïla Meistertzheim
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Justine Jacquin
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Jingguang Cheng
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Nolwenn Callac
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Charlène Odobel
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Sophie Rabouille
- CNRS, UPMC Univ Paris 06, UMR7093, Laboratoire d'Océanographie de Villefranche (LOV), Sorbonne Universités, Villefranche-sur-Mer, France
| | - Jean-François Ghiglione
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
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22
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Pesce S, Lambert AS, Morin S, Foulquier A, Coquery M, Dabrin A. Experimental Warming Differentially Influences the Vulnerability of Phototrophic and Heterotrophic Periphytic Communities to Copper Toxicity. Front Microbiol 2018; 9:1424. [PMID: 30013533 PMCID: PMC6036129 DOI: 10.3389/fmicb.2018.01424] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2018] [Accepted: 06/11/2018] [Indexed: 11/13/2022] Open
Abstract
Aquatic ecosystems are generally subjected to multiple perturbations due to simultaneous or successive combinations of various natural and anthropogenic environmental pressures. To better assess and predict the resulting ecological consequences, increasing attention should be given to the accumulation of stresses on freshwater ecosystems and its effects on the vulnerability of aquatic organisms, including microbial communities, which play crucial functional roles. Here we used a microcosm study to assess the influence of an experimental warming on the vulnerability of phototrophic and heterotrophic periphytic communities to acute and chronic copper (Cu) toxicity. Natural periphytic communities were submitted for 4 weeks to three different temperatures (18, 23, and 28°C) in microcosms contaminated (at about 15 μg L-1) or not with Cu. The vulnerability of both phototrophic and heterotrophic microbial communities to subsequent acute Cu stress was then assessed by measuring their levels of sensitivity to Cu from bioassays targeting phototrophic (photosynthetic activity) and heterotrophic (β-glucosidase and leucine aminopeptidase extracellular enzymatic activities) microbial functions. We postulated that both the increase in temperature and the chronic Cu exposure would modify microbial community structure, thus leading to changes in the capacity of phototrophic and heterotrophic communities to tolerate subsequent acute exposure to Cu. Our results demonstrated that the influence of temperature on the vulnerability of phototrophic and heterotrophic microbial communities to Cu toxicity can vary greatly according to function studied. These findings emphasize the importance of considering different functional compartments and different functional descriptors to better assess the vulnerability of periphyton to multiple stresses and predict the risks induced by multiple stressors for ecosystem balance and functioning.
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Affiliation(s)
- Stéphane Pesce
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
| | | | - Soizic Morin
- Irstea, UR EABX, Centre de Bordeaux, Gazinet-Cestas, France
| | - Arnaud Foulquier
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France.,UMR CNRS 5553, Laboratoire d'Écologie Alpine, Université Grenoble Alpes, Grenoble, France
| | - Marina Coquery
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
| | - Aymeric Dabrin
- Irstea, UR RiverLy, Centre de Lyon-Villeurbanne, Villeurbanne, France
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23
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Storck V, Nikolaki S, Perruchon C, Chabanis C, Sacchi A, Pertile G, Baguelin C, Karas PA, Spor A, Devers-Lamrani M, Papadopoulou ES, Sibourg O, Malandain C, Trevisan M, Ferrari F, Karpouzas DG, Tsiamis G, Martin-Laurent F. Lab to Field Assessment of the Ecotoxicological Impact of Chlorpyrifos, Isoproturon, or Tebuconazole on the Diversity and Composition of the Soil Bacterial Community. Front Microbiol 2018; 9:1412. [PMID: 30008705 PMCID: PMC6034002 DOI: 10.3389/fmicb.2018.01412] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2017] [Accepted: 06/08/2018] [Indexed: 01/03/2023] Open
Abstract
Pesticides are intentionally applied to agricultural fields for crop protection. They can harm non-target organisms such as soil microorganisms involved in important ecosystem functions with impacts at the global scale. Within the frame of the pesticide registration process, the ecotoxicological impact of pesticides on soil microorganisms is still based on carbon and nitrogen mineralization tests, despite the availability of more extensive approaches analyzing the abundance, activity or diversity of soil microorganisms. In this study, we used a high-density DNA microarray (PhyloChip) and 16S rDNA amplicon next-generation sequencing (NGS) to analyze the impact of the organophosphate insecticide chlorpyrifos (CHL), the phenyl-urea herbicide isoproturon (IPU), or the triazole fungicide tebuconazole (TCZ) on the diversity and composition of the soil bacterial community. To our knowledge, it is the first time that the combination of these approaches are applied to assess the impact of these three pesticides in a lab-to-field experimental design. The PhyloChip analysis revealed that although no significant changes in the composition of the bacterial community were observed in soil microcosms exposed to the pesticides, significant differences in detected operational taxonomic units (OTUs) were observed in the field experiment between pesticide treatments and control for all three tested pesticides after 70 days of exposure. NGS revealed that the bacterial diversity and composition varied over time. This trend was more marked in the microcosm than in the field study. Only slight but significant transient effects of CHL or TCZ were observed in the microcosm and the field study, respectively. IPU was not found to significantly modify the soil bacterial diversity or composition. Our results are in accordance with conclusions of the Environmental Food Safety Authority (EFSA), which concluded that these three pesticides may have a low risk toward soil microorganisms.
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Affiliation(s)
- Veronika Storck
- AgroSup Dijon, Institut National de la Recherche Agronomique, Université Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Sofia Nikolaki
- Department of Environmental and Natural Resources Management, University of Patras, Agrinio, Greece
| | - Chiara Perruchon
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Larissa, Greece
| | | | - Angela Sacchi
- Aeiforia srl, Spinoff Università Cattolica del Sacro Cuore, Fidenza, Italy
| | - Giorgia Pertile
- Aeiforia srl, Spinoff Università Cattolica del Sacro Cuore, Fidenza, Italy
| | | | - Panagiotis A. Karas
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Larissa, Greece
| | - Aymé Spor
- AgroSup Dijon, Institut National de la Recherche Agronomique, Université Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Marion Devers-Lamrani
- AgroSup Dijon, Institut National de la Recherche Agronomique, Université Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Evangelia S. Papadopoulou
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Larissa, Greece
| | | | | | - Marco Trevisan
- Department of Agronomy and Environmental and Chemistry, Catholic University of the Sacred Heart, Piacenza, Italy
| | - Federico Ferrari
- Aeiforia srl, Spinoff Università Cattolica del Sacro Cuore, Fidenza, Italy
| | - Dimitrios G. Karpouzas
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Larissa, Greece
| | - George Tsiamis
- Department of Environmental and Natural Resources Management, University of Patras, Agrinio, Greece
| | - Fabrice Martin-Laurent
- AgroSup Dijon, Institut National de la Recherche Agronomique, Université Bourgogne Franche-Comté, Agroécologie, Dijon, France
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24
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Romdhane S, Devers-Lamrani M, Barthelmebs L, Calvayrac C, Bertrand C, Cooper JF, Dayan FE, Martin-Laurent F. Ecotoxicological Impact of the Bioherbicide Leptospermone on the Microbial Community of Two Arable Soils. Front Microbiol 2016; 7:775. [PMID: 27252691 PMCID: PMC4877392 DOI: 10.3389/fmicb.2016.00775] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2016] [Accepted: 05/09/2016] [Indexed: 11/13/2022] Open
Abstract
The ecotoxicological impact of leptospermone, a β-triketone bioherbicide, on the bacterial community of two arable soils was investigated. Soil microcosms were exposed to 0 × (control), 1 × or 10 × recommended dose of leptospermone. The β-triketone was moderately adsorbed to both soils (i.e.,: Kfa ~ 1.2 and Koc ~ 140 mL g−1). Its dissipation was lower in sterilized than in unsterilized soils suggesting that it was mainly influenced by biotic factors. Within 45 days, leptospermone disappeared almost entirely from one of the two soils (i.e., DT50 < 10 days), while 25% remained in the other. The composition of the microbial community assessed by qPCR targeting 11 microbial groups was found to be significantly modified in soil microcosms exposed to leptospermone. Pyrosequencing of 16S rRNA gene amplicons showed a shift in the bacterial community structure and a significant impact of leptospermone on the diversity of the soil bacterial community. Changes in the composition, and in the α- and β-diversity of microbial community were transient in the soil able to fully dissipate the leptospermone, but were persistent in the soil where β-triketone remained. To conclude the bacterial community of the two soils was sensitive to leptospermone and its resilience was observed only when leptospermone was fully dissipated.
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Affiliation(s)
- Sana Romdhane
- Biocapteurs Analyse Environnement, EA 4218, University of Perpignan via DomitiaPerpignan, France; Centre de Recherches Insulaires et Observatoire de l'Environnement, USR 3278 EPHE-Centre National de la Recherche Scientifique, University of Perpignan via DomitiaPerpignan, France; Institut National de la Recherche Agronomique, UMR 1347 Agroécologie, EcolDurDijon, France
| | - Marion Devers-Lamrani
- Institut National de la Recherche Agronomique, UMR 1347 Agroécologie, EcolDur Dijon, France
| | - Lise Barthelmebs
- Biocapteurs Analyse Environnement, EA 4218, University of Perpignan via Domitia Perpignan, France
| | - Christophe Calvayrac
- Biocapteurs Analyse Environnement, EA 4218, University of Perpignan via Domitia Perpignan, France
| | - Cédric Bertrand
- Centre de Recherches Insulaires et Observatoire de l'Environnement, USR 3278 EPHE-Centre National de la Recherche Scientifique, University of Perpignan via Domitia Perpignan, France
| | - Jean-François Cooper
- Centre de Recherches Insulaires et Observatoire de l'Environnement, USR 3278 EPHE-Centre National de la Recherche Scientifique, University of Perpignan via Domitia Perpignan, France
| | - Franck E Dayan
- Bioagricultural Sciences and Pest Management Department, Colorado State University Fort Collins, CO, USA
| | - Fabrice Martin-Laurent
- Institut National de la Recherche Agronomique, UMR 1347 Agroécologie, EcolDur Dijon, France
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